Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 87 of 135
Found at i:29679722 original size:20 final size:20
Alignment explanation
Indices: 29679696--29679750 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
29679686 TTTCAATTTC
29679696 TTTTTCTCTCATTTCTTTT-
1 TTTTTCTCTCATTTCTTTTA
*
29679715 TTTCTTCTCTCAAATTCTTTTA
1 TTT-TTCTCTC-ATTTCTTTTA
*
29679737 TTTTTCACTCATTT
1 TTTTTCTCTCATTT
29679751 TCTCTCATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.10
20 10 0.33
21 14 0.47
22 3 0.10
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTCTCTCATTTCTTTTA
Found at i:29679723 original size:18 final size:19
Alignment explanation
Indices: 29679674--29679723 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
29679664 TCAACTTCGT
*
29679674 TTTCTTTTTCTCTT-TCAA
1 TTTCTTTTTTTCTTCTCAA
29679692 TTTC--TTTTTC-TCTC-A
1 TTTCTTTTTTTCTTCTCAA
29679707 TTTCTTTTTTTCTTCTC
1 TTTCTTTTTTTCTTCTC
29679724 TCAAATTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
15 6 0.22
16 7 0.26
17 6 0.22
18 8 0.30
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTCTTTTTTTCTTCTCAA
Found at i:29681597 original size:24 final size:24
Alignment explanation
Indices: 29681565--29681613 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
29681555 TGAAGAAAAC
*
29681565 ATTGAATTCCTTTGCTGATCACAA
1 ATTGAATTCCTTTGCTAATCACAA
*
29681589 ATTGAATTCCTTTTCTAATCACAA
1 ATTGAATTCCTTTGCTAATCACAA
29681613 A
1 A
29681614 ATGCCCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (24 bp):
ATTGAATTCCTTTGCTAATCACAA
Found at i:29683897 original size:80 final size:80
Alignment explanation
Indices: 29683762--29683955 Score: 300
Period size: 80 Copynumber: 2.4 Consensus size: 80
29683752 ATTATGGCAA
* * *
29683762 CCAGTGCCTAATCGATAAACCGCAAATGTGAGCCTAGCTCTAGTTGGTTTAACCAACAAATATCT
1 CCAGTGCCTAGTAGATAAACCGCAAATGTGAGCCTAGCTCTAGTTGGTTTAACCAACAAATATCC
29683827 GTCAAATCCTAGCAC
66 GTCAAATCCTAGCAC
* *
29683842 CTAGTGCCTAGTGGATAAACCGCAAATGTGAGCCTAGCTCTAGTTGGTTTAACCAACAAATATCC
1 CCAGTGCCTAGTAGATAAACCGCAAATGTGAGCCTAGCTCTAGTTGGTTTAACCAACAAATATCC
29683907 GTCAAATCCTAGCAC
66 GTCAAATCCTAGCAC
* * *
29683922 CCACTGCCTAGCAGATAAATCGCGAAA-GTGAGCC
1 CCAGTGCCTAGTAGATAAACCGC-AAATGTGAGCC
29683956 CAACACTAGT
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 101 0.97
81 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (80 bp):
CCAGTGCCTAGTAGATAAACCGCAAATGTGAGCCTAGCTCTAGTTGGTTTAACCAACAAATATCC
GTCAAATCCTAGCAC
Found at i:29685339 original size:39 final size:39
Alignment explanation
Indices: 29685266--29685340 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
29685256 TTTAACACAT
* * *
29685266 ATTTATCACTTATCACATTTTTCACATTTTCATGCTCAC
1 ATTTATCACATATCACATGTTTCACATTTGCATGCTCAC
29685305 ATTT-TCACATATCACATAGTTTCAC-TTTAGCATGCT
1 ATTTATCACATATCACAT-GTTTCACATTT-GCATGCT
29685341 TTAACATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 15 0.48
39 16 0.52
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.44
Consensus pattern (39 bp):
ATTTATCACATATCACATGTTTCACATTTGCATGCTCAC
Found at i:29687888 original size:26 final size:26
Alignment explanation
Indices: 29687844--29687901 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
29687834 TATATGGGTA
29687844 TCTTC-TTGTTTTTACATTTTCTTTT
1 TCTTCTTTGTTTTTACATTTTCTTTT
* *
29687869 TCTTCTTTTTTTTTTCATTTTCTTTT
1 TCTTCTTTGTTTTTACATTTTCTTTT
*
29687895 TCCTCTT
1 TCTTCTT
29687902 GAGAACTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (26 bp):
TCTTCTTTGTTTTTACATTTTCTTTT
Found at i:29689561 original size:12 final size:13
Alignment explanation
Indices: 29689534--29689566 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
29689524 CAGTATTTTT
*
29689534 CTTTTTTTCTCTA
1 CTTTTTTTATCTA
29689547 CTTTTTTTATC-A
1 CTTTTTTTATCTA
29689559 CTTTTTTT
1 CTTTTTTT
29689567 GTCGAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTTTTTTATCTA
Found at i:29697457 original size:6 final size:6
Alignment explanation
Indices: 29697426--29697486 Score: 56
Period size: 6 Copynumber: 10.0 Consensus size: 6
29697416 ACAGCAAACA
*
29697426 TTTTTC TTCTTC -TTTTC TTTTCTC TTTTTC TTTTTC --TTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTT-TC TTTTTC TTTTTC TTTTTC TTTTTC
29697472 TCATTTTCC TTTTTC
1 T--TTTT-C TTTTTC
29697487 AAGTGACTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 22 0.48
7 10 0.22
8 4 0.09
9 2 0.04
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:29697462 original size:24 final size:25
Alignment explanation
Indices: 29697424--29697486 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
29697414 ATACAGCAAA
*
29697424 CATTTTTCTTCTTCTTT-TCTTTTCT
1 CATTTTTCTTTTTCTTTCT-TTTTCT
29697449 C-TTTTTCTTTTTCTTTCTTTTTCT
1 CATTTTTCTTTTTCTTTCTTTTTCT
*
29697473 CATTTTCCTTTTTC
1 CATTTTTCTTTTTC
29697487 AAGTGACTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 21 0.62
25 13 0.38
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (25 bp):
CATTTTTCTTTTTCTTTCTTTTTCT
Found at i:29698075 original size:12 final size:12
Alignment explanation
Indices: 29698058--29698082 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29698048 CTAAATTAAC
29698058 AAAAGAAATGCA
1 AAAAGAAATGCA
29698070 AAAAGAAATGCA
1 AAAAGAAATGCA
29698082 A
1 A
29698083 TGACAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAGAAATGCA
Found at i:29711632 original size:20 final size:20
Alignment explanation
Indices: 29711597--29711654 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
29711587 GAAAAGAAAA
*
29711597 AAATATAAAAATAATAAGGGTT
1 AAAT-TAAAAA-AATAAAGGTT
*
29711619 AAATTAAAAAAATAAAGTTT
1 AAATTAAAAAAATAAAGGTT
*
29711639 AAAGTAAAAAAATAAA
1 AAATTAAAAAAATAAA
29711655 AAAGAAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 23 0.70
21 6 0.18
22 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (20 bp):
AAATTAAAAAAATAAAGGTT
Found at i:29713450 original size:100 final size:98
Alignment explanation
Indices: 29713316--29714169 Score: 697
Period size: 100 Copynumber: 8.6 Consensus size: 98
29713306 CCTTCTTAAT
* * * ** * *
29713316 AGCTTTAGGGTATAAGATTCATCTTTGCAACTTCAATTTGCCCCTCTCCAGCTTTAGGTGTATGA
1 AGCTTTAGGGTATAAGATTCACCCTTACGGCTTCAATTTGCCCCTCTACAGCTTTAGG-GTATAA
** ** ** *
29713381 GATTTTCCCTTATGATTTCAATCTGCTTCTCTAC
65 GATTCGCCCTTGCGGCTTCAATCTGCTCCTCTAC
* * * * *
29713415 AGCTTTAAGGGTATAAGATTCACCCTTACGGCTTCAATCTACTCCTTTACAGCTTTAGAGATATA
1 AGCTTT-AGGGTATAAGATTCACCCTTACGGCTTCAATTTGCCCCTCTACAGCTTTAG-GGTATA
** * *
29713480 AGATTCGCCCTTATGGCTTCAATTTGCCCCTCTAC
64 AGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTAC
* ** * * * ** * ** *
29713515 AGCTTTAAGTGTATGGGATTCACCCTTGCGACTTTAATTTGATCCTCTAGATTTTTAGGGATATT
1 AGCTTT-AGGGTATAAGATTCACCCTTACGGCTTCAATTTGCCCCTCTACAGCTTTAGGG-TATA
* *
29713580 AGATTCGCCCTTGCGGCTTCAATATGCTCCTTTAC
64 AGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTAC
* * * * * * *
29713615 AACTTTAGTGGTATCAGATTCGCCCTTAAGGCTTCAATTTG-GCCTATACAGCTTTAGGTGTATG
1 AGCTTTAG-GGTATAAGATTCACCCTTACGGCTTCAATTTGCCCCTCTACAGCTTTAGG-GTATA
* * *
29713679 AGATTCGCCCTTGCAGCTTCAATATGCTCCTTTAC
64 AGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTAC
* * * *
29713714 AGCTTTAGCGGTATAAGATTCGCCCTTATGGATTAAATCTT-CCCCTCTACAGCTTTATGGGTAT
1 AGCTTTAG-GGTATAAGATTCACCCTTACGGCTTCAAT-TTGCCCCTCTACAGCTTTA-GGGTAT
* * * *
29713778 AAGATTCGCCCTTGCGGCTTAAATCTACCCCTCTAT
63 AAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTAC
** * * * * *
29713814 AGCTTTAGGTGTATAAGATTTGCCCTTGCGGCTTTAATTTTCTCCTCTACAGCTTTAGGGGCATA
1 AGCTTTAGG-GTATAAGATTCACCCTTACGGCTTCAATTTGCCCCTCTACAGCTTTA-GGGTATA
* **
29713879 AGATTCGCCTTTGCGGCTTCAATCTATTCCTCTAC
64 AGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTAC
* * * *
29713914 AACTTTAATGGTATAAGATTCACCCTTACAGCTTCAATTTGCCCCTCTACAGCTTTAGATGTATA
1 AGCTTT-AGGGTATAAGATTCACCCTTACGGCTTCAATTTGCCCCTCTACAGCTTTAG-GGTATA
* * * *
29713979 AGATTCACCCTTGTGGCTTCAATCTGGTCCTTTAC
64 AGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTAC
** * ** * * * *
29714014 AGCTTTAGGGATATAAGATTTGCCTTTGTGGCTTTAATCTGCACCTCTACATCTTTAGGGGTATA
1 AGCTTTAGGG-TATAAGATTCACCCTTACGGCTTCAATTTGCCCCTCTACAGCTTTA-GGGTATA
* * * * *
29714079 AGATTCGCCCTTACGACTTAAATCTACCCCTCTAC
64 AGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTAC
* * * * *
29714114 AACTTTAGGTGTATGAGATTCACCCTTACGACTTTAATTTGCTCCC-CTACAACTTT
1 AGCTTTAGG-GTATAAGATTCACCCTTACGGCTTCAATTTGC-CCCTCTACAGCTTT
29714170 TGTAACTTTA
Statistics
Matches: 605, Mismatches: 134, Indels: 31
0.79 0.17 0.04
Matches are distributed among these distances:
99 97 0.16
100 499 0.82
101 9 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (98 bp):
AGCTTTAGGGTATAAGATTCACCCTTACGGCTTCAATTTGCCCCTCTACAGCTTTAGGGTATAAG
ATTCGCCCTTGCGGCTTCAATCTGCTCCTCTAC
Found at i:29713454 original size:150 final size:149
Alignment explanation
Indices: 29713258--29714140 Score: 665
Period size: 150 Copynumber: 5.9 Consensus size: 149
29713248 TTACTCCACC
* * **** ** * * *
29713258 CCTCTACAACTTTAGGGGTATAAGATTCAATTTTACAACTTTAATCTACCTTCTTAATAGCTTTA
1 CCTCTACAGCTTTAAGGGTATAAGATTCGCCCTTACGGCTTCAATCTA-CTCCTTAACAGCTTTA
* * * * **
29713323 GGGTATAAGATTCATCTTTGCAACTTCAATTTGCCCCTCTCCAGCTTTAGGTGTATGAGATTTTC
65 GGGTATAAGATTCACCCTTGCAGCTTCAATTTGCCCCTCTACAGCTTTAGGTGTATGAGATTCAC
*
29713388 CCTTATGATTTCAATCTGCT
130 CCTTGTGATTTCAATCTGCT
* * *
29713408 TCTCTACAGCTTTAAGGGTATAAGATTCACCCTTACGGCTTCAATCTACTCCTTTACAGCTTTAG
1 CCTCTACAGCTTTAAGGGTATAAGATTCGCCCTTACGGCTTCAATCTACTCCTTAACAGCTTTAG
* * *** * *
29713473 AGATATAAGATTCGCCCTTATGGCTTCAATTTGCCCCTCTACAGCTTTAAGTGTATGGGATTCAC
66 -GGTATAAGATTCACCCTTGCAGCTTCAATTTGCCCCTCTACAGCTTTAGGTGTATGAGATTCAC
* * *
29713538 CCTTGCGACTTT-AATTTGAT
130 CCTTGTGA-TTTCAATCTGCT
* * * * * * * * *
29713558 CCTCTAGA-TTTTTAGGGATATTAGATTCGCCCTTGCGGCTTCAATATGCTCCTTTACAACTTTA
1 CCTCTACAGCTTTAAGGG-TATAAGATTCGCCCTTACGGCTTCAATCTACTCCTTAACAGCTTTA
* * * * *
29713622 GTGGTATCAGATTCGCCCTT-AAGGCTTCAATTTG-GCCTATACAGCTTTAGGTGTATGAGATTC
65 G-GGTATAAGATTCACCCTTGCA-GCTTCAATTTGCCCCTCTACAGCTTTAGGTGTATGAGATTC
* * * *
29713685 GCCCTTG-CAGCTTCAATATGCT
128 ACCCTTGTGA-TTTCAATCTGCT
* * * * * *
29713707 CCTTTACAGCTTT-AGCGGTATAAGATTCGCCCTTATGGATTAAATCTTCCCCTCT-ACAGCTTT
1 CCTCTACAGCTTTAAG-GGTATAAGATTCGCCCTTACGGCTTCAATCTACTCCT-TAACAGCTTT
* * * * * * * *
29713770 ATGGGTATAAGATTCGCCCTTGCGGCTTAAATCTACCCCTCTATAGCTTTAGGTGTATAAGATTT
64 A-GGGTATAAGATTCACCCTTGCAGCTTCAATTTGCCCCTCTACAGCTTTAGGTGTATGAGATTC
* * * * *
29713835 GCCCTTGCGGCTTT-AATTTTCT
128 ACCCTTG-TGATTTCAATCTGCT
* * * * * *
29713857 CCTCTACAGCTTTAGGGGCATAAGATTCGCCTTTGCGGCTTCAATCTATTCCTCT-ACAACTTTA
1 CCTCTACAGCTTTAAGGGTATAAGATTCGCCCTTACGGCTTCAATCTACTCCT-TAACAGCTTT-
* * * *
29713921 ATGGTATAAGATTCACCCTTACAGCTTCAATTTGCCCCTCTACAGCTTTAGATGTATAAGATTCA
64 AGGGTATAAGATTCACCCTTGCAGCTTCAATTTGCCCCTCTACAGCTTTAGGTGTATGAGATTCA
** *
29713986 CCCTTGTGGCTTCAATCTGGT
129 CCCTTGTGATTTCAATCTGCT
* * * ** * * * *
29714007 CCTTTACAGCTTT-AGGGATATAAGATTTGCCTTTGTGGCTTTAATCTGCACCTCT-ACATCTTT
1 CCTCTACAGCTTTAAGGG-TATAAGATTCGCCCTTACGGCTTCAATCTACTCCT-TAACAGCTTT
* * * * * *
29714070 AGGGGTATAAGATTCGCCCTTAC-GACTTAAATCTACCCCTCTACAACTTTAGGTGTATGAGATT
64 A-GGGTATAAGATTCACCCTTGCAG-CTTCAATTTGCCCCTCTACAGCTTTAGGTGTATGAGATT
29714134 CACCCTT
127 CACCCTT
29714141 ACGACTTTAA
Statistics
Matches: 585, Mismatches: 129, Indels: 38
0.78 0.17 0.05
Matches are distributed among these distances:
148 3 0.01
149 134 0.23
150 441 0.75
151 7 0.01
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (149 bp):
CCTCTACAGCTTTAAGGGTATAAGATTCGCCCTTACGGCTTCAATCTACTCCTTAACAGCTTTAG
GGTATAAGATTCACCCTTGCAGCTTCAATTTGCCCCTCTACAGCTTTAGGTGTATGAGATTCACC
CTTGTGATTTCAATCTGCT
Found at i:29714142 original size:50 final size:50
Alignment explanation
Indices: 29713316--29714169 Score: 557
Period size: 50 Copynumber: 17.1 Consensus size: 50
29713306 CCTTCTTAAT
** * * * * *
29713316 AGCTTTAGG-GTATAAGATTCATCTTTGCAACTTCAATTTGCCCCTCTCC
1 AGCTTTAGGTGTATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
* ** * * **
29713365 AGCTTTAGGTGTATGAGATTTTCCCTTATGATTTCAATCTGCTTCTCTAC
1 AGCTTTAGGTGTATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
* * * * *
29713415 AGCTTTAAGG-GTATAAGATTCACCCTTACGGCTTCAATCTACTCCTTTAC
1 AGCTTT-AGGTGTATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
* * * *
29713465 AGCTTTAGAG-ATATAAGATTCGCCCTTATGGCTTCAATTTGCCCCTCTAC
1 AGCTTTAG-GTGTATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
* ** * * * * ** *
29713515 AGCTTTAAGTGTATGGGATTCACCCTTGCGACTTTAATTTGATCCTCTAG
1 AGCTTTAGGTGTATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
** * * * * * *
29713565 ATTTTTAGG-GATATTAGATTCGCCCTTGCGGCTTCAATATGCTCCTTTAC
1 AGCTTTAGGTG-TATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
* * * * * * *
29713615 AACTTTA-GTGGTATCAGATTCGCCCTTAAGGCTTCAATTTG-GCCTATAC
1 AGCTTTAGGT-GTATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
* * * * *
29713664 AGCTTTAGGTGTATGAGATTCGCCCTTGC-AGCTTCAATATGCTCCTTTAC
1 AGCTTTAGGTGTATAAGATTCGCCCTTACGA-CTTCAATCTGCCCCTCTAC
* * *
29713714 AGCTTTAGCG-GTATAAGATTCGCCCTTATGGA-TTAAATCTTCCCCTCTAC
1 AGCTTTAG-GTGTATAAGATTCGCCCTTA-CGACTTCAATCTGCCCCTCTAC
* * * * *
29713764 AGCTTTATGG-GTATAAGATTCGCCCTTGCGGCTTAAATCTACCCCTCTAT
1 AGCTTTA-GGTGTATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
* * * * * * *
29713814 AGCTTTAGGTGTATAAGATTTGCCCTTGCGGCTTTAATTTTCTCCTCTAC
1 AGCTTTAGGTGTATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
* * * * * ***
29713864 AGCTTTAGGGGCATAAGATTCGCCTTTGCGGCTTCAATCTATTCCTCTAC
1 AGCTTTAGGTGTATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
* * * *
29713914 AACTTTA-ATGGTATAAGATTCACCCTTAC-AGCTTCAATTTGCCCCTCTAC
1 AGCTTTAGGT-GTATAAGATTCGCCCTTACGA-CTTCAATCTGCCCCTCTAC
* * ** * ** *
29713964 AGCTTTAGATGTATAAGATTCACCCTTGTGGCTTCAATCTGGTCCTTTAC
1 AGCTTTAGGTGTATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
* * ** * * *
29714014 AGCTTTAGG-GATATAAGATTTGCCTTTGTGGCTTTAATCTGCACCTCTAC
1 AGCTTTAGGTG-TATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
* * * *
29714064 ATCTTTAGGGGTATAAGATTCGCCCTTACGACTTAAATCTACCCCTCTAC
1 AGCTTTAGGTGTATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
* * * * *
29714114 AACTTTAGGTGTATGAGATTCACCCTTACGACTTTAATTTGCTCCC-CTAC
1 AGCTTTAGGTGTATAAGATTCGCCCTTACGACTTCAATCTGC-CCCTCTAC
*
29714164 AACTTT
1 AGCTTT
29714170 TGTAACTTTA
Statistics
Matches: 642, Mismatches: 140, Indels: 45
0.78 0.17 0.05
Matches are distributed among these distances:
49 55 0.09
50 574 0.89
51 12 0.02
52 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (50 bp):
AGCTTTAGGTGTATAAGATTCGCCCTTACGACTTCAATCTGCCCCTCTAC
Found at i:29714722 original size:98 final size:98
Alignment explanation
Indices: 29714553--29714889 Score: 383
Period size: 98 Copynumber: 3.4 Consensus size: 98
29714543 CTTTGTTGTC
* * *
29714553 TTAATCCGACCCACTACAACTTCAGAGGTATAGGATTTGGTGTAGTAGCTTTACTCCATTCTACT
1 TTAATCCGACCCACTACAACTTCAG-GGTATAGGATTTGGTGTTGAAGCTTCACTCCATTCTACT
* *
29714618 GTAACCTCAGGGAGATAGAGATCTACTACTT-TT
65 GTAACCTCAGGGAGATTGAGATCTGCTACTTATT
* * * * *
29714651 TTAATCCGATCCACTACAGCTTCAGGGATCTAGGATTTGGTGTTGAAGCTTCACTCTATTCCACT
1 TTAATCCGACCCACTACAACTTCAGGG-TATAGGATTTGGTGTTGAAGCTTCACTCCATTCTACT
* **
29714716 GTAACCTCAGAGAGATTGAGATCTGCTTTTGTAATT
65 GTAACCTCAGGGAGATTGAGATCTGCTACT-T-ATT
** *
29714752 TTAATCC-AGCCCACTGTAACTTTAAGGGTATAGGATTTGGTGTTGTAA-CTTCACTCCATTCTA
1 TTAATCCGA-CCCACTACAAC-TTCAGGGTATAGGATTTGGTGTTG-AAGCTTCACTCCATTCTA
* * *
29714815 CTGTAACCTCAAGGACATTGAGATCCGCTACTTATT
63 CTGTAACCTCAGGGAGATTGAGATCTGCTACTTATT
* * *
29714851 TTAATCCGATCCATTACAACTTCAGGGATATAGAATTTG
1 TTAATCCGACCCACTACAACTTCAGGG-TATAGGATTTG
29714890 CTTTTTACTT
Statistics
Matches: 197, Mismatches: 33, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
97 2 0.01
98 85 0.43
99 28 0.14
100 3 0.02
101 71 0.36
102 8 0.04
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (98 bp):
TTAATCCGACCCACTACAACTTCAGGGTATAGGATTTGGTGTTGAAGCTTCACTCCATTCTACTG
TAACCTCAGGGAGATTGAGATCTGCTACTTATT
Found at i:29723847 original size:16 final size:16
Alignment explanation
Indices: 29723828--29723864 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
29723818 GGGTTTTAAG
29723828 ATAAACAAACA-TGAAA
1 ATAAACAAA-ATTGAAA
29723844 ATAAACAAAATTGAAA
1 ATAAACAAAATTGAAA
29723860 ATAAA
1 ATAAA
29723865 TGATAAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.70, C:0.08, G:0.05, T:0.16
Consensus pattern (16 bp):
ATAAACAAAATTGAAA
Found at i:29726534 original size:14 final size:14
Alignment explanation
Indices: 29726515--29726560 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
29726505 CACAACTTTA
29726515 ATTTTAATATTTTT
1 ATTTTAATATTTTT
* *
29726529 ATTTTAAAATTTTA
1 ATTTTAATATTTTT
*
29726543 ATTTTAAT-TTTCT
1 ATTTTAATATTTTT
29726556 ATTTT
1 ATTTT
29726561 TTTAATATAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTAATATTTTT
Found at i:29726721 original size:20 final size:21
Alignment explanation
Indices: 29726672--29726726 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 21
29726662 AAGTTCAAAG
29726672 TAAAACATAATATAATATTTATCA
1 TAAAA-ATAA-ATAATATTTA-CA
29726696 TAAAAATAAATAATATTTA-A
1 TAAAAATAAATAATATTTACA
*
29726716 TTAAAATAAAT
1 TAAAAATAAAT
29726727 TTAAATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 11 0.37
22 10 0.33
23 4 0.13
24 5 0.17
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAATAAATAATATTTACA
Found at i:29726780 original size:23 final size:24
Alignment explanation
Indices: 29726722--29726780 Score: 86
Period size: 23 Copynumber: 2.5 Consensus size: 24
29726712 TTAATTAAAA
29726722 TAAATTTAAATTTATTTTAATATT
1 TAAATTTAAATTTATTTTAATATT
* *
29726746 TAAA-TCATATTTATTTTAATA-T
1 TAAATTTAAATTTATTTTAATATT
29726768 TAAATTTAAATTT
1 TAAATTTAAATTT
29726781 CATGTTTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 5 0.17
23 21 0.70
24 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TAAATTTAAATTTATTTTAATATT
Found at i:29731930 original size:35 final size:36
Alignment explanation
Indices: 29731783--29731964 Score: 242
Period size: 36 Copynumber: 5.1 Consensus size: 36
29731773 CTCAATGATT
*
29731783 TCTTCAAGTTTCCCAGTAATTTCAGCTTATACGAGC
1 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
*
29731819 TCTTCAAGTTTCCTAGTAATTTCAGCTCATACGAGC
1 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
29731855 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
1 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
* * * *
29731891 TCTTCAAGATTCCCAGTAAATT-AACTCATACGAGT
1 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
** * *
29731926 TCTTCGTGATTCCCAGTAATATGT-TGCTCATACGAGC
1 TCTTCAAGTTTCCCAGTAAT-T-TCAGCTCATACGAGC
29731963 TC
1 TC
29731965 AGCTAGTAAG
Statistics
Matches: 131, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
35 28 0.21
36 90 0.69
37 13 0.10
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (36 bp):
TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
Found at i:29731999 original size:19 final size:19
Alignment explanation
Indices: 29731975--29732029 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
29731965 AGCTAGTAAG
*
29731975 CGCTCTTGCGAGCCAGTAT
1 CGCTCTTACGAGCCAGTAT
*
29731994 CGCTCTTACAAGCCAGTAT
1 CGCTCTTACGAGCCAGTAT
* *
29732013 TGCTCTTATGAGCCAGT
1 CGCTCTTACGAGCCAGT
29732030 TCAATATATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (19 bp):
CGCTCTTACGAGCCAGTAT
Found at i:29738104 original size:22 final size:22
Alignment explanation
Indices: 29738079--29738127 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
29738069 AAAACCCAAA
29738079 AAAATAAATCCAAAAATAAAAT-
1 AAAATAAAT-CAAAAATAAAATC
* *
29738101 AAAATAAATTAAAATTAAAATC
1 AAAATAAATCAAAAATAAAATC
29738123 AAAAT
1 AAAAT
29738128 CCATTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAATAAATCAAAAATAAAATC
Found at i:29739698 original size:15 final size:15
Alignment explanation
Indices: 29739678--29739706 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29739668 TGGTCCACCC
29739678 TTTCTTTAAAATTAT
1 TTTCTTTAAAATTAT
29739693 TTTCTTTAAAATTA
1 TTTCTTTAAAATTA
29739707 GCCAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTCTTTAAAATTAT
Found at i:29746197 original size:49 final size:49
Alignment explanation
Indices: 29746136--29746746 Score: 361
Period size: 49 Copynumber: 12.4 Consensus size: 49
29746126 CATGAATTGG
* ** *
29746136 AAGGATTGAGGCCGCAATGGTAAATCCGATACCATGAAGATATGACGGGA
1 AAGG-TTGAGGCCGCAACGGCGAATCCGATACCATGAAGATATGATGGGA
* *
29746186 AAGGTTGAGGCCGTAACGGCGAA-CCCAGTACCATGAAGATATGATGGGA
1 AAGGTTGAGGCCGCAACGGCGAATCCGA-TACCATGAAGATATGATGGGA
* * * ** * *
29746235 AAGGTTTAGGCCACAATGATGAA-CTCGTTACC-TCAGAAGATATGAT-GAA
1 AAGGTTGAGGCCGCAACGGCGAATC-CGATACCAT--GAAGATATGATGGGA
* * * * *
29746284 AAGGATTGAGGCTGCAACAGCGAATCCGATACCATGAA-ATGTAATGTGA
1 AAGG-TTGAGGCCGCAACGGCGAATCCGATACCATGAAGATATGATGGGA
* * * * *
29746333 AAGGTTGAGGCCGCAATGGTGAACCCGGTACCATGAAGATTTGA-GGAGA
1 AAGGTTGAGGCCGCAACGGCGAATCCGATACCATGAAGATATGATGG-GA
* ** * * * *
29746382 AAAGTTGAGGCCGCAATAGTGAACCCGATACC-TCAGAATATATGATGAG-
1 AAGGTTGAGGCCGCAACGGCGAATCCGATACCAT--GAAGATATGATGGGA
* * ** * **
29746431 AAGGATTGAGGTCGTAATAGCGAATCCGGTACCATGAAGATATGACAGGA
1 AAGG-TTGAGGCCGCAACGGCGAATCCGATACCATGAAGATATGATGGGA
* * * *
29746481 AAGGTTGAGGCCGCAACGAC-AAACCTAGTACCATGAAGATATGAAGGGA
1 AAGGTTGAGGCCGCAACGGCGAATCCGA-TACCATGAAGATATGATGGGA
* * * * * *
29746530 AAGGTTAAGGGCGCAACGGCGAATCCGGTACC-TTAAAAGATGTATTGGG-
1 AAGGTTGAGGCCGCAACGGCGAATCCGATACCATGAAGATATG-A-TGGGA
* * * * *
29746579 AAGGATTGAGGCCGCAACGGTGAATCTGGA-ACCATGAA-ATGTAATAGGA
1 AAGG-TTGAGGCCGCAACGGCGAATC-CGATACCATGAAGATATGATGGGA
* * * * * * * *
29746628 AAGGTTGAGGCCTCAATGACAAACCCGGTACCTTAGAAAGATATGATGAG-
1 AAGGTTGAGGCCGCAACGGCGAATCCGATACCAT-G-AAGATATGATGGGA
* * *
29746678 AAGGATTGAGGCCGCAACAGCGAATCC-AGTACCATGAAGACATGAAGGGA
1 AAGG-TTGAGGCCGCAACGGCGAATCCGA-TACCATGAAGATATGATGGGA
* *
29746728 AAAGTTGAGGTCGCAACGG
1 AAGGTTGAGGCCGCAACGG
29746747 TGAACCTGGT
Statistics
Matches: 421, Mismatches: 109, Indels: 63
0.71 0.18 0.11
Matches are distributed among these distances:
47 1 0.00
48 71 0.17
49 204 0.48
50 110 0.26
51 35 0.08
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.18
Consensus pattern (49 bp):
AAGGTTGAGGCCGCAACGGCGAATCCGATACCATGAAGATATGATGGGA
Found at i:29746317 original size:99 final size:100
Alignment explanation
Indices: 29746171--29746743 Score: 353
Period size: 99 Copynumber: 5.8 Consensus size: 100
29746161 CCGATACCAT
* * * * *
29746171 GAAGATATGACGGGAAAGGTTGAGGCCGTAACGGCGAA-CCCAGTACCATGAAGATATGATGGGA
1 GAAGATATGACTGAAAAGGTTGAGGCCGCAACAGCGAATCCGAGTACCATGAAGATATGATGGGA
* * * *
29746235 AAGGTTTAGGCCACAATGATGAACTCGTTACCTCA
66 AAGGTTGAGGCCGCAATGACGAACTCGGTACCTCA
* * * *
29746270 GAAGATATGA-TGAAAAGGATTGAGGCTGCAACAGCGAATCCGA-TACCATGAA-ATGTAATGTG
1 GAAGATATGACTGAAAAGG-TTGAGGCCGCAACAGCGAATCCGAGTACCATGAAGATATGATGGG
** *
29746332 AAAGGTTGAGGCCGCAATGGTGAACCCGGTA-C-CA
65 AAAGGTTGAGGCCGCAATGACGAACTCGGTACCTCA
* * * * * * *
29746366 TGAAGATTTGA-GGAGAAAAGTTGAGGCCGCAATAGTGAACCCGA-TACC-TCAGAATATATGAT
1 -GAAGATATGACTGA-AAAGGTTGAGGCCGCAACAGCGAATCCGAGTACCAT--GAAGATATGAT
* * *
29746428 GAG-AAGGATTGAGGTCGTAAT-AGCGAA-TCCGGTA-C-CA
62 GGGAAAGG-TTGAGGCCGCAATGA-CGAACT-CGGTACCTCA
* * * * *
29746465 TGAAGATATGACAGGAAAGGTTGAGGCCGCAAC-GAC-AAACCTAGTACCATGAAGATATGAAGG
1 -GAAGATATGACTGAAAAGGTTGAGGCCGCAACAG-CGAATCCGAGTACCATGAAGATATGATGG
* * * * *
29746528 GAAAGGTTAAGGGCGCAACGGCGAA-TCCGGTACCTTA
64 GAAAGGTTGAGGCCGCAATGACGAACT-CGGTACCTCA
* * * ** * * * * * * *
29746565 AAAGATGT-ATTGGGAAGGATTGAGGCCGCAACGGTGAATCTG-GAACCATGAA-ATGTAATAGG
1 GAAGATATGACTGAAAAGG-TTGAGGCCGCAACAGCGAATCCGAGTACCATGAAGATATGATGGG
* * * *
29746627 AAAGGTTGAGGCCTCAATGACAAACCCGGTACCTTA
65 AAAGGTTGAGGCCGCAATGACGAACTCGGTACCTCA
* * *
29746663 GAAAGATATGA-TGAGAAGGATTGAGGCCGCAACAGCGAATCC-AGTACCATGAAGACATGAAGG
1 G-AAGATATGACTGAAAAGG-TTGAGGCCGCAACAGCGAATCCGAGTACCATGAAGATATGATGG
* *
29746726 GAAAAGTTGAGGTCGCAA
64 GAAAGGTTGAGGCCGCAA
29746744 CGGTGAACCT
Statistics
Matches: 366, Mismatches: 82, Indels: 51
0.73 0.16 0.10
Matches are distributed among these distances:
96 3 0.01
97 36 0.10
98 128 0.35
99 169 0.46
100 30 0.08
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (100 bp):
GAAGATATGACTGAAAAGGTTGAGGCCGCAACAGCGAATCCGAGTACCATGAAGATATGATGGGA
AAGGTTGAGGCCGCAATGACGAACTCGGTACCTCA
Found at i:29746728 original size:148 final size:145
Alignment explanation
Indices: 29746284--29746728 Score: 387
Period size: 148 Copynumber: 3.0 Consensus size: 145
29746274 ATATGATGAA
* *
29746284 AAGGATTGAGGCTGCAACAGCGAATC-CGATACCATGAAATGTAAT-GTGAAAGGTTGAGGCCGC
1 AAGGATTGAGGCCGCAACAGCGAATCTGGA-ACCATGAAATGTAATAG-GAAAGGTTGAGGCCGC
*** * * * * * *
29746347 AATGGTGAACCCGGTACCATGAAGATTTGAGGAGAA-AAGTTGAGGCCGCAATAGTGAA-CCCGA
64 AATGACAAACCCGGTACCATGAAGATATGAAGAGAAGGA-TTGAGGCCGCAACAGCGAATCCAG-
* * *
29746410 TACCTCAGAATATATGATGAG
127 TACCT--GAAAACATGATGGG
* * * * * * * *
29746431 AAGGATTGAGGTCGTAATAGCGAATCCGGTACCATGAAGATATGACAGGAAAGGTTGAGGCCGCA
1 AAGGATTGAGGCCGCAACAGCGAATCTGGAACCATGAA-ATGTAATAGGAAAGGTTGAGGCCGCA
* ** * * * * *
29746496 ACGACAAACCTAGTACCATGAAGATATGAAGGGAAAGG-TTAAGGGCGCAACGGCGAATCCGGTA
65 ATGACAAACCCGGTACCATGAAGATATGAAGAG-AAGGATTGAGGCCGCAACAGCGAATCCAGTA
* *
29746560 CCTTAAAAGATGTATTGGG
129 CCTGAAAACATG-A-TGGG
