Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010224.1 Corchorus capsularis cultivar CVL-1 contig10245, whole genome shotgun sequence
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: 73069
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:588 original size:16 final size:15
Alignment explanation
Indices: 560--603 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
550 TACAGTTTTA
*
560 ATATATTTATATATG
1 ATATATATATATATG
575 ATATGATATATATATG
1 ATAT-ATATATATATG
*
591 ATATATACATATA
1 ATATATATATATA
604 ACAAAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (15 bp):
ATATATATATATATG
Found at i:591 original size:11 final size:11
Alignment explanation
Indices: 568--597 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
558 TAATATATTT
568 ATATATGATATG
1 ATATAT-ATATG
580 ATATATATATG
1 ATATATATATG
591 ATATATA
1 ATATATA
598 CATATAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (11 bp):
ATATATATATG
Found at i:1518 original size:22 final size:22
Alignment explanation
Indices: 1473--1523 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1463 TGAATCATAT
* **
1473 GATAGAATATTACTAAAATTAA
1 GATAGAATATTACAAAAAGGAA
*
1495 GATATAATATTACAAAAAGGAA
1 GATAGAATATTACAAAAAGGAA
*
1517 GAAAGAA
1 GATAGAA
1524 CCGCAAAGAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.59, C:0.04, G:0.14, T:0.24
Consensus pattern (22 bp):
GATAGAATATTACAAAAAGGAA
Found at i:6082 original size:35 final size:35
Alignment explanation
Indices: 5976--6065 Score: 180
Period size: 35 Copynumber: 2.6 Consensus size: 35
5966 CTTTTTGTTA
5976 ATTCTCTTATGTTCTTTAATTACAAAAACTCTTTG
1 ATTCTCTTATGTTCTTTAATTACAAAAACTCTTTG
6011 ATTCTCTTATGTTCTTTAATTACAAAAACTCTTTG
1 ATTCTCTTATGTTCTTTAATTACAAAAACTCTTTG
6046 ATTCTCTTATGTTCTTTAAT
1 ATTCTCTTATGTTCTTTAAT
6066 GAAATTCCTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.51
Consensus pattern (35 bp):
ATTCTCTTATGTTCTTTAATTACAAAAACTCTTTG
Found at i:9898 original size:28 final size:28
Alignment explanation
Indices: 9867--9924 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
9857 ACAAGATTTG
9867 ATTTTAATATTTGATTGAATATTTTCAA
1 ATTTTAATATTTGATTGAATATTTTCAA
9895 ATTTTAATATTTGATTGAATATTTTCAA
1 ATTTTAATATTTGATTGAATATTTTCAA
9923 AT
1 AT
9925 CAGAATCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.53
Consensus pattern (28 bp):
ATTTTAATATTTGATTGAATATTTTCAA
Found at i:10310 original size:74 final size:74
Alignment explanation
Indices: 10232--10388 Score: 242
Period size: 74 Copynumber: 2.1 Consensus size: 74
10222 TGGTCTTTTC
* * ***
10232 ACACTTTTCGGGTGACTAAAAAGCCTCTCTATGAGTTTCCTTTATTCCTTTTCCTTCTACCCTTT
1 ACACTTTTCGGATGACTAAAAAGCCTATCTATGAGTTTCCCCCATTCCTTTTCCTTCTACCCTTT
*
10297 TTCGTAATT
66 TGCGTAATT
*
10306 ACACTTTTCGGATGACTAAAAAGTCTATCTATGAGTTTCCCCCATTCCTTTTCCTTCTACCCTTT
1 ACACTTTTCGGATGACTAAAAAGCCTATCTATGAGTTTCCCCCATTCCTTTTCCTTCTACCCTTT
10371 TGCGTAATT
66 TGCGTAATT
*
10380 ACACATTTC
1 ACACTTTTC
10389 CATTCCTTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.21, C:0.27, G:0.10, T:0.42
Consensus pattern (74 bp):
ACACTTTTCGGATGACTAAAAAGCCTATCTATGAGTTTCCCCCATTCCTTTTCCTTCTACCCTTT
TGCGTAATT
Found at i:12558 original size:15 final size:16
Alignment explanation
Indices: 12532--12561 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12522 ATTAATATGG
12532 ATTTTAAATTATCACC
1 ATTTTAAATTATCACC
12548 ATTTT-AATTATCAC
1 ATTTTAAATTATCAC
12562 AAGACCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTTAAATTATCACC
Found at i:15402 original size:2 final size:2
Alignment explanation
Indices: 15395--15428 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
15385 CTCTTATTTC
15395 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15429 GTTCATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15727 original size:6 final size:6
Alignment explanation
Indices: 15693--15726 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
15683 TTCGTCATTG
15693 TTTTGTT TTTTGT TTTTGT TTTTGT TTTT-T TTTT
1 TTTTG-T TTTTGT TTTTGT TTTTGT TTTTGT TTTT
15727 TAAATTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (6 bp):
TTTTGT
Found at i:15727 original size:12 final size:12
Alignment explanation
Indices: 15690--15727 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
15680 TTGTTCGTCA
*
15690 TTGTTTTGTTTT
1 TTGTTTTTTTTT
*
15702 TTGTTTTTGTTT
1 TTGTTTTTTTTT
15714 TTGTTTTTTTTT
1 TTGTTTTTTTTT
15726 TT
1 TT
15728 AAATTTAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (12 bp):
TTGTTTTTTTTT
Found at i:15993 original size:2 final size:2
Alignment explanation
Indices: 15986--16024 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
15976 ATTACTTGAA
*
15986 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
16025 TATTTTTGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:23793 original size:121 final size:122
Alignment explanation
Indices: 23584--23811 Score: 311
Period size: 121 Copynumber: 1.9 Consensus size: 122
23574 TCCGTTAAGG
*
23584 AACGTTTGTTTTAAATAAAATTGTTTGCGTTTTTTATCAAATATATAATCCACTGTAGCACTTGG
1 AACGTTTGTTTTAAATAAAATTGCTTGCGTTTTTTAT-AAATATATAATCCACTGTAGCACTTGG
* * *
23649 CAATTTCAATATGAATATGATCTTGGAGTTTGGGTTCAAATCCCGGCGGTGGAATAAA
65 CAATTTCAATATGAATATGATCTTGGAATTCGGGTACAAATCCCGGCGGTGGAATAAA
* * *
23707 AACGTTTGTTTTAAATAAAATTGCTTGTGTTTTTGTAT-AA-ATATAATCC-GTCGTAGTACTTG
1 AACGTTTGTTTTAAATAAAATTGCTTGCGTTTTT-TATAAATATATAATCCACT-GTAGCACTTG
* *
23769 GTAA-TTCTTATATGAATATGATCTTGGAATTCGGGTACAAATC
64 GCAATTTC-AATATGAATATGATCTTGGAATTCGGGTACAAATC
23812 TTGATAGAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
120 4 0.04
121 52 0.56
122 2 0.02
123 32 0.34
124 3 0.03
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (122 bp):
AACGTTTGTTTTAAATAAAATTGCTTGCGTTTTTTATAAATATATAATCCACTGTAGCACTTGGC
AATTTCAATATGAATATGATCTTGGAATTCGGGTACAAATCCCGGCGGTGGAATAAA
Found at i:24541 original size:17 final size:18
Alignment explanation
Indices: 24519--24554 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
24509 GCCACATGTC
24519 TTCTATTTTT-TTCTTTT
1 TTCTATTTTTATTCTTTT
24536 TTCTATTTTTATTCTTTT
1 TTCTATTTTTATTCTTTT
24554 T
1 T
24555 AGTAAGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (18 bp):
TTCTATTTTTATTCTTTT
Found at i:25536 original size:6 final size:6
Alignment explanation
Indices: 25520--25555 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
25510 CATTCCCCGC
* *
25520 CGGGGA TGGGGA CGGGGA CGGGGA TGGGGA CGGGGA
1 CGGGGA CGGGGA CGGGGA CGGGGA CGGGGA CGGGGA
25556 ATATACCCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.17, C:0.11, G:0.67, T:0.06
Consensus pattern (6 bp):
CGGGGA
Found at i:25543 original size:18 final size:18
Alignment explanation
Indices: 25520--25555 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25510 CATTCCCCGC
25520 CGGGGATGGGGACGGGGA
1 CGGGGATGGGGACGGGGA
25538 CGGGGATGGGGACGGGGA
1 CGGGGATGGGGACGGGGA
25556 ATATACCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.67, T:0.06
Consensus pattern (18 bp):
CGGGGATGGGGACGGGGA
Found at i:25763 original size:42 final size:43
Alignment explanation
Indices: 25710--25794 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 43
25700 GCTTGCCTTT
*
25710 TTTTTTTTATCAAATATAATCCGCTGTA-GCTGTAAAATAATA
1 TTTTTTTTATCAAATATAATCCGCTGTAGGATGTAAAATAATA
25752 TTTTTTTTATCAAATATAATCCGCTGTAGGATGTAAAATAATA
1 TTTTTTTTATCAAATATAATCCGCTGTAGGATGTAAAATAATA
25795 AGGAATGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 28 0.68
43 13 0.32
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (43 bp):
TTTTTTTTATCAAATATAATCCGCTGTAGGATGTAAAATAATA
Found at i:27221 original size:98 final size:98
Alignment explanation
Indices: 27027--27209 Score: 269
Period size: 98 Copynumber: 1.9 Consensus size: 98
27017 CCTTTTTTCG
* * **