* * *
29746579 AAGGATTGAGGCCGCAACGGTGAATCTGGAACCATGAAATGTAATAGGAAAGGTTGAGGCCTCAA
1 AAGGATTGAGGCCGCAACAGCGAATCTGGAACCATGAAATGTAATAGGAAAGGTTGAGGCCGCAA
* *
29746644 TGACAAACCCGGTACCTTAGAAAGATATGATGAGAAGGATTGAGGCCGCAACAGCGAATCCAGTA
66 TGACAAACCCGGTACCAT-G-AAGATATGAAGAGAAGGATTGAGGCCGCAACAGCGAATCCAGTA
* *
29746709 CCATGAAGACATGAAGGG
129 CC-TGAAAACATGATGGG
29746727 AA
1 AA
29746729 AAGTTGAGGT
Statistics
Matches: 232, Mismatches: 54, Indels: 23
0.75 0.17 0.07
Matches are distributed among these distances:
146 6 0.03
147 68 0.29
148 109 0.47
149 42 0.18
150 7 0.03
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (145 bp):
AAGGATTGAGGCCGCAACAGCGAATCTGGAACCATGAAATGTAATAGGAAAGGTTGAGGCCGCAA
TGACAAACCCGGTACCATGAAGATATGAAGAGAAGGATTGAGGCCGCAACAGCGAATCCAGTACC
TGAAAACATGATGGG
Found at i:29747174 original size:79 final size:78
Alignment explanation
Indices: 29747043--29747769 Score: 631
Period size: 79 Copynumber: 9.2 Consensus size: 78
29747033 AGTTGCATCA
* *
29747043 CCATCAAATCTCTTACCCCGATCATG-GGACAGATTGAAAACCATCCGATCTCTTACCCCGATCA
1 CCATCCAATCTCTTA-CCCGATCATGAGG-CAGATTCAAAACCATCCGATCTCTTACCCCGATCA
*
29747107 TGAGGCAGATCACAG
64 TGGGGCAGATCACAG
* *
29747122 CCATCCAATCTCTTACCTCGATCATGAGGTAGATTAAAAACCATCCGATCTCTTACCCCGATCAT
1 CCATCCAATCTCTTACC-CGATCATGAGGCAGATTCAAAACCATCCGATCTCTTACCCCGATCAT
* *
29747187 AGGGCAGATCGCAG
65 GGGGCAGATCACAG
* * * * * * *
29747201 CCATCCGATCTCTTATCCCAATCATGGGGTAGATTAAAAATCATCGGATCTCTTACCCCGATCAT
1 CCATCCAATCTCTTA-CCCGATCATGAGGCAGATTCAAAACCATCCGATCTCTTACCCCGATCAT
*
29747266 GGGGCAGATCGCAG
65 GGGGCAGATCACAG
* * * * *
29747280 CCATCCAATCTTTTACCCCGATCATGAGGCGGATTAAAAATCATCCGATCTCTTACCCCAATCAT
1 CCATCCAATCTCTTA-CCCGATCATGAGGCAGATTCAAAACCATCCGATCTCTTACCCCGATCAT
* *
29747345 GGGGTAGATCGCAG
65 GGGGCAGATCACAG
* * ** * ** *
29747359 CCATCCGATCTCTTACCTCGATCATGAGGCATA-TCGTAGCCATCTAATCTCTTACCCTGATCAT
1 CCATCCAATCTCTTACC-CGATCATGAGGCAGATTCAAAACCATCCGATCTCTTACCCCGATCAT
* * *
29747423 GGGGCA-ACTTAAAAA
65 GGGGCAGA--TCACAG
* * ** * * *
29747438 CCATTCAATCTCTTACCCCGATCATGGGGCAGA-TCGTAGCCATCCAATCTTTTACCCCGATCAT
1 CCATCCAATCTCTTA-CCCGATCATGAGGCAGATTCAAAACCATCCGATCTCTTACCCCGATCAT
* * *
29747502 GGGGCAGATTAAAAA
65 GGGGCAGA-TCACAG
*** * * ** * * *
29747517 CCATTTGATCTCTTACCCTAATCATGGGGCAGA-TCGTAGCCATCCAATCTTTTACCCCGATCAT
1 CCATCCAATCTCTTACCC-GATCATGAGGCAGATTCAAAACCATCCGATCTCTTACCCCGATCAT
* * *
29747581 GGGGCAGATTAAAAA
65 GGGGCAGA-TCACAG
* * * ** * ** *
29747596 CCATCCGATCTCTTACCCTAATCATGGGGCAGA-TCGCAGCCATCTAATCTCTTACCCCTATCAT
1 CCATCCAATCTCTTACCC-GATCATGAGGCAGATTCAAAACCATCCGATCTCTTACCCCGATCAT
29747660 GGGGCAGATCACAG
65 GGGGCAGATCACAG
* * *
29747674 TCATCCAATCTCTTACCCTGATCATGAGGCAAATT-AAAACCATCCGATCTCTTACCCCAATCAT
1 CCATCCAATCTCTTACCC-GATCATGAGGCAGATTCAAAACCATCCGATCTCTTACCCCGATCAT
* * *
29747738 AGGGCAGATCGCAA
65 GGGGCAGATCACAG
*
29747752 CCATCTAATCTCTTACCC
1 CCATCCAATCTCTTACCC
29747770 CAATCATAGG
Statistics
Matches: 563, Mismatches: 75, Indels: 21
0.85 0.11 0.03
Matches are distributed among these distances:
77 1 0.00
78 115 0.20
79 440 0.78
80 7 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (78 bp):
CCATCCAATCTCTTACCCGATCATGAGGCAGATTCAAAACCATCCGATCTCTTACCCCGATCATG
GGGCAGATCACAG
Found at i:29747400 original size:118 final size:118
Alignment explanation
Indices: 29747043--29747776 Score: 557
Period size: 118 Copynumber: 6.2 Consensus size: 118
29747033 AGTTGCATCA
* * *
29747043 CCATCAAATCTCTTACCCCGATCATG-GGACAGATTGAAAACCATCCGATCTCTTACCCCGATCA
1 CCATCCAATCTCTTACCCCGATCATGAGG-CAGATTAAAAACCATCCGATCTCTTACCCCAATCA
* * * ** *
29747107 TGAGGCAGATCACAGCCATCCAATCTCTTACCTCGATCATGAGGTAGATTAAAAA
65 TGGGGCAGATCACAGCCATCCAATCTCTTACCCCGATCATGAGGCAGA-TCGAAG
* *** * *
29747162 CCATCCGATCTCTTACCCCGATCAT-AGGGCAGA-TCGCAGCCATCCGATCTCTTATCCCAATCA
1 CCATCCAATCTCTTACCCCGATCATGA-GGCAGATTAAAAACCATCCGATCTCTTACCCCAATCA
* * * ** ** * *
29747225 TGGGGTAGATTAAAAATCATCGGATCTCTTACCCCGATCATGGGGCAGATCGCAG
65 TGGGGCAGA-TCACAGCCATCCAATCTCTTACCCCGATCATGAGGCAGATCGAAG
* * *
29747280 CCATCCAATCTTTTACCCCGATCATGAGGCGGATTAAAAATCATCCGATCTCTTACCCCAATCAT
1 CCATCCAATCTCTTACCCCGATCATGAGGCAGATTAAAAACCATCCGATCTCTTACCCCAATCAT
* * * * * *
29747345 GGGGTAGATCGCAGCCATCCGATCTCTTACCTCGATCATGAGGCATATCGTAG
66 GGGGCAGATCACAGCCATCCAATCTCTTACCCCGATCATGAGGCAGATCGAAG
* * * * * *
29747398 CCATCTAATCTCTTACCCTGATCATGGGGCA-ACTTAAAAACCATTCAATCTCTTACCCCGATCA
1 CCATCCAATCTCTTACCCCGATCATGAGGCAGA-TTAAAAACCATCCGATCTCTTACCCCAATCA
** * * ** *
29747462 TGGGGCAGATCGTAGCCATCCAATCTTTTACCCCGATCATGGGGCAGATTAAAAA
65 TGGGGCAGATCACAGCCATCCAATCTCTTACCCCGATCATGAGGCAGA-TCGAAG
*** ** * *** * * * *
29747517 CCATTTGATCTCTTACCCTAATCATGGGGCAGA-TCGTAGCCATCCAATCTTTTACCCCGATCAT
1 CCATCCAATCTCTTACCCCGATCATGAGGCAGATTAAAAACCATCCGATCTCTTACCCCAATCAT
* * * * ** * *
29747581 GGGGCAGATTAAAAACCATCCGATCTCTTACCCTAATCATGGGGCAGATCGCAG
66 GGGGCAGA-TCACAGCCATCCAATCTCTTACCCCGATCATGAGGCAGATCGAAG
* * * * * ** * **
29747635 CCATCTAATCTCTTACCCCTATCATGGGGCAGA-TCACAGTCATCCAATCTCTTACCCTGATCAT
1 CCATCCAATCTCTTACCCCGATCATGAGGCAGATTAAAAACCATCCGATCTCTTACCCCAATCAT
* * * * * * *
29747699 GAGGCAAATTAAAACCATCCGATCTCTTACCCCAATCAT-AGGGCAGATCGCAA-
66 GGGGCAGATCACAGCCATCCAATCTCTTACCCCGATCATGA-GGCAGATCG-AAG
* *
29747752 CCATCTAATCTCTTACCCCAATCAT
1 CCATCCAATCTCTTACCCCGATCAT
29747777 AGGGCAAATT
Statistics
Matches: 505, Mismatches: 99, Indels: 24
0.80 0.16 0.04
Matches are distributed among these distances:
117 63 0.12
118 287 0.57
119 152 0.30
120 3 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (118 bp):
CCATCCAATCTCTTACCCCGATCATGAGGCAGATTAAAAACCATCCGATCTCTTACCCCAATCAT
GGGGCAGATCACAGCCATCCAATCTCTTACCCCGATCATGAGGCAGATCGAAG
Found at i:29747576 original size:276 final size:275
Alignment explanation
Indices: 29747050--29747782 Score: 1038
Period size: 276 Copynumber: 2.7 Consensus size: 275
29747040 TCACCATCAA
* * * * *
29747050 ATCTCTTACCCCGATCATGGGACAGATTGAAAACCATCCGATCTCTTACCCCGATCATGAGGCAG
1 ATCTCTTACCCCAATCATGGGGCAGATCG-CAGCCATCCGATCTCTTACCCCGATCATGAGGCAG
*
29747115 ATCACAGCCATCCAATCTCTTA-CCTCGATCATGAGGTAGATTAAAAACCATCCGATCTCTTACC
65 ATCACAGCCATCCAATCTCTTACCCT-GATCATGAGGCA-ATTAAAAACCATCCGATCTCTTACC
* * * *
29747179 CCGATCATAGGGCAGATCGCAGCCATCCGATCTCTTATCCCAATCATGGGGTAGATTAAAAATCA
128 CCGATCATAGGGCAGATCGCAGCCATCCAATCTCTTACCCCAATCATGGGGCAGATTAAAAACCA
*
29747244 TCGGATCTCTTACCCCGATCATGGGGCAGATCGCAGCCATCCAATCTTTTACCCCGATCATGAGG
193 TCGGATCTCTTACCCCAATCATGGGGCAGATCGCAGCCATCCAATCTTTTACCCCGATCATGAGG
* *
29747309 CGGATTAAAAATCATCCG
258 CAGATTAAAAACCATCCG
* * *
29747327 ATCTCTTACCCCAATCATGGGGTAGATCGCAGCCATCCGATCTCTTACCTCGATCATGAGGCATA
1 ATCTCTTACCCCAATCATGGGGCAGATCGCAGCCATCCGATCTCTTACCCCGATCATGAGGCAGA
** * * * *
29747392 TCGTAGCCATCTAATCTCTTACCCTGATCATGGGGCAACTTAAAAACCATTCAATCTCTTACCCC
66 TCACAGCCATCCAATCTCTTACCCTGATCATGAGGCAA-TTAAAAACCATCCGATCTCTTACCCC
* * * * *
29747457 GATCATGGGGCAGATCGTAGCCATCCAATCTTTTACCCCGATCATGGGGCAGATTAAAAACCATT
130 GATCATAGGGCAGATCGCAGCCATCCAATCTCTTACCCCAATCATGGGGCAGATTAAAAACCATC
* * * *
29747522 TGATCTCTTACCCTAATCATGGGGCAGATCGTAGCCATCCAATCTTTTACCCCGATCATGGGGCA
195 GGATCTCTTACCCCAATCATGGGGCAGATCGCAGCCATCCAATCTTTTACCCCGATCATGAGGCA
29747587 GATTAAAAACCATCCG
260 GATTAAAAACCATCCG
* ** * *
29747603 ATCTCTTACCCTAATCATGGGGCAGATCGCAGCCATCTAATCTCTTACCCCTATCATGGGGCAGA
1 ATCTCTTACCCCAATCATGGGGCAGATCGCAGCCATCCGATCTCTTACCCCGATCATGAGGCAGA
*
29747668 TCACAGTCATCCAATCTCTTACCCTGATCATGAGGCAAATT-AAAACCATCCGATCTCTTACCCC
66 TCACAGCCATCCAATCTCTTACCCTGATCATGAGGC-AATTAAAAACCATCCGATCTCTTACCCC
* * * *
29747732 AATCATAGGGCAGATCGCAACCATCTAATCTCTTACCCCAATCATAGGGCA
130 GATCATAGGGCAGATCGCAGCCATCCAATCTCTTACCCCAATCATGGGGCA
29747783 AATTGAAACC
Statistics
Matches: 399, Mismatches: 54, Indels: 8
0.87 0.12 0.02
Matches are distributed among these distances:
275 65 0.16
276 304 0.76
277 30 0.08
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (275 bp):
ATCTCTTACCCCAATCATGGGGCAGATCGCAGCCATCCGATCTCTTACCCCGATCATGAGGCAGA
TCACAGCCATCCAATCTCTTACCCTGATCATGAGGCAATTAAAAACCATCCGATCTCTTACCCCG
ATCATAGGGCAGATCGCAGCCATCCAATCTCTTACCCCAATCATGGGGCAGATTAAAAACCATCG
GATCTCTTACCCCAATCATGGGGCAGATCGCAGCCATCCAATCTTTTACCCCGATCATGAGGCAG
ATTAAAAACCATCCG
Found at i:29747793 original size:39 final size:39
Alignment explanation
Indices: 29747042--29747793 Score: 610
Period size: 39 Copynumber: 19.1 Consensus size: 39
29747032 AAGTTGCATC
* *
29747042 ACCATCAAATCTCTTACCCCGATCATGGGACAGATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTG-AA
* * *
29747082 ACCATCCGATCTCTTACCCCGATCATGAGGCAGA-TCACA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGA-A
* * * * *
29747121 GCCATCCAATCTCTTACCTCGATCATGAGGTAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATT-GAA
* * * *
29747161 ACCATCCGATCTCTTACCCCGATCATAGGGCAGATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * * * * *
29747200 GCCATCCGATCTCTTATCCCAATCATGGGGTAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATT-GAA
* ** * *
29747240 ATCATCGGATCTCTTACCCCGATCATGGGGCAGATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * * * *
29747279 GCCATCCAATCTTTTACCCCGATCATGAGGCGGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATT-GAA
* * * * * *
29747319 ATCATCCGATCTCTTACCCCAATCATGGGGTAGATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * * * * * *
29747358 GCCATCCGATCTCTTACCTCGATCATGAGGCATATCGTA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * * *
29747397 GCCATCTAATCTCTTACCCTGATCATGGGGCA-ACTTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGA-TT-GAA
* * *
29747437 ACCATTCAATCTCTTACCCCGATCATGGGGCAGATCGTA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * *
29747476 GCCATCCAATCTTTTACCCCGATCATGGGGCAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATT-GAA
*** ** * *
29747516 ACCATTTGATCTCTTACCCTAATCATGGGGCAGATCGTA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * *
29747555 GCCATCCAATCTTTTACCCCGATCATGGGGCAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATT-GAA
* ** * *
29747595 ACCATCCGATCTCTTACCCTAATCATGGGGCAGATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * * *
29747634 GCCATCTAATCTCTTACCCCTATCATGGGGCAGA-TCACA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGA-A
** * * * *
29747673 GTCATCCAATCTCTTACCCTGATCATGAGGCAAATTAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * * * *
29747712 ACCATCCGATCTCTTACCCCAATCATAGGGCAGATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * * *
29747751 ACCATCTAATCTCTTACCCCAATCATAGGGCAAATTGAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
29747790 ACCA
1 ACCA
29747794 CAACCCAATT
Statistics
Matches: 555, Mismatches: 145, Indels: 25
0.77 0.20 0.03
Matches are distributed among these distances:
38 2 0.00
39 340 0.61
40 211 0.38
41 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (39 bp):
ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
Found at i:29753714 original size:36 final size:36
Alignment explanation
Indices: 29753644--29753769 Score: 182
Period size: 36 Copynumber: 3.5 Consensus size: 36
29753634 CTCAATGATT
*
29753644 TCTTCAAGTTTCCTAGTAATTT-AGCTCAAACGAGC
1 TCTTCAAGTTTCCTAGTAATTTCAGCTCATACGAGC
* *
29753679 CCTTCAAGTTTCCTAGTAATTTCAGCTCATTCGAGC
1 TCTTCAAGTTTCCTAGTAATTTCAGCTCATACGAGC
* * *
29753715 TCTTCAAGTTACCCAGTAATTTCAGCTCATACAAGC
1 TCTTCAAGTTTCCTAGTAATTTCAGCTCATACGAGC
*
29753751 TCTTCAAGATTCCTAGTAA
1 TCTTCAAGTTTCCTAGTAA
29753770 ATTAACCTGT
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 21 0.27
36 58 0.73
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (36 bp):
TCTTCAAGTTTCCTAGTAATTTCAGCTCATACGAGC
Found at i:29754849 original size:6 final size:6
Alignment explanation
Indices: 29754824--29754876 Score: 52
Period size: 6 Copynumber: 8.2 Consensus size: 6
29754814 TTTAATGAAT
* *
29754824 AAAATA AAAGTA ATAAATA AAAATA AATAATA TATACATA AAAATA AAAATA
1 AAAATA AAAATA A-AAATA AAAATA AA-AATA -A-AAATA AAAATA AAAATA
29754876 A
1 A
29754877 TTGGGGTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 24 0.62
7 10 0.26
8 4 0.10
9 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:29754926 original size:29 final size:30
Alignment explanation
Indices: 29754864--29754920 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
29754854 TATATACATA
*
29754864 AAAATAAAAATAATTGGGGTAAAATTAAAT
1 AAAATAAAAATAAGTGGGGTAAAATTAAAT
*
29754894 AAAATGAAAAT-AGTGGGGTTAAAATTA
1 AAAATAAAAATAAGTGGGG-TAAAATTA
29754921 TTAAAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (30 bp):
AAAATAAAAATAAGTGGGGTAAAATTAAAT
Found at i:29757485 original size:20 final size:19
Alignment explanation
Indices: 29757446--29757490 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
29757436 CTGTTACACC
* *
29757446 TTCTCTCAACTCTCTTAAA
1 TTCTCTCAACTCTATCAAA
29757465 TTCTCTCAAACTCTATCAAA
1 TTCTCTC-AACTCTATCAAA
*
29757485 TCCTCT
1 TTCTCT
29757491 AAAGCCTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (19 bp):
TTCTCTCAACTCTATCAAA
Found at i:29759218 original size:6 final size:6
Alignment explanation
Indices: 29759207--29759231 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
29759197 CCTAAAATTA
29759207 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
29759232 GTGAATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:29765445 original size:2 final size:2
Alignment explanation
Indices: 29765438--29765463 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
29765428 TGTTATGCTA
29765438 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
29765464 TAGGTTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29765619 original size:35 final size:37
Alignment explanation
Indices: 29765580--29765651 Score: 87
Period size: 35 Copynumber: 2.0 Consensus size: 37
29765570 ATAAACTTTG
*
29765580 TTTATTCTATCTT-ATTATTAGTT-TGATTT-TGGGTT
1 TTTATTATA-CTTGATTATTAGTTATGATTTATGGGTT
* *
29765615 TTTATTATACTTGGTTATTAGTTATTATTTATGGGTT
1 TTTATTATACTTGATTATTAGTTATGATTTATGGGTT
29765652 GTAAATACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
34 3 0.10
35 17 0.55
36 5 0.16
37 6 0.19
ACGTcount: A:0.19, C:0.04, G:0.15, T:0.61
Consensus pattern (37 bp):
TTTATTATACTTGATTATTAGTTATGATTTATGGGTT
Found at i:29772297 original size:6 final size:6
Alignment explanation
Indices: 29772286--29772328 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
29772276 CCTAAAATTA
29772286 TATATT TATATT TATATT TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT T
29772329 GTGAATGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:29787662 original size:18 final size:18
Alignment explanation
Indices: 29787636--29787671 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29787626 CAACTCATAA
*
29787636 TGTTGAAATAATTTTTTT
1 TGTTAAAATAATTTTTTT
*
29787654 TGTTAAAATAGTTTTTTT
1 TGTTAAAATAATTTTTTT
29787672 AAATTCACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (18 bp):
TGTTAAAATAATTTTTTT
Found at i:29789178 original size:5 final size:5
Alignment explanation
Indices: 29789168--29789202 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
29789158 TAAGTTTATA
29789168 ATATT ATATT ATATT ATATT ATATT -TA-T ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
29789203 GTAATTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 1 0.04
4 4 0.14
5 23 0.82
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:29789198 original size:13 final size:13
Alignment explanation
Indices: 29789162--29789202 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 13
29789152 CCGTTTTAAG
29789162 TTTATAATATTATA
1 TTTAT-ATATTATA
29789176 TTATATTATATTATA
1 TT-TA-TATATTATA
29789191 TTTATATATTAT
1 TTTATATATTAT
29789203 GTAATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.32
14 4 0.16
15 12 0.48
16 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTATATATTATA
Found at i:29791877 original size:46 final size:45
Alignment explanation
Indices: 29791796--29791889 Score: 143
Period size: 46 Copynumber: 2.1 Consensus size: 45
29791786 TTATAAAGGA
* *
29791796 AATAAAAACCAAATATATAGAGAAAATAAGTAAAACTAAAACTCT
1 AATAAAAACCAAATATATAAAGAAAATAAATAAAACTAAAACTCT
**
29791841 AATAAAAACCTGATATAATAAAGAAAATAAATAAAACTAAAACTCT
1 AATAAAAACCAAATAT-ATAAAGAAAATAAATAAAACTAAAACTCT
29791887 AAT
1 AAT
29791890 TTCTGCCGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 14 0.32
46 30 0.68
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (45 bp):
AATAAAAACCAAATATATAAAGAAAATAAATAAAACTAAAACTCT
Found at i:29793364 original size:46 final size:46
Alignment explanation
Indices: 29793293--29793382 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
29793283 TTATAAAGAA
* *
29793293 AATAAAAACCTAATATAATAGAGAAAATAAGTAAAACTAAAACTTT
1 AATAAAAACCTAATATAATAAAGAAAATAAATAAAACTAAAACTTT
* *
29793339 AATAAAAACGTCATATAATAAAGAAAATAAATAAAACTAAAACT
1 AATAAAAACCTAATATAATAAAGAAAATAAATAAAACTAAAACT
29793383 CTAACTGCTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.63, C:0.09, G:0.06, T:0.22
Consensus pattern (46 bp):
AATAAAAACCTAATATAATAAAGAAAATAAATAAAACTAAAACTTT
Found at i:29795679 original size:24 final size:22
Alignment explanation
Indices: 29795647--29795692 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
29795637 CCCGACCCGG
29795647 ATTTATAATAATAATTTTATTTTT
1 ATTTATAATAAT-ATTTT-TTTTT
* *
29795671 ATTTTTAATACTATTTTTTTTT
1 ATTTATAATAATATTTTTTTTT
29795693 GCTTGTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 5 0.25
24 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTATAATAATATTTTTTTTT
Found at i:29796727 original size:21 final size:22
Alignment explanation
Indices: 29796695--29796743 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
29796685 GTGATATTTC
* *
29796695 TATTTTTGAATTATTTTATTTA
1 TATTTTTGAATTATATTAATTA
*
29796717 TGTTTTT-AATTATATTAATTA
1 TATTTTTGAATTATATTAATTA
29796738 TATTTT
1 TATTTT
29796744 AGTTATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TATTTTTGAATTATATTAATTA
Found at i:29808317 original size:39 final size:43
Alignment explanation
Indices: 29808225--29808333 Score: 120
Period size: 46 Copynumber: 2.5 Consensus size: 43
29808215 TTTGATTCAC
29808225 TGAAATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTCAA
1 TGAAATGGAATAGAGCTGTAAT-AGTAATTCAATTGTTTGGTT--A
*
29808271 TGAAATGGAATAGAGCTGTAATAGT-ATTC-TTGTGTTTGG-T-
1 TGAAATGGAATAGAGCTGTAATAGTAATTCAAT-TGTTTGGTTA
*
29808311 TG-AATGGAATAGATGTTGTAATA
1 TGAAATGGAATAGA-GCTGTAATA
29808334 ACATAAGGAA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
39 11 0.19
40 10 0.17
43 2 0.03
44 11 0.19
45 3 0.05
46 22 0.37
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (43 bp):
TGAAATGGAATAGAGCTGTAATAGTAATTCAATTGTTTGGTTA
Found at i:29810257 original size:3 final size:3
Alignment explanation
Indices: 29810249--29810281 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
29810239 TACATCCCAA
29810249 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
29810282 GAATAGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:29811374 original size:27 final size:27
Alignment explanation
Indices: 29811308--29811448 Score: 114
Period size: 27 Copynumber: 5.4 Consensus size: 27
29811298 TTTTCGAAAA
* *
29811308 AAAGTCAACGGTCAA-AGTCAACGATC
1 AAAGTCAACGGTCAACGGTCAACGGTC
**
29811334 AGTGGTCAAC-GTCAACGGTCAACGGTC
1 A-AAGTCAACGGTCAACGGTCAACGGTC
* * ** *
29811361 AAAGTTAACAGTCAGTGGTCAACGATC
1 AAAGTCAACGGTCAACGGTCAACGGTC
**
29811388 AAAGTCAACGGTCAACTATCAA-GGTC
1 AAAGTCAACGGTCAACGGTCAACGGTC
*
29811414 AACAGTCAACGGTCAA-AGTCAACGGTC
1 AA-AGTCAACGGTCAACGGTCAACGGTC
29811441 --AGTCAACG
1 AAAGTCAACG
29811449 CTAGTCAATG
Statistics
Matches: 91, Mismatches: 19, Indels: 12
0.75 0.16 0.10
Matches are distributed among these distances:
24 8 0.09
26 20 0.22
27 63 0.69
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
AAAGTCAACGGTCAACGGTCAACGGTC
Found at i:29811376 original size:40 final size:40
Alignment explanation
Indices: 29811308--29811448 Score: 141
Period size: 40 Copynumber: 3.6 Consensus size: 40
29811298 TTTTCGAAAA
29811308 AAAGTCAACGGTCAAAGTCAACGATCAGTGGTCAACG-TC
1 AAAGTCAACGGTCAAAGTCAACGATCAGTGGTCAACGATC
* *
29811347 AACGGTCAACGGTCAAAGTTAAC-AGTCAGTGGTCAACGATC
1 AA-AGTCAACGGTCAAAGTCAACGA-TCAGTGGTCAACGATC
* *** *
29811388 AAAGTCAACGGTCAACTA-TCAA-GGTCAACAGTCAACGGTC
1 AAAGTCAACGGTCAA--AGTCAACGATCAGTGGTCAACGATC
29811428 AAAGTCAACGGTC--AGTCAACG
1 AAAGTCAACGGTCAAAGTCAACG
29811449 CTAGTCAATG
Statistics
Matches: 85, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
36 1 0.01
37 4 0.05
38 1 0.01
39 3 0.04
40 68 0.80
41 7 0.08
42 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (40 bp):
AAAGTCAACGGTCAAAGTCAACGATCAGTGGTCAACGATC
Found at i:29811393 original size:20 final size:20
Alignment explanation
Indices: 29811308--29811441 Score: 103
Period size: 20 Copynumber: 6.7 Consensus size: 20
29811298 TTTTCGAAAA
*
29811308 AAAGTCAACGGTCAAAG-TC
1 AAAGTCAACGGTCAACGATC
* **
29811327 AACGATCAGTGGTCAACG-TC
1 AAAG-TCAACGGTCAACGATC
* * *
29811347 AACGGTCAACGGTCAAAG-TT
1 AA-AGTCAACGGTCAACGATC
**
29811367 AACAGTCAGTGGTCAACGATC
1 AA-AGTCAACGGTCAACGATC
*
29811388 AAAGTCAACGGTCAACTATC
1 AAAGTCAACGGTCAACGATC
* * *
29811408 AAGGTCAACAGTCAACGGTC
1 AAAGTCAACGGTCAACGATC
29811428 AAAGTCAACGGTCA
1 AAAGTCAACGGTCA
29811442 GTCAACGCTA
Statistics
Matches: 89, Mismatches: 23, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
19 3 0.03
20 82 0.92
21 4 0.04
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (20 bp):
AAAGTCAACGGTCAACGATC
Found at i:29812025 original size:16 final size:16
Alignment explanation
Indices: 29812004--29812036 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29811994 TAAGGCAAGG
*
29812004 GAAAAAGAAAGAAAAA
1 GAAAAAAAAAGAAAAA
29812020 GAAAAAAAAAGAAAAA
1 GAAAAAAAAAGAAAAA
29812036 G
1 G
29812037 GTTTGGGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAGAAAAA
Found at i:29812034 original size:10 final size:10
Alignment explanation
Indices: 29812005--29812035 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
29811995 AAGGCAAGGG
*
29812005 AAAAAGAAAG
1 AAAAAGAAAA
29812015 AAAAAGAAAA
1 AAAAAGAAAA
29812025 AAAAAGAAAA
1 AAAAAGAAAA
29812035 A
1 A
29812036 GGTTTGGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:29813817 original size:41 final size:41
Alignment explanation
Indices: 29813733--29813817 Score: 93
Period size: 41 Copynumber: 2.1 Consensus size: 41
29813723 ATTAATAGGA
** * *
29813733 TTATTATTAAATATAAATAATTTAATCATATTTTAATATAT
1 TTATTATTAAATATAAATAATAAAATAATATTATAATATAT
*
29813774 TTATTATTAAATATAATTTAATAAAAATAATATTAT-ATA-AT
1 TTATTATTAAATATAA-ATAAT-AAAATAATATTATAATATAT
29813815 TTA
1 TTA
29813818 ATAAAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
41 21 0.57
42 7 0.19
43 9 0.24
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (41 bp):
TTATTATTAAATATAAATAATAAAATAATATTATAATATAT
Found at i:29813819 original size:29 final size:24
Alignment explanation
Indices: 29813784--29813845 Score: 124
Period size: 24 Copynumber: 2.6 Consensus size: 24
29813774 TTATTATTAA
29813784 ATATAATTTAATAAAAATAATATT
1 ATATAATTTAATAAAAATAATATT
29813808 ATATAATTTAATAAAAATAATATT
1 ATATAATTTAATAAAAATAATATT
29813832 ATATAATTTAATAA
1 ATATAATTTAATAA
29813846 CATTCTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATAATTTAATAAAAATAATATT
Found at i:29816123 original size:28 final size:28
Alignment explanation
Indices: 29816083--29816139 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
29816073 ATCCAACTCC
29816083 AAGATAGTCTCAAAATTGATCTTAATCT
1 AAGATAGTCTCAAAATTGATCTTAATCT
29816111 AAGATAGTCTCAAAATTGATCTTAATCT
1 AAGATAGTCTCAAAATTGATCTTAATCT
29816139 A
1 A
29816140 CAACTTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (28 bp):
AAGATAGTCTCAAAATTGATCTTAATCT
Found at i:29823531 original size:36 final size:36
Alignment explanation
Indices: 29823484--29823567 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 36
29823474 GCTCAAAAGA
29823484 CATGTCTCTTCACTTGCCTTTGACTAGATGAAAGGG
1 CATGTCTCTTCACTTGCCTTTGACTAGATGAAAGGG
* ** *
29823520 CATGTCTCTTCATTTGTTTTTGAGTAGATGAAAGGG
1 CATGTCTCTTCACTTGCCTTTGACTAGATGAAAGGG
*
29823556 CATGTCTTTTCA
1 CATGTCTCTTCA
29823568 GTAGTCCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (36 bp):
CATGTCTCTTCACTTGCCTTTGACTAGATGAAAGGG
Found at i:29835083 original size:215 final size:216
Alignment explanation
Indices: 29834686--29835696 Score: 1313
Period size: 215 Copynumber: 4.7 Consensus size: 216
29834676 GTAGTCAAGG
* * *
29834686 CCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAG
1 CCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGTGAAATCGCATCATTTGGTCTAAATAG
* * *
29834751 TTTGTCATTTTGTAAACAAATTTTGGTTTTTGAATTAAAAACTTATTTACGTGAGAATTGTTCCT
66 TTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * * * *
29834816 CTCTTGGTTCTTGGACGAGCTTCCGAACTTGTTAAACTTTTACGAATTCTTTTATAACTTTGGTT
131 CTCTTGGTTCTTGGACGAACTTCTGAAATTATCAAACTTTTACGAGTTCTTTTATAACTTTGGTT
* * *
29834881 CCATAAAGTATTCAAGATGAT
196 CCTTAAAGCATTCAAGACGAT
* ** * *
29834902 CCATTCCTTCAAGCAATTTTTTGAATATTCCATGCTCGTGAAATTGCATCATTTGGTCTAAATAG
1 CCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGTGAAATCGCATCATTTGGTCTAAATAG
* * * *
29834967 TTTGTCA-TTTGTAAACAAGTTTTGGTTTTTGAATTAAAAACTTTTTTAAGTGAGAATTATTTCT
66 TTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
** * *
29835031 CTCTTGGTTCTTGGTTGAACTTCTGAAATTATCAAACATTTATGAGTTCTTTTATAACTTTGGTT
131 CTCTTGGTTCTTGGACGAACTTCTGAAATTATCAAACTTTTACGAGTTCTTTTATAACTTTGGTT
*
29835096 CCTTAAAGCATTCAAAACGAT
196 CCTTAAAGCATTCAAGACGAT
* * * *
29835117 CCATTCCTTCGAGCAATTTTCTG-ACATTCAATGCTCAG-G-AA----ATCATTTGATGTAAATA
1 CCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTC-GTGAAATCGCATCATTTGGTCTAAATA
* * ** * *
29835175 GTTTGTCTTTTTTGTAAAAAAGTTTTGGTCTTTGAATTAAAAACTTGCTTACATGATAATTGTTT
65 GTTTGTC-ATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
* * * * * * *
29835240 TTCTCTTGGTTCTTAGACGAACATC-CAAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCG
129 CTCTCTTGGTTCTTGGACGAACTTCTGAAA-TTATCAAACTTTTACGAGTTCTTTTATAACTTTG
* * *
29835304 ATTCCTT-ACGTATTCAAGACGAT
193 GTTCCTTAAAGCATTCAAGACGAT
* * * *
29835327 CCATTCCTTCGAGAAATTTTCCGAACATTCAATGCTCATGAAATCGCATCATTTGGTCTGAATAG
1 CCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGTGAAATCGCATCATTTGGTCTAAATAG
* * *
29835392 TTTGTCATTTTATAAACAAGTTTTGGTCATTTGAATTAAAAACATATTTACGTGATAATTGTTTC
66 TTTGTCATTTTGTAAACAAGTTTTGGTC-TTTGAATTAAAAACTTATTTACGTGAGAATTGTTTC
* ** * *
29835457 TCTCTTGGTTCTTGGACGAACTTCTGAACTTGAAAAAACTTTTACGAGTTTTTTTATAACTTTAG
130 TCTCTTGGTTCTTGGACGAACTTCTGAAATT-ATCAAACTTTTACGAGTTCTTTTATAACTTTGG
*
29835522 TTTCTTAAAGCATTCAAGACGAT
194 TTCCTTAAAGCATTCAAGACGAT
** *
29835545 CCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCAAGAGATCGCATCATTTGGTCTAAATAG
1 CCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGTGAAATCGCATCATTTGGTCTAAATAG
*
29835610 TTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTTCGTGAGAATTGTTTCT
66 TTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
29835675 CTCTTGGTTCTTGGACGAACTT
131 CTCTTGGTTCTTGGACGAACTT
29835697 TCGTGATACG
Statistics
Matches: 687, Mismatches: 93, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
209 22 0.03
210 37 0.05
211 116 0.17
212 2 0.00
213 2 0.00
214 12 0.02
215 165 0.24
216 142 0.21
217 88 0.13
218 101 0.15
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (216 bp):
CCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGTGAAATCGCATCATTTGGTCTAAATAG
TTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
CTCTTGGTTCTTGGACGAACTTCTGAAATTATCAAACTTTTACGAGTTCTTTTATAACTTTGGTT
CCTTAAAGCATTCAAGACGAT
Found at i:29845605 original size:216 final size:216
Alignment explanation
Indices: 29845203--29847270 Score: 2361
Period size: 216 Copynumber: 9.6 Consensus size: 216
29845193 CGCATCATCA
* ** * *
29845203 AAATAGTTTTTCATTTTGTAAACATGTTTTAGCCTTTGAATTAAAAACTTATTTACATGAGAATT
1 AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATT
* * * **
29845268 GTTTCTCTCTTGGATCTTT-GTCGAACTTCCAAACTTGAAAAACTTTTACGAGTTCTTTTATAAC
66 GTTTCTCTCTTGG-TTTTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAC
* * * ** * *
29845332 TTCGATTCCTTAAAATATTCAGGACGATATATTCCTTCAAGCAATTTTTCGAACATTCCACGCTC
130 TTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTC
* * *
29845397 AGGAAATCACATCATCTGGTCT
195 GGGAAATCGCATCATTTGGTCT
* * *
29845419 AAACAGATTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATT
1 AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATT
* * * *
29845484 GTTCCTCTCTTTGTTTTTGGATGAACTTCCGAACTAGTCAAACTTTTACGAGTTCTTTTATAACT
66 GTTTCTCTCTTGGTTTTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
** * * *
29845549 TCGGTTTGTTACAGTATTCAAGACGATCCATTCCTTCGAGCAACTTTTCAAACATTCCATGCTCG
131 TCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCG
* **
29845614 GGAAACCATATCATTTGGTCT
196 GGAAATCGCATCATTTGGTCT
* * * * * * *
29845635 GAATTGTATGTCATTTT-T--A-AACTTTTGGTCTTTGACTTAAAAACATATTTACGTGAGAGTT
1 AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATT
* * * * *
29845696 GTTTCTCTTTTGGTTCTTGGACGAACTTCCGAACTTGACAAACATTTATGAGTTCTTTTATAACT
66 GTTTCTCTCTTGGTTTTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
* * * * * * *
29845761 TTGATTTCTAAAAGTATTCAAGACAATCCATTCCTTCGAG-AAATCTTCTGAACATTCCATGCTC
131 TCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTC
* *
29845825 GGGAAAACGCATCATTTGGTCG
195 GGGAAATCGCATCATTTGGTCT
* ** * * *
29845847 AAATAGTTT-TCCATTTTGTAAACTAGATTAGGTCTTTGAATTAAAAACTTCTTTACACGAGAAT
1 AAATAGTTTGT-CATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAAT
* * * *
29845911 TGTTTC-CATCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACTTCTACGAGTTCCTTTATAA
65 TGTTTCTC-TCTTGGTTTTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAA
* * * * * * **
29845975 CTTCGATTCCTTAAAGTATTCAAGATGATACTTTCCTTCGAGCAGTTTTTCGAACATACCAAACT
129 CTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCT
* ** * * *
29846040 CGAGATTTCGCGTTATTTTGTCT
194 CGGGAAATCGCATCATTTGGTCT
* *
29846063 AAATAGTATT-TCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAT
1 AAATAGT-TTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAAT
* * * ** * *
29846127 TATTTCTCTCTTGGTTATTGGACAAACTTTTGAACTTGTCAAACTTTTTCAAGTTCTTTTATAAC
65 TGTTTCTCTCTTGGTTTTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAC
* * * * * * * *
29846192 TTTGATTCCTTACAA-CATTCAATACGATACATTACTTCAAGCAATTTTTCAAACATTCCATGCT
130 TTCGGTTCCTTA-AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCT
* *
29846256 CGGGAAATTGCATCATTTGGTCA
194 CGGGAAATCGCATCATTTGGTCT
* ** * * *
29846279 AAATAGTTTGTCATTTTCTAAACATGTTTTGGTCTTTCAACTAAAAACTTATTTACAAGAGAATT
1 AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATT
* * * * * **
29846344 GTTTTTCTCTTTGATCTTT-GACAAACTTCCAAACTTTGAAAAACTTTTACGAGTTCTTTTATAA
66 GTTTCTCTC-TTGGTTTTTGGACGAACTTCCGAAC-TTGTCAAACTTTTACGAGTTCTTTTATAA
* * * **
29846408 CTTCGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCAATCAATTTTTTAAACATTCCATGCT
129 CTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCT
*
29846473 CGGGAAATCGCATCATCTGGTCT
194 CGGGAAATCGCATCATTTGGTCT
* * * *
29846496 AAATAGTTTATCATTTTGTATACAACTGTTGGTCTTTGAATTAAAAACTTATTTACATGAAAATT
1 AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATT
* * * *
29846561 GTTTCTCTCTTGGTTTGTGGATGAACTTCCGAACTTGTCAAACTTTTATGAGTTCCTTTATAACT
66 GTTTCTCTCTTGGTTTTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
* * * * *
29846626 TCGGTTCGTTACAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCCGTACATTCCATGCTCG
131 TCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCG
29846691 GGAAATCGCATCATTTGGTCT
196 GGAAATCGCATCATTTGGTCT
* * *
29846712 AAATAGTTTGTCATTTTGT--A-AACTTTTGGTCTTTGAATTAAAAACTCATTTACATTAGAGTT
1 AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATT
* * * * *
29846774 -TTTCTCTATTGGTTCTTGGACGAACTTCTGAGCTTGTCAAACTTTTATGAGTTCTTTTATAACT
66 GTTTCTCTCTTGGTTTTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
* * * *
29846838 TCGGTTCCTTAAAGTATTCAAGACAACCCATTCCTTCGAGCAATATTTCGAACATTCCATACTCG
131 TCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCG
*
29846903 GGAAATCACATCATTTGGTCT
196 GGAAATCGCATCATTTGGTCT
* * * * * *
29846924 AAATAGTTTGCCATTTTGTAAACTAGTTTAGGTTTTTGAATTAAAAACTTATTTACGTGAGAATT
1 AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATT
* * * * * * *
29846989 GTTTCTATCTTAGTGTTTGGACGAACTTCCAAACTAGTCAAATTTTTACGAGTTTTTTTATAACT
66 GTTTCTCTCTTGGTTTTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
** * * * *
29847054 TCGGTTCCTTAAAGTATTCAAGGTGATCCGTTGCTTCGAGCAATTTTTCGAACATTCCATGTTCC
131 TCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCG
**
29847119 GGAAATTTCATCATTTGGTCT
196 GGAAATCGCATCATTTGGTCT
* ** * * *
29847140 AAATAGTTTGACATTTTGTAAACAACTTTTGGTCTTACAATTAAAAACTTATTTACTTAAGAGTT
1 AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATT
* * * * *
29847205 ATTTCTCTC--AGTTCTTGGACAAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
66 GTTTCTCTCTTGGTTTTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
29847268 TCG
131 TCG
29847271 ATTCTGATGC
Statistics
Matches: 1555, Mismatches: 276, Indels: 44
0.83 0.15 0.02
Matches are distributed among these distances:
211 7 0.00
212 324 0.21
213 39 0.03
214 51 0.03
215 43 0.03
216 901 0.58
217 190 0.12
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (216 bp):
AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATT
GTTTCTCTCTTGGTTTTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
TCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCG
GGAAATCGCATCATTTGGTCT
Found at i:29846079 original size:428 final size:426
Alignment explanation
Indices: 29845203--29847270 Score: 2301
Period size: 428 Copynumber: 4.8 Consensus size: 426
29845193 CGCATCATCA
* * *
29845203 AAATAGTTTTTCATTTTGTAAACATGTTTTAGCCTTTGAATTAAAAACTTATTTACATGAGAATT
1 AAATAG-TTTTCATTTTGTAAAC---TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATT
* * ** *
29845268 GTTTCTCTCTTGGATCTTT-GTCGAACTTCCAAACTTGAAAAACTTTTACGAGTTCTTTTATAAC
62 GTTTCTCTCTTGG-T-TTTGGACGAACTTCCGAACTTGTCAAACTTTTATGAGTTCTTTTATAAC
* ** * *
29845332 TTCGATTCCTTAAAA-TATTCAGGACGATATATTCCTTCAAGCAATTTTTCGAACATTCCACGCT
125 TTCGATTCCTTAAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCT
* * * * *
29845396 CAGGAAATCACATCATCTGGTCTAAACAGATTGTCATTTTGTAAACAACTTTTGGTCTTTGAATT
190 CGGGAAATCGCATCATTTGGTCTAAATAG-TTTTCATTTTGTAAACAACTTTTGGTCTTTGAATT
* * * * * *
29845461 AAAAACTTATTTACGTGAGAATTGTTCCTCTCTTTGTTTTTGGATGAACTTCCGAACTAGTCAAA
254 AAAAACTTATTTACATGAGAATTGTTTC-CTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
** *
29845526 CTTTTACGAGTTCTTTTATAACTTCGGTTTGTTACAGTATTCAAGACGATCCATTCCTTCGAGCA
318 CTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* * * **
29845591 ACTTTTCAAACATTCCATGCTCGGGAAACCATATCATTTGGTCT
383 ATTTTTCAAACATTCCATACTCGGGAAATCGCATCATTTGGTCT
* * * * * *
29845635 GAATTGTATGTCATTTT-TAAACTTTTGGTCTTTGACTTAAAAACATATTTACGTGAGAGTTGTT
1 AAATAGT-TTTCATTTTGTAAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
* * * *
29845699 TCTCTTTTGGTTCTTGGACGAACTTCCGAACTTGACAAACATTTATGAGTTCTTTTATAACTTTG
65 TCTCTCTTGGTT-TTGGACGAACTTCCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCG
* * * *
29845764 ATTTC-TAAAAGTATTCAAGACAATCCATTCCTTCGAG-AAATCTTCTGAACATTCCATGCTCGG
129 ATTCCTTAAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGG
* * * ** *
29845827 GAAAACGCATCATTTGGTCGAAATAGTTTTCCATTTTGTAAACTAGATTAGGTCTTTGAATTAAA
193 GAAATCGCATCATTTGGTCTAAATAGTTTT-CATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * *
29845892 AACTTCTTTACACGAGAATTGTTTCCATCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACTT
257 AACTTATTTACATGAGAATTGTTTCC-TCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
* * * * * * *
29845957 CTACGAGTTCCTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATACTTTCCTTCGAGCAGTT
321 TTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
* * * * ** * * *
29846022 TTTCGAACATACCAAACTCGAGATTTCGCGTTATTTTGTCT
386 TTTCAAACATTCCATACTCGGGAAATCGCATCATTTGGTCT
29846063 AAATAGTATTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATT
1 AAATAGT-TTTCATTTTGTAAAC---TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATT
* * ** *
29846128 ATTTCTCTCTTGGTTATTGGACAAACTTTTGAACTTGTCAAACTTTT-TCAAGTTCTTTTATAAC
62 GTTTCTCTCTTGGTT-TTGGACGAACTTCCGAACTTGTCAAACTTTTAT-GAGTTCTTTTATAAC
* * * * * * * *
29846192 TTTGATTCCTTACAA-CATTCAATACGATACATTACTTCAAGCAATTTTTCAAACATTCCATGCT
125 TTCGATTCCTTAAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCT
* * * ** * *
29846256 CGGGAAATTGCATCATTTGGTCAAAATAGTTTGTCATTTTCTAAACATGTTTTGGTCTTTCAACT
190 CGGGAAATCGCATCATTTGGTCTAAATAGTTT-TCATTTTGTAAACAACTTTTGGTCTTTGAATT
* * * * * * * **
29846321 AAAAACTTATTTACAAGAGAATTGTTTTTCTCTTTGATCTTTGACAAACTTCCAAACTTTGAAAA
254 AAAAACTTATTTACATGAGAATTG-TTTCCTCTTGGTTCTTGGACGAACTTCCGAAC-TTGTCAA
* * *
29846386 ACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCAATC
317 ACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* * *
29846451 AATTTTTTAAACATTCCATGCTCGGGAAATCGCATCATCTGGTCT
382 AATTTTTCAAACATTCCATACTCGGGAAATCGCATCATTTGGTCT
* * *
29846496 AAATAGTTTATCATTTTGTATACAACTGTTGGTCTTTGAATTAAAAACTTATTTACATGAAAATT
1 AAATAGTTT-TCATTTTG--TA-AACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATT
* *
29846561 GTTTCTCTCTTGGTTTGTGGATGAACTTCCGAACTTGTCAAACTTTTATGAGTTCCTTTATAACT
62 GTTTCTCTCTTGGTTT-TGGACGAACTTCCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACT
* * * * * *
29846626 TCGGTTCGTT-ACAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCCGTACATTCCATGCTC
126 TCGATTCCTTAAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTC
29846690 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT--A-AACTTTTGGTCTTTGAATTA
191 GGGAAATCGCATCATTTGGTCTAAATAGTTT-TCATTTTGTAAACAACTTTTGGTCTTTGAATTA
* * * * * *
29846752 AAAACTCATTTACATTAGAGTT-TTTCTCTATTGGTTCTTGGACGAACTTCTGAGCTTGTCAAAC
255 AAAACTTATTTACATGAGAATTGTTTC-CTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAAC
* * *
29846816 TTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACAACCCATTCCTTCGAGCAA
319 TTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAA
* * *
29846881 TATTTCGAACATTCCATACTCGGGAAATCACATCATTTGGTCT
384 TTTTTCAAACATTCCATACTCGGGAAATCGCATCATTTGGTCT
* *
29846924 AAATAGTTTGCCATTTTGTAAACTAGTTTAGGTTTTTGAATTAAAAACTTATTTACGTGAGAATT
1 AAATAGTTT-TCATTTTGTAAACT--TTT-GGTCTTTGAATTAAAAACTTATTTACGTGAGAATT
* * * * * * *
29846989 GTTTCTATCTTAGTGTTTGGACGAACTTCCAAACTAGTCAAATTTTTACGAGTTTTTTTATAACT
62 GTTTCTCTCTTGGT-TTTGGACGAACTTCCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACT
* ** * * *
29847054 TCGGTTCCTT-AAAGTATTCAAGGTGATCCGTTGCTTCGAGCAATTTTTCGAACATTCCATGTTC
126 TCGATTCCTTAAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTC
* ** * **
29847118 CGGAAATTTCATCATTTGGTCTAAATAGTTTGACATTTTGTAAACAACTTTTGGTCTTACAATTA
191 GGGAAATCGCATCATTTGGTCTAAATAGTTT-TCATTTTGTAAACAACTTTTGGTCTTTGAATTA
* * * * ** * *
29847183 AAAACTTATTTACTTAAGAGTTATTT-CTCTCAGTTCTTGGACAAACTTCTGAACTTGTCAAACT
255 AAAACTTATTTACATGAGAATTGTTTCCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACT
29847247 TTTACGAGTTCTTTTATAACTTCG
320 TTTACGAGTTCTTTTATAACTTCG
29847271 ATTCTGATGC
Statistics
Matches: 1373, Mismatches: 230, Indels: 68
0.82 0.14 0.04
Matches are distributed among these distances:
425 4 0.00
426 3 0.00
427 20 0.01
428 629 0.46
429 27 0.02
430 91 0.07
431 45 0.03
432 247 0.18
433 301 0.22
434 1 0.00
435 2 0.00
436 3 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (426 bp):
AAATAGTTTTCATTTTGTAAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
CTCTCTTGGTTTTGGACGAACTTCCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGAT
TCCTTAAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAA
ATCGCATCATTTGGTCTAAATAGTTTTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACT
TATTTACATGAGAATTGTTTCCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACG
AGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCA
AACATTCCATACTCGGGAAATCGCATCATTTGGTCT
Found at i:29851304 original size:62 final size:62
Alignment explanation
Indices: 29851207--29851329 Score: 210
Period size: 62 Copynumber: 2.0 Consensus size: 62
29851197 TCTTTGAAAT
* *
29851207 AAAAACTTATTTATGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTC
1 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGTC
* *
29851269 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTTGACGAACATCTGAACTTGT
1 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGT
29851330 AGAACTTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (62 bp):
AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACATCTGAACTTGTC
Found at i:29852490 original size:216 final size:216
Alignment explanation
Indices: 29851269--29855015 Score: 4483
Period size: 216 Copynumber: 17.4 Consensus size: 216
29851259 TGAACTTGTC
* *
29851269 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTTGACGAAC-ATCTGAACTTGT-AG
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCA-
* *
29851332 AACTTTTATGACTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGA-
64 AACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAG
** * * * *
29851396 CTAATTTTTTAAACATTCCATGCTCGAGAAATCGTATCATTTGGGCTAAATAGTTTGTCATTTTA
129 C-AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
* *
29851461 TAAACAAGTTTTTGTTTTTGAATT
193 TAAACAAGTTTTGGTCTTTGAATT
* *
29851485 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACAAACTTCCGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
* * * **
29851550 ATTCTACGAGTTCTTTTATAACTTCCATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAAAA
66 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* * * * * *
29851615 ATATTCCAAAGATTTCCATGCTCGGGAAATCGCATCATTTGCTCTAAATTGTTTGTCATTTTGTA
131 ATTTTTCGAACA-TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
** *
29851680 AACAACATTTGATCTTTGAATT
195 AACAAGTTTTGGTCTTTGAATT
*
29851702 AAAAACTTATTTATGTGAGAATTG-TT-TCTCTTGGTGT-TTGGACGAACTTTCGAACTTGTCAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGT-TCTTGGACGAACTTTCGAACTTGTCAA
* * * * * **
29851764 ACTATTACGAGTTCTATTATAACTTTGGTTCCTCAAAGTATTCAAGTTGATCCATTCCTTCGAGC
65 ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* * * * *
29851829 AATTTTTCAAACATTCAATACTCGGGAAATTGCATCATTTGGTCTAAATAGTGTGTCATTTTGTA
130 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* **
29851894 AACAACTTTTGGTCTTACAATT
195 AACAAGTTTTGGTCTTTGAATT
*
29851916 AAAAACTTATTTATGTGAGAATTGTTTC-C-CTTGGTTCTTGGACGAAC-TTCTGAACTTGTCAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCAA
* * * * * *
29851978 ACTTTTACGAGTTCTTTTATAACTTTGGTTCTTTAAAGTATTCAAGACAATCTATTCCTTCTAGC
65 ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* * * *
29852043 AATTTTTCGAGCATTCCATGCTCAGAAAATCGCATCATTTGGTCTAAATAGTTGGTCATTTTGTA
130 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
*
29852108 AA-AATGTTTT-TTCTTTGAATT
195 AACAA-GTTTTGGTCTTTGAATT
* * *
29852129 AAAATCTTATTTACGTGAGAATTGTTTCTCAT-TTGGTTCTTGGACGAACTTTTGATCTTGTCAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTC-TCTTGGTTCTTGGACGAACTTTCGAACTTGTCAA
* ** * * *
29852193 ACTTTTACAAGTTCTTTTATAACTTCGGCTCCTTAAAG-ATTTCAAGATGATCCATTCCTTCAAA
65 ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTA-TTCAAGACGATCCATTCCTTCGAG
* * * * * ** * * *
29852257 CAAATTTTCAAACATTCCATACTCGGGAAATCACATAATTTTTTTTAAATAGTTCGTCTTTTTGT
129 CAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT
* *
29852322 AAACAAGTTTTTGACTTTGAATT
194 AAACAAGTTTTGGTCTTTGAATT
* * *
29852345 ACAAACTTATTTACGTGAGACTTGTTTCTCTCTTGGTTCTTGGATGAACTTTCGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
** * *
29852410 CTTTTTTGAGTT-TTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATACATTCCTTTGAGCA
66 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* * ** * *
29852474 ATTTTTCGACACATTCCATGCTCGGGAAATCACACCATTTTATCAAAATAATTTGTCATTTTGTA
131 ATTTTTCGA-ACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
**
29852539 AACATTTTTTTGGTCTTTGAATT
195 AACA-AGTTTTGGTCTTTGAATT
* * * *
29852562 AAAAACATATTTACATGAGAATTGTTTCTCTCTTAGATC-T-GACGAACTTTCGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
* * *
29852625 CTTTTTCGATTTCTTTTATAACTTTGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
66 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* * *
29852690 ATTTTTCGAACATTCCAAGCTCGGGGAATCGCATCATTTGGGCTAAATAGTTTGTCATTTTGTAA
131 ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
* *
29852755 ACAAGGTTTGGTTTTTGAATT
196 ACAAGTTTTGGTCTTTGAATT
* * *
29852776 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTATTGGACAAACTTTCAAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
* * * * *
29852841 CTTTTTCGAGTTCTTTTATAACTTCAATTTCTTAAAGTATTCAAGATGATACATTCCTTCGAGCA
66 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* * *
29852906 ATTTTCCGAACATTCCATGCTCGGGAAATCGCATCATTTGATCAAAATAGTTTGTCATTTTGTAA
131 ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
*
29852971 ACATGTTTTGGTCTTTGAATT
196 ACAAGTTTTGGTCTTTGAATT
* * * * * * *
29852992 AAAAACATATTTATGTGAGAATTGTTTCTCTCTAGGTTCTTTGAC-AACCTTCTTAACTCGTCAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCAA
* * * *
29853056 ACTTTAACGAGTTCTTTTATAACTTCGGTACCTTAAAGTGTTCAAGACGATTCC-TTCCTTCGAG
65 ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGA-TCCATTCCTTCGAG
* * *
29853120 CAA-TTTTCTGAACATTCCATGCTTGGGAAATCGCATCATTTGATCAAAATAGTTTGTCATTTTG
129 CAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
*
29853184 TAAACATGTTTTGGTCTTTGAATT
193 TAAACAAGTTTTGGTCTTTGAATT
* *
29853208 AAAAACTTGTTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATTT-GAACTTGTCAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC-TTTCGAACTTGTCAA
* *
29853272 ACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAATTATTCAAGACGATCCATTCCTTCGA--
65 ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* * * * * *
29853335 AATTTTTTTTGAAGATTTCCATTCTTGGG-AATCGCATCATTTGGTCTAAATTGATTGTCATTTT
130 AA--TTTTTCGAACA-TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTT
* * * *
29853399 GTAAATAGGATATGGTCTTTGAATT
192 GTAAACAAGTTTTGGTCTTTGAATT
* * * *
29853424 AAAAACTTATTTACATAAAAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTTGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
*
29853489 CTTTTACGAGTTCTTTTATAACTTCGATTACTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
66 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* * *** * *
29853554 ATTTTTTGAACATTCCATACTTTAGAAATTGCACCATTTGGTCTAAATAGTTTGTCATTTTGTAA
131 ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
* * *
29853619 AAAAGTTTTAGACTTTGAATT
196 ACAAGTTTTGGTCTTTGAATT
* *
29853640 AAAAACTTATTTACGTGAGAATTGTTTCTCAT-TTGGTTCTTGGATGAACTTTTGAACTTGTCAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTC-TCTTGGTTCTTGGACGAACTTTCGAACTTGTCAA
* * * * *
29853704 ACTTTTACAAGTTCTATTATAACTTTGTTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGC
65 ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* * * * **
29853769 AATATTTCGAGCATTCCATGCTTGGGAAATTGCATCATTTGGTCTAAATAGTTTAACATTTTGTA
130 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* * ** *
29853834 AAGAATTTTTGGTCTTACAGTT
195 AACAAGTTTTGGTCTTTGAATT
29853856 AAAAACTTATTTACGTGAGAATTGTTTC-C-CTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
* * **
29853919 CTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTATAG-A
66 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* ** * * *
29853983 AATTTTCAGAACATTCCATGCTCGAAAAATTGCATCATTTGTTCTAAATAGTTTATCATTTTGTA
131 ATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* * *
29854048 TACAACTTTTGGTATTTGAATT
195 AACAAGTTTTGGTCTTTGAATT
* * * *
29854070 AAAAACTTATTTACGTGAGAATTGTTTCTCTTTTGGTTTTTGGATGAACTTCCGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
* ** *
29854135 CTTTTTCGAGTTCTTTTATAACTTCGATTTGTTACAGTATTCAAGACGATCCATTCCTTCGAGCA
66 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
*
29854200 ATTTTTCGTACATTCCATGCTCGGGAAATCGCATCATTTGGTCTGAAA-AGTTTGTCATTTTGTA
131 ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCT-AAATAGTTTGTCATTTTGTA
29854264 AAC---TTTTGGTCTTTGAATT
195 AACAAGTTTTGGTCTTTGAATT
* * * * *
29854283 AAAAACTCATTTACATGAGAGTTGTTTCTCTGTTGATTCTTGGACGAAC-TTCTGAACTTGTCAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCAA
* * * * * *
29854347 ACTTTTATGAGTTCCTTTATAACTTCGGTTCCTTAAAGTATTCAAGACAACCCATTCCTTCGAGT
65 ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* *
29854412 AA-TTTTCTGAACATTCCATGCTCGGG-AATCACATCATTTGGTCTAAATAGTTTGCCATTTTGT
130 AATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT
* * * *
29854475 AAACTACTTTAGGTTTTTGAATT
194 AAACAAGTTTTGGTCTTTGAATT
* * ** * *
29854498 AAAGACTTATTTACGTGAGAATTGTTTCTATCTTAATTCTTGGACGAACTTCCAAAC-T-T---A
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
* * * * * * * *
29854558 CTTCTACGAGTTCCTTTATAAATTCGATTCCTTAAAGTATTCAAGATGATCCTTTACTTTGAG-T
66 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* * * * ** * *
29854622 AGTTTTCTGAACATTCCAAGATCGAGATTTCGCATCATTTTGTCTAAATAGTATT-TCATTTTAT
131 ATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGT-TTGTCATTTTGT
29854686 -AACAAGTTTTGGTCTTTGAATT
194 AAACAAGTTTTGGTCTTTGAATT
* * * * * * * *
29854708 AAAAACTTATTTACGTAAGAAATGTTTCTATCTTGGTGT-TCGGATGAACTTCCAAACTAGTCAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGT-TCTTGGACGAACTTTCGAACTTGTCAA
* * * * * * *
29854772 AC-TTTACGAGTTCTTTTAGAACTTTGGTTCCTTAAAGTATTCAAGCCGATCCATTGCTTCAATC
65 ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* * ** *
29854836 AATTTTTCAAACATTCCATGTTCGGGAAATTTCATCATTTGGTCTAAATAGTTTGACATTTTGTA
130 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* **
29854901 AACAACTTTTGGTCTTACAATT
195 AACAAGTTTTGGTCTTTGAATT
* ** * * ** *
29854923 AAAAGCTTATTTATTTGAGAGTTATTTCTCTC--AATTCTTGGACAAAC-TTCTGAACTTGTCAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCAA
*
29854985 ACTTTTACGAGTTCTTTTATAACTTTGATTC
65 ACTTTTACGAGTTCTTTTATAACTTCGATTC
29855016 TGATGCGAGC
Statistics
Matches: 3039, Mismatches: 425, Indels: 136
0.84 0.12 0.04
Matches are distributed among these distances:
209 1 0.00
210 141 0.05
211 32 0.01
212 48 0.02
213 210 0.07
214 584 0.19
215 510 0.17
216 1342 0.44
217 167 0.05
218 4 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (216 bp):
AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
ACAAGTTTTGGTCTTTGAATT
Found at i:29855132 original size:30 final size:32
Alignment explanation
Indices: 29855079--29855163 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 32
29855069 GCCTGGAAGA
* * * *
29855079 TGCGAGCACTCATATTACGAACACTA-G-AAC
1 TGCGAACACTCATGTTGCAAACACTATGCAAC