27027 ATTCTTTCGACCAAACTCTTGTGCTTGGGAGATCTTAAAATTGAATACCTTCAATTTTGACATTA
1 ATTCTTCCGACCAAACTCTTGTGCTTCGGAGATCTTAAAATTGAATACCTTCAATTTCAACATTA
27092 GACATGCTTCATTCACTTGAGGAGACACTTACA
66 GACATGCTTCATTCACTTGAGGAGACACTTACA
* * * * *
27125 ATTCTTCCGCCCAAAGTCTTGTG-TTACGGAGATTTTGAAATTGAATAGCTTCAATTTCAACATT
1 ATTCTTCCGACCAAACTCTTGTGCTT-CGGAGATCTTAAAATTGAATACCTTCAATTTCAACATT
27189 AGACATGCTTCATTCACTTGA
65 AGACATGCTTCATTCACTTGA
27210 TGAGGTACTT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
97 2 0.03
98 73 0.97
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (98 bp):
ATTCTTCCGACCAAACTCTTGTGCTTCGGAGATCTTAAAATTGAATACCTTCAATTTCAACATTA
GACATGCTTCATTCACTTGAGGAGACACTTACA
Found at i:28042 original size:216 final size:216
Alignment explanation
Indices: 27688--28243 Score: 1058
Period size: 216 Copynumber: 2.6 Consensus size: 216
27678 ACTCACCGGC
* *
27688 TTGTCACGTTAGGGCTTGTTTTATACAAGCTTGATCTTCACACGATTTCTTCCATTCGACTTGAG
1 TTGTCACATTAGGACTTGTTTTATACAAGCTTGATCTTCACACGATTTCTTCCATTCGACTTGAG
*
27753 GTGCCATTTCTGATCTACTTTCAATTGAATTGCCTAATTGGGATAACACATCTTGTTCCCAGTTA
66 GTGCCATTTCTGATCTACTTTCAATTGAATTGCCTCATTGGGATAACACATCTTGTTCCCAGTTA
27818 AGGTTTAAGGTCGTCCGCATTGGGCCATCATGTTAGTGCTTGTTTTGACAAGCTTAAGTTTTCTT
131 AGGTTTAAGGTCGTCCGCATTGGGCCATCATGTTAGTGCTTGTTTTGACAAGCTTAAGTTTTCTT
27883 GTCATGAGGTCTCACATGGGT
196 GTCATGAGGTCTCACATGGGT
27904 TTGTCACATTAGGACTTGTTTTATACAAGCTTGATCTTCACACGATTTCTTCCATTCGACTTGAG
1 TTGTCACATTAGGACTTGTTTTATACAAGCTTGATCTTCACACGATTTCTTCCATTCGACTTGAG
27969 GTGCCATTTCTGATCTACTTTCAATTGAATTGCCTCATTGGGATAACACATCTTGTTCCCAGTTA
66 GTGCCATTTCTGATCTACTTTCAATTGAATTGCCTCATTGGGATAACACATCTTGTTCCCAGTTA
28034 AGGTTTAAGGTCGTCCGCATTGGGCCATCATGTTAGTGCTTGTTTTGACAAGCTTAAGTTTTCTT
131 AGGTTTAAGGTCGTCCGCATTGGGCCATCATGTTAGTGCTTGTTTTGACAAGCTTAAGTTTTCTT
28099 GTCATGAGGTCTCACATGGGT
196 GTCATGAGGTCTCACATGGGT
28120 TTGTCACATTAGGACTTGTTTTATACAAGCTTGATCTTCACACGATTTCTTCCATTCGACTTGAG
1 TTGTCACATTAGGACTTGTTTTATACAAGCTTGATCTTCACACGATTTCTTCCATTCGACTTGAG
*
28185 GTGCCATTTCTGATCTACTTTCAATTGAGTTGCCTCATTGGGATAACACACATCTTGTT
66 GTGCCATTTCTGATCTACTTTCAATTGAATTGCCTCATTGGGAT-A-ACACATCTTGTT
28244 ATCTACTTTC
Statistics
Matches: 334, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
216 321 0.96
217 1 0.00
218 12 0.04
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (216 bp):
TTGTCACATTAGGACTTGTTTTATACAAGCTTGATCTTCACACGATTTCTTCCATTCGACTTGAG
GTGCCATTTCTGATCTACTTTCAATTGAATTGCCTCATTGGGATAACACATCTTGTTCCCAGTTA
AGGTTTAAGGTCGTCCGCATTGGGCCATCATGTTAGTGCTTGTTTTGACAAGCTTAAGTTTTCTT
GTCATGAGGTCTCACATGGGT
Found at i:28868 original size:77 final size:77
Alignment explanation
Indices: 28775--28925 Score: 257
Period size: 77 Copynumber: 2.0 Consensus size: 77
28765 CTCGATTTCG
28775 TTTCTCATTGGAGTGTCTTGTGATCTTGTACTTCCAAATTTCAATACTTGGAGAACTTGAAGTCT
1 TTTCTCATTGGAGTGTCTTGTGATCTTGTACTTCCAAATTTCAATACTTGGAGAACTTGAAGTCT
28840 TCACCAAATTCC
66 TCACCAAATTCC
* * ** *
28852 TTTCTCATTGGGGTGTCTTGTGATCTTGTACTTCCAAATTTCAGTTTTTGGAGAACTTGATGTCT
1 TTTCTCATTGGAGTGTCTTGTGATCTTGTACTTCCAAATTTCAATACTTGGAGAACTTGAAGTCT
28917 TCACCAAAT
66 TCACCAAAT
28926 ACATCTTGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (77 bp):
TTTCTCATTGGAGTGTCTTGTGATCTTGTACTTCCAAATTTCAATACTTGGAGAACTTGAAGTCT
TCACCAAATTCC
Found at i:29316 original size:24 final size:23
Alignment explanation
Indices: 29272--29316 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
29262 GCTTTCACCC
*
29272 ATCTCATTGGGATGTCGTTGGAA
1 ATCTCATTGGGATGACGTTGGAA
*
29295 ATCTCATTGGGGATGACTTTGG
1 ATCTCATT-GGGATGACGTTGG
29317 GGCTAATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.20, C:0.13, G:0.31, T:0.36
Consensus pattern (23 bp):
ATCTCATTGGGATGACGTTGGAA
Found at i:29765 original size:64 final size:64
Alignment explanation
Indices: 29678--30007 Score: 482
Period size: 64 Copynumber: 5.2 Consensus size: 64
29668 TTCAAGCGTT
* * *
29678 TCTCTTCTCGCCAAAGTGTTTCCATCTAAAGTCACATTGGTAACACATAGGGAGTTCGGGCGTG
1 TCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGGGAACACATAGGGAGTTCGGGCGCG
* * * * ** **
29742 TCTTTTCTTGCCAAAGTGTTTCCATTACAAGTCACATTGGGAACACATAGGGAGTTCGATCGTT
1 TCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGGGAACACATAGGGAGTTCGGGCGCG
* *
29806 TCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCATATTGGG-ACACATAGGGAGTTCAGGCGCG
1 TCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGGGAACACATAGGGAGTTCGGGCGCG
* * *
29869 TCTCTTCTTGCCAAAGTGTTTCCATCAAAAGTCACATTGGTAACACATAGGGAGTTCGGACGCG
1 TCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGGGAACACATAGGGAGTTCGGGCGCG
* * *
29933 CCTCTTCTCACCAAAGCGTTTCCATCAAAAGTCACATTGGGAACACATAGGGAGTTCGGGCGCG
1 TCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGGGAACACATAGGGAGTTCGGGCGCG
29997 TCTCTTCTCGC
1 TCTCTTCTCGC
30008 GAAATTTTGT
Statistics
Matches: 233, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
63 55 0.24
64 178 0.76
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (64 bp):
TCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGGGAACACATAGGGAGTTCGGGCGCG
Found at i:29914 original size:127 final size:126
Alignment explanation
Indices: 29664--30004 Score: 502
Period size: 127 Copynumber: 2.7 Consensus size: 126
29654 GCAAAAGTGT
* * *
29664 GGAGTTCAAGCGTTTCTCTTCTCGCCAAAGTGTTTCCATCTAAAGTCACATTGGTAACACATAGG
1 GGAGTTCGA-CGTTTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGG-GACACATAGG
* * * *
29729 GAGTTCGGGCGTGTCTTTTCTTGCCAAAGTGTTTCCATTACAAGTCACATTGGGAACACATAG
64 GAGTTCGGGCGCGTCTCTTCTTGCCAAAGTGTTTCCATCAAAAGTCACATTGGGAACACATAG
*
29792 GGAGTTCGATCGTTTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCATATTGGGACACATAGGG
1 GGAGTTCGA-CGTTTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGGGACACATAGGG
* *
29857 AGTTCAGGCGCGTCTCTTCTTGCCAAAGTGTTTCCATCAAAAGTCACATTGGTAACACATAG
65 AGTTCGGGCGCGTCTCTTCTTGCCAAAGTGTTTCCATCAAAAGTCACATTGGGAACACATAG
*** * *
29919 GGAGTTCGGACGCGCCTCTTCTCACCAAAGCGTTTCCATCAAAAGTCACATTGGGAACACATAGG
1 GGAGTTC-GACGTTTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGGG-ACACATAGG
29984 GAGTTCGGGCGCGTCTCTTCT
64 GAGTTCGGGCGCGTCTCTTCT
30005 CGCGAAATTT
Statistics
Matches: 193, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
127 112 0.58
128 81 0.42
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (126 bp):
GGAGTTCGACGTTTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGGGACACATAGGGA
GTTCGGGCGCGTCTCTTCTTGCCAAAGTGTTTCCATCAAAAGTCACATTGGGAACACATAG
Found at i:30003 original size:191 final size:191
Alignment explanation
Indices: 29664--30007 Score: 526
Period size: 191 Copynumber: 1.8 Consensus size: 191
29654 GCAAAAGTGT
** *
29664 GGAGTTCAAGCGTTTCTCTTCTCGCCAAAGTGTTTCCATCTAAAGTCACATTGGTAACACATAGG
1 GGAGTTCAAGCGCGTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGGTAACACATAGG
* * * * ** * * *
29729 GAGTTCGGGCGTGTCTTTTCTTGCCAAAGTGTTTCCATTACAAGTCACATTGGGAACACATAGGG
66 GAGTTCGGACGCGCCTCTTCTCACCAAAGCGTTTCCATCAAAAGTCACATTGGGAACACATAGGG
* **
29794 AGTTCGATCGTTTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCATATTGGGACACATAG
131 AGTTCGAGCGCGTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCATATTGGGACACATAG
* *
29855 GGAGTTCAGGCGCGTCTCTTCTTGCCAAAGTGTTTCCATCAAAAGTCACATTGGTAACACATAGG
1 GGAGTTCAAGCGCGTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGGTAACACATAGG
29920 GAGTTCGGACGCGCCTCTTCTCACCAAAGCGTTTCCATCAAAAGTCACATTGGGAACACATAGGG
66 GAGTTCGGACGCGCCTCTTCTCACCAAAGCGTTTCCATCAAAAGTCACATTGGGAACACATAGGG
*
29985 AGTTCGGGCGCGTCTCTTCTCGC
131 AGTTCGAGCGCGTCTCTTCTCGC
30008 GAAATTTTGT
Statistics
Matches: 135, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
191 135 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (191 bp):
GGAGTTCAAGCGCGTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCACATTGGTAACACATAGG
GAGTTCGGACGCGCCTCTTCTCACCAAAGCGTTTCCATCAAAAGTCACATTGGGAACACATAGGG
AGTTCGAGCGCGTCTCTTCTCGCCAAAGTGTTTCCATCAAAAGTCATATTGGGACACATAG
Found at i:30231 original size:76 final size:76
Alignment explanation
Indices: 30018--31048 Score: 614
Period size: 76 Copynumber: 12.8 Consensus size: 76
30008 GAAATTTTGT
* * * ** ** *
30018 ACTTGGAAATTTATACTTCGAAATTTCATTTTATTTCCT-CCTATGTCACTCATAGGGACATAGG
1 ACTTGGAAATTTTTACTTCCAAATTTC-TTTAATTTCCTCCCTATGAGACTCATCCGCACATAGG
* *
30082 GTGACAATTTTAT
65 GTGATAA-TTTAC
* *
30095 ACTTGGAAATTTATACTTCCAAATTTCATTTAATTTCTTCCCTATGAGACTCATCCGCACATAGG
1 ACTTGGAAATTTTTACTTCCAAATTTC-TTTAATTTCCTCCCTATGAGACTCATCCGCACATAGG
30160 GTGATAATTTAC
65 GTGATAATTTAC
* *
30172 ACTTGGAAGTTTTTACTTCCAAAATTCTTTAATTTCCTCCCTATGAGACTCATCTGCACAACCGC
1 ACTTGGAAATTTTTACTTCCAAATTTCTTTAATTTCCTCCCTATGAGACTCA--T------CCGC
30237 ACATAGGGTGATAATTTAC
58 ACATAGGGTGATAATTTAC
* *
30256 ATTTGGAAATTTTTATTTCCAAATTTC-TTAATTT-CTCCCTATGAGACTCATCCGCACATAGGG
1 ACTTGGAAATTTTTACTTCCAAATTTCTTTAATTTCCTCCCTATGAGACTCATCCGCACATAGGG
30319 TGATAATTTAC
66 TGATAATTTAC
* * * *
30330 ATTTGGAAATTTTTACTTCCAAAATTCTTTAATTTCTTCCCTATGAGACTCATCCGCACAT-CGG
1 ACTTGGAAATTTTTACTTCCAAATTTCTTTAATTTCCTCCCTATGAGACTCATCCGCACATAGGG
* **
30394 -CACT--TGGAC
66 TGA-TAATTTAC
* ** * ** * * **
30403 A-TAGGGTGATAATTTACATTTGGAAATTTCTACTTCCAATTTTTTTTTAATTGCTCCTTATGTC
1 ACT--TG-GA-AATTTTTACTTCCAAATTTCT--TT--AA--------T--TTCCTCCCTATGAG
** * *
30467 ACTCATGAGGACATAGGGTGACAATTTTAC
48 ACTCATCCGCACATAGGGTGATAA-TTTAC
* * *
30497 ACTTGGAAATTTCTACTTCCAAATTTCTTTTATTTCCTCCCTATGAGACACATCCGCACATAGGG
1 ACTTGGAAATTTTTACTTCCAAATTTCTTTAATTTCCTCCCTATGAGACTCATCCGCACATAGGG
30562 TGATAATTTAC
66 TGATAATTTAC
* * * *
30573 ATTTGGAAATTTGTACTTCCAAATTTCTTTAATTT-CTCCTTGTGAGACTTATCCGCACATCCGC
1 ACTTGGAAATTTTTACTTCCAAATTTCTTTAATTTCCTCCCTATGAGAC---T-----CATCCGC
*
30637 ACATAGGATGATAATTTAC
58 ACATAGGGTGATAATTTAC
* * * * * **
30656 ATTTGGAAATTTTTACCTCCAAAATTCTTCAATTTCTTCCCTATGAGACTCATCCGCACAT-CCG
1 ACTTGGAAATTTTTACTTCCAAATTTCTTTAATTTCCTCCCTATGAGACTCATCCGCACATAGGG
* * ***
30720 -CA-CATCCGC
66 TGATAATTTAC
* ** *
30729 ACTAGGACATAGGGTGATAATTTACATTTGGAAATTTCTACTTCCAAAATTTTTTTTAGTTGCTC
1 ACTTGGA-A-A---T--T--TTTAC--TTCCAAATTTCT--TT----AA-------T--TTCCTC
* ** * *
30794 CTTATGTCACTCATCCGGACATAGGGTGACAATTTTAC
40 CCTATGAGACTCATCCGCACATAGGGTGATAA-TTTAC
* * * * *
30832 ACTTGGAAATTTCTACTTCCAAATTTCTTTTATTTGCTCCCTATGTCATCACTCATCCGGACATA
1 ACTTGGAAATTTTTACTTCCAAATTTCTTTAATTTCCTCCCTATG--A-GACTCATCCGCACATA
30897 -GG-GACTAAATTTTAC
63 GGGTGA-T-AA-TTTAC
* * * *
30912 ACTTGGAAATTTCTACTTCCAAATTTCTTTTATTTCCTCCCTATGAGACACATCCGCACATACGG
1 ACTTGGAAATTTTTACTTCCAAATTTCTTTAATTTCCTCCCTATGAGACTCATCCGCACATAGGG
30977 TGATAATTTAC
66 TGATAATTTAC
* * *
30988 ATTTGGAAATTTGTACTTCCAAATTTCTTTAATTTCCTCCTTATGAGACTCATCCGCACAT
1 ACTTGGAAATTTTTACTTCCAAATTTCTTTAATTTCCTCCCTATGAGACTCATCCGCACAT
31049 CCGCACATCC
Statistics
Matches: 752, Mismatches: 120, Indels: 165
0.73 0.12 0.16
Matches are distributed among these distances:
72 1 0.00
73 12 0.02
74 52 0.07
75 24 0.03
76 172 0.23
77 119 0.16
78 36 0.05
79 6 0.01
80 72 0.10
81 1 0.00
82 21 0.03
83 63 0.08
84 64 0.09
86 2 0.00
87 1 0.00
88 1 0.00
89 2 0.00
90 24 0.03
91 18 0.02
92 13 0.02
93 1 0.00
94 8 0.01
95 1 0.00
96 1 0.00
97 1 0.00
98 1 0.00
99 22 0.03
100 1 0.00
101 2 0.00
102 2 0.00
103 8 0.01
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.38
Consensus pattern (76 bp):
ACTTGGAAATTTTTACTTCCAAATTTCTTTAATTTCCTCCCTATGAGACTCATCCGCACATAGGG
TGATAATTTAC
Found at i:30316 original size:158 final size:159
Alignment explanation
Indices: 30075--31420 Score: 984
Period size: 158 Copynumber: 8.4 Consensus size: 159
30065 ACTCATAGGG
* * * * *
30075 ACATAGGGTGACAATTTTATACTTGGAAATTTATACTTCCAAATTTCATTTAATTTCTTCCCTAT
1 ACATAGGGTGATAA-TTTACATTTGGAAATTTCTACTTCCAAATTTC-TTTAATTTC-TCCTTAT
*
30140 GAGACTCATCCGCACATAGGGTGATAATTTACACTTGGAAGTTTTTACTTCCAAAATTCTTTAAT
63 GAGACTCATCCGCACATAGGGTGATAATTTACACTTGGAAATTTTTACTTCCAAAATTCTTTAAT
30205 TTCCTCCCTATGAGACTCATCTGCACAACCGC
128 TTCCTCCCTATGAGACTCATCTGCACAACCGC
* * *
30237 ACATAGGGTGATAATTTACATTTGGAAATTTTTATTTCCAAATTTC-TTAATTTCTCCCTATGAG
1 ACATAGGGTGATAATTTACATTTGGAAATTTCTACTTCCAAATTTCTTTAATTTCTCCTTATGAG
*
30301 ACTCATCCGCACATAGGGTGATAATTTACATTTGGAAATTTTTACTTCCAAAATTCTTTAATTTC
66 ACTCATCCGCACATAGGGTGATAATTTACACTTGGAAATTTTTACTTCCAAAATTCTTTAATTTC
* * * *
30366 TTCCCTATGAGACTCATCCGCACATCGGCACTTGG
131 CTCCCTATGAGACTCATCTGCACA-----AC-CGC
* * * *
30401 ACATAGGGTGATAATTTACATTTGGAAATTTCTACTTCCAATTTTTTTTTAATTGCTCCTTATGT
1 ACATAGGGTGATAATTTACATTTGGAAATTTCTACTTCCAA-ATTTCTTTAATTTCTCCTTATGA
* ** * * * * *
30466 CACTCATGAGGACATAGGGTGACAATTTTACACTTGGAAATTTCTACTTCCAAATTTCTTTTATT
65 GACTCATCCGCACATAGGGTGATAA-TTTACACTTGGAAATTTTTACTTCCAAAATTCTTTAATT
*
30531 TCCTCCCTATGAG----A----CACATCCGC
129 TCCTCCCTATGAGACTCATCTGCACAACCGC
* *
30554 ACATAGGGTGATAATTTACATTTGGAAATTTGTACTTCCAAATTTCTTTAATTTCTCCTTGTGAG
1 ACATAGGGTGATAATTTACATTTGGAAATTTCTACTTCCAAATTTCTTTAATTTCTCCTTATGAG
* * *
30619 ACTTATCCGCACATCCGCACATAGGATGATAATTTACATTTGGAAATTTTTACCTCCAAAATTCT
66 AC---T-----CATCCGCACATAGGGTGATAATTTACACTTGGAAATTTTTACTTCCAAAATTCT
* * *
30684 TCAATTTCTTCCCTATGAGACTCATCCGCACATCCGCACATCCGCAC
123 TTAATTTCCTCCCTATGAGACTCAT-----C-T--GCACAACCG--C
* * *
30731 TAGGACATAGGGTGATAATTTACATTTGGAAATTTCTACTTCCAAAATTTTTTTTAGTTGCTCCT
1 ----ACATAGGGTGATAATTTACATTTGGAAATTTCTACTTCC-AAA-TTTCTTTAATTTCTCCT
** * * * *
30796 TATGTCACTCATCCGGACATAGGGTGACAATTTTACACTTGGAAATTTCTACTTCCAAATTTCTT
60 TATGAGACTCATCCGCACATAGGGTGATAA-TTTACACTTGGAAATTTTTACTTCCAAAATTCTT
* * * * * *
30861 TTATTTGCTCCCTAT--G--TCATC-ACTCATCCGG
124 TAATTTCCTCCCTATGAGACTCATCTGCACAACCGC
* * *
30892 ACATA-GG-GACTAAATTTTACACTTGGAAATTTCTACTTCCAAATTTCTTTTATTTCCTCCCTA
1 ACATAGGGTGA-T-AA-TTTACATTTGGAAATTTCTACTTCCAAATTTCTTTAATTT-CTCCTTA
* * * * *
30955 TGAGACACATCCGCACATACGGTGATAATTTACATTTGGAAATTTGTACTTCCAAATTTCTTTAA
62 TGAGACTCATCCGCACATAGGGTGATAATTTACACTTGGAAATTTTTACTTCCAAAATTCTTTAA
*
31020 TTTCCTCCTTATGAGACTCATCCGCACATCCGCACATCCGCACATCCGC
127 TTTCCTCCCTATGAGACTCAT-----C-T--G--CA----CA-A-CCGC
*
31069 ACATAGGGTGATAATTTACATTTGGAAATTTTTACTTCCAAATTTCTTTAATTTCTCCTTATGAG
1 ACATAGGGTGATAATTTACATTTGGAAATTTCTACTTCCAAATTTCTTTAATTTCTCCTTATGAG
* ** * * *
31134 ACTCATCCGCAGAT-CCG-CAT-A--T--A----GAAATTTTTACTTCCAAATTTCTTTTAA-AT
66 ACTCATCCGCACATAGGGTGATAATTTACACTTGGAAATTTTTACTTCCAAAATTC-TTTAATTT
* *
31187 CTTCCCTATGAGACTCA--T------CCGG
130 CCTCCCTATGAGACTCATCTGCACAACCGC
* ** * * * * *
31209 ACATAGGGTGACAATTTTGTACTTCGAAATTTATACTTCCAAATTTCATTTAGTTGCTACC-TAT
1 ACATAGGGTGATAA-TTTACATTTGGAAATTTCTACTTCCAAATTTC-TTTAATTTCT-CCTTAT
** * * * * * * *
31273 GTCACTCATCCGGACATAGGGTGACAATTTTTCATTTGGAAATTTATACTTCCAAATTTTTTTTA
63 GAGACTCATCCGCACATAGGGTGATAA-TTTACACTTGGAAATTTTTACTTCCAAA-ATTCTTTA
* * *
31338 A-TTGCTCCCTAT--G--TCA-CT---CATCCGG
126 ATTTCCTCCCTATGAGACTCATCTGCACAACCGC
* *
31363 ACATAGGGTGACAATTTTACACTTGGAAATTTCTACTTCCAAATTTCATTTAATTTCT
1 ACATAGGGTGATAA-TTTACATTTGGAAATTTCTACTTCCAAATTTC-TTTAATTTCT
31421 TTCCTATGTC
Statistics
Matches: 962, Mismatches: 132, Indels: 188
0.75 0.10 0.15
Matches are distributed among these distances:
140 16 0.02
141 27 0.03
142 24 0.02
143 3 0.00
144 1 0.00
145 1 0.00
148 1 0.00
150 4 0.00
151 1 0.00
152 21 0.02
153 41 0.04
154 87 0.09
155 6 0.01
156 56 0.06
157 38 0.04
158 120 0.12
159 57 0.06
160 20 0.02
161 28 0.03
162 13 0.01
163 11 0.01
164 77 0.08
165 9 0.01
166 34 0.04
167 48 0.05
168 1 0.00
170 1 0.00
171 1 0.00
172 5 0.01
173 2 0.00
174 3 0.00
175 50 0.05
176 78 0.08
177 11 0.01
178 3 0.00
179 2 0.00
180 1 0.00
181 38 0.04
182 3 0.00
183 19 0.02
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.38