29855109 TGCGAACACTCATGTTGCAAACAC-ATGCAAC
1 TGCGAACACTCATGTTGCAAACACTATGCAAC
* * *
29855140 -GCGAACATTGATGTTGTAAACACT
1 TGCGAACACTCATGTTGCAAACACT
29855164 CGCGTTGCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
29 1 0.02
30 41 0.91
31 3 0.07
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (32 bp):
TGCGAACACTCATGTTGCAAACACTATGCAAC
Found at i:29862660 original size:18 final size:18
Alignment explanation
Indices: 29862639--29862673 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
29862629 TCAAAAAGTC
29862639 GAGAAAAAAAAAAAATAT
1 GAGAAAAAAAAAAAATAT
29862657 GAGAAAAAAAAAAAATA
1 GAGAAAAAAAAAAAATA
29862674 AAAAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (18 bp):
GAGAAAAAAAAAAAATAT
Found at i:29869521 original size:215 final size:214
Alignment explanation
Indices: 29869150--29870676 Score: 1771
Period size: 215 Copynumber: 7.2 Consensus size: 214
29869140 TGCTCGCATC
* * * * *
29869150 AGAACCAAGAAAGAAACAAATCTCACGTTAATAAGTTTTTAATGCAAAGACCAAAACTTGTTTAT
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
* * * *
29869215 AAAATGACAAACTATTTTGACCAAATGATGCGATTTCTCAAGCATGGAATGTTCAAAAATTCCTC
66 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAATTGCTC
*
29869280 GAAAGG-ATGGATCATCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTG
131 G-AAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTG
29869344 ACAAGTTTGGAAGTTCGCCGA
195 ACAAGTTTGGAAGTTCGCC-A
29869365 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTTTAATTCAAAGACCAAAACTTGTTTAC
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
* * * *
29869429 AAAATAACAAACTATTTAGACCAAATTAGGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCT
66 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-AAAAATTGCT
* * * *
29869494 TGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATACAAGTTTG
130 CGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTG
* *
29869559 ACAAGTTTGGAAGTTGGTCTA
195 ACAAGTTTGGAAGTTCG-CCA
* * * *
29869580 AGAAACAAGAGAGAAACAACTCTCACATAAATAAGTTTTTAATTCAAAGA-CAAAACTTATTTAC
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
** * *
29869644 AAAATGACAAACTATTTAGATGAAATGATGCGATTTTCAGAGCATGGAATGTTCAAAAAATTGCT
66 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-AAAAATTGCT
* ** * * * *
29869709 CGAATGAACAGATCATCTGGAATTCTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTC
130 CGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTG
* * *
29869774 ACATGTTTGGATGTTAGTCCA
195 ACAAGTTTGGAAGTTCG-CCA
*
29869795 AGAACCAAGAGAGAAACAATTCTCACGGAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
* * * *
29869860 AAAATGACAAACTATTTAGACTAAATTATGCGATTTCCTGAGCATGGAATGTTAGAAAAATTGCT
66 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTT-CAAAAATTGCT
* *
29869925 CGAAGGAATGGATCGTCTTGAATACTTTCAGGAA-TCGAAGTTATAAAAGAAATCGTAAAAGTTT
130 CGAAGGAATGGATCGTCTTGAATACTTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAGTTT
* * * *
29869989 GACAAGTTCGGATGTTTGTCA
194 GACAAGTTTGGAAGTTCGCCA
* * *
29870010 AGAACCAAAGAGAGAAACAATTCTTACGTAAATAAG-GTTTAATACAAAGACCAAAACTTGTTTA
1 AGAACC-AAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * **
29870074 CAAAATGACATACTATTTAGACCAAATGATGCGATTTCCCGAGAAAGGAATGTTTGGAAAATTGC
65 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG-TTCAAAAATTGC
* * *
29870139 TC----G-A---A------TGAATACTTTAAGGAA-TCGAAGATATAAAAGAACTTGTAGAAGTT
129 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAGTT
* ** * *
29870189 TAACAAGTTCAGAAGTTCATCCG
193 TGACAAGTTTGGAAGTTC-GCCA
* * * *
29870212 AGAGCCAAGAGAGAAACAATTCTCAGGTAAATAAGTTTTTAATTCAAAGACCAAAGCTTGTTTAA
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
* * * * * *
29870277 AAAATGACAAATTATTTAGACGAAATGATGCAATTTCTCGAGCATGGAATGATC-AGAATTGCTC
66 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAATTGCTC
* * ** * *
29870341 GAATGAATGGATTGT-TTGGAATACTTTAACAAACCGAAGTTATAAAAAGAA-T--TAATAAATT
131 GAAGGAATGGATCGTCTT-GAATACTTTAAGGAACTGAAGTTAT-AAAAGAACTCGTAA-AAGTT
* * * * *
29870402 TCACATGTTCGAAAGTTAGTCCA
193 TGACAAGTTTGGAAGTTCG-CCA
* * *
29870425 AGAACCAAGAGAGAAACGATTCTCACGTAAATAAGTTGTTAATTCAAAGACC--AACATGTTTAC
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
* * *
29870488 AAAATGACAAACTATTTAGACCAAATTATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTCCT
66 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-AAAAATTGCT
* ** * *
29870553 CGAAGGAATGGATCGTCTTGAATACTTTTAGGAACCAAAGTTATAAAA-AAATTGTAAAAG-TTG
130 CGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTG
* *
29870616 ACAAGTTTGGATGTTCATCCA
195 ACAAGTTTGGAAGTTC-GCCA
* * *
29870637 AGAACTAAGAGAGAAACAATTCTTATGTAAATAAGTTTTT
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
29870677 GACAAGTTCG
Statistics
Matches: 1119, Mismatches: 157, Indels: 75
0.83 0.12 0.06
Matches are distributed among these distances:
200 9 0.01
201 82 0.07
202 75 0.07
204 1 0.00
205 1 0.00
207 1 0.00
208 1 0.00
210 1 0.00
211 60 0.05
212 58 0.05
213 112 0.10
214 104 0.09
215 431 0.39
216 183 0.16
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (214 bp):
AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
AAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAATTGCTC
GAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGA
CAAGTTTGGAAGTTCGCCA
Found at i:29869989 original size:431 final size:431
Alignment explanation
Indices: 29869150--29872623 Score: 1872
Period size: 431 Copynumber: 8.1 Consensus size: 431
29869140 TGCTCGCATC
* * * * *
29869150 AGAACCAAGAAAGAAACAAATCTCACGTTAATAAGTTTTTAATGCAAAGACCAAAACTTGTTTAT
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
*
29869215 AAAATGACAAACTATTTTGACCAAATGATGCGATTTCTCA-AGCATGGAATGTTC-AAAAATTCC
66 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCAGAGCATGGAATGTTCGAAAAATTCC
* *
29869278 TCGAAAGGATGGATCATCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
131 TCGAATGAATGGATCATCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
* *
29869343 GACAAGTTTGGAAGTTC-GCCGAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTTTAA
196 GACAAGTTTGGAAGTTCATCC-AAGAACCAAGAGAGAAACAATTCTCACGGAAATAAGTTTTTAA
* * * *
29869406 TTCAAAGACCAAAACTTGTTTACAAAATAACAAACTATTTAGACCAAATTAGGTGATTTCCCGAG
260 TTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCCTGAG
*
29869471 CATGGAATGTTCA-AAAAATTGCTTGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGT
325 CATGGAATGTT-AGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGT
* * * *
29869535 TATAAAAGAACTCATACAAGTTTGACAAGTTTGGAAGTTGGTCTA
389 TATAAAAGAAATC-TAAAAGTTTGACAAGTTCGGAAGTTAGTC-A
* * * *
29869580 AGAAACAAGAGAGAAACAACTCTCACATAAATAAGTTTTTAATTCAAAGA-CAAAACTTATTTAC
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
** * *
29869644 AAAATGACAAACTATTTAGATGAAATGATGCGATTT-TCAGAGCATGGAATGTTCAAAAAATTGC
66 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCAGAGCATGGAATGTTCGAAAAATTCC
** * *
29869708 TCGAATGAACAGATCATCTGGAATTCTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
131 TCGAATGAATGGATCATCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
* * *
29869773 CACATGTTTGGATGTT-AGTCCAAGAACCAAGAGAGAAACAATTCTCACGGAAATAAGTTTTTAA
196 GACAAGTTTGGAAGTTCA-TCCAAGAACCAAGAGAGAAACAATTCTCACGGAAATAAGTTTTTAA
*
29869837 TTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACTAAATTATGCGATTTCCTGAG
260 TTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCCTGAG
* *
29869902 CATGGAATGTTAGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTCAGGAATCGAAGTT
325 CATGGAATGTTAGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTT
* *
29869967 ATAAAAGAAATCGTAAAAGTTTGACAAGTTCGGATGTTTGTCA
390 ATAAAAGAAATC-TAAAAGTTTGACAAGTTCGGAAGTTAGTCA
* * *
29870010 AGAACCAAAGAGAGAAACAATTCTTACGTAAATAAG-GTTTAATACAAAGACCAAAACTTGTTTA
1 AGAACC-AAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * * *
29870074 CAAAATGACATACTATTTAGACCAAATGATGCGATTTC-CCGAGAAAGGAATGTTTGGAAAATTG
65 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCAGAGCATGGAATGTTCGAAAAATTC
* * *
29870138 CTC---------GA--A---TGAATACTTTAAGGAA-TCGAAGATATAAAAGAACTTGTAGAAGT
130 CTCGAATGAATGGATCATCTTGAATACTTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAGT
* ** * *
29870188 TTAACAAGTTCAGAAGTTCATCCGAGAGCCAAGAGAGAAACAATTCTCA-GGTAAATAAGTTTTT
194 TTGACAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGG-AAATAAGTTTTT
* * * * * *
29870252 AATTCAAAGACCAAAGCTTGTTTAAAAAATGACAAATTATTTAGACGAAATGATGCAATTT-CTC
258 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCCT-
* * * **
29870316 GAGCATGGAATGATCAG---AATTGCTCGAATGAATGGATTGT-TTGGAATACTTTAACAAACCG
322 GAGCATGGAATG-TTAGAAAAATTGCTCGAAGGAATGGATCGTCTT-GAATACTTTAAGGAACCG
* * * *
29870377 AAGTTATAAAA-AGAAT-TAATAAATTTCACATGTTCGAAAGTTAGTCCA
385 AAGTTATAAAAGA-AATCTAA-AAGTTTGACAAGTTCGGAAGTTAGT-CA
* * *
29870425 AGAACCAAGAGAGAAACGATTCTCACGTAAATAAGTTGTTAATTCAAAGACC--AACATGTTTAC
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
*
29870488 AAAATGACAAACTATTTAGACCAAATTATGCGATTTCTC-GAGCATGGAATGTTCGAAAAATTCC
66 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCAGAGCATGGAATGTTCGAAAAATTCC
* * * ** * *
29870552 TCGAAGGAATGGATCGTCTTGAATACTTTTAGGAACCAAAGTTATAAAA-AAATTGTAAAAG-TT
131 TCGAATGAATGGATCATCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
* * * * * *
29870615 GACAAGTTTGGATGTTCATCCAAGAACTAAGAGAGAAACAATTCTTATGTAAATAAGTTTTTGA-
196 GACAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGGAAATAAGTTTTTAAT
** ** * ** * * * ** *
29870679 -C-AAGTTCGGAAGTTCGTCCA-AGAACCAAGAGAGAAATAATTCTCATGTAAATAAATTTTTGA
261 TCAAAGACCAAAACTT-GTTTACA-AA--ATGACA-AACT-ATT-T-A-G--ACCAAA-TTATG-
* * * * * ** * * * *
29870741 CAAGTT-CGGAACCA-AGAACTAAGAGAGAAACAATT-CTC-ACGTAACT--A-AGT-TT--TTA
313 CGATTTCCTG-AGCATGGAA-T--GTTAGAAA-AATTGCTCGAAGGAA-TGGATCGTCTTGAATA
* * * * ** * * *
29870796 ATTTAAAG-TCCAAAACTTGTT-TACAAAGTGA-C-AAACTATTTTGACCAAATGACGTG-A-TT
372 CTTTAAGGAACC-GAA---GTTATA-AAAGAAATCTAAA--AGTTTGA-CAAGT-TCG-GAAGTT
*
29870855 --TCT
427 AGTCA
* * *** * * * * ** *
29870858 CGAGCCTGGAATGTTTGGAA-AATTGCTCAAAG-AAATGGATCA-TCTTGAATACTTTAAG---G
1 AGAACC---AA-GAGAGAAACAATT-CTC-ACGTAAAT--A--AGTTTTTAAT--TCAAAGACCA
* * * * * *
29870917 AAGCTAAGTTATAAAAGAACTCGTA-AAA--GTTT-GA-C-AA-G-TTCGGAAGTTCGTCCA-AG
54 AAACT-TGTT-TACAA-AA-T-G-ACAAACTATTTAGACCAAATGATGC-G-ATTTC-T-CAGAG
** *** * * * **
29870973 -ATCCAA-GAGAGAACCAATTCTCACGTAAAT-AA--G-T--T-TTTAAT--TCAAAGAGCAAAA
109 CATGGAATGTTCGAA-AAATTC-CTCG--AATGAATGGATCATCTTGAATACTTTAAG-G---AA
* ** * *
29871027 CT--TGTT-TACAAA-AAGAC--AAACTA-TTTAGACCAAATTAT-G-AGATT--TCCTAACATA
166 CTGAAGTTATA-AAAGAACTCGTAAA--AGTTT-GA-CAAGTT-TGGAAG-TTCATCC-AAGA-A
* *** * * * * * *
29871081 -GAATGTTTGAAA-AATTGCTTGAAGG-AAT-GGATTGTCTTGAATACTTTAAGGAACC-GAA--
222 CCAA-GAGAGAAACAATT-C-TCACGGAAATAAG-TT-T-TT--A-A-TTCAAAG-ACCAAAACT
* * * * * * * *
29871139 -GTTATAAAAGAACTCGTA-AAA--GTTT-GA-CAAGTGCA-GATGTTTGTCCTTGAACCA-AG-
276 TGTT-TACAA-AA-T-G-ACAAACTATTTAGACCAAAT-TATG-CGATT-TCC-TG-AGCATGGA
** * * ** *
29871195 A-G--AGAAACAATT-CTCATGTAAATAAGTTTTTGA-CAAGT-TTGGAAGTTCGTCCAA-GAAA
331 ATGTTAGAAA-AATTGCTC--G-AAGGAA----TGGATC--GTCTT-GAA-TAC-TTTAAGGAAC
* * * *
29871253 C-AAG--AGAGAAACAATTCTCAAGTAAATAAGTTTTTGTCAAGTTCGGAAGTTCA-TCCA
383 CGAAGTTATA-AAAGAA--ATC---T-AA-AAG--TTTGACAAGTTCGGAAGTT-AGT-CA
* * * *
29871310 AGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGTCCAAATCTTGTTTAC
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
* * ** * ** *
29871375 ATAATGACAAACTATTTAGACCAAATGATGTGATTT-TTTGAGCATGGAATGTTTGGGAAATTGC
66 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCAGAGCATGGAATGTTCGAAAAATTCC
* * ** * *
29871439 TCGAAGGAATGGATTATCTTGAATACTTTAAGGAACCAAAGTTATAAAAAAACTCTTAAAAGTTT
131 TCGAATGAATGGATCATCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
* * * * *
29871504 GACAAGTTCGAAAGCTCATCCAA-AACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAAT
196 GACAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGGAAATAAGTTTTTAAT
* * * * *
29871568 TCAAAGACAAAAACTTGTTTACAAAATGACACACTATTTAGACCCAATGATGCGATTTCCCGAGC
261 TCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCCTGAGC
* * * * * *
29871633 ATGGAACGTTTGGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTATGGAATCAAAGTTA
326 ATGGAATGTTAGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTA
* * * * * ** *
29871698 TAAAAGAACTTGTAGAAGTTTGTCGAGTTCAAAAAGTTTGTCCA
391 TAAAAGAA-ATCTAAAAGTTTGACAAGTTC-GGAAGTTAGT-CA
* * * * * * *
29871742 AGAGCCAAGAGGGAACCAATTTTCACATAAATAAGTTTTTAATTCAAAGACTAAAGCTTGTTTAC
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
* ** * ** * * * *
29871807 AAAATGACAAATTATTTAGATGAAATAATTTGATTTC-CCGGGCATGGAATGTTTGAAAAATTGC
66 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCAGAGCATGGAATGTTCGAAAAATTCC
* * ** * * *
29871871 TCGAATGAACGAATTGTCTGGAATAATTTAAGGAA-TCGAAGTTATAAAGGAACTCGTAAAAGTT
131 TCGAATGAATGGATCATCTTGAATACTTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAGTT
* * * ** ** * *
29871935 TCACATGTTCGGAAGTTTGTTTAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAA
195 TGACAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGGAAATAAGTTTTTAA
*
29872000 TTCAAAGATCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATTATGC---TT--T---
260 TTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCCTGAG
* * *
29872057 C----------A-AAAAATTCCTCGAAGGAATGGATAGTCTTGAATACTTTCAGGAACCGAAGTT
325 CATGGAATGTTAGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTT
* * * *
29872111 ATAAAAGAAATAGTAAAAGTTTGACAAGTTCAGATGTTTGTCCA
390 ATAAAAGAAAT-CTAAAAGTTTGACAAGTTCGGAAGTTAGT-CA
* * * *
29872155 AGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTTTTAATTTAAGGTCCAAAACTTGTTTAC
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
* * * * * * *
29872220 AAAATGACAAACTATTTTGACCAAATAATGTGATTTCTC-GAGCCTGGAATGTTTGGAAAATTAC
66 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCAGAGCATGGAATGTTCGAAAAATTCC
* * * * * *
29872284 TTGAACGAATGGATCATCTTGAATACTTTAAGGAACCT-AAGTTATAGAATACCTCATAAAAGTT
131 TCGAATGAATGGATCATCTTGAATACTTTAAGGAA-CTGAAGTTATAAAAGAACTCGTAAAAGTT
* ** * * * * *
29872348 TGACAAGTTGGGAAGTTTGTCCAAGAACCAAGAGAGAACCAACTCTCAAGTAAAAAAGTTTTTAA
195 TGACAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGGAAATAAGTTTTTAA
* *
29872413 TTGAAAGACCAAAACTTGTTTACGAAAA-GACAAACTATTTAGACCAAATTATGCAATTTTCC-G
260 TTCAAAGACCAAAACTTGTTTAC-AAAATGACAAACTATTTAGACCAAATTATGCGA-TTTCCTG
** * *
29872476 AGCATGGAATGTTCA-AAAAATTGCTC-AAAAAATGGATTGTCTTGAATACTTTAAGGAATCGAA
323 AGCATGGAATGTT-AGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAA
* * *
29872539 GTTATAAAAGAACTCGTAAAAGTTAGACAAGTTCGGAAGTTTGTCCA
387 GTTATAAAAGAAATC-TAAAAGTTTGACAAGTTCGGAAGTTAGT-CA
* *
29872586 TGAACCAAGAGCGAAACAATTCTCACGTAAATAAGTTT
1 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
29872624 CTGACAAGTT
Statistics
Matches: 2328, Mismatches: 451, Indels: 529
0.70 0.14 0.16
Matches are distributed among these distances:
413 339 0.15
414 125 0.05
415 71 0.03
416 5 0.00
417 158 0.07
418 4 0.00
420 1 0.00
421 1 0.00
422 12 0.01
423 6 0.00
425 59 0.03
426 14 0.01
427 28 0.01
428 4 0.00
429 60 0.03
430 181 0.08
431 393 0.17
432 208 0.09
433 104 0.04
434 16 0.01
435 27 0.01
436 23 0.01
437 29 0.01
438 43 0.02
439 32 0.01
440 35 0.02
441 35 0.02
442 40 0.02
443 40 0.02
444 33 0.01
445 39 0.02
446 31 0.01
447 21 0.01
448 30 0.01
449 44 0.02
450 19 0.01
451 11 0.00
452 7 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (431 bp):
AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC
AAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCAGAGCATGGAATGTTCGAAAAATTCC
TCGAATGAATGGATCATCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
GACAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGGAAATAAGTTTTTAAT
TCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCCTGAGC
ATGGAATGTTAGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTA
TAAAAGAAATCTAAAAGTTTGACAAGTTCGGAAGTTAGTCA
Found at i:29870564 original size:213 final size:212
Alignment explanation
Indices: 29870191--29870673 Score: 591
Period size: 213 Copynumber: 2.3 Consensus size: 212
29870181 TAGAAGTTTA
* * * *
29870191 ACAAGTTC-AGAAGTTCATCCGAGAGCCAAGAGAGAAACAATTCTCAGGTAAATAAGTTTTTAAT
1 ACAAGTTCGA-AAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTGTTAAT
* * *
29870255 TCAAAGACCAAAGCTTGTTTAAAAAATGACAAATTATTTAGACGAAATGATGCAATTTCTCGAGC
65 TCAAAGACCAAAGCATGTTTAAAAAATGACAAACTATTTAGACCAAATGATGCAATTTCTCGAGC
* * * * *
29870320 ATGGAATGATCAGAATTGCTCGAATGAATGGATTGT-TTGGAATACTTTAACAAACCGAAGTTAT
130 ATGGAATGATCAAAATTCCTCGAAGGAATGGATCGTCTT-GAATACTTTAACAAACCAAAGTTAT
*
29870384 AAAAAGAATTA-ATAAATTTC
194 AAAAA-AATTATA-AAAGTTC
* *
29870404 ACATGTTCGAAAGTT-AGTCCAAGAACCAAGAGAGAAACGATTCTCACGTAAATAAGTTGTTAAT
1 ACAAGTTCGAAAGTTCA-TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTGTTAAT
* * *
29870468 TCAAAGACC-AA-CATGTTTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCTCGAGC
65 TCAAAGACCAAAGCATGTTTAAAAAATGACAAACTATTTAGACCAAATGATGCAATTTCTCGAGC
* * **
29870531 ATGGAATGTTCGAAAAATTCCTCGAAGGAATGGATCGTCTTGAATACTTTTAGGAACCAAAGTTA
130 ATGGAATGATC--AAAATTCCTCGAAGGAATGGATCGTCTTGAATACTTTAACAAACCAAAGTTA
* *
29870596 TAAAAAAATTGTAAAAGTTG
193 TAAAAAAATTATAAAAGTTC
* * * * * *
29870616 ACAAGTTTGGATGTTCATCCAAGAACTAAGAGAGAAACAATTCTTATGTAAATAAGTT
1 ACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
29870674 TTTGACAAGT
Statistics
Matches: 231, Mismatches: 32, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
211 56 0.24
212 60 0.26
213 112 0.48
214 3 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (212 bp):
ACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTGTTAATT
CAAAGACCAAAGCATGTTTAAAAAATGACAAACTATTTAGACCAAATGATGCAATTTCTCGAGCA
TGGAATGATCAAAATTCCTCGAAGGAATGGATCGTCTTGAATACTTTAACAAACCAAAGTTATAA
AAAAATTATAAAAGTTC
Found at i:29870679 original size:62 final size:61
Alignment explanation
Indices: 29870613--29870794 Score: 239
Period size: 62 Copynumber: 3.0 Consensus size: 61
29870603 ATTGTAAAAG
* *
29870613 TTGACAAGTTTGGATGTTCATCCAAGAACTAAGAGAGAAACAATTCTTATGTAAATAAGTTT
1 TTGACAAGTTCGGA-GTTCATCCAAGAACTAAGAGAGAAACAATTCTCATGTAAATAAGTTT
* * * *
29870675 TTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCATGTAAATAAATTT
1 TTGACAAGTTCGG-AGTTCATCCAAGAACTAAGAGAGAAACAATTCTCATGTAAATAAGTTT
* *
29870737 TTGACAAGTTCGGA----A-CCAAGAACTAAGAGAGAAACAATTCTCACGTAACTAAGTTT
1 TTGACAAGTTCGGAGTTCATCCAAGAACTAAGAGAGAAACAATTCTCATGTAAATAAGTTT
29870793 TT
1 TT
29870795 AATTTAAAGT
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
56 38 0.36
61 1 0.01
62 67 0.63
63 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (61 bp):
TTGACAAGTTCGGAGTTCATCCAAGAACTAAGAGAGAAACAATTCTCATGTAAATAAGTTT
Found at i:29871165 original size:215 final size:216
Alignment explanation
Indices: 29870752--29871225 Score: 653
Period size: 215 Copynumber: 2.2 Consensus size: 216
29870742 AAGTTCGGAA
* * * *
29870752 CCAAGAACTAAGAGAGAAACAATTCTCACGTAACTAAGTTTTTAATTTAAAGTCCAAAACTTGTT
1 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTT
** * * * * * *
29870817 TACAAAGTGACAAACTATTTTGACCAAATGACGTGATTTCTCGAGCCTGGAATGTTTGGAAAATT
66 TACAAAAAGACAAACTATTTAGACCAAATGACGAGATTTCTCGAACATAGAATGTTTGAAAAATT
* *
29870882 GCTCAAAGAAATGGATCATCTTGAATACTTTAAGGAAGCTAAGTTATAAAAGAACTCGTAAAAGT
131 GCTCAAAGAAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGT
* *
29870947 TTGACAAGTTCGGAAGTTCGT
196 TTGACAAGTGCAGAAGTTCGT
* * *
29870968 CCAAGATCCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAAAGAGCAAAACTTGTT
1 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTT
* * *
29871033 TACAAAAAGACAAACTATTTAGACCAAATTATGAGATTTC-CTAACATAGAATGTTTGAAAAATT
66 TACAAAAAGACAAACTATTTAGACCAAATGACGAGATTTCTCGAACATAGAATGTTTGAAAAATT
** * **
29871097 GCTTGAAGGAATGGATTGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGT
131 GCTCAAAGAAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGT
* *
29871162 TTGACAAGTGCAGATGTTTGT
196 TTGACAAGTGCAGAAGTTCGT
** *
29871183 CCTTGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTT
1 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
29871226 GACAAGTTTG
Statistics
Matches: 224, Mismatches: 34, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
215 132 0.59
216 92 0.41
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.29
Consensus pattern (216 bp):
CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTT
TACAAAAAGACAAACTATTTAGACCAAATGACGAGATTTCTCGAACATAGAATGTTTGAAAAATT
GCTCAAAGAAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGT
TTGACAAGTGCAGAAGTTCGT
Found at i:29871257 original size:62 final size:61
Alignment explanation
Indices: 29871191--29871349 Score: 255
Period size: 62 Copynumber: 2.6 Consensus size: 61
29871181 GTCCTTGAAC
* * *
29871191 CAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTGACAAGTTTGGAAGTTCGTCCAAGAAA
1 CAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTGACAAGTTCGGAAGTTCATCCAAG-AA
*
29871253 CAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTGTCAAGTTCGGAAGTTCATCCAAGAA
1 CAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTGACAAGTTCGGAAGTTCATCCAAGAA
*
29871314 CAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 C-AAGAGAGAAACAATTCTCAAGTAAATAAGTTTTT
29871350 AATTTAAAGT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
61 3 0.03
62 88 0.97
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.27
Consensus pattern (61 bp):
CAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTGACAAGTTCGGAAGTTCATCCAAGAA
Found at i:29871427 original size:555 final size:551
Alignment explanation
Indices: 29870191--29871719 Score: 2053
Period size: 555 Copynumber: 2.8 Consensus size: 551
29870181 TAGAAGTTTA
* * * * *
29870191 ACAAGTTCAGAAGTTCATCCGAGAGCCAAGAGAGAAACAATTCTCAGGTAAATAAGTTTTTAATT
1 ACAAGTTCGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
* * * * * * **
29870256 CAAAGACCAAAGCTTGTTTAAAAAATGACAAATTATTTAGACGAAATGATGCAATTTCTCGAGCA
66 TAAAGTCCAAAACTTGTTT-ACAAATGACAAACTATTTAGACCAAATGATGTGATTTCTCGAGCA
* * * * * ** *
29870321 TGGAATG-AT-CAGAATTGCTCGAATGAATGGATTGT-TTGGAATACTTTAACAAACCGAAGTTA
130 TGGAATGTTTGGAAAATTGCTC-AAAGAATGGATTATCTT-GAATACTTTAAGGAACCAAAGTTA
* * * * *
29870383 TAAAAAGAA-T-TAATAAATTTCACATGTTCGAAAGTTAGTCCAAGAACCAAGAGAGAAACGATT
193 T-AAAAGAACTCTAA-AAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATT
* * *
29870446 CTCACGTAAATAAGTTGTTAATTCAAAGAC-CAACATGTTTACAAAATGACAAACTATTTAGACC
256 CTCACGTAAATAAGTTTTTAATTCAAAGACAAAACTTGTTTACAAAATGACAAACTATTTAGACC
* *
29870510 AAATTATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTCCTCGAAGGAATGGATCGTCTTGAA
321 AAATTATGCGATTTC-CGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAA
* * ***
29870575 TACTTTTAGGAACCAAAGTTATAAAA-AAATTGTAAAAG-TTGACAAGTTTGGATGTTCATCCAA
385 TACTTTAAGGAACCAAAGTTATAAAAGAACTTGTAAAAGTTTGACAAGTGCAGATGTTCATCCAA
* *
29870638 GAACTAAGAGAGAAACAATTCTTATGTAAATAAGTTTTTGACAAGTTCGGAAGTTCGTCCAAGAA
450 GAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTGACAAGTTCGGAAGTTCGTCCAAGAA
* * *
29870703 CCAAGAGAGAAATAATTCTCATGTAAATAAATTTTTG
515 ACAAGAGAGAAACAATTCTCAAGTAAATAAATTTTTG
* *
29870740 ACAAGTTCGG-A----A-CCAAGAACTAAGAGAGAAACAATTCTCACGTAACTAAGTTTTTAATT
1 ACAAGTTCGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
* * *
29870799 TAAAGTCCAAAACTTGTTTACAAAGTGACAAACTATTTTGACCAAATGACGTGATTTCTCGAGCC
66 TAAAGTCCAAAACTTGTTTACAAA-TGACAAACTATTTAGACCAAATGATGTGATTTCTCGAGCA
* * *
29870864 TGGAATGTTTGGAAAATTGCTCAAAGAAATGGATCATCTTGAATACTTTAAGGAAGCTAAGTTAT
130 TGGAATGTTTGGAAAATTGCTCAAAG-AATGGATTATCTTGAATACTTTAAGGAACCAAAGTTAT
* * *
29870929 AAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGATCCAAGAGAGAACCAATTCT
194 AAAAGAACTC-TAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCT
*
29870994 CACGTAAATAAGTTTTTAATTCAAAGAGCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCA
258 CACGTAAATAAGTTTTTAATTCAAAGA-CAAAACTTGTTTACAAAATGACAAACTATTTAGACCA
* * * * * *
29871059 AATTATGAGATTTCCTAACATAGAATGTTTGAAAAATTGCTTGAAGGAATGGATTGTCTTGAATA
322 AATTATGCGATTTCCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATA
* * ** **
29871124 CTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTGCAGATGTTTGTCCTTGA
387 CTTTAAGGAACCAAAGTTATAAAAGAACTTGTAAAAGTTTGACAAGTGCAGATGTTCATCCAAGA
*
29871189 ACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTGACAAGTTTGGAAGTTCGTCCAAGAAAC
452 ACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTGACAAGTTCGGAAGTTCGTCCAAGAAAC
*
29871254 AAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTG
517 AAGAGAGAAACAATTCTCAAGTAAATAAATTTTTG
*
29871289 TCAAGTTCGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
1 ACAAGTTCGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
* * *
29871354 TAAAGTCCAAATCTTGTTTACATAATGACAAACTATTTAGACCAAATGATGTGATTTTTTGAGCA
66 TAAAGTCCAAAACTTGTTTACA-AATGACAAACTATTTAGACCAAATGATGTGATTTCTCGAGCA
* *
29871419 TGGAATGTTTGGGAAATTGCTCGAAGGAATGGATTATCTTGAATACTTTAAGGAACCAAAGTTAT
130 TGGAATGTTTGGAAAATTGCTC-AAAGAATGGATTATCTTGAATACTTTAAGGAACCAAAGTTAT
* * *
29871484 AAAAAAACTCTTAAAAGTTTGACAAGTTCGAAAGCTCATCCAA-AACCAAGAGAGAAACAATTCT
194 AAAAGAACTC-TAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCT
* * *
29871548 CATGTAAATAAGTTTTTAATTCAAAGACAAAAACTTGTTTACAAAATGACACACTATTTAGACCC
258 CACGTAAATAAGTTTTTAATTCAAAGAC-AAAACTTGTTTACAAAATGACAAACTATTTAGACCA
* * *
29871613 AATGATGCGATTTCCCGAGCATGGAACGTTTGGAAAATTGCTCGAAGGAATGGATCGTCTTGAAT
322 AATTATGCGATTT-CCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAAT
* * *
29871678 ACTTTATGGAATCAAAGTTATAAAAGAACTTGTAGAAGTTTG
386 ACTTTAAGGAACCAAAGTTATAAAAGAACTTGTAAAAGTTTG
29871720 TCGAGTTCAA
Statistics
Matches: 854, Mismatches: 104, Indels: 38
0.86 0.10 0.04
Matches are distributed among these distances:
542 4 0.00
543 98 0.11
544 12 0.01
545 39 0.05
546 71 0.08
547 70 0.08
548 56 0.07
549 131 0.15
550 1 0.00
553 1 0.00
554 90 0.11
555 276 0.32
556 5 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (551 bp):
ACAAGTTCGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
TAAAGTCCAAAACTTGTTTACAAATGACAAACTATTTAGACCAAATGATGTGATTTCTCGAGCAT
GGAATGTTTGGAAAATTGCTCAAAGAATGGATTATCTTGAATACTTTAAGGAACCAAAGTTATAA
AAGAACTCTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCAC
GTAAATAAGTTTTTAATTCAAAGACAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATT
ATGCGATTTCCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTT
AAGGAACCAAAGTTATAAAAGAACTTGTAAAAGTTTGACAAGTGCAGATGTTCATCCAAGAACCA
AGAGAGAAACAATTCTCATGTAAATAAGTTTTTGACAAGTTCGGAAGTTCGTCCAAGAAACAAGA
GAGAAACAATTCTCAAGTAAATAAATTTTTG
Found at i:29871696 original size:215 final size:216
Alignment explanation
Indices: 29871285--29872623 Score: 1491
Period size: 216 Copynumber: 6.3 Consensus size: 216
29871275 TAAATAAGTT
* ** *
29871285 TTTGTCAAGTTCGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * * * ***
29871350 AATTTAAAGTCCAAATCTTGTTTACATAATGACAAACTATTTAGACCAAATGATGTGATTTTTTG
66 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGCGATTTCCCG
* * *
29871415 AGCATGGAATGTTTGGGAAATTGCTCGAAGGAATGGATTATCTTGAATACTTTAAGGAACCAAAG
131 AGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAATCAAAG
*
29871480 TTATAAAAAAACTCTTAAAAG
196 TTATAAAAGAACTCTTAAAAG
* * ** *
29871501 TTTGACAAGTTCGAAAGCTCATCCAA-AACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTT
1 TTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * *
29871565 AATTCAAAGACAAAAACTTGTTTACAAAATGACACACTATTTAGACCCAATGATGCGATTTCCCG
66 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGCGATTTCCCG
* * *
29871630 AGCATGGAACGTTTGGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTATGGAATCAAAG
131 AGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAATCAAAG
*
29871695 TTATAAAAGAACT-TGTAGAAG
196 TTATAAAAGAACTCT-TAAAAG
* * ** * * * * *
29871716 TTTGTCGAGTTCAAAAAGTTTGTCCAAGAGCCAAGAGGGAACCAATTTTCACATAAATAAGTTTT
1 TTTGACAAGTTC-GGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * * ** **
29871781 TAATTCAAAGACTAAAGCTTGTTTACAAAATGACAAATTATTTAGATGAAATAATTTGATTTCCC
65 TAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGCGATTTCCC
* * * * * * * *
29871846 GGGCATGGAATGTTTGAAAAATTGCTCGAATGAACGAATTGTCTGGAATAATTTAAGGAATCGAA
130 GAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAATCAAA
* *
29871911 GTTATAAAGGAACTCGTAAAAG
195 GTTATAAAAGAACTCTTAAAAG
* * ** *
29871933 TTTCACATGTTCGGAAGTTTGTTTAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTT
1 TTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* *
29871998 AATTCAAAGATCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATTATGC--TTT----
66 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGCGATTTCCCG
* * * * *
29872057 --C----AA-------AAAATTCCTCGAAGGAATGGATAGTCTTGAATACTTTCAGGAACCGAAG
131 AGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAATCAAAG
* **
29872109 TTATAAAAGAAATAGTAAAAG
196 TTATAAAAGAACTCTTAAAAG
* * *
29872130 TTTGACAAGTTCAGATGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTTTT
1 TTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * * *
29872195 AATTTAAGGTCCAAAACTTGTTTACAAAATGACAAACTATTTTGACCAAATAATGTGATTTCTCG
66 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGCGATTTCCCG
* * * * ** * *
29872260 AGCCTGGAATGTTTGGAAAATTACTTGAACGAATGGATCATCTTGAATACTTTAAGGAACCTAAG
131 AGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAATCAAAG
* * * *
29872325 TTATAGAATACCTCATAAAAG
196 TTATAAAAGAACTCTTAAAAG
* * * * *
29872346 TTTGACAAGTTGGGAAGTTTGTCCAAGAACCAAGAGAGAACCAACTCTCAAGTAAAAAAGTTTTT
1 TTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * *
29872411 AATTGAAAGACCAAAACTTGTTTACGAAAA-GACAAACTATTTAGACCAAATTATGCAATTTTCC
66 AATTCAAAGACCAAAACTTGTTTAC-AAAATGACAAACTATTTAGACCAAATAATGCGATTTCCC
*** ** *
29872475 GAGCATGGAATGTTCAAAAAATTGCTC-AAAAAATGGATTGTCTTGAATACTTTAAGGAATCGAA
130 GAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAATCAAA
*
29872539 GTTATAAAAGAACTCGTAAAAG
195 GTTATAAAAGAACTCTTAAAAG
* * *
29872561 TTAGACAAGTTCGGAAGTTTGTCCATGAACCAAGAGCGAAACAATTCTCACGTAAATAAGTTT
1 TTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
29872624 CTGACAAGTT
Statistics
Matches: 935, Mismatches: 164, Indels: 49
0.81 0.14 0.04
Matches are distributed among these distances:
197 164 0.18
199 3 0.00
204 2 0.00
205 1 0.00
208 1 0.00
209 2 0.00
214 4 0.00
215 280 0.30
216 308 0.33
217 170 0.18
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.29
Consensus pattern (216 bp):
TTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGCGATTTCCCG
AGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAATCAAAG
TTATAAAAGAACTCTTAAAAG
Found at i:29871845 original size:217 final size:215
Alignment explanation
Indices: 29871292--29872048 Score: 935
Period size: 215 Copynumber: 3.5 Consensus size: 215
29871282 GTTTTTGTCA
* ** * *
29871292 AGTTCGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTTAA
1 AGTTCGAAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAA
* * * * ***
29871357 AGTCCAAATCTTGTTTACATAATGACAAACTATTTAGACCAAATGATGTGATTTTTTGAGCATGG
66 AGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATGG
* * *
29871422 AATGTTTGGGAAATTGCTCGAAGGAATGGATTATCTTGAATACTTTAAGGAACCAAAGTTATAAA
131 AATGTTTGGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAATCAAAGTTATAAA
*
29871487 AAAACTCT-TAAAAGTTTGAC
196 AGAACT-TGTAAAAGTTTGAC
* ** *
29871507 AAGTTCGAAAGCTCATCCAA-AACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCA
1 -AGTTCGAAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
* * * *
29871571 AAGACAAAAACTTGTTTACAAAATGACACACTATTTAGACCCAATGATGCGATTTCCCGAGCATG
65 AAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATG
* * *
29871636 GAACGTTTGGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTATGGAATCAAAGTTATAA
130 GAATGTTTGGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAATCAAAGTTATAA
* *
29871701 AAGAACTTGTAGAAGTTTGTC
195 AAGAACTTGTAAAAGTTTGAC
* * * * * *
29871722 GAGTTCAAAAAGTTTGTCCAAGAGCCAAGAGGGAACCAATTTTCACATAAATAAGTTTTTAATTC
1 -AGTTC-GAAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * ** * * *
29871787 AAAGACTAAAGCTTGTTTACAAAATGACAAATTATTTAGATGAAATAATTTGATTTCCCGGGCAT
64 AAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCAT
* * * * * * *
29871852 GGAATGTTTGAAAAATTGCTCGAATGAACGAATTGTCTGGAATAATTTAAGGAATCGAAGTTATA
129 GGAATGTTTGGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAATCAAAGTTATA
* * *
29871917 AAGGAACTCGTAAAAGTTTCAC
194 AAAGAACTTGTAAAAGTTTGAC
* ** *
29871939 ATGTTCGGAAGTTTGTTTAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCA
1 A-GTTCGAAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
29872004 AAGA-TCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAAT
65 AAGACT-AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAAT
29872049 TATGCTTTCA
Statistics
Matches: 461, Mismatches: 75, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
214 1 0.00
215 177 0.38
216 116 0.25
217 167 0.36
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (215 bp):
AGTTCGAAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAA
AGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATGG
AATGTTTGGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAATCAAAGTTATAAA
AGAACTTGTAAAAGTTTGAC
Found at i:29872428 original size:413 final size:419
Alignment explanation
Indices: 29871285--29872623 Score: 1352
Period size: 413 Copynumber: 3.2 Consensus size: 419
29871275 TAAATAAGTT
* * ** *
29871285 TTTGTCAAGTTCGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTGACAAGTTCAGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * * ***
29871350 AATTTAAAGTCCAAATCTTGTTTACATAATGACAAACTATTTAGACCAAATGATGTGATTTTTTG
66 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGTGATTTCCCG
** * * * * * * * *
29871415 AGCATGGAATGTTTGGGAAATTGCTCGAAGGAATGGATTATCTTGAATACTTTAAGGAACCAAAG
131 AGCATGGAATGTTTGAAAAATTACTCGAACGAACGAATCATCTGGAATAATTTAAGGAACCGAAG
** * * * * **
29871480 TTATAAAAAAACTCTTAAAAGTTTGACAAGTTCGAAAGCTCATCCAA-AACCAAGAGAGAAACAA
196 TTATAAAGGAACTCATAAAAGTTTCACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAA
* * * * *
29871544 TTCTCATGTAAATAAGTTTTTAATTCAAAGACAAAAACTTGTTTAC-AAAATGACACACTATTTA
261 CTCTCAAGTAAAAAAGTTTTTAATTCAAAGACCAAAACTTGTTTACGAAAA-GACAAACTATTTA
* * * *** *
29871608 GACCCAATGATGCGATTTCCCGAGCATGGAACGTTTGGAAAATTGCTCGAAGGAATGGATCGTCT
325 GACCAAATTAT---AATT--C--GCAT-----GTTCAAAAAATTGCTCGAAGGAATGGATAGTCT
* * *
29871673 TGAATACTTTATGGAATCAAAGTTATAAAAGAACTTGTAGAAG
378 TGAATACTTTA-GGAATCGAAGTTATAAAAGAACTAGTAAAAG
* * * * * * * *
29871716 TTTGTCGAGTTCAAAAAGTTTGTCCAAGAGCCAAGAGGGAACCAATTTTCACATAAATAAGTTTT
1 TTTGACAAGTTC-AGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * * ** *
29871781 TAATTCAAAGACTAAAGCTTGTTTACAAAATGACAAATTATTTAGATGAAATAATTTGATTTCCC
65 TAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGTGATTTCCC
* * * ** *
29871846 GGGCATGGAATGTTTGAAAAATTGCTCGAATGAACGAATTGTCTGGAATAATTTAAGGAATCGAA
130 GAGCATGGAATGTTTGAAAAATTACTCGAACGAACGAATCATCTGGAATAATTTAAGGAACCGAA
* * ** *
29871911 GTTATAAAGGAACTCGTAAAAGTTTCACATGTTCGGAAGTTTGTTTAAGAACCAAGAGAGAAATA
195 GTTATAAAGGAACTCATAAAAGTTTCACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACA
* * * *
29871976 ATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTTGTTTAC-AAAATGACAAACTATTT
260 ACTCTCAAGTAAAAAAGTTTTTAATTCAAAGACCAAAACTTGTTTACGAAAA-GACAAACTATTT
*
29872040 AGACCAAA-T-T-A-T-GC-T-TTCAAAAAATTCCTCGAAGGAATGGATAGTCTTGAATACTTTC
324 AGACCAAATTATAATTCGCATGTTCAAAAAATTGCTCGAAGGAATGGATAGTCTTGAATACTTT-
* *
29872098 AGGAACCGAAGTTATAAAAGAAATAGTAAAAG
388 AGGAATCGAAGTTATAAAAGAACTAGTAAAAG
* *
29872130 TTTGACAAGTTCAGATGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTTTT
1 TTTGACAAGTTCAGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * *
29872195 AATTTAAGGTCCAAAACTTGTTTACAAAATGACAAACTATTTTGACCAAATAATGTGATTTCTCG
66 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGTGATTTCCCG
* * * * * * * *
29872260 AGCCTGGAATGTTTGGAAAATTACTTGAACGAATGGATCATCTTGAATACTTTAAGGAACCTAAG
131 AGCATGGAATGTTTGAAAAATTACTCGAACGAACGAATCATCTGGAATAATTTAAGGAACCGAAG
* * * * *
29872325 TTATAGAA-TACCTCATAAAAGTTTGACAAGTTGGGAAGTTTGTCCAAGAACCAAGAGAGAACCA
196 TTATA-AAGGAACTCATAAAAGTTTCACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACA
*
29872389 ACTCTCAAGTAAAAAAGTTTTTAATTGAAAGACCAAAACTTGTTTACGAAAAGACAAACTATTTA
260 ACTCTCAAGTAAAAAAGTTTTTAATTCAAAGACCAAAACTTGTTTACGAAAAGACAAACTATTTA
** *
29872454 GACCAAATTATGCAATTTTCCGAGCATGGAATGTTCAAAAAATTGCTC-AAAAAATGGATTGTCT
325 GACCAAATTAT--AA--TT-C--GC-----ATGTTCAAAAAATTGCTCGAAGGAATGGATAGTCT
*
29872518 TGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAG
378 TGAATACTTT-AGGAATCGAAGTTATAAAAGAACTAGTAAAAG
* * * *
29872561 TTAGACAAGTTCGGAAGTTTGTCCATGAACCAAGAGCGAAACAATTCTCACGTAAATAAGTTT
1 TTTGACAAGTTCAGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
29872624 CTGACAAGTT
Statistics
Matches: 756, Mismatches: 128, Indels: 48
0.81 0.14 0.05
Matches are distributed among these distances:
413 263 0.35
414 80 0.11
415 2 0.00
418 1 0.00
420 1 0.00
421 3 0.00
425 2 0.00
426 1 0.00
431 122 0.16
432 199 0.26
433 82 0.11
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.29
Consensus pattern (419 bp):
TTTGACAAGTTCAGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGTGATTTCCCG
AGCATGGAATGTTTGAAAAATTACTCGAACGAACGAATCATCTGGAATAATTTAAGGAACCGAAG
TTATAAAGGAACTCATAAAAGTTTCACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAACAA
CTCTCAAGTAAAAAAGTTTTTAATTCAAAGACCAAAACTTGTTTACGAAAAGACAAACTATTTAG
ACCAAATTATAATTCGCATGTTCAAAAAATTGCTCGAAGGAATGGATAGTCTTGAATACTTTAGG
AATCGAAGTTATAAAAGAACTAGTAAAAG
Found at i:29872748 original size:62 final size:62
Alignment explanation
Indices: 29872564--29872749 Score: 282
Period size: 62 Copynumber: 3.0 Consensus size: 62
29872554 GTAAAAGTTA
* * * *
29872564 GACAAGTTCGGAAGTTTGTCCATGAACCAAGAGCGAAACAATTCTCACGTAAATAAGTTTCT
1 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* *
29872626 GACAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTT
1 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * *
29872688 GACAAGTTCGGAAGTTCATCCAAGAACAAAGAAAGAAACAATTCTCACGTAAAAAAGTTTTT
1 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
29872750 AATTTAAAGT
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 112 1.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (62 bp):
GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
Found at i:29873352 original size:211 final size:211
Alignment explanation
Indices: 29872685--29873599 Score: 1057
Period size: 211 Copynumber: 4.3 Consensus size: 211
29872675 TAAATAAGTT
* * *
29872685 TTTGACAAGTTCGGAAGTTCATCCAAGAACAAAGAAAGAAACAATTCTCACGTAAAAAAGTTTTT
1 TTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * * *
29872750 AATTTAAAGTCCAAAACTTGTTTATATAATGACAAACTATTTAGACCAAATGATGTGATTTCTTG
66 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTG
* * ** *
29872815 AGTATGGAATGTTTGGGAAATTGCTCGATGGAATGGATTGTCTTGAATGCTTTAAGGAACAGAAG
131 AGCATGGAATGTTCGAAAAATTGCTC----GAATGGATTGTCTTGAATACTTTAAGGAACA-AAG
*
29872880 TTATAAAAGAACTCTTAAAAG
191 TTATAAAAGAACTCGTAAAAG
**
29872901 TTTGACAAGTTCAAAAGTTCATCCAA-AACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* *
29872965 AA-TC---TA-C-AAACTTGTTTACAAAATGACAAACTATTGAGACCAAATGATGCGATTTACC-
66 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTT-CCT
* * * ** * * *
29873023 GAGCATGGAACGTTTGGAAAATTG-AAGAAATGGATCGTCATGAATACTTTAAGGAATCGAAGTT
130 GAGCATGGAATGTTCGAAAAATTGCTCG-AATGGATTGTCTTGAATACTTTAAGGAA-CAAAGTT
*
29873087 ATAAAAGAACTCGTAGAAG
193 ATAAAAGAACTCGTAAAAG
* * * * * *
29873106 TTTGACAAGATT-GAAAGTTCGTCCAAGAGCCAAGAGGGAAACAATTCTTAGGTAAATAAGTTTT
1 TTTGACAAG-TTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * *
29873170 TAATTCAAAGACCAAAGCTTGTTTACAAAATGACAAATTATTTAGACGAAATGATGC-ACTTTCC
65 TAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA-TTTCC
* *
29873234 TGAGCATGGAATGTTCGAAAAATTGCTCG-ACGGATTGTCTGGAATACTTTAAGGAATCAAAGTT
129 TGAGCATGGAATGTTCGAAAAATTGCTCGAATGGATTGTCTTGAATACTTTAAGGAA-CAAAGTT
*
29873298 ATAAAGGAACTCGTAAAAG
193 ATAAAAGAACTCGTAAAAG
* * *
29873317 TTTCACATGTTCGGAAGTT-AGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTT
1 TTTGACAAGTTCGGAAGTTCA-TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * * *
29873381 TATTTCAAAGACCAAAACTTGATTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCTT
65 TAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCT
* * * *
29873446 GAGCATGGAATGTTCAAAAAATTCCTCGAA-GGAATGAATCATCTTGAATACTTTCAGGAACTAA
130 GAGCATGGAATGTTCGAAAAATTGCTCGAATGG-AT---T-GTCTTGAATACTTTAAGGAAC-AA
*
29873510 AGTTATAAAAGAAATCGTAAAAG
189 AGTTATAAAAGAACTCGTAAAAG
** * * *
29873533 TTTGACAAGTTCGGATTTTCATCCATGAACCAAGAGAGAAACAATTCTTATGTAAATAAGTTTTT
1 TTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
29873598 AA
66 AA
29873600 CAAGTTCAAA
Statistics
Matches: 595, Mismatches: 79, Indels: 50
0.82 0.11 0.07
Matches are distributed among these distances:
204 1 0.00
205 68 0.11
206 39 0.07
207 2 0.00
209 65 0.11
210 5 0.01
211 186 0.31
212 67 0.11
213 1 0.00
214 1 0.00
215 39 0.07
216 120 0.20
217 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (211 bp):
TTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTG
AGCATGGAATGTTCGAAAAATTGCTCGAATGGATTGTCTTGAATACTTTAAGGAACAAAGTTATA
AAAGAACTCGTAAAAG
Found at i:29873630 original size:62 final size:62
Alignment explanation
Indices: 29873554--29873723 Score: 250
Period size: 62 Copynumber: 2.7 Consensus size: 62
29873544 CGGATTTTCA
* *
29873554 TCCATGAACCAAGAGAGAAACAATTCTTATGTAAATAAGTTTTTAACAAGTTCAAAAATTCG
1 TCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAACAAGTTCAAAAATTCG
* * * * * *
29873616 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAATTTTTGACAAGTTCAGAAGTTCG
1 TCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAACAAGTTCAAAAATTCG
* *
29873678 TCCTAGAACCAAGAGAGAAACAATTCTCATGTAACTAAGTTTTTAA
1 TCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAA
29873724 TTTAAAGCCC
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 94 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (62 bp):
TCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAACAAGTTCAAAAATTCG
Found at i:29873652 original size:972 final size:963
Alignment explanation
Indices: 29871758--29873933 Score: 2654
Period size: 968 Copynumber: 2.2 Consensus size: 963
29871748 AAGAGGGAAC
* * * * * *
29871758 CAATTTTCACATAAATAAGTTTTTAATTCAAAGACTAAAGCTTGTTTACAAAATGACAAATTATT
1 CAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGTTTAC-AAATGACAAACTATT
** * * * * * * *
29871823 TAGATGAAATAATTTGATTTCCCGGGCATGGAATGTTTGAAAAATTGCTCGAAT-GAACGAATTG
65 TAGACCAAATGATATGATTTCTCGAGCATGGAATGTTTGGAAAATTGCTCG-ATGGAATGGATTG
* * * * * * *
29871887 TCTGGAATAATTTAAGGAATCGAAGTTATAAAGGAACTCGTAAAAGTTTCACATGTTCGGAAGTT
129 TCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCTTAAAAGTTTGACAAGTTCGAAAGTT
** ** *
29871952 TGTTTAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCAAAACTT
193 CATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC--AGATCAAAACTT
* * ** *
29872017 GTTTACAAAATGACAAACTATTTAGACCAAATTATGCTTTCAAAAAATTCCTCGAAGGAATGGAT
256 GTTTACAAAATGACAAACTATTGAGACCAAATGATGCTTTCAAAAAATTAATCGAAGAAATGGAT
* * *
29872082 AGTCTTGAATACTTTCAGGAACCGAAGTTATAAAAGAAATAGTAAAAGTTTGACAAGTTCAGATG
321 AGTCATGAATACTTTAAGGAACCGAAGTTATAAAAGAAATAGTAAAAGTTTGACAAGTTCAGAAG
* * * * *
29872147 TTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTTTTAATTTAAGGTCCAAAAC
386 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAC
* * * *
29872212 TTGTTTACAAAATGACAAACTATTTTGACCAAATAATGTGATTTCTCGAGCCTGGAATGTTTGGA
451 TTGTTTACAAAATGACAAACTATTTAGACCAAATAATGTCATTTCTCGAGCATGGAATGTTTCGA
* * * * *
29872277 AAATTACTTGAACGAATGGATCATCTTGAATACTTTAAGGAACCTAAGTTATAGAATACCTCATA
516 AAA-TACTTGAACGAACGGATCATCTGGAATACTTTAAGGAACCAAAGTTATAGAAGAACTCATA
* * * *
29872342 AAAGTTTGACAAGTTGGGAAGTTTGTCCAAGAACCAAGAGAGAACCAACTCTCAAGTAAAAAAGT
580 AAAGTTTCACAAGTTCGGAAGTTAGTCCAAGAACCAAGAGAGAAACAACTCTCAAGTAAAAAAGT
* *
29872407 TTTTAATTGAAAGACCAAAACTTGTTTACGAAAAGACAAACTATTTAGACCAAATTATGCAATTT
645 TTTTAATTCAAAGACCAAAACTTGATTACGAAAAGACAAACTATTTAGACCAAATTATGCAATTT
* * ** *
29872472 TCCGAGCATGGAATGTTCAAAAAATTGCTCAAAAAATGGATTGTCTTGAATACTTTAAGGAATCG
710 TCCGAGCATGGAATGTTCAAAAAATTCCTCAAAAAATGAATCATCTTGAATACTTTAAGGAATCA
* * *
29872537 AAGTTATAAAAGAACTCGTAAAAGTTAGACAAGTTCGGAAGTTTGTCCATGAACCAAGAGCGAAA
775 AAGTTATAAAAGAAATCGTAAAAGTTAGACAAGTTCGGAAGTTTATCCATGAACCAAGAGAGAAA
* *** * *
29872602 CAATTCTCACGTAAATAAGTTTCTGACAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAA
840 CAATTCTCACGTAAATAAGTTTCTAACAAGTTCAAAAATTCGTCCAAGAACAAAGAGAGAAACAA
* *
29872667 TTCTCAAGTAAATAAGTTTTTGACAAGTTCGGAAGTTCATCCAAGAACAAAGAAAGAAA
905 TTCTCAAGTAAATAAATTTTTGACAAGTTCAGAAGTTCATCCAAGAACAAAGAAAGAAA
* * *
29872726 CAATTCTCACGTAAAAAAGTTTTTAATTTAAAGTCCAAAACTTGTTTATATAATGACAAACTATT
1 CAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGTTTACA-AATGACAAACTATT
* * * *
29872791 TAGACCAAATGATGTGATTTCTTGAGTATGGAATGTTTGGGAAATTGCTCGATGGAATGGATTGT
65 TAGACCAAATGATATGATTTCTCGAGCATGGAATGTTTGGAAAATTGCTCGATGGAATGGATTGT
* *
29872856 CTTGAATGCTTTAAGGAACAGAAGTTATAAAAGAACTCTTAAAAGTTTGACAAGTTCAAAAGTTC
130 CTTGAATACTTTAAGGAAC-GAAGTTATAAAAGAACTCTTAAAAGTTTGACAAGTTCGAAAGTTC
*
29872921 ATCCAA-AACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA-TC-TA-C-AAACTTGTT
194 ATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAGATCAAAACTTGTT
** *
29872981 TACAAAATGACAAACTATTGAGACCAAATGATGCGATTTACCGAGCATGGAACGTTTGGAAAATT
259 TACAAAATGACAAACTATTGAGACCAAATGATGC--TTT--C-A--A---AA-AATT----AATC
* * * * *
29873046 GAAGAAATGGATCGTCATGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCGTAGAAGTTTGA
309 GAAGAAATGGATAGTCATGAATACTTTAAGGAACCGAAGTTATAAAAGAAATAGTAAAAGTTTGA
* * * * *
29873111 CAAGATTGA-AAGTTCGTCCAAGAGCCAAGAGGGAAACAATTCTTAGGTAAATAAGTTTTTAATT
374 CAAG-TTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
* * * *
29873175 CAAAGACCAAAGCTTGTTTACAAAATGACAAATTATTTAGACGAAATGATG-CACTTTC-CTGAG
438 CAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGTCA-TTTCTC-GAG
** ** *
29873238 CATGGAATG-TTCGAAAA-A-TTGCTCG-ACGGATTGTCTGGAATACTTTAAGGAATCAAAGTTA
501 CATGGAATGTTTCGAAAATACTTGAACGAACGGATCATCTGGAATACTTTAAGGAACCAAAGTTA
* * *
29873299 TA-AAGGAACTCGTAAAAGTTTCACATGTTCGGAAGTTAGTCCAAGAACCAAGAGAGAAACAATT
566 TAGAA-GAACTCATAAAAGTTTCACAAGTTCGGAAGTTAGTCCAAGAACCAAGAGAGAAACAACT
* *
29873363 CTCACA-TAAATAAGTTTTTATTTCAAAGACCAAAACTTGATTAC-AAAATGACAAACTATTTAG
630 CTCA-AGTAAAAAAGTTTTTAATTCAAAGACCAAAACTTGATTACGAAAA-GACAAACTATTTAG
* * **
29873426 ACCAAATTATGCGA-TTTCTTGAGCATGGAATGTTCAAAAAATTCCTCGAAGGAATGAATCATCT
693 ACCAAATTATGCAATTTTC-CGAGCATGGAATGTTCAAAAAATTCCTC-AAAAAATGAATCATCT
* * *
29873490 TGAATACTTTCAGGAA-CTAAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGG-ATTTTC
756 TGAATACTTTAAGGAATC-AAAGTTATAAAAGAAATCGTAAAAGTTAGACAAGTTCGGAAGTTT-
* * *
29873553 ATCCATGAACCAAGAGAGAAACAATTCTTATGTAAATAAGTTTTTAACAAGTTCAAAAATTCGTC
819 ATCCATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTCTAACAAGTTCAAAAATTCGTC
* * *
29873618 CAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAATTTTTGACAAGTTCAGAAGTTCGTCCTA
884 CAAGAACAAAGAGAGAAACAATTCTCAAGTAAATAAATTTTTGACAAGTTCAGAAGTTCATCCAA
* *
29873683 GAACCAAGAGAGAAA
949 GAACAAAGAAAGAAA
* * * *
29873698 CAATTCTCATGTAACTAAGTTTTTAATTTAAAGCCCAAAACTTG---ACAAAAGAACAAACTATT
1 CAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGTTTACAAATG-ACAAACTATT
* * * *
29873760 TTGACCAAATGATATGATTTCTCGAGCATGGAATGTTT-GCAAATTGCTCGAAGGAATGGATTAT
65 TAGACCAAATGATATGATTTCTCGAGCATGGAATGTTTGGAAAATTGCTCGATGGAATGGATTGT
*
29873824 CTTGAATACTTTAAGGAACCTAAGTTATAAAAGAACT-TGTAAAAGTTTGACAAGTTCGAAAGTT
130 CTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCT-TAAAAGTTTGACAAGTTCGAAAGTT
* *
29873888 CATCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAATTTTT
193 CATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
29873934 GACAAGTTCG
Statistics
Matches: 1036, Mismatches: 140, Indels: 63
0.84 0.11 0.05
Matches are distributed among these distances:
961 41 0.04
962 1 0.00
963 4 0.00
965 1 0.00
966 3 0.00
967 44 0.04
968 251 0.24
969 83 0.08
970 10 0.01
971 180 0.17
972 237 0.23
973 1 0.00
975 9 0.01
976 168 0.16
977 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (963 bp):
CAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGTTTACAAATGACAAACTATTT
AGACCAAATGATATGATTTCTCGAGCATGGAATGTTTGGAAAATTGCTCGATGGAATGGATTGTC
TTGAATACTTTAAGGAACGAAGTTATAAAAGAACTCTTAAAAGTTTGACAAGTTCGAAAGTTCAT
CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAGATCAAAACTTGTTTA
CAAAATGACAAACTATTGAGACCAAATGATGCTTTCAAAAAATTAATCGAAGAAATGGATAGTCA
TGAATACTTTAAGGAACCGAAGTTATAAAAGAAATAGTAAAAGTTTGACAAGTTCAGAAGTTCGT
CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTT
TACAAAATGACAAACTATTTAGACCAAATAATGTCATTTCTCGAGCATGGAATGTTTCGAAAATA
CTTGAACGAACGGATCATCTGGAATACTTTAAGGAACCAAAGTTATAGAAGAACTCATAAAAGTT
TCACAAGTTCGGAAGTTAGTCCAAGAACCAAGAGAGAAACAACTCTCAAGTAAAAAAGTTTTTAA
TTCAAAGACCAAAACTTGATTACGAAAAGACAAACTATTTAGACCAAATTATGCAATTTTCCGAG
CATGGAATGTTCAAAAAATTCCTCAAAAAATGAATCATCTTGAATACTTTAAGGAATCAAAGTTA
TAAAAGAAATCGTAAAAGTTAGACAAGTTCGGAAGTTTATCCATGAACCAAGAGAGAAACAATTC
TCACGTAAATAAGTTTCTAACAAGTTCAAAAATTCGTCCAAGAACAAAGAGAGAAACAATTCTCA
AGTAAATAAATTTTTGACAAGTTCAGAAGTTCATCCAAGAACAAAGAAAGAAA
Found at i:29873945 original size:62 final size:61
Alignment explanation
Indices: 29873869--29873994 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 61
29873859 CTTGTAAAAG
*
29873869 TTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAATT
1 TTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAT-AATT
* * *
29873931 TTTGACAAGTTCGAAAGTTCGTCCTAGAACCAAGAGAGAAACAATTCTCACGTAACTAATT
1 TTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAATT
29873992 TTT
1 TTT
29873995 AATTTAAAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
61 7 0.12
62 53 0.88
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (61 bp):
TTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAATT
Found at i:29873968 original size:336 final size:337
Alignment explanation
Indices: 29873325--29873994 Score: 936
Period size: 336 Copynumber: 2.0 Consensus size: 337
29873315 AGTTTCACAT
*
29873325 GTTCGGAAGTTAGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTATTTCAAA
1 GTTCAGAAGTTAGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTATTTCAAA
* * *
29873390 GACCAAAACTTGATTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCTTGAGCATGGA
66 GACCAAAACTTG--TACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCGAGCATGGA
*