Consensus pattern (159 bp):
ACATAGGGTGATAATTTACATTTGGAAATTTCTACTTCCAAATTTCTTTAATTTCTCCTTATGAG
ACTCATCCGCACATAGGGTGATAATTTACACTTGGAAATTTTTACTTCCAAAATTCTTTAATTTC
CTCCCTATGAGACTCATCTGCACAACCGC
Found at i:30567 original size:243 final size:233
Alignment explanation
Indices: 30237--30677 Score: 657
Period size: 243 Copynumber: 1.8 Consensus size: 233
30227 GCACAACCGC
* * * *
30237 ACATAGGGTGATAATTTACATTTGGAAATTTTTATTTCCAAATTTCTTAATTTCTCCCTATGAGA
1 ACATAGGGTGACAATTTACACTTGGAAATTTCTACTTCCAAATTTCTTAATTTCTCCCTATGAGA
* *
30302 CTCATCCGCACATAGGGTGATAATTTACATTTGGAAATTTTTACTTCCAAAATTCTTTAATTTCT
66 CACATCCGCACATAGGGTGATAATTTACATTTGGAAATTTGTACTTCCAAAATTCTTTAATTTC-
* *
30367 TCCCTATGAGACTCATCCGCACATCGGCACTTGGACATAGGGTGATAATTTACATTTGGAAATTT
130 TCCCTATGAGACTCATCCGCACAT---C-C--GCACATAGGATGATAATTTACATTTGGAAATTT
*
30432 CTACTTCCAATTTTTTTTTAATTGCTCCTTATGTCACTCATGAGG
189 CTACCTCCAATTTTTTTTTAATTGCTCCTTATGTCACTCATGAGG
*
30477 ACATAGGGTGACAATTTTACACTTGGAAATTTCTACTTCCAAATTTCTTTTATTTCCTCCCTATG
1 ACATAGGGTGACAA-TTTACACTTGGAAATTTCTACTTCCAAATTTC-TTAATTT-CTCCCTATG
*
30542 AGACACATCCGCACATAGGGTGATAATTTACATTTGGAAATTTGTACTTCCAAATTTCTTTAATT
63 AGACACATCCGCACATAGGGTGATAATTTACATTTGGAAATTTGTACTTCCAAAATTCTTTAATT
* * * *
30607 TCTCCTTGTGAGACTTATCCGCACATCCGCACATAGGATGATAATTTACATTTGGAAATTTTTAC
128 TCTCCCTATGAGACTCATCCGCACATCCGCACATAGGATGATAATTTACATTTGGAAATTTCTAC
30672 CTCCAA
193 CTCCAA
30678 AATTCTTCAA
Statistics
Matches: 183, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
236 39 0.21
238 1 0.01
239 1 0.01
240 13 0.07
241 29 0.16
242 27 0.15
243 73 0.40
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (233 bp):
ACATAGGGTGACAATTTACACTTGGAAATTTCTACTTCCAAATTTCTTAATTTCTCCCTATGAGA
CACATCCGCACATAGGGTGATAATTTACATTTGGAAATTTGTACTTCCAAAATTCTTTAATTTCT
CCCTATGAGACTCATCCGCACATCCGCACATAGGATGATAATTTACATTTGGAAATTTCTACCTC
CAATTTTTTTTTAATTGCTCCTTATGTCACTCATGAGG
Found at i:30684 original size:83 final size:84
Alignment explanation
Indices: 30545--30724 Score: 281
Period size: 83 Copynumber: 2.2 Consensus size: 84
30535 CCCTATGAGA
* * * *
30545 CACATCCGCACATAGGGTGATAATTTACATTTGGAAATTTGTACTTCCAAATTTCTTTAATTTC-
1 CACATCCGCACATAGGATGATAATTTACATTTGGAAATTTGTACCTCCAAAATTCTTCAATTTCT
* * *
30609 TCCTTGTGAGACTTATCCG
66 TCCCTATGAGACTCATCCG
*
30628 CACATCCGCACATAGGATGATAATTTACATTTGGAAATTTTTACCTCCAAAATTCTTCAATTTCT
1 CACATCCGCACATAGGATGATAATTTACATTTGGAAATTTGTACCTCCAAAATTCTTCAATTTCT
30693 TCCCTATGAGACTCATCCG
66 TCCCTATGAGACTCATCCG
30712 CACATCCGCACAT
1 CACATCCGCACAT
30725 CCGCACTAGG
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 59 0.67
84 29 0.33
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (84 bp):
CACATCCGCACATAGGATGATAATTTACATTTGGAAATTTGTACCTCCAAAATTCTTCAATTTCT
TCCCTATGAGACTCATCCG
Found at i:30719 original size:8 final size:8
Alignment explanation
Indices: 30706--30730 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
30696 CTATGAGACT
30706 CATCCGCA
1 CATCCGCA
30714 CATCCGCA
1 CATCCGCA
30722 CATCCGCA
1 CATCCGCA
30730 C
1 C
30731 TAGGACATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.52, G:0.12, T:0.12
Consensus pattern (8 bp):
CATCCGCA
Found at i:30910 original size:80 final size:77
Alignment explanation
Indices: 30733--31048 Score: 351
Period size: 80 Copynumber: 4.1 Consensus size: 77
30723 ATCCGCACTA
* * * * *
30733 GGACATAGGG-TGATAA-TTTACATTTGGAAATTTCTACTTCCAAAATTTTTTTTAGTTGCTCCT
1 GGACATAGGGAT-A-AATTTTACACTTGGAAATTTCTACTTCC-AAATTTCTTTTATTTCCTCCC
30796 TATG-TCACTCATCC
63 TATGATCACTCATCC
*
30810 GGACATAGGG-TGACAATTTTACACTTGGAAATTTCTACTTCCAAATTTCTTTTATTTGCTCCCT
1 GGACATAGGGAT-A-AATTTTACACTTGGAAATTTCTACTTCCAAATTTCTTTTATTTCCTCCCT
30874 ATGTCATCACTCATCC
64 ATG--ATCACTCATCC
30890 GGACATAGGGACTAAATTTTACACTTGGAAATTTCTACTTCCAAATTTCTTTTATTTCCTCCCTA
1 GGACATAGGGA-TAAATTTTACACTTGGAAATTTCTACTTCCAAATTTCTTTTATTTCCTCCCTA
* *
30955 TGA-GACACATCC
65 TGATCACTCATCC
* * * * *
30967 GCACATACGGTGAT-AA-TTTACATTTGGAAATTTGTACTTCCAAATTTCTTTAATTTCCTCCTT
1 GGACATA-GG-GATAAATTTTACACTTGGAAATTTCTACTTCCAAATTTCTTTTATTTCCTCCCT
*
31030 ATGA-GACTCATCC
64 ATGATCACTCATCC
*
31043 GCACAT
1 GGACAT
31049 CCGCACATCC
Statistics
Matches: 217, Mismatches: 14, Indels: 17
0.88 0.06 0.07
Matches are distributed among these distances:
76 61 0.28
77 52 0.24
78 28 0.13
79 2 0.01
80 72 0.33
81 1 0.00
82 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.39
Consensus pattern (77 bp):
GGACATAGGGATAAATTTTACACTTGGAAATTTCTACTTCCAAATTTCTTTTATTTCCTCCCTAT
GATCACTCATCC
Found at i:31051 original size:8 final size:8
Alignment explanation
Indices: 31038--31072 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
31028 TTATGAGACT
31038 CATCCGCA
1 CATCCGCA
31046 CATCCGCA
1 CATCCGCA
31054 CATCCGCA
1 CATCCGCA
31062 CATCCGCA
1 CATCCGCA
31070 CAT
1 CAT
31073 AGGGTGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.26, C:0.49, G:0.11, T:0.14
Consensus pattern (8 bp):
CATCCGCA
Found at i:31284 original size:77 final size:78
Alignment explanation
Indices: 31157--31472 Score: 422
Period size: 77 Copynumber: 4.1 Consensus size: 78
31147 TCCGCATATA
* * * **
31157 GAAATTTTTACTTCCAAATTTCTTTTAAAT-CTTCCCTATGAGACTCATCCGGACATAGGGTGAC
1 GAAATTTATACTTCCAAATTTCATTTAATTGCTTCCCTATGTCACTCATCCGGACATAGGGTGAC
*
31221 AATTTTGTACTTC
66 AATTTTGCACTTC
* *
31234 GAAATTTATACTTCCAAATTTCATTTAGTTGC-TACCTATGTCACTCATCCGGACATAGGGTGAC
1 GAAATTTATACTTCCAAATTTCATTTAATTGCTTCCCTATGTCACTCATCCGGACATAGGGTGAC
* * *
31298 AATTTTTCATTTG
66 AATTTTGCACTTC
**
31311 GAAATTTATACTTCCAAATTTTTTTTAATTGC-TCCCTATGTCACTCATCCGGACATAGGGTGAC
1 GAAATTTATACTTCCAAATTTCATTTAATTGCTTCCCTATGTCACTCATCCGGACATAGGGTGAC
* *
31375 AATTTTACACTTG
66 AATTTTGCACTTC
* * * **
31388 GAAATTTCTACTTCCAAATTTCATTTAATTTCTTTCCTATGTCACTCATAGGGACATAGGGTGAC
1 GAAATTTATACTTCCAAATTTCATTTAATTGCTTCCCTATGTCACTCATCCGGACATAGGGTGAC
31453 AATTTTGCACTTC
66 AATTTTGCACTTC
*
31466 CAAATTT
1 GAAATTT
31473 TGTACTTGGA
Statistics
Matches: 210, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
77 163 0.78
78 47 0.22
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (78 bp):
GAAATTTATACTTCCAAATTTCATTTAATTGCTTCCCTATGTCACTCATCCGGACATAGGGTGAC
AATTTTGCACTTC
Found at i:35432 original size:22 final size:22
Alignment explanation
Indices: 35414--35456 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
35404 AAATTAATTT
35414 TTAATTAATTAGTATTTAATTAC
1 TTAATTAATTAGT-TTTAATTAC
* *
35437 TTAGTTTATTAGTTTTAATT
1 TTAATTAATTAGTTTTAATT
35457 GGTTAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (22 bp):
TTAATTAATTAGTTTTAATTAC
Found at i:35466 original size:22 final size:23
Alignment explanation
Indices: 35414--35467 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
35404 AAATTAATTT
*
35414 TTAATTAATTAGTATTTAATTAC
1 TTAATTTATTAGTATTTAATTAC
* **
35437 TTAGTTTATTAGT-TTTAATTGG
1 TTAATTTATTAGTATTTAATTAC
35459 TTAATTTAT
1 TTAATTTAT
35468 GATTAACTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.57
Consensus pattern (23 bp):
TTAATTTATTAGTATTTAATTAC
Found at i:36029 original size:22 final size:22
Alignment explanation
Indices: 35950--36032 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
35940 ATCACTGTGT
*
35950 GGTTATCAAAATTCCATAAT-AA
1 GGTTATCAAAATTTCAT-ATGAA
* * *
35972 GTTTATCAAAATTGCATAAGAA
1 GGTTATCAAAATTTCATATGAA
* * *
35994 TGTCATCAAAATTTCATATGGA
1 GGTTATCAAAATTTCATATGAA
36016 GGTTATCAAAATTTCAT
1 GGTTATCAAAATTTCAT
36033 TGTATGGTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
21 1 0.02
22 48 0.98
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
GGTTATCAAAATTTCATATGAA
Found at i:36041 original size:22 final size:23
Alignment explanation
Indices: 35949--36041 Score: 77
Period size: 22 Copynumber: 4.2 Consensus size: 23
35939 CATCACTGTG
*