29873455 ATGTTCAAAAAATTCCTCGAAGGAATGAATCATCTTGAATACTTTCAGGAACTAAAGTTATAAAA
129 ATGTTCAAAAAATTCCTCGAAGGAATGAATCATCTTGAATACTTTAAGGAACTAAAGTTATAAAA
* ** * * *
29873520 GAAATCGTAAAAGTTTGACAAGTTCGGATTTTCATCCATGAACCAAGAGAGAAACAATTCTTATG
194 GAAATCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACG
*
29873585 TAAATAAGTTTTTAACAAGTTCAAAAATTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAA
259 TAAATAAATTTTTAACAAGTTCAAAAATTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAA
29873650 ATAAATTTTTGACAA
324 AT-AATTTTTGACAA
* * ** *
29873665 GTTCAGAAGTTCGTCCTAGAACCAAGAGAGAAACAATTCTCATGTAACTAAGTTTTTAATTT-AA
1 GTTCAGAAGTTAGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTT-ATTTCAA
* * *
29873729 AGCCCAAAACTTG-ACAAAA-GAACAAACTATTTTGACCAAATGATATGATTTCTCGAGCATGGA
65 AGACCAAAACTTGTACAAAATG-ACAAACTATTTAGACCAAATGATACGATTTCTCGAGCATGGA
*** * * *
29873792 ATGTT-TGCAAATTGCTCGAAGGAATGGATTATCTTGAATACTTTAAGGAACCT-AAGTTATAAA
129 ATGTTCAAAAAATTCCTCGAAGGAATGAATCATCTTGAATACTTTAAGGAA-CTAAAGTTATAAA
* * *
29873855 AGAACTTGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAACCAATTCTCAC
193 AGAAATCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCAC
* * * * *
29873920 GTAAATAAATTTTTGACAAGTTCGAAAGTTCGTCCTAGAACCAAGAGAGAAACAATTCTCACGTA
258 GTAAATAAATTTTTAACAAGTTCAAAAATTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTA
*
29873985 ACTAATTTTT
323 AATAATTTTT
29873995 AATTTAAAGT
Statistics
Matches: 292, Mismatches: 35, Indels: 11
0.86 0.10 0.03
Matches are distributed among these distances:
335 7 0.02
336 166 0.57
337 50 0.17
340 65 0.22
341 4 0.01
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (337 bp):
GTTCAGAAGTTAGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTATTTCAAA
GACCAAAACTTGTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCGAGCATGGAAT
GTTCAAAAAATTCCTCGAAGGAATGAATCATCTTGAATACTTTAAGGAACTAAAGTTATAAAAGA
AATCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTA
AATAAATTTTTAACAAGTTCAAAAATTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAAT
AATTTTTGACAA
Found at i:29874302 original size:215 final size:215
Alignment explanation
Indices: 29873931--29874425 Score: 706
Period size: 215 Copynumber: 2.3 Consensus size: 215
29873921 TAAATAAATT
*
29873931 TTTGACAAGTTCGAAAGTTCGTCCTAGAACCAAGAGAGAAACAATTCTCACGTAACTAA-TTTTT
1 TTTGACAAGTTCGAAAGTTCGTCC-AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * ** * * * * *
29873995 AATTTAAAGTCTGAAACTTGTTTACAAAATGACAAACTATTTTGACCAAATAATGTAATTTCTCG
65 AATTCAAAGACCAAAACTTATTTACAAAAAGAAAAACTATTTAGACCAAATAATGTAATTTCTCA
** *
29874060 AGCATGGAATGTTTGGAAAATTGCTCGAAAGAATGGATCATCTTGAATACTTTAAGGAACCAAAG
130 AGCATGGAATGTTTCAAAAATTGCTCGAAAGAATGGATCATCTTGAATACTTGAAGGAACCAAAG
* *
29874125 TTATAAAAGAACTCATAAAGG
195 TTATAAAAGAACTCAGAAAAG
* * * *
29874146 TTTGACAAGTTCGAAAGGTCATCCAAAAACAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
1 TTTGACAAGTTCGAAAGTTCGTCCAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
* *
29874211 ATTCAAAGACCAAAACTTATTTACAAAAAGAAAAACTATTTAGACCAAATTATGTGATTTCTCAA
66 ATTCAAAGACCAAAACTTATTTACAAAAAGAAAAACTATTTAGACCAAATAATGTAATTTCTCAA
*
29874276 GCATGGAATG-TTCAAAACATTGCTCGAAGGAATGGATCATCTTGAATACTTGAAGGAACCAAAG
131 GCATGGAATGTTTCAAAA-ATTGCTCGAAAGAATGGATCATCTTGAATACTTGAAGGAACCAAAG
**
29874340 TTATAAAAGAACTTGGAAAAG
195 TTATAAAAGAACTCAGAAAAG
* * *
29874361 TTTGACAAGTTCAAAAGTTTGTCCATGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTT
1 TTTGACAAGTTCGAAAGTTCGTCCA-GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
29874426 GACAAGTTCA
Statistics
Matches: 246, Mismatches: 31, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
214 36 0.15
215 174 0.71
216 36 0.15
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (215 bp):
TTTGACAAGTTCGAAAGTTCGTCCAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
ATTCAAAGACCAAAACTTATTTACAAAAAGAAAAACTATTTAGACCAAATAATGTAATTTCTCAA
GCATGGAATGTTTCAAAAATTGCTCGAAAGAATGGATCATCTTGAATACTTGAAGGAACCAAAGT
TATAAAAGAACTCAGAAAAG
Found at i:29874458 original size:62 final size:62
Alignment explanation
Indices: 29874361--29874549 Score: 288
Period size: 62 Copynumber: 3.0 Consensus size: 62
29874351 CTTGGAAAAG
* * * *
29874361 TTTGACAAGTTCAAAAGTTTGTCCATGAACCAAGAGAGAAACAATTCTCACATAAATAAGTT
1 TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* *
29874423 TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGGGAAAAAATTCTCACGTAAATAAGTT
1 TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * * *
29874485 TTTGACAATTTCGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTT
1 TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
29874547 TTT
1 TTT
29874550 AATTTAAAGT
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 115 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (62 bp):
TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:29874890 original size:7 final size:7
Alignment explanation
Indices: 29874878--29874925 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
29874868 GATAGTGGTG
29874878 TGGATGA
1 TGGATGA
29874885 TGGATGA
1 TGGATGA
29874892 TGGATGA
1 TGGATGA
*
29874899 TGGTAGGGA
1 TGG-A-TGA
* *
29874908 TGGTTGG
1 TGGATGA
29874915 TGGATGA
1 TGGATGA
29874922 TGGA
1 TGGA
29874926 ATTGGGGTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 27 0.82
8 1 0.03
9 5 0.15
ACGTcount: A:0.23, C:0.00, G:0.48, T:0.29
Consensus pattern (7 bp):
TGGATGA
Found at i:29881021 original size:487 final size:486
Alignment explanation
Indices: 29880063--29881038 Score: 1799
Period size: 487 Copynumber: 2.0 Consensus size: 486
29880053 GTTTAATGGA
*
29880063 GGATCATGAAATGCATCTCAGGTTTGTTTTGAATACACTTTGAAGGAGAAACTATATGCTAACTT
1 GGATCATGAAATGCATCTCAGGTTTGTTTTGAATACACTTCGAAGGAGAAACTATATGCTAACTT
29880128 GAAAAAGTGCATTTTCTGTACAAACAAACTTGTGTTTTTAGGATTTATAGTGAGTTCTGAAGGAT
66 GAAAAAGTGCATTTTCTGTACAAACAAACTTGTGTTTTTAGGATTTATAGTGAGTTCTGAAGGAT
*
29880193 TGGAGGTTGATCACGAAAAGGTGAAGGCAATTGAAGAGTGGCTGACGCCTACAAACATTAGCCAG
131 TGGAGGTTGATCACGAAAAGGTGAAGGCAATTGAAGAGTGGCCGACGCCTACAAACATTAGCCAG
* *
29880258 GTATGGAGTTTCCATGGACTTGCCAGTATCTATCGAAGGTTCGTCCGTAATTTTAGTACCATTAC
196 GTAAGGAGTTTCCATGGACTTGCCAGTATCTATCGAAGGTTCGTCCATAATTTTAGTACCATTAC
*
29880323 TACACCTTTAACTAACGTAATTAAAAAAAATGCAAGTTTCTTTTAGAATGATGAGCAAGAATAAG
261 TACACCTTTAACTAACGTAATTAAAAAAAATGCAAGTTTCTTTTAGAATGATGAGAAAGAATAAG
29880388 CTTTCAATCAAATTAAGGAGTGCTTAACAAAGGCACCTTTGCTTTCCTTACCAAACTTTGACAAG
326 CTTTCAATCAAATTAAGGAGTGCTTAACAAAGGCACCTTTGCTTTCCTTACCAAACTTTGACAAG
* *
29880453 ACATTTGAGATCGATTGTGATGCTTCAGGTTTAGGAATCGGTGCTGTTTTGTCACAAGAGGGGCA
391 ACAATTGAGATCGAGTGTGATGCTTCAGGTTTAGGAATCGGTGCTGTTTTGTCACAAGAGGGGCA
29880518 TCCAGTGGCCTACTTTAGCGAGAAACTCAGT
456 TCCAGTGGCCTACTTTAGCGAGAAACTCAGT
29880549 GGATCATGAAATGCATCTCAGGTTTGTTTTGAATACACTTCGAAAGGAGAAACTATATGCTAACT
1 GGATCATGAAATGCATCTCAGGTTTGTTTTGAATACACTTCG-AAGGAGAAACTATATGCTAACT
*
29880614 TGAAAATGTGCATTTTCTGTACAAACAAACTTGTGTTTTTAGGATTTATAGTGAGTTCTGAAGGA
65 TGAAAAAGTGCATTTTCTGTACAAACAAACTTGTGTTTTTAGGATTTATAGTGAGTTCTGAAGGA
29880679 TTGGAGGTTGATCACGAAAAGGTGAAGGCAATTGAAGAGTGGCCGACGCCTACAAACATTAGCCA
130 TTGGAGGTTGATCACGAAAAGGTGAAGGCAATTGAAGAGTGGCCGACGCCTACAAACATTAGCCA
*
29880744 GGTAAGGAGTTTCCATGGACTTGCCAGTTTCTATCGAAGGTTCGTCCATAATTTTAGTACCATTA
195 GGTAAGGAGTTTCCATGGACTTGCCAGTATCTATCGAAGGTTCGTCCATAATTTTAGTACCATTA
* * *
29880809 CTGCACCTTTAACTAACGTAATTTAAAAAAATGCAAGTTTCTTTTGGAATGATGAGAAAGAATAA
260 CTACACCTTTAACTAACGTAATTAAAAAAAATGCAAGTTTCTTTTAGAATGATGAGAAAGAATAA
*
29880874 GCTTTCAATCAAATTAAGGAGTGCTTAACAACGGCACCTTTGCTTTCCTTACCAAACTTTGACAA
325 GCTTTCAATCAAATTAAGGAGTGCTTAACAAAGGCACCTTTGCTTTCCTTACCAAACTTTGACAA
* *
29880939 GACAATTGAGATCGAGTGTGATGCTTTAGGTTTAGGAATCGGTGCTGTTTTGTTACAAGAGGGGC
390 GACAATTGAGATCGAGTGTGATGCTTCAGGTTTAGGAATCGGTGCTGTTTTGTCACAAGAGGGGC
*
29881004 ATCCAGTGGCTTACTTTAGCGAGAAACTCAGT
455 ATCCAGTGGCCTACTTTAGCGAGAAACTCAGT
29881036 GGA
1 GGA
29881039 GCAACATTGA
Statistics
Matches: 473, Mismatches: 16, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
486 41 0.09
487 432 0.91
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (486 bp):
GGATCATGAAATGCATCTCAGGTTTGTTTTGAATACACTTCGAAGGAGAAACTATATGCTAACTT
GAAAAAGTGCATTTTCTGTACAAACAAACTTGTGTTTTTAGGATTTATAGTGAGTTCTGAAGGAT
TGGAGGTTGATCACGAAAAGGTGAAGGCAATTGAAGAGTGGCCGACGCCTACAAACATTAGCCAG
GTAAGGAGTTTCCATGGACTTGCCAGTATCTATCGAAGGTTCGTCCATAATTTTAGTACCATTAC
TACACCTTTAACTAACGTAATTAAAAAAAATGCAAGTTTCTTTTAGAATGATGAGAAAGAATAAG
CTTTCAATCAAATTAAGGAGTGCTTAACAAAGGCACCTTTGCTTTCCTTACCAAACTTTGACAAG
ACAATTGAGATCGAGTGTGATGCTTCAGGTTTAGGAATCGGTGCTGTTTTGTCACAAGAGGGGCA
TCCAGTGGCCTACTTTAGCGAGAAACTCAGT
Found at i:29884953 original size:13 final size:14
Alignment explanation
Indices: 29884919--29884957 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
29884909 TATCTCTTTT
*
29884919 TCTTCCTTTTCATC
1 TCTTTCTTTTCATC
*
29884933 TTTTTCTTTTC-TC
1 TCTTTCTTTTCATC
29884946 TCTTTCTTTTCA
1 TCTTTCTTTTCA
29884958 CTTTCTTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (14 bp):
TCTTTCTTTTCATC
Found at i:29886813 original size:22 final size:22
Alignment explanation
Indices: 29886788--29886832 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
29886778 TCAATATTTT
29886788 GGCTTTTTCTACTCTCTAATGA
1 GGCTTTTTCTACTCTCTAATGA
29886810 GGCTTTTTCTACTCTCTAATGA
1 GGCTTTTTCTACTCTCTAATGA
29886832 G
1 G
29886833 CTCACCACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (22 bp):
GGCTTTTTCTACTCTCTAATGA
Found at i:29892776 original size:216 final size:215
Alignment explanation
Indices: 29892148--29893365 Score: 1554
Period size: 216 Copynumber: 5.7 Consensus size: 215
29892138 TCGCATCACT
* ** * *
29892148 GAAGTTATAAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTTGTCCAAGAACCAACAGAGAA
1 GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTAGAAGTTCGTCCAAGAACCAAGAGAGAA
* * * * * * *
29892213 ATAATTGTCACGTAAATAATTTTTTAATTCAGAGACCAAAA---GTTTAAAAAATGAAAAACTCT
66 ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTAT
* * * * * * *
29892275 TTAGCCCAAATGATGCGATTTCTTGAGCATAGAATGTTCGAAAAATTGTTTGAAGGAATGGATCT
131 TTAGACCAAATGATGAGATTT-TTGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGAATCG
* * *
29892340 TCTTGAGTACATTAAGGAAAC
195 TCTTGAATACTTTAAGGAATC
* * *
29892361 GAAGTTGTAAAAGAACTCGTAGAAGTTTGACAAG-TTAGGAAGTTCGTCCAAGAACCAAGAGAGC
1 GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTA-GAAGTTCGTCCAAGAACCAAGAGAGA
* * *
29892425 AACAATTCTCACGTAAATAAGTTTTT-ATTCAAAGTCCAAAACTTGTTTACAAAATAATAAACTA
65 AACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTA
* *
29892489 TTTAGACCGAATGAT-ACAATTTTTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGAAT
130 TTTAGACCAAATGATGA-GATTTTT-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGAAT
*
29892553 CGTCTTGAAAACTTTAAGGAATC
193 CGTCTTGAATACTTTAAGGAATC
* * * *
29892576 GAAGTTATATAAGAAGTCGTAAAAGCTTGACAAGTTTAGAAGTTCATCCAAGAACCAAGAGAGAA
1 GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTAGAAGTTCGTCCAAGAACCAAGAGAGAA
* * *
29892641 ACAATTCTCATGTAAATAAGTTTTTAATTCAAATACCAAAACTTGTTTAAAAAATGACAAACTAT
66 ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTAT
* ** * *
29892706 TTAGACCAAATTATGAGATTTATTGAGCATGGAATGTTCGAAAAATTGCTTAAAGGAATGGATTG
131 TTAGACCAAATGATGAGATTT-TTGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGAATCG
29892771 TCTTGAATACTTTAAGGAA-C
195 TCTTGAATACTTTAAGGAATC
* * * * *
29892791 TAAAGTTATAAAAGAACTCGTTAAAGGTTGACATGTTTGGAAGTTCGTCCAAGAACCAAGAGAGA
1 -GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTAGAAGTTCGTCCAAGAACCAAGAGAGA
* *
29892856 AACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAGTGACAAACTA
65 AACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTA
* * * * ** * * *
29892921 TTTAGAGCAAATTAAGTGATTTCCCGAGCATGGAATGTTCGAAAGACTGCTCGAAGGAATGAATA
130 TTTAGACCAAATGATGAGATTT-TTGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGAATC
29892986 GTCTTGAATACTTTAAGGAATC
194 GTCTTGAATACTTTAAGGAATC
* * * *
29893008 GAAGTTATAAAAGAACTCGTACAAGTTTGACAAG-TTCGAAAGTTGGTCCAAGAAACAAGAGAGA
1 GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTAG-AAGTTCGTCCAAGAACCAAGAGAGA
* * * *
29893072 AACAATTCTCATGTAAATCAGTTTTTAATTCAAAGACCAAAGCTTGTTTACAAAATGATAAACTA
65 AACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTA
*
29893137 TTTAGACCGAATGATGCA-ATTTTCTGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGAAT
130 TTTAGACCAAATGATG-AGATTTT-TGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGAAT
*
29893201 CGTCCTTGAATACATTAAGGAATC
193 CGT-CTTGAATACTTTAAGGAATC
* * * ** * *
29893225 AAAGTTATATAAGAAGTCGTAAAAGTTTGACAAGTACAGAAGTTCATCCAGGAACCAAGAGAGAA
1 GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTAGAAGTTCGTCCAAGAACCAAGAGAGAA
* * *
29893290 ACAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGTTTACAAAATAACAAATTAT
66 ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTAT
*
29893355 TTAGACAAAAT
131 TTAGACCAAAT
29893366 AATGCAATTC
Statistics
Matches: 867, Mismatches: 121, Indels: 30
0.85 0.12 0.03
Matches are distributed among these distances:
212 14 0.02
213 77 0.09
214 2 0.00
215 168 0.19
216 463 0.53
217 142 0.16
218 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (215 bp):
GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTAGAAGTTCGTCCAAGAACCAAGAGAGAA
ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTAT
TTAGACCAAATGATGAGATTTTTGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGAATCGT
CTTGAATACTTTAAGGAATC
Found at i:29893531 original size:172 final size:171
Alignment explanation
Indices: 29893215--29893541 Score: 474
Period size: 172 Copynumber: 1.9 Consensus size: 171
29893205 CTTGAATACA
* * * * *
29893215 TTAAGGAATCAAAGTTATATAAGAAGTCGTAAAAGTTTGACAAGTACAGAAGTTCATCCAGGAAC
1 TTAAGGAATCAAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTACAGAAGTTCATCCAAGAAA
* *
29893280 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGTTTACAAAAT
66 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTATTTACAAAAT
**
29893345 AACAAATTATTTAGACAAAATAATGCAATTCCCTGAGCATGT
131 AACAAACAATTTAGACAAAA-AATGCAATTCCCTGAGCATGT
* * * ** *
29893387 TTAAGGAATCAAAGTTATAAAAGAACTCATACAAGTTTGACAAGTTCGGAAGTTTGTCTAAGAAA
1 TTAAGGAATCAAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTACAGAAGTTCATCCAAGAAA
*
29893452 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAGCTTATTTACAAAAT
66 CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTATTTACAAAAT
** *
29893517 GTCAAACAATTTAGACCAAAAATGC
131 AACAAACAATTTAGACAAAAAATGC
29893542 GATTTCTCAA
Statistics
Matches: 136, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
171 5 0.04
172 131 0.96
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (171 bp):
TTAAGGAATCAAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTACAGAAGTTCATCCAAGAAA
CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTATTTACAAAAT
AACAAACAATTTAGACAAAAAATGCAATTCCCTGAGCATGT
Found at i:29894948 original size:50 final size:50
Alignment explanation
Indices: 29894837--29894980 Score: 148
Period size: 50 Copynumber: 2.8 Consensus size: 50
29894827 AACTAATGGA
* * *
29894837 TTACTAAATGCATGACT-TGATTTAATGATGTAAACTTTAACTAACATGGGAG
1 TTACTTAATGCATGA-TATGATTT-ATGATGCAAA-TTTAACTAACATGGAAG
* * * * *
29894889 TTACATAATGCATGATAGGATTTATGATGCATATTTAACTATCATGTAAG
1 TTACTTAATGCATGATATGATTTATGATGCAAATTTAACTAACATGGAAG
* *
29894939 TTACTTAATGCATG-TCATTATTTATGATGCAAACTTAACTAA
1 TTACTTAATGCATGAT-ATGATTTATGATGCAAATTTAACTAA
29894981 TGATGAGAGT
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
49 1 0.01
50 48 0.63
51 9 0.12
52 18 0.24
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.38
Consensus pattern (50 bp):
TTACTTAATGCATGATATGATTTATGATGCAAATTTAACTAACATGGAAG
Found at i:29895214 original size:16 final size:17
Alignment explanation
Indices: 29895187--29895218 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29895177 CAAACACTTA
29895187 TTAAACTAAAATTAAAC
1 TTAAACTAAAATTAAAC
29895204 TTAAA-TAAAATTAAA
1 TTAAACTAAAATTAAA
29895219 AAGTCCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAACTAAAATTAAAC
Found at i:29897623 original size:29 final size:29
Alignment explanation
Indices: 29897591--29897668 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 29
29897581 ATTTTTTTAA
29897591 TTCGAATTTTTTTCTTCTTTTTTTCAA-AC
1 TTCGAATTTTTTTCTT-TTTTTTTCAATAC
** *
29897620 TTCGAATTTTCTTT-GATTTTTTTCAATAT
1 TTCGAATTTT-TTTCTTTTTTTTTCAATAC
29897649 TTCGAA-TTTTTTCTTTTTTT
1 TTCGAATTTTTTTCTTTTTTT
29897669 ACTTTTCTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
27 3 0.07
28 18 0.44
29 17 0.41
30 3 0.07
ACGTcount: A:0.17, C:0.13, G:0.05, T:0.65
Consensus pattern (29 bp):
TTCGAATTTTTTTCTTTTTTTTTCAATAC
Found at i:29899104 original size:215 final size:216
Alignment explanation
Indices: 29898520--29899230 Score: 816
Period size: 213 Copynumber: 3.3 Consensus size: 216
29898510 CAAAAATGGC
* * * * * *
29898520 AAAAGTTTGACAAGTTTAGATGTTCATCCAAGAGCCAAGAGAGAAACAATTCTTACGTAAATAAG
1 AAAAGTTTGAAAAGTTCAGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAG
* * * * * * * *
29898585 TTTTTAATTCAAAAACCAAAACATGTTTACGAAATGGCAAACTATTTAGGCCATACGGTGAAATT
66 TTTTTAATTCAAAGACCAAAACATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCAATT
** * * *
29898650 TTACGAGCATGGAATGTTTGAAAAATT-CTCGAGC-AATGGATCGTCTTGAATACTTTAA-GTAC
131 TCCCGAGCAAGGAATGTTTGAAAAATTGCTCGAACGAATGGATCGTCTTGAATACTTTAAGGAAC
* *
29898712 CGAAGTTATAAAAGAACTTGT
196 CGAAGTTATAAAACAACTCGT
* *
29898733 AAAAGTTTGAAAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAG
1 AAAAGTTTGAAAAGTTCAGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAG
* * * *
29898798 TTTTTAATTGAAAGACCAAATCCTGTTTCCAAAATGACAAACTATTTAGACCAAATGATGCAATT
66 TTTTTAATTCAAAGACCAAAACATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCAATT
* * * *
29898863 TCCCGAGCAAGGAAATCTTCGAAAAATTGCTCGAACGAAT-GATCCTCTTCAATACTTTAAGGAA
131 TCCCGAGCAAGG-AATGTTTGAAAAATTGCTCGAACGAATGGATCGTCTTGAATACTTTAAGGAA
* *
29898927 TCGAAGTTATAGAACAACTCGT
195 CCGAAGTTATAAAACAACTCGT
* * ** *
29898949 AAAAGTTT-AAAATGTTCGGAAGTTCGTTTAAGAACAAAGAGAGAAACAGTTCTCACGTAAATAA
1 AAAAGTTTGAAAA-GTTCAGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAA
* * *
29899013 GTTTTTAACTCAAAGACCAAAACAT-TTTTCAAAATGACAAACTATTTAGACCAAATGATGCGAT
65 GTTTTTAATTCAAAGACCAAAACATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCAAT
* * * *
29899077 TTCCCGAGCAAGGAATGTTTGGAAAAATAGCTCAAAGGAATGGATCGTCATGAATACTTT-AGGA
130 TTCCCGAGCAAGGAATGTTT-GAAAAATTGCTCGAACGAATGGATCGTCTTGAATACTTTAAGGA
* *
29899141 GCCGAAGTTATAAAAAAACT--T
194 ACCGAAGTTATAAAACAACTCGT
* * * * * *
29899162 --AAGTTTGATAAGTTCAGATGTTCGTCCAAGAATC-AAGAGAGAAAAAAATTCTTACATAAATA
1 AAAAGTTTGAAAAGTTCAGAAGTTCATCCAAGAA-CAAAGAGAG-AAACAATTCTCACGTAAATA
29899224 AGTTTTT
64 AGTTTTT
29899231 GACAAGTTCG
Statistics
Matches: 423, Mismatches: 65, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
211 30 0.07
212 27 0.06
213 122 0.29
214 18 0.04
215 115 0.27
216 111 0.26
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (216 bp):
AAAAGTTTGAAAAGTTCAGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAG
TTTTTAATTCAAAGACCAAAACATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCAATT
TCCCGAGCAAGGAATGTTTGAAAAATTGCTCGAACGAATGGATCGTCTTGAATACTTTAAGGAAC
CGAAGTTATAAAACAACTCGT
Found at i:29899238 original size:63 final size:62
Alignment explanation
Indices: 29899165--29899292 Score: 166
Period size: 63 Copynumber: 2.0 Consensus size: 62
29899155 AAAACTTAAG
* * * * *
29899165 TTTGATAAGTTCAGATGTTCGTCCAAGAATCAAGAGAGAAAAAAATTCTTACATAAATAAGTT
1 TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAAAGAG-AAAAAATTCTCACATAAATAAGTT
* ** *
29899228 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAAAGAGAACCAATTCTCACGTAAATAAGTT
1 TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAAAGAGAAAAAATTCTCACATAAATAAGTT
29899290 TTT
1 TTT
29899293 AATTCAGCAA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
62 23 0.41
63 33 0.59
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (62 bp):
TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAAAGAGAAAAAATTCTCACATAAATAAGTT
Found at i:29899536 original size:277 final size:274
Alignment explanation
Indices: 29898962--29899569 Score: 825
Period size: 274 Copynumber: 2.2 Consensus size: 274
29898952 AGTTTAAAAT
** *
29898962 GTTCGGAAGTTCGTTTAAGAA-CAAAGAGAGAAACAGTTCTCACGTAAATAAGTTTTTAACTCAA
1 GTTCGGAAGTTCGTCCAAGAACCAAA-AGAGAAACAATTCTCACGTAAATAAGTTTTTAACTCAA
* * *
29899026 AGACCAAAACATTTTTCAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCAAGGA
65 AGACCAAAACATTTTTCAAAAAGACAAACTATTTAGACCAAATGATACGAGTTCCCGAGCAAGGA
** *
29899091 ATGTTTGGAAAAATAGCTCAAAGGAATGGATCGTCATGAATACTTTAGGAGCCGAAGTTATAAAA
130 ATGTTTCAAAAAATAGCTCAAAGGAATGGATCATCATGAATACTTTAGGAGCCGAAGTTATAAAA
* * *
29899156 AAACTTAAGTTTGATAAGTTCAGATGTTCGTCCAAGAATCAAGAGAGAAAAAAATTCTTACATAA
195 AAACTAAAGTTTGACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAAAAAATTCTTACATAA
29899221 ATAAGTTTTTGACAA
260 ATAAGTTTTTGACAA
* * *
29899236 GTTCGGAAGTTCGTCCAAGAACCAAAAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAGC
1 GTTCGGAAGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTTAACTCA-A
* * * * * *
29899301 A-ACCAAAAC-TTGTTTACAAAAAGACAAACTATTTATAGCAAATTATACTAGTTCTCGAGCATG
65 AGACCAAAACATT-TTT-CAAAAAGACAAACTATTTAGACCAAATGATACGAGTTCCCGAGCAAG
** *
29899364 GAATG-TTCAAAAAATTTCTCAAA-GAATGGATCATCTTGAATACTTTCAGG-GACCGAAGTTAT
128 GAATGTTTCAAAAAATAGCTCAAAGGAATGGATCATCATGAATACTTT-AGGAG-CCGAAGTTAT
* *
29899426 AAAAGAAATCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAG-AAACAATTC
191 AAAA-AAA-C-T-AAAGTTTGACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAAAAAATTC
29899490 TTACATAAATAAGTTTTTGACAA
252 TTACATAAATAAGTTTTTGACAA
* *
29899513 GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTT
1 GTTCGGAAGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTT
29899570 GACAAGTTCG
Statistics
Matches: 295, Mismatches: 29, Indels: 17
0.87 0.09 0.05
Matches are distributed among these distances:
273 24 0.08
274 95 0.32
275 51 0.17
276 1 0.00
277 86 0.29
278 38 0.13
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (274 bp):
GTTCGGAAGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTTAACTCAAA
GACCAAAACATTTTTCAAAAAGACAAACTATTTAGACCAAATGATACGAGTTCCCGAGCAAGGAA
TGTTTCAAAAAATAGCTCAAAGGAATGGATCATCATGAATACTTTAGGAGCCGAAGTTATAAAAA
AACTAAAGTTTGACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAAAAAATTCTTACATAAA
TAAGTTTTTGACAA
Found at i:29899618 original size:62 final size:62
Alignment explanation
Indices: 29899443--29899621 Score: 295
Period size: 62 Copynumber: 2.9 Consensus size: 62
29899433 ATCGTAAAAG
* * *
29899443 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
*
29899505 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * *
29899567 TTTGACAAGTTCGAAAGTTTGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAA
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
29899622 TATAGATTTT
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 109 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (62 bp):
TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:29899877 original size:339 final size:339
Alignment explanation
Indices: 29899165--29900183 Score: 1380
Period size: 339 Copynumber: 3.0 Consensus size: 339
29899155 AAAACTTAAG
* * * * * *
29899165 TTTGATAAGTTCAGATGTTCGTCCAAGAATCAAGAGAGAAAAAAATTCTTACATAAATAAGTTTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAG-AAACAATTCTCACGTAAATAAGTTTT
*
29899230 TGACAAGTTCGGAAGTTCGTCCAAGAACCAAAAGAGAACCAATTCTCACGTAA-ATA-AGTTTTT
65 TGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAATATAGA-TTTTT
* * * * * *
29899293 AATTC-AGCAACCAAAACTTGTTTACAAAAAGACAAACTATTTATAGCAAATTATACTAGTTCTC
129 AATTCAAG-GACCAAAACTTGTTTAC-AAAAGACAAACTATTTACACCAAATTATGCGATTTCTC
* *
29899357 GAGCATGGAATGTTCAAAAAATTTCTCAAAGAATGGATCATCTTGAATACTTTCAGGGACCGAAG
192 GAGCATGGAATGTTCGAAAAATTTCTCAAAGAATGGATCATCTTGAATACTTTCAGGAACCGAAG
*
29899422 TTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAA
257 TTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGAATGTTCGTCCAAGAACCAAGAGAGAAACAA
*
29899487 TTCTTACATAAATAAGTT
322 TTCTTACGTAAATAAGTT
* *
29899505 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* *
29899570 GACAAGTTCGAAAGTTTGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAATATAGATTTTTAA
66 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAATATAGATTTTTAA
* *
29899635 TTCAAGGACCAAAACTTGTTTACAGAAAGACAAACAATTTAGACCAAATTATGCGATTTCTCGAG
131 TTCAAGGACCAAAACTTGTTTACA-AAAGACAAACTATTTACACCAAATTATGCGATTTCTCGAG
* *
29899700 CATGGAATCTTCGAAAAATTACTCGAAAGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTT
195 CATGGAATGTTCGAAAAATTTCTC-AAAGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTT
*
29899765 AT-AAAGAAATCGTAAAAGTTTGACAAGTTCGAATGTTCGT-CAAGAATCAAGAGAGAAACAATT
259 ATAAAAGAAATCGTAAAAGTTTGACAAGTTCGAATGTTCGTCCAAGAACCAAGAGAGAAACAATT
*
29899828 CTTATGTAAATAAGTT
324 CTTACGTAAATAAGTT
* *
29899844 TTTGACAAGTTTGGATGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * *
29899908 GACAAGTTTGGAAGTTCGTCTAAGAACCAAGAGAGAAACAATTCTTACGTAACTA-AG-TTATTA
66 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAA-TATAGATTTTTA
* * * * *