35949 TGGTTATCAAAATTCCATAA-TA
1 TGGTTATCAAAATTTCATAAGTA
* * * *
35971 AGTTTATCAAAATTGCATAAGAA
1 TGGTTATCAAAATTTCATAAGTA
* * *
35994 T-GTCATCAAAATTTCATATGGA
1 TGGTTATCAAAATTTCATAAGTA
*
36016 -GGTTATCAAAATTTCAT-TGTA
1 TGGTTATCAAAATTTCATAAGTA
36037 TGGTT
1 TGGTT
36042 TTGCAAATAT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
21 3 0.05
22 52 0.93
23 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (23 bp):
TGGTTATCAAAATTTCATAAGTA
Found at i:36167 original size:22 final size:20
Alignment explanation
Indices: 36123--36167 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
36113 AGTACAACGT
*
36123 TAATTAACTAAATTGGTTTA
1 TAATTAACTAAATTGGTTGA
*
36143 TAATTAGACTATATATGGTTGA
1 TAATTA-ACTAAAT-TGGTTGA
36165 TAA
1 TAA
36168 GTTATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 6 0.29
22 9 0.43
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (20 bp):
TAATTAACTAAATTGGTTGA
Found at i:40560 original size:21 final size:21
Alignment explanation
Indices: 40536--40584 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
40526 GTACCTGATG
40536 TGCACTCATTATACGTCGAAT
1 TGCACTCATTATACGTCGAAT
40557 TGCACTCATTATACGTCGAAT
1 TGCACTCATTATACGTCGAAT
40578 TGGCACT
1 T-GCACT
40585 ACGCACAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (21 bp):
TGCACTCATTATACGTCGAAT
Found at i:41448 original size:1 final size:1
Alignment explanation
Indices: 41442--41472 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
41432 GAGGTGAGGG
41442 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
41473 GGGAAAAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:41824 original size:28 final size:28
Alignment explanation
Indices: 41784--41841 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
41774 TTGCATCTAT
41784 GGTGGTTATCGGATTATATCTGATTGGA
1 GGTGGTTATCGGATTATATCTGATTGGA
41812 GGTGGTTATCGGATTATATCTGATTGGA
1 GGTGGTTATCGGATTATATCTGATTGGA
41840 GG
1 GG
41842 GGTCAATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.07, G:0.34, T:0.38
Consensus pattern (28 bp):
GGTGGTTATCGGATTATATCTGATTGGA
Found at i:45754 original size:20 final size:20
Alignment explanation
Indices: 45711--45760 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
45701 ATTTTCTGAT
*
45711 TTTTCCATTTTTCATTTTTTC
1 TTTTCC-TTCTTCATTTTTTC
45732 TTTTCCTTCTTC-TTTTTTGC
1 TTTTCCTTCTTCATTTTTT-C
*
45752 TTTTTCTTC
1 TTTTCCTTC
45761 AAATTTTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 6 0.23
20 14 0.54
21 6 0.23
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTCCTTCTTCATTTTTTC
Found at i:51735 original size:44 final size:43
Alignment explanation
Indices: 51655--51741 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
51645 TGATTTGCCT
* * *
51655 TCACACCGCCTTGGTCAAATTGAAAAGCCAACATGGCTTTTTA
1 TCACACCACCTTGGTCAAATTGAAAACCCAACATGGCCTTTTA
* * *
51698 TCACAGCCACCTTGGTCAAATTGAAATCCCGATATGGCCTTTTA
1 TCACA-CCACCTTGGTCAAATTGAAAACCCAACATGGCCTTTTA
51742 AAATTCTCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 5 0.14
44 32 0.86
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (43 bp):
TCACACCACCTTGGTCAAATTGAAAACCCAACATGGCCTTTTA
Found at i:52717 original size:158 final size:158
Alignment explanation
Indices: 52188--52921 Score: 840
Period size: 158 Copynumber: 4.6 Consensus size: 158
52178 ACTACTTCTA
* ** * *
52188 TTTTTAAATAAAATTGTTTGCATTTTCACATCAAATATAATCATAATCCGTTGTAGCACTT-GCT
1 TTTTTAAATAAAATTGTTTGCATTTT-TCAT--AGCA-AAT-GTAATCCGCTGTAGCACTTGGC-
* * * * * * * * *
52252 AATTCCTTTGGATATTTGGAATCTGGGTTCAAATTCCGGCACTAGCAT-AAAATTTCAA-ATTAT
60 AATTCCTATGGATATTTGGAATCCGGGTTCAAATCCCGGCAGTGGAATAAAAATTTTAATTTTTT
* * * *
52315 TTT-ATTAGAAATTATATAAATAAAGGATTTTTG
125 TTTCATTAGAAATAATAAAAATAAAAGACTTTTG
** * * * * * *
52348 TTTTTAAATAATTTTTTTTGCA-ATTTCACATCAAATGTAATCCACTGTAGCACTTCGCAATTCC
1 TTTTTAAATAAAATTGTTTGCATTTTTCATAGCAAATGTAATCCGCTGTAGCACTTGGCAATTCC
* * * * *
52412 TATGGATATTTGGAATCCAGGTTCAAATCCTGGCAGCGGAATAAAAA-TTTAATTTTTTTTCCAC
66 TATGGATATTTGGAATCCGGGTTCAAATCCCGGCAGTGGAATAAAAATTTTAATTTTTTTTTCAT
* *
52476 TGGAAATAATAAAAAT-AAAGACTTTTA
131 TAGAAATAATAAAAATAAAAGACTTTTG
* * *
52503 TTTTTAAATAAAATTGTTTGCATTTTTCATAGTAAATGTAATCCACTGTAGTACTTGGCAATTCC
1 TTTTTAAATAAAATTGTTTGCATTTTTCATAGCAAATGTAATCCGCTGTAGCACTTGGCAATTCC
* * **
52568 TATAGATATTTGGAATCCAGGTTCAAATCCCCACAGTGGAATAAAAATTTTAACTTTTTTTTTCA
66 TATGGATATTTGGAATCCGGGTTCAAATCCCGGCAGTGGAATAAAAATTTTAA-TTTTTTTTTCA
52633 TTAGAAATAATAAAAATAAAAGACTTTTG
130 TTAGAAATAATAAAAATAAAAGACTTTTG
*
52662 TTTTTAAATAAAATTG-TTGCATTTTTCATGGCAAATGTAATCCGCTGTAGCACTTGGCAATTCC
1 TTTTTAAATAAAATTGTTTGCATTTTTCATAGCAAATGTAATCCGCTGTAGCACTTGGCAATTCC
*
52726 TATGGATATTTGGAATCCGGGTTCAAATCCCGGCAGTGGAATAAAAATTTTAATCTTTTTTTCAT
66 TATGGATATTTGGAATCCGGGTTCAAATCCCGGCAGTGGAATAAAAATTTTAATTTTTTTTTCAT
52791 TAGAAAATAATAAAAATAAAAGACTTTTG
131 TAG-AAATAATAAAAATAAAAGACTTTTG
* * * * * * *
52820 TTTTTAAATAAAATTGTTTGTA-TTTTCATATCAATTATAATCTGTTGTAGCAC-CGGCAATTCC
1 TTTTTAAATAAAATTGTTTGCATTTTTCATAGCAAATGTAATCCGCTGTAGCACTTGGCAATTCC
* *
52883 TATATGATGATCTTGGAATCCGGGTTCAAATCTCGGCAG
66 TAT-GGAT-AT-TTGGAATCCGGGTTCAAATCCCGGCAG
52922 CACCAAAAAC
Statistics
Matches: 493, Mismatches: 68, Indels: 26
0.84 0.12 0.04
Matches are distributed among these distances:
154 59 0.12
155 41 0.08
156 94 0.19
157 31 0.06
158 189 0.38
159 34 0.07
160 45 0.09
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (158 bp):
TTTTTAAATAAAATTGTTTGCATTTTTCATAGCAAATGTAATCCGCTGTAGCACTTGGCAATTCC
TATGGATATTTGGAATCCGGGTTCAAATCCCGGCAGTGGAATAAAAATTTTAATTTTTTTTTCAT
TAGAAATAATAAAAATAAAAGACTTTTG
Found at i:57629 original size:333 final size:330
Alignment explanation
Indices: 55835--57982 Score: 1805
Period size: 333 Copynumber: 6.6 Consensus size: 330
55825 TTTTTCCTTG
** * * * * * * *
55835 ATTTTTGGAAAAATATACTCATAAAATATGTATAAATCAACGTCAAAAAGATTAAAAGACTTTTT
1 ATTTTTGGCTAAA-ATACTCATAAAA-ATATATAATTCAATGCCAAAAAGATT-GAAGGCTTTTC
* * * * ** * **
55900 GCGCATTTAGTATCG-TTTTCATATTTTTTCTGAATCAATTTCTAATTAAATTGAAACAAGATTC
63 ACGCTTTTAATATCGTTTTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCAAAACAAGATTC
* * * * ** * *
55964 AAATGCTCGTAAAAAGAAATCCTTATATCCAATATGTTTGAGATTTGATTAGATGAATAAAGATA
128 AGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTAATTAGATGAATATAGATA
* * * * * * * *
56029 TTTCAAGGAGTCTTGGCGCCAAAACTCATGCAAAACAGAGCCGTGGCCCC-AGAATGCGTTTTTA
193 TTTCAAAGAGTCTCGGCGTCAAAAATCATGCAAAACTGAGTCGGGGCCCCGA-AACGCGTTTTTA
* ** * * *
56093 G-CAAAAACCGTGATGGTTAGTATGCGATTTCGGCTAAAATTTTGCAAAAAGTGA--CAAAAGAT
257 GCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAATTTTACAAAAATTGACCCGAAAGAT
*
56155 ATTTTCTCA
322 ATTTCCTCA
* *
56164 ATTTTTGGCTAAAATACTCATAAAAAATATATAATT--ATACATCAAAAATATTGAAGGGCTTTT
1 ATTTTTGGCTAAAATACTCAT-AAAAATATATAATTCAATGC--CAAAAAGATTGAA-GGCTTTT
* * * *
56227 AACGCTTCTAATA-------T--TGTTTTTT---AATTAATTTCTAATTAAATCGAAACAAGATT
62 CACGCTTTTAATATCGTTTTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCAAAACAAGATT
* * * *
56280 CAGATGCTCATAAAAACAAATCCTTAAATTCAATGTGACTGAGATTTGATTAGATGAATATAGAT
127 CAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTAATTAGATGAATATAGAT
* * ** ** *
56345 ATTTCAAGGAGTCTTGGCG-CAAAAAATCATGCAAAACTGACCCTAGGCCCC-ATAACGTGTTTT
192 ATTTCAAAGAGTCTCGGCGTC-AAAAATCATGCAAAACTGAGTCGGGGCCCCGA-AACGCGTTTT
*** * * * * * * *
56408 TAG-CAAAAAAAATAAAAATGA-TGGTACATGATTCCGAC-AAATATTTTGCAAAAATTGACCCA
255 TAGCCAAAAACCGT---GATGATTAGTACACGATTTCGGCTAAA-ATTTTACAAAAATTGACCCG
* * * *
56470 AAATATTTTTCGTCG
316 AAAGATATTTCCTCA
* * *
56485 ATTTTTAGCTATAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCA
1 ATTTTTGGCTAAAATACTCAT-AAAAATATATAATTCAATGCCAAAAAGATTGAA-GGCTTTTCA
* * * * *
56550 CG-TTTCTAATATTGTTTTTCCTATTTTTT-CGAATTTATTTCTAATTAAATCGAAACATGATTC
64 CGCTTT-TAATATCGTTTTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCAAAACAAGATTC
* * **
56613 AGATG--C-T---------T-GTTAAA-ACAA--TGGCTGAGATTTGGTTAGATGAATATAGATA
128 AGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTAATTAGATGAATATAGATA
* * * * *
56662 TTTCAATGAGTCTCGGCG-CAAAAAATCATGCAAAACTGA-ACCGGGCCTCGAAACTCCGTTTTT
193 TTTCAAAGAGTCTCGGCGTC-AAAAATCATGCAAAACTGAGTCGGGGCCCCGAAAC-GCGTTTTT
* * * * * *
56725 AGCC-TAAACCGTGATGATTATTACATGTTTTCGGCTAAAATTATACAAAAATTGACCTGAAAGA
256 AGCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAATTTTACAAAAATTGACCCGAAAGA
56789 TATTTCCTCA
321 TATTTCCTCA
* * *
56799 ATTTTTAG-TCACAATACTCATAAAAATATATAATTCAATGCCGAAAAGATTGAAGAGCTTTTCA
1 ATTTTTGGCT-AAAATACTCATAAAAATATATAATTCAATGCCAAAAAGATTGAAG-GCTTTTCA
* * * *
56863 CGCTTTTAATATCGTTTTTCATATTTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGAATCA
64 CGCTTTTAATATCGTTTTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCAAAACAAGATTCA
* * * * * *
56928 TATGCTTGTAAAAACAAATCCTTAAATGCAATGTGGCTAATATTTTATTAGATGAATATAGATAT
129 GATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTAATTAGATGAATATAGATAT
* * * * * * *
56993 TTCAAGGAATCTCAGTGTCAAAAATCATGCAAAACTGAGTCGGGTCCCTGAAACACGTTTTTAGC
194 TTCAAAGAGTCTCGGCGTCAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCGTTTTTAGC
* * * * * * * * * * *
57058 CAAAAACCATTATAATTAGTACACGGTTTTGTCTCAAATTTTGCAAAAAAAAAATGACCCAAAAA
259 CAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAATTTT----ACAAAAATTGACCCGAAAG
*
57123 ATTTTTCCTCA
320 ATATTTCCTCA
* * * * ** *
57134 ATTTTTGGATAAAAAACTCATAAAAAAATATAATTTAACACCAAAAAGATTGGAGGGCTTTTCAC
1 ATTTTTGGCTAAAATACTCATAAAAATATATAATTCAATGCCAAAAAGATT-GAAGGCTTTTCAC
* ** **
57199 ACTTTTAATATCG--TTTCCTTATTTTTTTTCTGAATTAATTTCTAATTAAATTGAAACAAGATT
65 GCTTTTAATATCGTTTTTCC-TA--TTTTTTCCAAATTAATTTCTAATTAAATCAAAACAAGATT
* * *
57262 CAGATGCTCGCAAAAACAAATTCTTAAATCCAATGTGGCTGAGATTTAATTAGATGAATATGGAT
127 CAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTAATTAGATGAATATAGAT
* ** * * *
57327 -TTCTCAAAGAGTCTTGGCGTCAAAAATCATTTAAAACTGAGTTGGGGCCCCAAAACGCTTTTTT
192 ATT-TCAAAGAGTCTCGGCGTCAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCGTTTTT
* * * ** **
57391 AGGC-AAAACCTGTGATGGTTATTACACGATTTCAACTAAAATTTTGTAGAAAA-TGAACCCGAA
256 AGCCAAAAACC-GTGATGATTAGTACACGATTTCGGCTAAAATTTTACA-AAAATTG-ACCCGAA
*
57454 AGATATTTCCTCT
318 AGATATTTCCTCA
* * * *
57467 TTTTTTGGCTAAAATACTCATACAAAATATATAATTCATTGCCAAAAATATTGAAGTGCTTTTTA
1 ATTTTTGGCTAAAATACTCATA-AAAATATATAATTCAATGCCAAAAAGATTGAAG-GCTTTTCA
* *
57532 TG-TTTCTAATATCGTTTTTCCTATTTTTTCCAAATTAATTTATAATTAAATCAAAACAAGATTC
64 CGCTTT-TAATATCGTTTTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCAAAACAAGATTC
* * ** * *
57596 AGATACTCGGAAAAACAAATCCTTATGTCCAATGTGGCTGGGATTGAATTAGATGAATATAGATA
128 AGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTAATTAGATGAATATAGATA
* * * * * * ** * *
57661 TTTC-AAGTAGTCTAGGAGCCAAAAATCATGCAAAATTGAGCCAGGTACCCGGAACGCGGTTTTA
193 TTTCAAAG-AGTCTCGGCGTCAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCGTTTTTA
* * **
57725 GCCAAAAACCGTGACGGTTAGTACACGATTTCGGCTAAAATTTTACAAAAATTGAAACGAAAGAT
257 GCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAATTTTACAAAAATTGACCCGAAAGAT
57790 -TTCTCCTCA
322 ATT-TCCTCA
* * *
57799 ATTTTTGACTAAAATACTCATAAAAATATATAATTCAATGTCAAAAAGATTGGAGGACTTTTCAC
1 ATTTTTGGCTAAAATACTCATAAAAATATATAATTCAATGCCAAAAAGATTGAAGG-CTTTTCAC
* * * * *
57864 GCCTTTAATATCATATTTCTTA-TTTTTCCTAAATTAATTTCTAATTAAATCAAAACAAGATTAA
65 GCTTTTAATATCGTTTTTCCTATTTTTTCC-AAATTAATTTCTAATTAAATCAAAACAAGATTCA
* * * *
57928 GATGCTCGTAAAAACAAATACTTAAATCCAATGTTGCTGGGATTTAGTTAGATGA
129 GATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTAATTAGATGA
57983 TGTAAAGTAT
Statistics
Matches: 1477, Mismatches: 263, Indels: 156
0.78 0.14 0.08
Matches are distributed among these distances:
312 1 0.00
313 67 0.05
314 93 0.06
315 12 0.01
316 80 0.05
317 150 0.10
318 6 0.00
319 31 0.02
320 13 0.01
321 74 0.05
322 1 0.00
323 2 0.00
326 2 0.00
327 7 0.00
328 43 0.03
329 16 0.01
330 87 0.06
331 171 0.12
332 81 0.05
333 219 0.15
334 48 0.03
335 96 0.06
336 177 0.12
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (330 bp):
ATTTTTGGCTAAAATACTCATAAAAATATATAATTCAATGCCAAAAAGATTGAAGGCTTTTCACG
CTTTTAATATCGTTTTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCAAAACAAGATTCAGA
TGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTAATTAGATGAATATAGATATTT
CAAAGAGTCTCGGCGTCAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCGTTTTTAGCCA
AAAACCGTGATGATTAGTACACGATTTCGGCTAAAATTTTACAAAAATTGACCCGAAAGATATTT
CCTCA
Found at i:58549 original size:21 final size:20
Alignment explanation
Indices: 58525--58568 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
58515 AGGAATTAAT
*
58525 AAAAAAAGTTGAATCATCTAA
1 AAAAAAAGTTAAATCA-CTAA
* *
58546 AAAAAAGGTTAAATTACTAA
1 AAAAAAAGTTAAATCACTAA
58566 AAA
1 AAA
58569 GAATACTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.61, C:0.07, G:0.09, T:0.23
Consensus pattern (20 bp):
AAAAAAAGTTAAATCACTAA
Found at i:58675 original size:2 final size:2
Alignment explanation
Indices: 58670--58702 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
58660 AGTAAGATAA
*
58670 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58703 GTAAAATAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64643 original size:338 final size:338
Alignment explanation
Indices: 63915--65741 Score: 1226
Period size: 338 Copynumber: 5.5 Consensus size: 338
63905 CCATGATGGT
* *
63915 AAAAA-TGACCCGAAAGATTTTTCCTTAATTTTTGGCAAAAA-ACTCAT--AAAATATATAATTC
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAGCAAAAATACTCATAAAAAATATATAATTC
** * * * * *
63976 AACGCCAAAAAGATTG-GAGGACTTTTTACGCATT-TAATATC-ATTTT-ATATATTTTTTCTGA
66 AACGTAAAAAAGATTGAAAGGACTTTTCACGC-TTCTAATATCGCTTTTCCTAT-TTTTTTC-AA
* * * *
64037 ATTAATTTCAAATTAAATCGAAACAAGATTTCAGATGCACATTAAAATAAATCCTTAAATCCAAT
128 ATTAATTTCTAATTAAATCGAAACAAGATTTCAGATGCAC-GTAAAAAAAATCCTTAAATCTAAT
* * * * *
64102 GTGGCTGAGATTTGATTAGATGAATA-AAGATATTTTAAGGAGTCTCGACGCTAAAACTCATGCA
192 GTGGCTGAAATTTGATTAGATGAATATAAGATATTTCAAGGAGTCTTGACACTAAAAATCATGCA
* * * * ** * * **
64166 AAACAGAGT-TGTGGCCTTAGAACACATTTTTAGTTAAAAACCG--TG--A--TTGTTACTACAC
257 AAACTGA-TAAG-GGCC-CAGAACGCATTTTTAGCCAAAAACCGAATGAAACCATGATGGTACAC
*
64224 GATTTCAGCTAAAATTTTGC
319 GATTTCGGCTAAAATTTTGC
* * * * * *
64244 AAAAATTGATCCAAAACATTTTTCCTCAATTTTTGGCTAGAATACTCATAAAAAATATATAATTC
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAGCAAAAATACTCATAAAAAATATATAATTC
* * * * *
64309 GACATAAAAAAGATTGAATGG-CTTTTAACGCTTCTAATATTGCTTTTCCTATTTTTTTCAAATT
66 AACGTAAAAAAGATTGAAAGGACTTTTCACGCTTCTAATATCGCTTTTCCTATTTTTTTCAAATT
* * ** *
64373 AATTTCTAATTAAATCGAGACAAGATCT-AGATGCTTGTAAAAATAATCCTTAAATCTAATGTGG
131 AATTTCTAATTAAATCGAAACAAGATTTCAGATGCACGTAAAAAAAATCCTTAAATCTAATGTGG
* * * *
64437 CTGAGATTTGGTTAGATGAATATAA-ATATTTCAAGGAATCTTGACAATAAAAATTC-TGCAAAA
196 CTGAAATTTGATTAGATGAATATAAGATATTTCAAGGAGTCTTGACACTAAAAA-TCATGCAAAA
*
64500 CTGATAAGGGCCCAGAAACGCATTTTTAG-CAGAAAACCGCAATCGAAACCGTGATGGTACACGA
260 CTGATAAGGGCCCAG-AACGCATTTTTAGCCA-AAAACCG-AAT-GAAACCATGATGGTACACGA
* *
64564 TTTTGGCTAAAATTTTTC
321 TTTCGGCTAAAATTTTGC
* ** *
64582 AAAAATTAACCCGAAAGATTTTTCCTCAATTTCAAGCAAAAATACTCATAAAAAGTATATAATTC
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAGCAAAAATACTCATAAAAAATATATAATTC
* * * *
64647 AACGCTAAAAAA-ATT-AAAAGCCTTTTTTCACGCTTCTACTATCGTTTTTCCTATTTTATTTCC
66 AACG-TAAAAAAGATTGAAAGGAC--TTTTCACGCTTCTAATATCGCTTTTCCTATTTT-TTT-C
* * * **
64710 AAATTAATTTCTGATTAAATCAAAATAAGATTT-AGAAACACGTTAAAAAAAATCCTTAAATAC-
126 AAATTAATTTCTAATTAAATCGAAACAAGATTTCAGATGCACG-TAAAAAAAATCCTTAAAT-CT
* * *
64773 AATGTGGCTGAAATTTGACTAGATGAATAT-AGATAAATTTTAAGGAGTCTT-ATAGCTAAAAAT