29899971 ATT-AACAGCCCAAAAC-TGTTTACAAAATGACAAACTATTTTCACCAAATGATGTGATTTCTCG
130 ATTCAA-GGACCAAAACTTGTTTACAAAA-GACAAACTATTTACACCAAATTATGCGATTTCTCG
* * * * * *
29900034 AGCATGGAATGTTTG-GAAATTTGTACAAAGGAATGGATCGTCTTGAATACTTTAAGGAA-CTAA
193 AGCATGGAATGTTCGAAAAATTTCT-CAAA-GAATGGATCATCTTGAATACTTTCAGGAACCGAA
* * * *
29900097 GTTATAAAAGAAACTCGTGAAAGTTTGACAAGATCGAAAGTTCATCCAAGAACCAAGAGAGAAAC
256 GTTATAAAAGAAA-TCGTAAAAGTTTGACAAGTTCGAATGTTCGTCCAAGAACCAAGAGAGAAAC
* *
29900162 AA-TCTCACGTAAATAAGGT
320 AATTCTTACGTAAATAAGTT
29900181 TTT
1 TTT
29900184 AATTTAAAGA
Statistics
Matches: 606, Mismatches: 60, Indels: 29
0.87 0.09 0.04
Matches are distributed among these distances:
335 20 0.03
336 88 0.15
337 60 0.10
338 72 0.12
339 167 0.28
340 155 0.26
341 44 0.07
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (339 bp):
TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAATATAGATTTTTAA
TTCAAGGACCAAAACTTGTTTACAAAAGACAAACTATTTACACCAAATTATGCGATTTCTCGAGC
ATGGAATGTTCGAAAAATTTCTCAAAGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTTAT
AAAAGAAATCGTAAAAGTTTGACAAGTTCGAATGTTCGTCCAAGAACCAAGAGAGAAACAATTCT
TACGTAAATAAGTT
Found at i:29899883 original size:62 final size:62
Alignment explanation
Indices: 29899783--29899966 Score: 273
Period size: 61 Copynumber: 3.0 Consensus size: 62
29899773 ATCGTAAAAG
* * * *
29899783 TTTGACAAGTTCGAATGTTCGT-CAAGAATCAAGAGAGAAACAATTCTTATGTAAATAAGTT
1 TTTGACAAGTTTGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTT
* *
29899844 TTTGACAAGTTTGGATGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-T
1 TTTGACAAGTTTGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTT
* * *
29899905 TTTGACAAGTTTGGAAGTTCGTCTAAGAACCAAGAGAGAAACAATTCTTACGTAACTAAGTT
1 TTTGACAAGTTTGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTT
29899967 ATTAATTAAC
Statistics
Matches: 110, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
61 75 0.68
62 35 0.32
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (62 bp):
TTTGACAAGTTTGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTT
Found at i:29900649 original size:62 final size:62
Alignment explanation
Indices: 29900552--29900740 Score: 281
Period size: 62 Copynumber: 3.0 Consensus size: 62
29900542 ATTGTAAAAG
* * *
29900552 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * * *
29900614 TTTGACAAGTTCGGAAGTTCATCCAAGAACTAAGAGAGAAACAATAT-TCACGTGAATAAGTC
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAAT-TCTCACGTAAATAAGTT
* *
29900676 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
29900738 TTT
1 TTT
29900741 AATTCAGCGG
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
61 1 0.01
62 110 0.98
63 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (62 bp):
TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:29900982 original size:339 final size:340
Alignment explanation
Indices: 29900345--29901636 Score: 1798
Period size: 339 Copynumber: 3.8 Consensus size: 340
29900335 AGTTTAAAAT
* * * * *
29900345 GTTCGGAAGTTCGTCTAAGAACAAAGAGAGAAACCAGTTCTCAAGTAAATAAGTTTTTTATTCAA
1 GTTCGGAAGTTCGTCCAAGAACCAAGAGAG-AACCAATTCTCACGTAAATAAGTTTTTAATTCAA
* * * *
29900410 AGACCAAAACATT-TTT-CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCAAG
65 CGACCAAAAC-TTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATG
* * * ** *
29900473 GAATGTTTGGAAAATAGCTCGAAGGAATGGATCGCCATGAATACTTTCAGGAACCGAAGTTATAA
129 GAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTTATAA
* *
29900538 AA-AAATTGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTA
194 AAGAAATCGTAAAAGTTTGACAAGTTCGAATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTA
*
29900602 CA-TAAATAAGTTTTTGACAAGTTCGGAAGTTCATCCAAGAACTAAGAGAGAAACAATATTCACG
259 CAGTAAATAAGTTTTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAACAATATTCACG
*
29900666 TGAATAAGTCTTTGACAA
324 TTAATAAGT-TTTGACAA
* *
29900684 GTTCGAAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAGC
1 GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAAC
* *
29900749 GGCCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATTATGCGATTTCTCGAGCATGGA
66 GACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGA
*
29900814 ATGTTCGAAAAATTGCTC-AATGGAATGGATCATCTTGAATACTTTCAGGAACTGAAGTTATAAA
131 ATGTTCGAAAAATTGCTCGAA-GGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTTATAAA
* * *
29900878 AGAAGTCGTAAAAGTTTGATAAGTTCGAATGTTCGTCTAAGAACCAAGAGAGAAACAATTCTTAC
195 AGAAATCGTAAAAGTTTGACAAGTTCGAATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTAC
*
29900943 AG-AAATAAGTTTTTGACAAGTTCGGAAGTTCGT-CAAGAACTAAGAGAGAAACAATACTCACGT
260 AGTAAATAAGTTTTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAACAATATTCACGT
29901006 TAATAAGTTTTTGACAA
325 TAATAAG-TTTTGACAA
*
29901023 GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAAGTCAAC
1 GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAAC
* * * *
29901088 GACC-AAACTTGTTTACAGAAAGACAAACAATTTAGACCAAATTATGCGATTTCTCGAGCAGGGA
66 GACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGA
* * *
29901152 ATCTTCGAAAAATTACTCGAAAGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTTATAAAA
131 ATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTTATAAAA
* * *
29901217 GAAATTGTAAAAGTTTGACAAGTTCGAATGTTAGTCCAAGAACCAAGAGAGAAACAATTCTTA-T
196 GAAATCGTAAAAGTTTGACAAGTTCGAATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACA
* * * *
29901281 GTAAATAAGTTTTTGACAAGTTTGGATGTTTGTCCAAGAACCAAGAGAGAAACAAT-TCTCACGT
261 GTAAATAAGTTTTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAACAATAT-TCACGT
29901345 AATAATAAGTTTTGGACAA
325 --TAATAAGTTTT-GACAA
* * * * *
29901364 GTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAACTAAGTTATTAATT-AAC
1 GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAAC
* * ** *
29901428 AGCCCAAAACTTGTTTACAAAATGACAAACTATTTTCACCAAATGATGTGATTTCTCGAGCATGG
66 -GACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGG
* * * * * * * *
29901493 AATGTTTGGAAATTTGCACAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTAAGTTATAAA
130 AATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTTATAAA
* * * * * *
29901558 AGAACTCGTGAAAGTTTGACAAGATCGAAAGTTCGTCCCAGAACCAAGAGAGAAACAATTCTCAC
195 AGAAATCGTAAAAGTTTGACAAGTTCGAATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTAC
*
29901623 -GTAAATAAGGTTTT
260 AGTAAATAAGTTTTT
29901637 AATTTAAAGA
Statistics
Matches: 852, Mismatches: 85, Indels: 29
0.88 0.09 0.03
Matches are distributed among these distances:
337 3 0.00
338 244 0.29
339 264 0.31
340 97 0.11
341 70 0.08
342 174 0.20
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (340 bp):
GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAAC
GACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGA
ATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTTATAAAA
GAAATCGTAAAAGTTTGACAAGTTCGAATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACA
GTAAATAAGTTTTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAACAATATTCACGTT
AATAAGTTTTGACAA
Found at i:29901073 original size:62 final size:62
Alignment explanation
Indices: 29900892--29901079 Score: 274
Period size: 62 Copynumber: 3.0 Consensus size: 62
29900882 GTCGTAAAAG
* * *
29900892 TTTGATAAGTTC-GAATGTTCGTCTAAGAACCAAGAGAGAAACAATTCTTACAG-AAATAAGTT
1 TTTGACAAGTTCGGAA-GTTCGTCCAAGAACCAAGAGAGAAACAATTCTCAC-GTAAATAAGTT
* * *
29900954 TTTGACAAGTTCGGAAGTTCGT-CAAGAACTAAGAGAGAAACAATACTCACGTTAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
*
29901015 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
29901077 TTT
1 TTT
29901080 AAGTCAACGA
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
60 1 0.01
61 54 0.48
62 55 0.49
63 3 0.03
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (62 bp):
TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:29901327 original size:62 final size:62
Alignment explanation
Indices: 29901230--29901417 Score: 277
Period size: 64 Copynumber: 3.0 Consensus size: 62
29901220 ATTGTAAAAG
* * *
29901230 TTTGACAAGTTCGAATGTTAGTCCAAGAACCAAGAGAGAAACAATTCTTATGTAAATAAGTT
1 TTTGACAAGTTTGGATGTTAGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTT
* *
29901292 TTTGACAAGTTTGGATGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAATAATAAGTT
1 TTTGACAAGTTTGGATGTTAGTCCAAGAACCAAGAGAGAAACAATTCTTACGT-A-AATAAGTT
* * * *
29901356 TTGGACAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAACTAAGTT
1 TTTGACAAGTTTGGATGTTAGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTT
29901418 ATTAATTAAC
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
62 55 0.48
63 2 0.02
64 57 0.50
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (62 bp):
TTTGACAAGTTTGGATGTTAGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTT
Found at i:29901987 original size:217 final size:216
Alignment explanation
Indices: 29901368--29901995 Score: 784
Period size: 216 Copynumber: 2.9 Consensus size: 216
29901358 GGACAAGTTT
* * * * *
29901368 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAACTAAGTTATTAATTAACAGCCC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTAAAAGACC
** * * *
29901433 AAAACTTGTTTACAAAATGACAAACTATTTTCACCAAATGATGTGATTTCTCGAGCATGGAATGT
66 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCAGGGAATGT
* * * * *
29901498 TTGG-AAATTTGCACAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTAAGTTATAAAAGAA
131 TTGGAAAAATAGC-CGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAACAA
* * *
29901562 CTCGTGAAAGTTTGACAAGATC
195 CTCGTAAAACTTTGAAAAGATC
* * * *
29901584 GAAAGTTCGTCCCAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGGTTTTAATTTAAAGACC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTAAAAGACC
* *
29901649 AAAACTTGTTTACAAAATGACAAACTATTTAGA-CAAATGATGCGATATCCCGAGCATGGAAAT-
66 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCA-GGGAATG
* * * * * *
29901712 CTTCGAAAAACTGGCCGAAGGAATGGATCGTCTTTAATACTTTAAGGAATCAAAGTTATAGAACA
130 TTTGGAAAAA-TAGCCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAACA
*
29901777 ACTCGTAAAACTTT-AAAATGTTC
194 ACTCGTAAAACTTTGAAAA-GATC
* * * * * *
29901800 GGAAGTTCATCTAAGAACAAAGAGAGAAACAGTTCTCATGTAAATAAGTTTTTAACTCAAAAGAC
1 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA-TTAAAAGAC
29901865 CAAAACATT-TTT-CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCAGGGAAT
65 CAAAAC-TTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCAGGGAAT
* * *
29901928 GTTTGGAAAAATAGCTCGAAGGAATGGATCGTCATGAATACTTTCAGGAACCGAAGTTATAAAA-
129 GTTTGGAAAAATAGC-CGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAC
29901992 AACT
193 AACT
29901996 TAAAAGTTTG
Statistics
Matches: 352, Mismatches: 51, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
215 26 0.07
216 233 0.66
217 91 0.26
218 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (216 bp):
GGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTAAAAGACC
AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCAGGGAATGT
TTGGAAAAATAGCCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAACAAC
TCGTAAAACTTTGAAAAGATC
Found at i:29902101 original size:63 final size:62
Alignment explanation
Indices: 29902033--29902156 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
29902023 TCCAGAAATC
* *
29902033 AAGAGAGAAAAAAATTCTTACATAAATAAGTTTTT-GACAAGTTCGGAAGTTCGTCCAAGAACT
1 AAGAGAG-AAAAAATACTCACATAAATAA-TTTTTCGACAAGTTCGGAAGTTCGTCCAAGAACT
* * * *
29902096 AAGAGAGAAACAATACTCACGTGAATAATTTTTCGAGAAGTTCGGAAGTTCGTCCAAGAAC
1 AAGAGAGAAAAAATACTCACATAAATAATTTTTCGACAAGTTCGGAAGTTCGTCCAAGAAC
29902157 ACGTAAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
61 5 0.09
62 42 0.78
63 7 0.13
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (62 bp):
AAGAGAGAAAAAATACTCACATAAATAATTTTTCGACAAGTTCGGAAGTTCGTCCAAGAACT
Found at i:29902420 original size:318 final size:321
Alignment explanation
Indices: 29901839--29902447 Score: 777
Period size: 318 Copynumber: 1.9 Consensus size: 321
29901829 CAGTTCTCAT
*
29901839 GTAAATAAGTTTTTAACTCAAAAGACCAAAACATTTTTCAAAATGACAAACTATTTAGACCAAAT
1 GTAAATAAGTTTTTAACTCAAAAGACCAAAACATTTTTCAAAATGACAAAATATTTAGACCAAAT
** * * * *
29901904 GATGCGATTTCCCGAGCAGGGAATGTTTGGAAAAATAGCTCGAAGGAATGGATCGTCATGAATAC
66 GATGCGATTTCCCGAGCAGGGAATGTTTCAAAAAATAGCTCAAAGAAACGGATCATCATGAATAC
* * * * *
29901969 TTTCAGGAACCGAAGTTATAAAAAACTTAAAAGTTTGATTAGTTTAGATGTTCATCCAGAAATCA
131 TTTCAGGAACCGAAGTTATAAAAAACATAAAAGTTTGATAAGTTCAAATGTTCATCCAGAAACCA
* * * * *
29902034 AGAGAGAAAAAAATTCTTACATAAATAAGTTTTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAG
196 AGAGAGAAAAAAACTCATACATAAATAAGTTTTTGACAAGTTCGAAAGTTCGTCCAAAAACCAAG
*
29902099 AGAGAAACAATACTCACGTGAATAA-TTTTTCGAGAAGTTCGGAAGTTCGTCCAAGAACAC
261 AGAGAAACAATACTCACGTAAATAAGTTTTTCGAGAAGTTCGGAAGTTCGTCCAAGAACAC
* **
29902159 GTAAATAAGTTTTTAATTC-AGCGACCAAAAC-TTCTTTACAAAA-GACAAAATATTTAGACCAA
1 GTAAATAAGTTTTTAACTCAAAAGACCAAAACATT-TTT-CAAAATGACAAAATATTTAGACCAA
* * * * * *
29902221 ATTATGCTATTTCTCGAGCATGGAATG-TTCAAAAAATTGCTCAAAGAAACGGATCATCTTGAAT
64 ATGATGCGATTTCCCGAGCAGGGAATGTTTCAAAAAATAGCTCAAAGAAACGGATCATCATGAAT
* *
29902285 ACTTTCAGGAACCGAAGTTATAAAAGAAATCATACAAGTTTGATAAGTTCAAATGTTCGTCCAG-
129 ACTTTCAGGAACCGAAGTTAT-AAA-AAA-CATAAAAGTTTGATAAGTTCAAATGTTCATCCAGA
* ** *
29902349 AACCAAGAGAGAAACAATACTCATGTA-AAAT-A-TTTTTGACAAGTTCGAAAGTTCGTTCAAAA
191 AACCAAGAGAGAAA-AAAACTCATACATAAATAAGTTTTTGACAAGTTCGAAAGTTCGTCCAAAA
* * *
29902411 ACCAAGAGAGAACCAATTCTTACGTAAATAAGTTTTT
255 ACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTT
29902448 TAATTTAAGG
Statistics
Matches: 246, Mismatches: 36, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
318 105 0.43
319 63 0.26
320 43 0.17
321 35 0.14
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (321 bp):
GTAAATAAGTTTTTAACTCAAAAGACCAAAACATTTTTCAAAATGACAAAATATTTAGACCAAAT
GATGCGATTTCCCGAGCAGGGAATGTTTCAAAAAATAGCTCAAAGAAACGGATCATCATGAATAC
TTTCAGGAACCGAAGTTATAAAAAACATAAAAGTTTGATAAGTTCAAATGTTCATCCAGAAACCA
AGAGAGAAAAAAACTCATACATAAATAAGTTTTTGACAAGTTCGAAAGTTCGTCCAAAAACCAAG
AGAGAAACAATACTCACGTAAATAAGTTTTTCGAGAAGTTCGGAAGTTCGTCCAAGAACAC
Found at i:29902440 original size:60 final size:60
Alignment explanation
Indices: 29902323--29902438 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 60
29902313 ATCATACAAG
* * * *
29902323 TTTGATAAGTTCAAATGTTCGTCCAGAACCAAGAGAGAAACAATACTCATGTAAAATATT
1 TTTGACAAGTTCAAATGTTCGTCAAAAACCAAGAGAGAAACAATACTCACGTAAAATATT
* * *
29902383 TTTGACAAGTTCGAAA-GTTCGTTCAAAAACCAAGAGAGAACCAATTCTTACGTAAA
1 TTTGACAAGTTC-AAATGTTCG-TCAAAAACCAAGAGAGAAACAATACTCACGTAAA
29902439 TAAGTTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
60 16 0.34
61 31 0.66
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (60 bp):
TTTGACAAGTTCAAATGTTCGTCAAAAACCAAGAGAGAAACAATACTCACGTAAAATATT
Found at i:29902670 original size:62 final size:62
Alignment explanation
Indices: 29902599--29902849 Score: 358
Period size: 62 Copynumber: 4.0 Consensus size: 62
29902589 ATCGTAAAAG
* * *
29902599 TTTGACAAGTTTGGATGTTCGTCCAAGAACTAAGAGAGAAACAATTCTTACGTAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTT
* ** * *
29902661 TTTGACAAGTTTGGGTGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGAAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * * * *
29902723 TTTGACAAGTTCAGAAATTCGTCCAAGAACTAAGAGCGAAACAATACTCACGTGAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * *
29902785 TTTGACAAGTTCGAAAGTACGTCCAAGAACTAAGAGAGAACCAATTCTCACGTAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTT
29902847 TTT
1 TTT
29902850 AATTCAGCGA
Statistics
Matches: 167, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 167 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (62 bp):
TTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:29903084 original size:62 final size:62
Alignment explanation
Indices: 29903007--29903189 Score: 235
Period size: 62 Copynumber: 3.0 Consensus size: 62
29902997 AAAGTTTGAT
* * * *
29903007 AAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAATAATTCTTACATAAATAAATTTTTAAC
1 AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACATAAATAAATTTTTAAC
* * *
29903069 AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGAC
1 AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACATAAATAAATTTTTAAC
* * * *
29903131 AAGTTTC-AAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCATC-TAAATAAGTTTTT
1 AAG-TTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCA-CATAAATAAATTTTT
29903190 TAATTCAAGG
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
62 105 0.96
63 4 0.04
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (62 bp):
AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACATAAATAAATTTTTAAC
Found at i:29903102 original size:402 final size:400
Alignment explanation
Indices: 29902323--29903189 Score: 1242
Period size: 402 Copynumber: 2.2 Consensus size: 400
29902313 ATCATACAAG
* * *
29902323 TTTGATAAGTTCAAATGTTCGTCC-AGAACCAAGAGAGAAACAATACTCATGTAA-AATATTTTT
1 TTTGACAAGTTCAAA-GTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAATAA-GTTTTT
* * *
29902386 GACAAGTTCGAAAGTTCGTTCAAAAACCAAGAGAGAACCAATTCTTACGTAAATAAGTTTTTTAA
64 GACAAGTTCGAAAGTACGTCCAAAAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTTAA
* *
29902451 TTTAAGGACGAAAACTTGTTTACAAAAGGACAAACTATTTAGACAAAATTATGCAATTTCCCGAG
129 TTTAAGGACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACAAAATTATGCAATTTCCCGAG
* * * * * *
29902516 CATGGAGTGTTCGAAAAATTGCTCGAAGAATGGATCATCTTGAATACTTTAAGAAACTGAAGTTA
194 CATGAAATGTTCAAAAAAATGCTCAAAGAATGGATCATCTTGAATACTTTAAGAAACCGAAGTTA
* * *
29902581 TATAAGAAATCGTAAAAGTTTGACAAGTTTGGATGTTCGTCCAAGAACTAAGAGAGAAACAATTC
259 TAAAAGAAATCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTC
* * * * ** *
29902646 TTACGTAAATAAGTTTTTGACAAGTTTGGGTGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCA
324 TTACATAAATAAATTTTTAACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCA
29902711 CGAAAATAAGTT
389 CGAAAATAAGTT
* * *
29902723 TTTGACAAGTTCAGAAATTCGTCCAAGAACTAAGAGCGAAACAATACTCACGTGAATAAGTTTTT
1 TTTGACAAGTTCA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGT-AATAAGTTTTT
* *
29902788 GACAAGTTCGAAAGTACGTCCAAGAACTAAGAGAGAACCAATTCTCACGTAAATAAG-TTTTTAA
64 GACAAGTTCGAAAGTACGTCCAAAAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTTAA
* * *
29902852 -TTCAGCGACCAAAACTTGTTTACAAAAAGACAAACTATTTAGATC-AAATTATGCGATTTCTCG
129 TTTAAG-GACCAAAACTTGTTTACAAAAAGACAAACTATTTAGA-CAAAATTATGCAATTTCCCG
* * *
29902915 AGCATGAAATGTTCAAAAAAATGCTCAAAGGAATGGATCGTCTTGAATACTTTTAGGAACCGAAG
192 AGCATGAAATGTTCAAAAAAATGCTCAAA-GAATGGATCATCTTGAATACTTTAAGAAACCGAAG
* *
29902980 TTATAAAAGAAATCGTAAAAGTTTGATAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAATAA
256 TTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAA
29903045 TTCTTACATAAATAAATTTTTAACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATAC
321 TTCTTACATAAATAAATTTTTAACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATAC
*
29903110 TCACGTAAATAAGTT
386 TCACGAAAATAAGTT
* *
29903125 TTTGACAAGTTTCAAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCATC-TAAATAAGTTTT
1 TTTGACAAG-TTCAAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCA-CGT-AATAAGTTTT
29903189 T
63 T
29903190 TAATTCAAGG
Statistics
Matches: 414, Mismatches: 44, Indels: 16
0.87 0.09 0.03
Matches are distributed among these distances:
400 23 0.06
401 109 0.26
402 275 0.66
403 7 0.02
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (400 bp):
TTTGACAAGTTCAAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAATAAGTTTTTGA
CAAGTTCGAAAGTACGTCCAAAAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTTAATT
TAAGGACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACAAAATTATGCAATTTCCCGAGCA
TGAAATGTTCAAAAAAATGCTCAAAGAATGGATCATCTTGAATACTTTAAGAAACCGAAGTTATA
AAAGAAATCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTT
ACATAAATAAATTTTTAACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACG
AAAATAAGTT
Found at i:29903301 original size:340 final size:340
Alignment explanation
Indices: 29902661--29903529 Score: 1325
Period size: 340 Copynumber: 2.6 Consensus size: 340
29902651 TAAATAAGTT
* * *
29902661 TTTGACAAGTTTGGGTGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGA-AAATAAGTTTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTAC-ATAAATAAGTTTT
* * * * *
29902725 TGACAAGTTCAGAAATTCGTCCAAGAACTAAGAGCGAAACAATACTCACGTGAATAAGTTTTTGA
65 TGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGA
*
29902790 CAAGTTCGAAAGTACGTCCAAGAACTAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTC
130 CAAGTTCGAAAGTTCGTCCAAGAACTAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTC
* * *
29902855 AGCGACCAAAACTTGTTTACAAAAAGACAAACTATTTAGATCAAATTATGCGATTTCTCGAGCAT
195 AGCGACCAAAACTTGTTTACAAAAAGAAAAACTATTTAGACCAAATTATGCGATTTCCCGAGCAT
* *
29902920 GAAATGTTCAAAAAAATGCTCAAAGGAATGGATCGTCTTGAATACTTTTAGGAACCGAAGTTATA
260 GAAATGTTCAAAAAAATGCTCAAAGGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTTATA
29902985 AAAGAAATCGTAAAAG
325 AAAGAAATCGTAAAAG
* * *
29903001 TTTGATAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAATAATTCTTACATAAATAAATTTTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTT
*
29903066 AACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGAC
66 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGAC
*
29903131 AAGTTTC-AAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCATC-TAAATAAGTTTTTTAAT
131 AAG-TTCGAAAGTTCGTCCAAGAACTAAGAGAGAACCAATTCTCA-CGTAAATAAG-TTTTTAAT
* *
29903194 TCAAG-GACCAAAACTTTTTTACAGAAAGAAAAACTATTTAGACCAAATTATGCGATTTCCCGAG
193 TC-AGCGACCAAAACTTGTTTACAAAAAGAAAAACTATTTAGACCAAATTATGCGATTTCCCGAG
* * * * *
29903258 CATGGAATGTTCGAAAAATTGCTCGAA-GAATGGATCATCTTGAATACTTTCAGGAATCGAAGTT
257 CATGAAATGTTCAAAAAAATGCTCAAAGGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTT
29903322 ATAAAAGAAATCGTAAAAG
322 ATAAAAGAAATCGTAAAAG
*
29903341 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTT
** * * *
29903406 GACAAGTTCGGGTGTTCGTCCAAGAACCAAGACAGAAACAATTCTCACGAAAATAAGTTTTTGAC
66 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGAC
* * * * *
29903471 AAGTTCGAAAATTCGTCCAAGAACTAAGAGAGAAACAATACTCACGTGAACAAGTTTTT
131 AAGTTCGAAAGTTCGTCCAAGAACTAAGAGAGAACCAATTCTCACGTAAATAAGTTTTT
29903530 GAAAAATTCG
Statistics
Matches: 480, Mismatches: 42, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
339 10 0.02
340 377 0.79
341 91 0.19
342 2 0.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (340 bp):
TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTT
GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGAC
AAGTTCGAAAGTTCGTCCAAGAACTAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCA
GCGACCAAAACTTGTTTACAAAAAGAAAAACTATTTAGACCAAATTATGCGATTTCCCGAGCATG
AAATGTTCAAAAAAATGCTCAAAGGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTTATAA
AAGAAATCGTAAAAG
Found at i:29903415 original size:402 final size:402
Alignment explanation
Indices: 29903001--29903987 Score: 1540
Period size: 402 Copynumber: 2.5 Consensus size: 402
29902991 ATCGTAAAAG
* * *
29903001 TTTGATAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAATAATTCTTACATAAATAAATTTTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTT
*
29903066 AACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGAC
66 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGAC
*
29903131 AAGTTTCAAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCATC-TAAATAAGTTTTTTAATT
131 AAGTTTCGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCA-CGTAAATAAG-TTTTTAATT
* *
29903195 CAAG-GACCAAAACTTTTTTACAGAAAGAAAAACTATTTAGACCAAATTATGCGATTTCCCGAGC
194 C-AGCGACCAAAACTTGTTTACAAAAAGAAAAACTATTTAGACCAAATTATGCGATTTCCCGAGC
* * *
29903259 ATGGAATGTTCGAAAAATTGCTCGAA-GAATGGATCATCTTGAATACTTTCAGGAATCGAAGTTA
258 ATGGAATGTCCAAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTCAGGAATCGAAGTTA
29903323 TAAAAGAAATCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTC
323 TAAAAGAAATCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTC
*
29903388 TTACGTAAATAAGTT
388 TTACATAAATAAGTT
* * *
29903403 TTTGACAAGTTCGGGTGTTCGTCCAAGAACCAAGACAGAAACAATTCTCACGA-AAATAAGTTTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTAC-ATAAATAAGTTTT
* * * * *
29903467 TGACAAGTTCGAAAATTCGTCCAAGAACTAAGAGAGAAACAATACTCACGTGAACAAGTTTTTGA
65 TGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGA
**
29903532 -AAAATTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAATATAAG-TTTTAAT
130 CAAGTTTC-GAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAA-ATAAGTTTTTAAT
* *
29903595 TCAGCGACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATTATGCGATTTCTCGAGC
193 TCAGCGACCAAAACTTGTTTACAAAAAGAAAAACTATTTAGACCAAATTATGCGATTTCCCGAGC
29903660 ATGGAATGTCCAAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTCAGGAATCGAAGTTA
258 ATGGAATGTCCAAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTCAGGAATCGAAGTTA
* * * *
29903725 TAAAAGATATCGTAAAAGTTTGATAAGTTCGGATGTTCGTCCATGAACCAAGAGAGAAATAATTC
323 TAAAAGAAATCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTC
29903790 TTACATAAATAAGTT
388 TTACATAAATAAGTT
* * *
29903805 TTTCACAAGTTCGGATGTTCCTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTT
* * *
29903870 GACAAGTTCGG-TGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTCTGAC
66 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGAC
* * *
29903934 AAGTTTGGAAGTTCATCCAAGAACC-AGAGAGAAACAATTCTCACGTAAATAAGT
131 AAGTTTCGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGT
29903988 GTTTGACAAG
Statistics
Matches: 530, Mismatches: 46, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
399 5 0.01
400 24 0.05
401 156 0.29
402 339 0.64
403 6 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (402 bp):
TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTT
GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGAC
AAGTTTCGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCA
GCGACCAAAACTTGTTTACAAAAAGAAAAACTATTTAGACCAAATTATGCGATTTCCCGAGCATG
GAATGTCCAAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTCAGGAATCGAAGTTATAA
AAGAAATCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTA
CATAAATAAGTT
Found at i:29903443 original size:62 final size:62
Alignment explanation
Indices: 29903341--29903591 Score: 358
Period size: 62 Copynumber: 4.0 Consensus size: 62
29903331 ATCGTAAAAG
* *
29903341 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
** * *
29903403 TTTGACAAGTTCGGGTGTTCGTCCAAGAACCAAGACAGAAACAATTCTCACGAAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * * * * *
29903465 TTTGACAAGTTCGAAAATTCGTCCAAGAACTAAGAGAGAAACAATACTCACGTGAACAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * *
29903527 TTTGAAAAATTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAATATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA-ATAAGTT
29903590 TT
1 TT
29903592 AATTCAGCGA
Statistics
Matches: 165, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
62 157 0.95
63 8 0.05
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (62 bp):
TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:29903815 original size:742 final size:741
Alignment explanation
Indices: 29902339--29903928 Score: 2656
Period size: 742 Copynumber: 2.1 Consensus size: 741
29902329 AAGTTCAAAT
*
29902339 GTTCGTCC-AGAACCAAGAGAGAAACAATACTCATGTAAA-ATA-TTTTTGACAAGTTCGAAAGT
1 GTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATA-AGTTTTTGACAAGTTC-AAAGT
* * * * *
29902401 TCGTTCAAAAACCAAGAGAGAACCAATTCTTACGTAAATAAGTTTTTTAATTTAAGGACGAAAAC
64 TCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTTAATTCAAGGACCAAAAC
* *
29902466 TTGTTTACAAAAGGACAAACTATTTAGACAAAATTATGCAATTTCCCGAGCATGGAGTGTTCGAA
129 TTGTTTACAAAAGGAAAAACTATTTAGACAAAATTATGCAATTTCCCGAGCATGGAATGTTCGAA
*
29902531 AAATTGCTCGAAGAATGGATCATCTTGAATACTTTAAGAAACTGAAGTTATATAAGAAATCGTAA
194 AAATTGCTCGAAGAATGGATCATCTTGAATACTTTAAGAAACTGAAGTTATAAAAGAAATCGTAA
* *
29902596 AAGTTTGACAAGTTTGGATGTTCGTCCAAGAACTAAGAGAGAAACAATTCTTACGTAAATAAGTT
259 AAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTT
* *
29902661 TTTGACAAGTTTGGGTGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGAAAATAAGTTTTT
324 TTTGACAAGTTCGGGTGTTCGTCCAAGAACCAAGACAGAAACAATTCTCACGAAAATAAGTTTTT
* * *
29902726 GACAAGTTCAGAAATTCGTCCAAGAACTAAGAGCGAAACAATACTCACGTGAATAAGTTTTTGAC
389 GACAAGTTCAGAAATTCGTCCAAGAACTAAGAGAGAAACAATACTCACGTGAACAAGTTTTTGAA
* *
29902791 AAGTTCGAAAGTACGTCCAAGAACTAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCA
454 AAATTCGAAAGTACGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCA
*
29902856 GCGACCAAAACTTGTTTACAAAAAGACAAACTATTTAGATCAAATTATGCGATTTCTCGAGCATG
519 GCGACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATTATGCGATTTCTCGAGCATG
* * *
29902921 AAATGTTCAAAAAAATGCTCAAAGGAATGGATCGTCTTGAATACTTTTAGGAACCGAAGTTATAA
584 AAATGTCCAAAAAAATGCTCAAAGGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTTATAA
29902986 AAGAAATCGTAAAAGTTTGATAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAATAATTCTTA
649 AAGAAATCGTAAAAGTTTGATAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAATAATTCTTA
29903051 CATAAATAAATTTTTAACAAGTTCGGAA
714 CATAAATAAATTTTTAACAAGTTCGGAA
29903079 GTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGACAAGTTTCAAAGTT
1 GTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGACAAG-TTCAAAGTT
29903144 CGTCCAAGAACCAAGAGAGAACCAATTCTCATC-TAAATAAGTTTTTTAATTCAAGGACCAAAAC
65 CGTCCAAGAACCAAGAGAGAACCAATTCTCA-CGTAAATAAGTTTTTTAATTCAAGGACCAAAAC
* * *
29903208 TTTTTTACAGAAA-GAAAAACTATTTAGACCAAATTATGCGATTTCCCGAGCATGGAATGTTCGA
129 TTGTTTACA-AAAGGAAAAACTATTTAGACAAAATTATGCAATTTCCCGAGCATGGAATGTTCGA
* *
29903272 AAAATTGCTCGAAGAATGGATCATCTTGAATACTTTCAGGAA-TCGAAGTTATAAAAGAAATCGT
193 AAAATTGCTCGAAGAATGGATCATCTTGAATACTTTAAGAAACT-GAAGTTATAAAAGAAATCGT
29903336 AAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAG
257 AAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAG
29903401 TTTTTGACAAGTTCGGGTGTTCGTCCAAGAACCAAGACAGAAACAATTCTCACGAAAATAAGTTT
322 TTTTTGACAAGTTCGGGTGTTCGTCCAAGAACCAAGACAGAAACAATTCTCACGAAAATAAGTTT
29903466 TTGACAAGTTC-GAAAATTCGTCCAAGAACTAAGAGAGAAACAATACTCACGTGAACAAGTTTTT
387 TTGACAAGTTCAG-AAATTCGTCCAAGAACTAAGAGAGAAACAATACTCACGTGAACAAGTTTTT
* *
29903530 GAAAAATTCGGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAATATAAG-TTTTAA
451 GAAAAATTCGAAAGTACGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAA-ATAAGTTTTTAA
29903594 TTCAGCGACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATTATGCGATTTCTCGAG
515 TTCAGCGACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATTATGCGATTTCTCGAG
* * *
29903659 CATGGAATGTCCAAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTCAGGAATCGAAGTT
580 CATGAAATGTCCAAAAAAATGCTCAAAGGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTT
* *
29903724 ATAAAAGATATCGTAAAAGTTTGATAAGTTCGGATGTTCGTCCATGAACCAAGAGAGAAATAATT
645 ATAAAAGAAATCGTAAAAGTTTGATAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAATAATT
* * *
29903789 CTTACATAAATAAGTTTTTCACAAGTTCGGAT
710 CTTACATAAATAAATTTTTAACAAGTTCGGAA
* * * ***
29903821 GTTCCTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTGACAAGTTCGGTGTTC
1 GTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGACAAGTTCAAAGTTC
*
29903886 GTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
66 GTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTT
29903929 CTGACAAGTT
Statistics
Matches: 796, Mismatches: 44, Indels: 19
0.93 0.05 0.02
Matches are distributed among these distances:
740 9 0.01
741 80 0.10
742 695 0.87
743 12 0.02
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (741 bp):
GTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGACAAGTTCAAAGTTC
GTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTTAATTCAAGGACCAAAACTT
GTTTACAAAAGGAAAAACTATTTAGACAAAATTATGCAATTTCCCGAGCATGGAATGTTCGAAAA
ATTGCTCGAAGAATGGATCATCTTGAATACTTTAAGAAACTGAAGTTATAAAAGAAATCGTAAAA
GTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTT
TGACAAGTTCGGGTGTTCGTCCAAGAACCAAGACAGAAACAATTCTCACGAAAATAAGTTTTTGA
CAAGTTCAGAAATTCGTCCAAGAACTAAGAGAGAAACAATACTCACGTGAACAAGTTTTTGAAAA
ATTCGAAAGTACGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAGC
GACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATTATGCGATTTCTCGAGCATGAA
ATGTCCAAAAAAATGCTCAAAGGAATGGATCATCTTGAATACTTTCAGGAACCGAAGTTATAAAA
GAAATCGTAAAAGTTTGATAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAATAATTCTTACA
TAAATAAATTTTTAACAAGTTCGGAA
Found at i:29903913 original size:61 final size:62
Alignment explanation
Indices: 29903743--29904050 Score: 442
Period size: 61 Copynumber: 5.0 Consensus size: 62
29903733 ATCGTAAAAG
* * * * *
29903743 TTTGATAAGTTCGGATGTTCGTCCATGAACCAAGAGAGAAATAATTCTTACATAAATAAGTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * *
29903805 TTTCACAAGTTCGGATGTTCCTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
29903867 TTTGACAAGTTCGG-TGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * * * *
29903928 TCTGACAAGTTTGGAAGTTCATCCAAGAACC-AGAGAGAAACAATTCTCACGTAAATAAGTG
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * *
29903989 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAG-GAGAAAACAATTGTCACGTAACTAAGTT
1 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAG-AAACAATTCTCACGTAAATAAGTT
29904051 ATTAATTAAC
Statistics
Matches: 223, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
61 117 0.52
62 106 0.48
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (62 bp):
TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:29904009 original size:123 final size:124
Alignment explanation
Indices: 29903742--29904050 Score: 453
Period size: 123 Copynumber: 2.5 Consensus size: 124
29903732 TATCGTAAAA
* * * * * *
29903742 GTTTGATAAGTTCGGATGTTCGTCCATGAACCAAGAGAGAAATAATTCTTACATAAATAAGTTTT
1 GTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTC
* * *
29903807 TCACAAGTTCGGATGTTCCTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGT
66 TCACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
*
29903866 TTTTGACAAGTTCGG-TGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTC
1 GTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTC
* *
29903930 TGACAAGTTTGGAAGTTCATCCAAGAACC-AGAGAGAAACAATTCTCACGTAAATAAGT
66 TCACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
* * *
29903988 GTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAG-GAGAAAACAATTGTCACGTAACTAAGTT
1 GTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAG-AAACAATTCTCACGTAAATAAGTT
29904051 ATTAATTAAC
Statistics
Matches: 167, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
122 45 0.27
123 109 0.65
124 13 0.08
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (124 bp):
GTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTC
TCACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
Found at i:29904217 original size:462 final size:464
Alignment explanation
Indices: 29903345--29904269 Score: 1387
Period size: 462 Copynumber: 2.0 Consensus size: 464
29903335 TAAAAGTTTG
*
29903345 ACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTGACA
1 ACAAGTTCGGATGTTCCTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTGACA
*
29903410 AGTTCGGGTGTTCGTCCAAGAACCAAGACAGAAACAATTCTCACGAAAATAAGTTTTTGACAAGT
66 AGTTCGGGTGTTCGTCCAAGAACCAAGACAGAAACAATTCTCACGAAAATAAGTTTCTGACAAGT
* * *
29903475 TCGAAAATTCGTCCAAGAACTAAGAGAGAAACAATACTCACGTGAACAAGTTTTTGAAAAATTCG
131 TCGAAAATTCATCCAAGAACTAAGAGAGAAACAATACTCACGTAAACAAGTGTTTGAAAAATTCG
* *
29903540 GAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAATATAAGTTTTAATTCAGCGACCA
196 GAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAATATAAGTTTTAATTCAACGACCA
* * *
29903605 AAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATTATGCGATTTCTCGAGCATGGAATGTC
261 AAACTTATTTACAAAAAGACAAACTATTTACACCAAATGATGCGATTTCTCGAGCATGGAATGTC
* *
29903670 CAAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTCAGGAATCGAAGTTATAAAAGATAT
326 CAAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGATAT
* * * * *
29903735 CGTAAAAGTTTGATAAGTTCGGATGTTCGTCCATGAACCAAGAGAGAAATAATTCTTACATAAAT
391 CGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCACATAAAT
29903800 AAGTTTTTC
456 AAGTTTTTC
29903809 ACAAGTTCGGATGTTCCTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTGACA
1 ACAAGTTCGGATGTTCCTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTGACA
* *
29903874 AGTTC-GGTGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTCTGACAAGT
66 AGTTCGGGTGTTCGTCCAAGAACCAAGACAGAAACAATTCTCACGAAAATAAGTTTCTGACAAGT
* * * * * * * *
29903938 TTGGAAGTTCATCCAAGAAC-CAGAGAGAAACAATTCTCACGTAAATAAGTGTTTGACAAGTTCG
131 TCGAAAATTCATCCAAGAACTAAGAGAGAAACAATACTCACGTAAACAAGTGTTTGAAAAATTCG
* * *
29904002 GAAGTTCGTCCAAGAACCAAG-GAGAAAACAATTGTCACGTAA-CTAAGTTATTAATT-AACAGT
196 GAAGTTCGTCCAAGAACCAAGAGAG-AAACAATTCTCACGTAATATAAGTT-TTAATTCAAC-GA
* * *
29904064 CCAAAACTTATTTACAAAATGACAAACTATTTTCACCAAATGATGTGATTTCCTCGAGCATGGAA
258 CCAAAACTTATTTACAAAAAGACAAACTATTTACACCAAATGATGCGATTT-CTCGAGCATGGAA
*** * * *
29904129 TGT-TGGAAATTTGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTAAGTTATAAAAG
322 TGTCCAAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAG
* *
29904193 A-ACTCGTGAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCACG
387 ATA-TCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCACA
29904257 TAAATAAGTTTTT
451 TAAATAAGTTTTT
29904270 AATTTAAAGT
Statistics
Matches: 415, Mismatches: 41, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
461 12 0.03
462 246 0.59
463 88 0.21
464 69 0.17
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.27
Consensus pattern (464 bp):
ACAAGTTCGGATGTTCCTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTGACA
AGTTCGGGTGTTCGTCCAAGAACCAAGACAGAAACAATTCTCACGAAAATAAGTTTCTGACAAGT
TCGAAAATTCATCCAAGAACTAAGAGAGAAACAATACTCACGTAAACAAGTGTTTGAAAAATTCG
GAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAATATAAGTTTTAATTCAACGACCA
AAACTTATTTACAAAAAGACAAACTATTTACACCAAATGATGCGATTTCTCGAGCATGGAATGTC
CAAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGATAT
CGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCACATAAAT
AAGTTTTTC
Found at i:29904368 original size:216 final size:216
Alignment explanation
Indices: 29903988--29904484 Score: 704
Period size: 216 Copynumber: 2.3 Consensus size: 216
29903978 GTAAATAAGT
* * * * *
29903988 GTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAG-GAGAAAACAATTGTCACGTAACTAAGTTA
1 GTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAG-AAATAATTCTCACGTAAATAAGTTT
* *
29904052 TTAATTAACAGTCCAAAACTTATTTACAAAATGACAAACTATTTTCACCAAATGATGTGATTTCC
65 TTAATTAACAGTCCAAAACTTATTTACAAAATGACAAACTATTTACACCAAATGATGGGATTTCC
* * *
29904117 TCGAGCATGGAATGTTGGAAATTTGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTA
130 TCGAGCATGGAATGTTGAAAATTTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAACCGA
*
29904182 AGTTATAAAAGA-ACTCGTGAAA
195 AGTTATAAAAGAGA-TCGTAAAA
29904204 GTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTT
1 GTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTT
* * *
29904269 TAATTTAA-AGTCCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTTC
66 TAA-TTAACAGTCCAAAACTTATTTACAAAATGACAAACTATTTACACCAAATGATGGGATTTCC
* **
29904333 -CGAGCATGGAATGTTCGAAAAATTT-CT-AGAAGGAATGGATTATCTTGAATACTTTTTGGAAC
130 TCGAGCATGGAATGTT-G-AAAATTTGCTCA-AAGGAATGGATCATCTTGAATACTTTAAGGAAC
29904395 CGAAGTTATAAAAGAGATCGTAAAA
192 CGAAGTTATAAAAGAGATCGTAAAA
* *
29904420 GTTTGACAAGTTCGAATGTTCGT-CAAGAACCAAGAGAGAAACT-ATTCTTACGTAAATAAGTTT
1 GTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAA-TAATTCTCACGTAAATAAGTTT
29904483 TT
65 TT
29904485 GACAAGTTCG
Statistics
Matches: 255, Mismatches: 19, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
215 55 0.22
216 186 0.73
217 14 0.05
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (216 bp):
GTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTT
TAATTAACAGTCCAAAACTTATTTACAAAATGACAAACTATTTACACCAAATGATGGGATTTCCT
CGAGCATGGAATGTTGAAAATTTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAA
GTTATAAAAGAGATCGTAAAA
Found at i:29904522 original size:62 final size:61
Alignment explanation
Indices: 29904421--29904546 Score: 191
Period size: 62 Copynumber: 2.0 Consensus size: 61
29904411 ATCGTAAAAG
* *
29904421 TTTGACAAGTTCGAATGTTCGTCAAGAACCAAGAGAGAAACTATTCTTACGTAAATAAGTT
1 TTTGACAAGTTCGAATGTTCGTCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* *
29904482 TTTGACAAGTTCGGAA-GTTCGTTCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAGGTT
1 TTTGACAAGTTC-GAATGTTCG-TCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
29904544 TTT
1 TTT
29904547 ATTTTACAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
61 17 0.29
62 42 0.71
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (61 bp):
TTTGACAAGTTCGAATGTTCGTCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:29904594 original size:21 final size:20
Alignment explanation
Indices: 29904560--29904600 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
29904550 TTACAGTTCA
*
29904560 AAACTTGTTTACAAAATGAT
1 AAACTTGTTGACAAAATGAT
29904580 AAACTGTGTTGACAAAATGAT
1 AAACT-TGTTGACAAAATGAT
29904601 GTGATTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (20 bp):
AAACTTGTTGACAAAATGAT
Found at i:29904699 original size:277 final size:278
Alignment explanation
Indices: 29904205--29904762 Score: 746
Period size: 277 Copynumber: 2.0 Consensus size: 278
29904195 CTCGTGAAAG
*
29904205 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTT
1 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
*
29904270 AATTTAAAGTCCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTTCCG
66 AATTTAAAGTCCAAAACTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGGGATTTTCCG
* * * ** *
29904335 AGCATGGAATGTTCGAAAAATTTCTAGAAGGAATGGATTATCTTGAATACTTTTTGGAACCGAAG
131 AGCATGGAATGTTCGAAAAATTGCTAGAAGGAATGGATCATCTTAAATACTTTAAGGAACAGAAG
* * ** * *
29904400 TTATAAAAGAGATCGTAAAAGTTTGACAAGTTCGAATGTTCGT-CAAGAACCAAGAGAGAAACTA
196 TTATAAAAGAGATCGTAAAAGTTTCACAAGTCCGAAAATTAGTCCAAGAACCAAGAGAGAAACAA
29904464 TTCTTACGTAAATAAGTT
261 TTCTTACGTAAATAAGTT
* * * *
29904482 TTTGACAAGTTCGGAAGTTCGTTCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAGGTTTTT
1 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * * *
29904547 ATTTTACAGTTCAAAACTTGTTTACAAAATGATAAACTGTGTT-GACAAAATGATGTGA-TTTCT
66 AATTTAAAGTCCAAAACTTGTTTACAAAATGACAAACTAT-TTAGACAAAATGATGGGATTTTC-
** * * * * *
29904610 CGAGCATGGGGTGTTTGGAAAATTGCTCGAAGGAATGGATCGTCTTAAATACTTTAAGGAATAGA
129 CGAGCATGGAATGTTCGAAAAATTGCTAGAAGGAATGGATCATCTTAAATACTTTAAGGAACAGA
* * **
29904675 AGTTATAAAAGA-ACTCGTAAAAGTTTCACATGTCCGAAAATTAGTCCTAGAATGAAGAGAGAAA
194 AGTTATAAAAGAGA-TCGTAAAAGTTTCACAAGTCCGAAAATTAGTCCAAGAACCAAGAGAGAAA
29904739 CAATTCTTACGTAAATAAGTT
258 CAATTCTTACGTAAATAAGTT
29904760 TTT
1 TTT
29904763 AATTCAAACA
Statistics
Matches: 242, Mismatches: 35, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
276 5 0.02
277 197 0.81
278 40 0.17
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (278 bp):
TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATTTAAAGTCCAAAACTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGGGATTTTCCG
AGCATGGAATGTTCGAAAAATTGCTAGAAGGAATGGATCATCTTAAATACTTTAAGGAACAGAAG
TTATAAAAGAGATCGTAAAAGTTTCACAAGTCCGAAAATTAGTCCAAGAACCAAGAGAGAAACAA
TTCTTACGTAAATAAGTT
Found at i:29904873 original size:493 final size:494
Alignment explanation
Indices: 29903930--29904978 Score: 1478
Period size: 493 Copynumber: 2.1 Consensus size: 494
29903920 AATAAGTTTC
* * * *
29903930 TGACAAGTTTGGAA-GTTCATCCAAGAACC-AGAGAGAAACAATTCTCACGTAAATAAGTGTTTG
1 TGACAAG-TTCGAATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTG
*
29903993 ACAAGTTCGGAAGTTCGTCCAAGAACCAAGGAGAAAACAATTGTCACGTAACTAAGTTATTAATT
65 ACAAGTTCGGAAGTTCGTCCAAGAACCAAGGAGAAAACAATTCTCACGTAACTAAGTTATTAATT
* *
29904058 AACAGTCCAAAACTTATTTACAAAATGACAAACTATTTTCACCAAATGATGTGATTTCCTCGAGC
130 AACAGTCCAAAACTTATTTACAAAATGACAAACTATGTTCACAAAATGATGTGATTTCCTCGAGC
* * **
29904123 ATGGAATGTTGGAAATTTGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTAAGTTAT
195 ATGGAATGTTGGAAAATTGCTCAAAGGAATGGATCGTCTTAAATACTTTAAGGAACAGAAGTTAT
* * * * * *
29904188 AAAAGAACTCGTGAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCT
260 AAAAGAACTCGTAAAAGTTTCACAAGTCCGAAAATTAGTCCAAGAACCAAGAGAGAAACAATTCT
* ** *
29904253 CACGTAAATAAGTTTTTAATTTAAAGTCCAAAACTTGTTTACAAAATGACAAACTATTTAGACCA
325 CACGTAAATAAGTTTTTAATTCAAACACCAAAACTTGTTTACAAAATGACAAACTACTTAGACCA
* * * * * * *
29904318 AATGATGGGATTTTCCGAGCATGGAATGTTCGAAAAATTTCTAGAAGGAATGGATTATCTTGAAT
390 AATGATGGGATTTCCCGAGCATGGAATGCTCGAAAAATTGCTAGAACGAATAGATCATCTTGAAA
* * *
29904383 ACTTTTTGGAACCGAAGTTATAAAAGAGATCGTAAAAGTT
455 ACTTTTAGGAACCGAAGTTATAAAAGAAATCGCAAAAGTT
*
29904423 TGACAAGTTCGAATGTTCGT-CAAGAACCAAGAGAGAAACTATTCTTACGTAAATAAGTTTTTGA
1 TGACAAGTTCGAATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTGA
* * * *
29904487 CAAGTTCGGAAGTTCGTTCAAGAACCAA-GAGAGAAACAATTCTCACGTAACTAGGTTTTTATTT
66 CAAGTTCGGAAGTTCGTCCAAGAACCAAGGAGA-AAACAATTCTCACGTAACTAAGTTATTAATT
* * * * * *
29904551 TACAGTTCAAAACTTGTTTACAAAATGATAAACTGTGTTGACAAAATGATGTGATTT-CTCGAGC
130 AACAGTCCAAAACTTATTTACAAAATGACAAACTATGTTCACAAAATGATGTGATTTCCTCGAGC
** * *
29904615 ATGGGGTGTTTGGAAAATTGCTCGAAGGAATGGATCGTCTTAAATACTTTAAGGAATAGAAGTTA
195 ATGGAATG-TTGGAAAATTGCTCAAAGGAATGGATCGTCTTAAATACTTTAAGGAACAGAAGTTA
* * **
29904680 TAAAAGAACTCGTAAAAGTTTCACATGTCCGAAAATTAGTCCTAGAATGAAGAGAGAAACAATTC
259 TAAAAGAACTCGTAAAAGTTTCACAAGTCCGAAAATTAGTCCAAGAACCAAGAGAGAAACAATTC
* *
29904745 TTACGTAAATAAGTTTTTAATTCAAACACCAAAACTTGTTTACAAACTGACAAACTACTTAGACC
324 TCACGTAAATAAGTTTTTAATTCAAACACCAAAACTTGTTTACAAAATGACAAACTACTTAGACC
* * * *
29904810 AAATTATGTGATTTCCCGAGCATGGACTGCTCGAAAAATTGCTCGAACGAATAGATCATCTTGAA
389 AAATGATGGGATTTCCCGAGCATGGAATGCTCGAAAAATTGCTAGAACGAATAGATCATCTTGAA
*
29904875 AACTTTTAGGAACCGAAGTTATAAAAGAAATGGCAAAAGTT
454 AACTTTTAGGAACCGAAGTTATAAAAGAAATCGCAAAAGTT
* *** *
29904916 TGACAAGTTCGGATGTTCGTCCAAGCGTCAAGAGAGAAACAATTCTTACGTAGATAAGTTTTT
1 TGACAAGTTCGAATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTT
29904979 AATTCAAAAA
Statistics
Matches: 488, Mismatches: 63, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
492 30 0.06
493 421 0.86
494 37 0.08
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (494 bp):
TGACAAGTTCGAATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTGA
CAAGTTCGGAAGTTCGTCCAAGAACCAAGGAGAAAACAATTCTCACGTAACTAAGTTATTAATTA
ACAGTCCAAAACTTATTTACAAAATGACAAACTATGTTCACAAAATGATGTGATTTCCTCGAGCA
TGGAATGTTGGAAAATTGCTCAAAGGAATGGATCGTCTTAAATACTTTAAGGAACAGAAGTTATA
AAAGAACTCGTAAAAGTTTCACAAGTCCGAAAATTAGTCCAAGAACCAAGAGAGAAACAATTCTC
ACGTAAATAAGTTTTTAATTCAAACACCAAAACTTGTTTACAAAATGACAAACTACTTAGACCAA
ATGATGGGATTTCCCGAGCATGGAATGCTCGAAAAATTGCTAGAACGAATAGATCATCTTGAAAA
CTTTTAGGAACCGAAGTTATAAAAGAAATCGCAAAAGTT
Found at i:29904895 original size:216 final size:215
Alignment explanation
Indices: 29904482--29905623 Score: 1165
Period size: 216 Copynumber: 5.3 Consensus size: 215
29904472 TAAATAAGTT
* * *
29904482 TTTGACAAGTTCGGAAGTTCGTTCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAGGTTTTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * ** * * * * *
29904547 ATTTTACAGTTCAAAACTTGTTTACAAAATGATAAACTGTGTT-GACAAAATGATGTGATTTCTC
66 AATTCAAAGACCAAAACTT-TTTACAAAATGACAAACTAT-TTAGACCAAATGATGCGATTTCCC
** * * * **
29904611 GAGCATGGGGTGTTTGGAAAATTGCTCGAAGGAATGGATCGTCTT-AAATACTTTAAGGAATAGA
129 GAGCATGGAATGCTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAAA-ACTTTAAGGAACCGA
29904675 AGTTATAAAAGAACTCGTAAAAG
193 AGTTATAAAAGAACTCGTAAAAG
* * * * * * * ** *
29904698 TTTCACATGTCCGAAAATTAGTCCTAGAATGAAGAGAGAAACAATTCTTACGTAAATAAGTTTTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * *
29904763 AATTCAAACACCAAAACTTGTTTACAAACTGACAAACTACTTAGACCAAATTATGTGATTTCCCG
66 AATTCAAAGACCAAAACTT-TTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCG
* * * * *
29904828 AGCATGGACTGCTCGAAAAATTGCTCGAACGAATAGATCATCTTGAAAACTTTTAGGAACCGAAG
130 AGCATGGAATGCTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAAAACTTTAAGGAACCGAAG
* * *
29904893 TTATAAAAGAAATGGCAAAAG
195 TTATAAAAGAACTCGTAAAAG
* *** * *
29904914 TTTGACAAGTTCGGATGTTCGTCCAAGCGTCAAGAGAGAAACAATTCTTACGTAGATAAGTTTTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * * * * * * * **
29904979 AATTCAAAAAACCAAAACATTTCACGAATTGGCAAACTATTTAGGCCATACGGTGCGATTTTACG
66 AATTC-AAAGACCAAAACTTTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCG
* * **
29905044 AGCATGGAATGCTCGAAAAATT-CTCGAAGCAATGGATCGTCTTGAATACTTTAAGTTACCGAAG
130 AGCATGGAATGCTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAAAACTTTAAGGAACCGAAG
*
29905108 TTATAAAAGAACTAGTAAAAG
195 TTATAAAAGAACTCGTAAAAG
** * * *
29905129 TTTGA-AAGGTTCAAAAGTTCATCCAACAACCAAGAGAGAAACATTTCTCACGTAAATAAGTTTT
1 TTTGACAA-GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * *
29905193 TAATTGAAAGACCAAATCCTATTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCC
65 TAATTCAAAGACCAAA-ACTTTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCC
* * *
29905258 GAGCATGGAAAT-CTTTGAAAAATTTC-CGAAGGAATGGATCGTCTT-AAATACTTTTAAGGAAT
129 GAGCATGG-AATGC-TCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAAA-AC-TTTAAGGAAC
* *
29905320 CGAAGTTATAGAACAACTCGTAAAAG
190 CGAAGTTATAAAAGAACTCGTAAAAG
* * * * *
29905346 TTT-AAAATGTTCGGAAGTTCGTCTAAGAACGAAAAGAGAAACAGTTCTCACGTAAATAAGTTTT
1 TTTGACAA-GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
*
29905410 TAATTCAAAGACCAAAACATTTTT-CAAAATGACAAACTATTTAGGCCAAATGATGCGATTTCCC
65 TAATTCAAAGACCAAAAC-TTTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCC
* * * * * * * * * *
29905474 GAGCAAGAAATGTTTCG-AAAATAGCTCGAAAGAATGGATCGCCATGAATACTTTCAGGAACCAA
129 GAGCATGGAATG-CTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAAAACTTTAAGGAACCGA
* *
29905538 AGTTATAAAA-AAATTGTAAAAG
193 AGTTATAAAAGAACTCGTAAAAG
* * * *
29905560 TTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTTTTAC-AAAATAAGTTTTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
29905624 GACAAGTTCG
Statistics
Matches: 757, Mismatches: 152, Indels: 37
0.80 0.16 0.04
Matches are distributed among these distances:
213 12 0.02
214 60 0.08
215 186 0.25
216 379 0.50
217 120 0.16
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (215 bp):
TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATTCAAAGACCAAAACTTTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGA
GCATGGAATGCTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAAAACTTTAAGGAACCGAAGT
TATAAAAGAACTCGTAAAAG
Done.