189 AATGTGGCTGAAATTTGATTAGATGAATATAAGAT--ATTTCAAGGAGTCTTGACA-CTAAAAAT
* *
64836 CATGCAAAACTG-TCACAGGGTCCCGGAACGCGTTTTTAGCCAAAAA---AA--AAACCATGATG
251 CATGCAAAACTGAT-A-AGGG-CCCAGAACGCATTTTTAGCCAAAAACCGAATGAAACCATGATG
* * ** *
64895 GTA-ATTGGTTTCGTATAAAAATTTGC
313 GTACA-CGATTTCGGCTAAAATTTTGC
* ** * * * * *
64921 GAAAATTGATTCGAAATATTTTT-CTCAATTTTTAGCCATAATACTCATAAAAAATAAATAACTC
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAGCAAAAATACTCATAAAAAATATATAATTC
* * * * *
64985 AACGTCAAAAAGATT-AAAGGTCTTGTCACGCTCCTAATATCGTTTTTCCTATTTTTTTCAAATT
66 AACGTAAAAAAGATTGAAAGGACTTTTCACGCTTCTAATATCGCTTTTCCTATTTTTTTCAAATT
* *
65049 AATTTCTAATTAAATCGAAACAAGA-TTCAAATGCTCGTAAAAACAAATCCTTAAAT-TCAATGT
131 AATTTCTAATTAAATCGAAACAAGATTTCAGATGCACGTAAAAA-AAATCCTTAAATCT-AATGT
* * * * * * * * *
65112 GGTTGAAATTTGATTTGCTGAATGTAA-ATAATTCAAGGAGTCTCGGCACCAAAATTCATGCAAA
194 GGCTGAAATTTGATTAGATGAATATAAGATATTTCAAGGAGTCTTGACACTAAAAATCATGCAAA
* *** * * * *
65176 ACTCAGCCGGAACCCCGAAACACATTTTTAGCTAAAAACC----G------TGATGGTACACGAT
259 ACTGATAAGG-GCCCAG-AACGCATTTTTAGCCAAAAACCGAATGAAACCATGATGGTACACGAT
* * **
65231 ATCGACTAAAATTTTTA
322 TTCGGCTAAAATTTTGC
* * * * * * * *
65248 AAAAAATGACCCGAAA-AATTTTCTGTCAATTTGTGGCTAAAATACTCAT--AATATATATAGTT
1 AAAAATTGACCCGAAAGATTTTTC-CTCAATTTTTAGCAAAAATACTCATAAAAAATATATAATT
* *** * ** * ** *
65310 TAACACCAAAAATATTG---GGCACTTTTCACATTTTTAATTAATATCG-TTTTTTTATTTTTCT
65 CAACGTAAAAAAGATTGAAAGG-ACTTTTCAC--GCTT--CTAATATCGCTTTTCCTATTTTTTT
* * * *
65371 -GAATTAATTTCTAATTAAATCGAAACAAGA-TTCAGATGCTCG-AAAAAAAATTTCTTAAATCG
125 CAAATTAATTTCTAATTAAATCGAAACAAGATTTCAGATGCACGTAAAAAAAA-TCCTTAAATCT
* * * * * *
65433 AATGTAGCTGAGATTTGATTAGATGAATAT-GGATATCTT-AAAGAGTCTTGGC-GTAAAAAATC
189 AATGTGGCTGAAATTTGATTAGATGAATATAAGATAT-TTCAAGGAGTCTTGACACT-AAAAATC
* * * * * ** ** *
65495 ATGCAAAACTTAGT-CGGGACCCCGGAACGCGTTTTTAGCC-AAAA--G-TTGTGATGATTAT--
252 ATGCAAAACTGA-TAAGGG--CCCAGAACGCATTTTTAGCCAAAAACCGAATGAAACCATGATGG
* * *
65553 TACACGATTTCGGTTAGAATTTTGT
314 TACACGATTTCGGCTAAAATTTTGC
* * * * * * *
65578 TAAAATTGACTCGAAA-ATTATTTACTCAATTTTTAGCCACAATACTCATAACAATTATATAATT
1 AAAAATTGACCCGAAAGATT-TTTCCTCAATTTTTAGCAAAAATACTCATAAAAAATATATAATT
** * * * * *
65642 CAACGCCAAAAAGATTGAACA-G-CTTTTCATGTTTCTAATATCGTTTTTCCTATTATTTTCCGA
65 CAACGTAAAAAAGATTGAA-AGGACTTTTCACGCTTCTAATATCGCTTTTCCTATT-TTTTTCAA
*
65705 ATTAATTTCTAATTAAATCGAAACATGATTT-AGATGC
128 ATTAATTTCTAATTAAATCGAAACAAGATTTCAGATGC
65742 TTGTTTTACA
Statistics
Matches: 1182, Mismatches: 227, Indels: 175
0.75 0.14 0.11
Matches are distributed among these distances:
324 2 0.00
325 14 0.01
326 110 0.09
327 80 0.07
328 33 0.03
329 24 0.02
330 116 0.10
331 99 0.08
332 119 0.10
333 89 0.08
334 86 0.07
335 8 0.01
336 31 0.03
337 9 0.01
338 133 0.11
339 52 0.04
340 29 0.02
341 3 0.00
342 37 0.03
343 46 0.04
344 6 0.01
345 30 0.03
346 20 0.02
347 6 0.01
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (338 bp):
AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAGCAAAAATACTCATAAAAAATATATAATTC
AACGTAAAAAAGATTGAAAGGACTTTTCACGCTTCTAATATCGCTTTTCCTATTTTTTTCAAATT
AATTTCTAATTAAATCGAAACAAGATTTCAGATGCACGTAAAAAAAATCCTTAAATCTAATGTGG
CTGAAATTTGATTAGATGAATATAAGATATTTCAAGGAGTCTTGACACTAAAAATCATGCAAAAC
TGATAAGGGCCCAGAACGCATTTTTAGCCAAAAACCGAATGAAACCATGATGGTACACGATTTCG
GCTAAAATTTTGC
Found at i:66105 original size:115 final size:115
Alignment explanation
Indices: 65867--66289 Score: 660
Period size: 115 Copynumber: 3.7 Consensus size: 115
65857 GAGGACCAAA
* *
65867 ACGCCGCTAAATGGAGGCGTCT-AACGTCCCAA-ACGCCGCCATCTTTAA-TTTT-TGCGAGAAA
1 ACGCCGCTAAATGGAGGCGTCTGAAC--CCCAAGACGCCGCCATCCTTAATTTTTCTCCGAGAAA
* * * * *
65928 GCCAAATTGGGT-AAAAAAGAAGGCTAAAATATAGTGGCGTCTTGGGACCAA
64 GGCAAATTGGGTGAAAAATGAAGGCTAAAATATAGCGGCGTCTTGGGCCCAG
* *
65979 ACGCCGCTAAATGGAGGCGTCTGAACCCCAAGACGTCGCCATCCTTAATTTTTCTCTGA-AGAAG
1 ACGCCGCTAAATGGAGGCGTCTGAACCCCAAGACGCCGCCATCCTTAATTTTTCTCCGAGA-AAG
*
66043 GCAAATTGGGTGAAAAATGAATGCTAAAATATAGCGGCGTCTTGGGCCCAG
65 GCAAATTGGGTGAAAAATGAAGGCTAAAATATAGCGGCGTCTTGGGCCCAG
* *
66094 ACGCCGCTAAATGGAGACGTCTGAACCCCAAGACGCCGCCGTCCTTAATTTTTCTCCGAGAAAGG
1 ACGCCGCTAAATGGAGGCGTCTGAACCCCAAGACGCCGCCATCCTTAATTTTTCTCCGAGAAAGG
*
66159 CAATTTGGGTGAAAAATGAAGGCTAAAATATAGCGGCGTCTTGGGCCCAG
66 CAAATTGGGTGAAAAATGAAGGCTAAAATATAGCGGCGTCTTGGGCCCAG
66209 ACGCCGCTAAATGGAGGCGTCTGAACCCCAAGACGCCGCCATCCTTAATTTTTCTCCGAGAAAGG
1 ACGCCGCTAAATGGAGGCGTCTGAACCCCAAGACGCCGCCATCCTTAATTTTTCTCCGAGAAAGG
66274 CAAATTGGGTGAAAAA
66 CAAATTGGGTGAAAAA
66290 CGTTGGATGT
Statistics
Matches: 285, Mismatches: 19, Indels: 11
0.90 0.06 0.03
Matches are distributed among these distances:
111 5 0.02
112 36 0.13
113 8 0.03
114 16 0.06
115 219 0.77
116 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.21
Consensus pattern (115 bp):
ACGCCGCTAAATGGAGGCGTCTGAACCCCAAGACGCCGCCATCCTTAATTTTTCTCCGAGAAAGG
CAAATTGGGTGAAAAATGAAGGCTAAAATATAGCGGCGTCTTGGGCCCAG
Found at i:66981 original size:11 final size:11
Alignment explanation
Indices: 66967--66992 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
66957 ATTCAATCTA
66967 AATTATCATTC
1 AATTATCATTC
66978 AATTATCATTC
1 AATTATCATTC
66989 AATT
1 AATT
66993 TCAATTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTATCATTC
Found at i:67180 original size:60 final size:62
Alignment explanation
Indices: 67083--67214 Score: 169
Period size: 62 Copynumber: 2.2 Consensus size: 62
67073 TAGTAAGGAA
* * **
67083 ACGCCGCTATTTTTAATTTGAGATTTT-AAAAAAAAAAA-CGTTAAATATAGTGGCGTCTAG
1 ACGCCGCTAATTTTAATTTGAGATTTTAAAAAAAAAAAACCCTTAAATATAACGGCGTCTAG
*** *
67143 ACGCCGCTAATTTTAATTTGAGATTTTTTTAATAAAAAACCCTTAAATATAACGGCGTCTAG
1 ACGCCGCTAATTTTAATTTGAGATTTTAAAAAAAAAAAACCCTTAAATATAACGGCGTCTAG
*
67205 ACGCCTCTAA
1 ACGCCGCTAA
67215 ATAGCGGCGT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 26 0.42
61 8 0.13
62 28 0.45
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (62 bp):
ACGCCGCTAATTTTAATTTGAGATTTTAAAAAAAAAAAACCCTTAAATATAACGGCGTCTAG
Found at i:68195 original size:326 final size:325
Alignment explanation
Indices: 67438--68590 Score: 1017
Period size: 332 Copynumber: 3.5 Consensus size: 325
67428 TCGATTAATA
* * *
67438 TACACAATTTCGGCTAATATTTTGCAAAAATTGACCAGAAATAT-TTTCCTCAATTTTTGTCTAA
1 TACACAATTTCGGCTAAAATTTTGCAAAAACTGACC-GAAATATCTTTCCTCAATTTTTGGC-AA
* * * * *
67502 AATAATCATA-AAATATATATAATTCAACTCCAAAAAGATTGGAGGACTTTTCATGCTTTTAATA
64 AATACTCATAGAAATATATATAATTCAACACCAAAAAGATTGGAGGACTTTTTACGCTTTTCATA
* *
67566 TCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATGGAAACAAGATTCAGATGCTCATAAA
129 TCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTC-----CTCGTAAA
* * *
67631 AACAAATCCTTAAATGCAATGTGGCTGAAATTTGATTAGATAAATATAGATATTTCAAGGAGTCT
189 AACAAATCCTTAAATG-AATGTGGCTGAGATTTGATTAGGTGAATATAGATATTTCAAGGAGTCT
* * * * * *
67696 CGACGCCAAAAATCACGCAAAACTGAGTTAGGGCCCCGAAACGCGTTTTAAGCAAAAAAAACGGT
253 TGGCGCAAAAAATCATGCAAAACTGAGTCAGGGCCCAGAAACGCGTTTTAAGC-AAAAAAACGGT
*
67761 AACTGTTAG
317 AACTGTTAC
* * * * * *
67770 TACACAATTTTGGCTAAAATTTTGCAAAAACTGA-CTAATAAAACTTTTGCTCAA-TTTTGGTTA
1 TACACAATTTCGGCTAAAATTTTGCAAAAACTGACCGAA-ATATC-TTTCCTCAATTTTTGG-CA
* * * *
67833 AAATACTCAT-GAAATATATATGATTTAACGCCAAAAAGATTGGAGGAGTTTTTACGCTTTTCAT
63 AAATACTCATAGAAATATATATAATTCAACACCAAAAAGATTGGAGGACTTTTTACGCTTTTCAT
*
67897 ATCGTTTTTCATATTTTTTTCTGAATTAATTTATAATTAAATCGAAACAAGATTCCTCGTAAAAA
128 ATCGTTTTTCATA--TTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCCTCGTAAAAA
* * *
67962 CAAATCCTTAAATGTATGTGGCTGAGATTTGATTAGGTGAATATGGATATCTCAAGGAGTCTTGG
191 CAAATCCTTAAATGAATGTGGCTGAGATTTGATTAGGTGAATATAGATATTTCAAGGAGTCTTGG
* * ** * * * * *
68027 CGCAAAAAATAATGCAAAACTGA-TCCGGAGCACCAG-AACGTTTTTTTAGC-CAGAAACTGTGA
256 CGCAAAAAATCATGCAAAACTGAGTCAGG-GC-CCAGAAACGCGTTTTAAGCAAAAAAACGGTAA
68089 -TGGTTAC
319 CT-GTTAC
* * * *
68096 TATACGATTTCGGCTAAAAATTTGC-AAAAGTGAACCGGAAATATCTTTCCTCAATTTTTGGCAA
1 TACACAATTTCGGCTAAAATTTTGCAAAAACTG-ACC-GAAATATCTTTCCTCAATTTTTGGCAA
* * * * *
68160 AATACTCATAGAAAT-TATATAATTCAACACCAAAAATATTGAAAGG-TTTTTTACTCTTCTCAT
64 AATACTCATAGAAATATATATAATTCAACACCAAAAAGATTG-GAGGACTTTTTACGCTTTTCAT
* * * * *
68223 ATCGTTTTTCCTATTTTTCCGAATAAATTTCTAATTAAATTGAAACAAGATTTAGATGCTCGTAA
128 ATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGA--T---TCCTCGTAA
* * ** *
68288 AAACAAATTCTTAAATCCAAAATGACTGAGATTTGATTAGGTGAATATAGATATTTCAAGGAGTC
188 AAACAAATCCTTAAAT-GAATGTGGCTGAGATTTGATTAGGTGAATATAGATATTTCAAGGAGTC
* * ** * * *
68353 TTGGCGCAAAAAATCATGCAAAGCTGACTGGGGGCCCCGGAACGCGATTTTAGCCAAGAAAAAAA
252 TTGGCGCAAAAAATCATGCAAAACTGAGTCAGGGCCCAGAAACGCG-TTTT----AAG-CAAAAA
* *
68418 AAGAGCGTGA-TGTTAC
311 AA-CG-GTAACTGTTAC
** * * * * *
68434 -AC-C-ATTTCGGCTAATGTTTTGCAAAAATTGACTTGAAACATTTTTCCTCAATTTTTAGCCAC
1 TACACAATTTCGGCTAAAATTTTGCAAAAACTGAC-CGAAATATCTTTCCTCAATTTTT-GGCA-
* * * * * ** * * *
68496 CAGTACTCAT-GAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGGTTTTCACGCTTCTAAT
63 AAATACTCATAGAAATATATATAATTCAACACCAAAAAGATTGGAGGACTTTTTACGCTTTTCAT
* * * *
68560 ATCATTTTCCCTATTTTTTCCGAATTAATTT
128 ATCGTTTTTCATA-TTTTTCTGAATTAATTT
68591 TAAAATGAAA
Statistics
Matches: 673, Mismatches: 108, Indels: 74
0.79 0.13 0.09
Matches are distributed among these distances:
324 33 0.05
325 7 0.01
326 102 0.15
327 21 0.03
328 78 0.12
329 52 0.08
330 74 0.11
331 10 0.01
332 105 0.16
333 8 0.01
334 38 0.06
335 40 0.06
336 18 0.03
337 61 0.09
338 21 0.03
339 5 0.01
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (325 bp):
TACACAATTTCGGCTAAAATTTTGCAAAAACTGACCGAAATATCTTTCCTCAATTTTTGGCAAAA
TACTCATAGAAATATATATAATTCAACACCAAAAAGATTGGAGGACTTTTTACGCTTTTCATATC
GTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCCTCGTAAAAACAAAT
CCTTAAATGAATGTGGCTGAGATTTGATTAGGTGAATATAGATATTTCAAGGAGTCTTGGCGCAA
AAAATCATGCAAAACTGAGTCAGGGCCCAGAAACGCGTTTTAAGCAAAAAAACGGTAACTGTTAC
Found at i:69902 original size:20 final size:20
Alignment explanation
Indices: 69886--69926 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
69876 AAATCAAAGT
*
69886 AAAACCAAGATAATCAATCC
1 AAAACCAAGATAATCAAACC
* *
69906 AAAACCAAGATTATAAAACC
1 AAAACCAAGATAATCAAACC
69926 A
1 A
69927 GATCAGTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.22, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAACCAAGATAATCAAACC
Found at i:72220 original size:108 final size:108
Alignment explanation
Indices: 72051--72427 Score: 326
Period size: 108 Copynumber: 3.5 Consensus size: 108
72041 TGAGCTTATA
* * * * * *
72051 AAAATTTAAT-TGTGAGGTTACCAAAATTTCATAAGGGGTTACCCAAATTTCAT-GGTGAGGTTA
1 AAAATTTCATATGTGAGATTACCAAAATTTCATAGGGGGTTACCAAAATTTCATAAG-AAGGTTA
* * * *
72114 CAAAAATTTCATAATGCGGTTACTAAAATATCATA-GAGTGCAACC
65 CAAAAATTTCATAGTGC-GTTACCAAAATTTCATAGGAGTG-TACC
* * *
72159 AAAATTTCATATG-GAGGTTTCCAAAATTTCATAGGGGGTTACTAAAATTTCATAAGAAGGTTAC
1 AAAATTTCATATGTGAGATTACCAAAATTTCATAGGGGGTTACCAAAATTTCATAAGAAGGTTA-
* * *
72223 CAAAATTTTCATAGTGACATTACCAAAATTTCATAATGAAGT-TACC
65 CAAAAATTTCATAGTG-CGTTACCAAAATTTCAT-A-GGAGTGTACC
* ** * **
72269 -AAATTTCATAAG-G-GATTACCAAAATTTCATAGTTAGCTTACCAAAATTTCATAATCAGGTTA
1 AAAATTTCATATGTGAGATTACCAAAATTTCATAG-GGGGTTACCAAAATTTCATAAGAAGGTTA
*
72331 CCAAAATTTCATAGT-CAAGTTACCAAAATTTCATAGGGAG-GTTACC
65 CAAAAATTTCATAGTGC--GTTACCAAAATTTCATA-GGAGTG-TACC
* * *
72377 AAAATATCATA-GTAAGATTACCAAAATTTCATAGGGAGGTTACAAAAATTT
1 AAAATTTCATATGTGAGATTACCAAAATTTCATAGGG-GGTTACCAAAATTT
72428 TATAGTCAAG
Statistics
Matches: 219, Mismatches: 34, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
106 1 0.00
107 4 0.02
108 101 0.46
109 74 0.34
110 36 0.16
112 3 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (108 bp):
AAAATTTCATATGTGAGATTACCAAAATTTCATAGGGGGTTACCAAAATTTCATAAGAAGGTTAC
AAAAATTTCATAGTGCGTTACCAAAATTTCATAGGAGTGTACC
Found at i:72256 original size:66 final size:65
Alignment explanation
Indices: 71937--72448 Score: 416
Period size: 66 Copynumber: 7.9 Consensus size: 65
71927 TTGTTGATAT
*
71937 GGTTACCAAAATTTCATATGGAGGTTACCAAAATTTCATTA-TGAGGTTACC-AAATTTCAT-A-
1 GGTTACCAAAATTTCATA-AGAGGTTACCAAAATTTCA-TAGTGAGGTTACCAAAATTTCATAAT
71998 G-
64 GA
* * * * ** ** * * * ** * **
71999 GTGTTACCAATATTTTACAGGGAGACTATAAAAATATCATACTGAGCTTATAAAAATTTAATTGT
1 G-GTTACCAAAATTTCATA-AGAGGTTACCAAAATTTCATAGTGAGGTTACCAAAATTTCATAAT
72064 GA
64 GA
* * * * *
72066 GGTTACCAAAATTTCATAAGGGGTTACCCAAATTTCATGGTGAGGTTACAAAAATTTCATAATGC
1 GGTTACCAAAATTTCATAAGAGGTTACCAAAATTTCATAGTGAGGTTACCAAAATTTCATAATGA
* * ** * *
72131 GGTTACTAAAATATCAT-AGAGTGCAACCAAAATTTCATA-TGGAGGTTTCCAAAATTTCAT-AG
1 GGTTACCAAAATTTCATAAGAG-GTTACCAAAATTTCATAGT-GAGGTTACCAAAATTTCATAAT
*
72193 GG
64 GA
* **
72195 GGTTACTAAAATTTCATAAGAAGGTTACCAAAATTTTCATAGTGACATTACCAAAATTTCATAAT
1 GGTTACCAAAATTTCATAAG-AGGTTACCAAAA-TTTCATAGTGAGGTTACCAAAATTTCATAAT
72260 GA
64 GA
* * * *
72262 AGTTACC-AAATTTCATAAG-GGATTACCAAAATTTCATAGTTAGCTTACCAAAATTTCATAATC
1 GGTTACCAAAATTTCATAAGAGG-TTACCAAAATTTCATAGTGAGGTTACCAAAATTTCATAATG
72325 A
65 A
* * * *
72326 GGTTACCAAAATTTCAT-AGTCAAGTTACCAAAATTTCATAGGGAGGTTACCAAAATATCATAGT
1 GGTTACCAAAATTTCATAAG--AGGTTACCAAAATTTCATAGTGAGGTTACCAAAATTTCATAAT
*
72390 AA
64 GA
* * * * * *
72392 GATTACCAAAATTTCATAGGGAGGTTACAAAAATTTTATAGTCAAGTTACCAAAATT
1 GGTTACCAAAATTTCATA-AGAGGTTACCAAAATTTCATAGTGAGGTTACCAAAATT
72449 ATTATCGTTA
Statistics
Matches: 355, Mismatches: 75, Indels: 36
0.76 0.16 0.08
Matches are distributed among these distances:
62 3 0.01
63 35 0.10
64 69 0.19
65 104 0.29
66 133 0.37
67 10 0.03
68 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (65 bp):
GGTTACCAAAATTTCATAAGAGGTTACCAAAATTTCATAGTGAGGTTACCAAAATTTCATAATGA
Found at i:72432 original size:22 final size:22
Alignment explanation
Indices: 71937--72448 Score: 373
Period size: 22 Copynumber: 23.6 Consensus size: 22
71927 TTGTTGATAT
*
71937 GGTTACCAAAATTTCATATGGA
1 GGTTACCAAAATTTCATAGGGA
*
71959 GGTTACCAAAATTTCATTA-TGA
1 GGTTACCAAAATTTCA-TAGGGA
71981 GGTTACC-AAATTTCATA-GG-
1 GGTTACCAAAATTTCATAGGGA
* * * *
72000 TGTTACCAATATTTTACAGGGA
1 GGTTACCAAAATTTCATAGGGA
** ** * **
72022 GACTATAAAAATATCATACTGA
1 GGTTACCAAAATTTCATAGGGA
* ** * * *
72044 GCTTATAAAAATTTAATTGTGA
1 GGTTACCAAAATTTCATAGGGA
*
72066 GGTTACCAAAATTTCATAAGG-
1 GGTTACCAAAATTTCATAGGGA
*
72087 GGTTACCCAAATTTCAT-GGTGA
1 GGTTACCAAAATTTCATAGG-GA
* ** *
72109 GGTTACAAAAATTTCATAATGC
1 GGTTACCAAAATTTCATAGGGA
* *
72131 GGTTACTAAAATATCATA--GA
1 GGTTACCAAAATTTCATAGGGA
** *
72151 GTGCAACCAAAATTTCATATGGA
1 G-GTTACCAAAATTTCATAGGGA
*
72174 GGTTTCCAAAATTTCATAGGG-
1 GGTTACCAAAATTTCATAGGGA
* * *
72195 GGTTACTAAAATTTCATAAGAA
1 GGTTACCAAAATTTCATAGGGA
*
72217 GGTTACCAAAATTTTCATAGTGA
1 GGTTACCAAAA-TTTCATAGGGA
** **
72240 CATTACCAAAATTTCATAATGA
1 GGTTACCAAAATTTCATAGGGA
*
72262 AGTTACC-AAATTTCATAAGGGA
1 GGTTACCAAAATTTCAT-AGGGA
**
72284 --TTACCAAAATTTCATAGTTA
1 GGTTACCAAAATTTCATAGGGA
* ***
72304 GCTTACCAAAATTTCATAATCA
1 GGTTACCAAAATTTCATAGGGA
**
72326 GGTTACCAAAATTTCATAGTCA
1 GGTTACCAAAATTTCATAGGGA
*
72348 AGTTACCAAAATTTCATAGGGA
1 GGTTACCAAAATTTCATAGGGA
* **
72370 GGTTACCAAAATATCATAGTAA
1 GGTTACCAAAATTTCATAGGGA
*
72392 GATTACCAAAATTTCATAGGGA
1 GGTTACCAAAATTTCATAGGGA
* * **
72414 GGTTACAAAAATTTTATAGTCA
1 GGTTACCAAAATTTCATAGGGA
*
72436 AGTTACCAAAATT
1 GGTTACCAAAATT
72449 ATTATCGTTA
Statistics
Matches: 387, Mismatches: 87, Indels: 32
0.76 0.17 0.06
Matches are distributed among these distances:
19 6 0.02
20 21 0.05
21 75 0.19
22 263 0.68
23 22 0.06
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (22 bp):
GGTTACCAAAATTTCATAGGGA
Done.