Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 89 of 297
Found at i:32209045 original size:34 final size:34
Alignment explanation
Indices: 32209002--32209070 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
32208992 TGCAGACTAA
* *
32209002 AACACCCCTCTCTTTCGTGTTTTATTCTCGTGGT
1 AACACCCCTCTCTTTCATGTTTTATTCTCATGGT
32209036 AACACCCCTCTCTTTCATGTTTTATTCTCATGGT
1 AACACCCCTCTCTTTCATGTTTTATTCTCATGGT
32209070 A
1 A
32209071 GAGTCGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.16, C:0.29, G:0.12, T:0.43
Consensus pattern (34 bp):
AACACCCCTCTCTTTCATGTTTTATTCTCATGGT
Found at i:32210981 original size:42 final size:42
Alignment explanation
Indices: 32210922--32211003 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
32210912 ATGGTTTGTC
*
32210922 AATAAGAACTGTGCTAATCAATTGTAGGACATCGGAAGAGTA
1 AATAAGAACTGTGCTAATCAATTGTAAGACATCGGAAGAGTA
* *
32210964 AATAAGAACTGTGCTAATCAGTTGTAAGACATTGGAAGAG
1 AATAAGAACTGTGCTAATCAATTGTAAGACATCGGAAGAG
32211004 ATCTCAATAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (42 bp):
AATAAGAACTGTGCTAATCAATTGTAAGACATCGGAAGAGTA
Found at i:32218272 original size:15 final size:15
Alignment explanation
Indices: 32218252--32218281 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32218242 CAACACTTGT
32218252 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
32218267 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
32218282 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:32218945 original size:41 final size:41
Alignment explanation
Indices: 32218888--32218969 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
32218878 ACATCGGAAG
*
32218888 AGATCTCAGTAGCAGTCGTCGCGAATCAGGTGTGTACCGAA
1 AGATCTCAATAGCAGTCGTCGCGAATCAGGTGTGTACCGAA
32218929 AGATCTCAATAGCAGTCGTCGCGAATCAGGTGTGTACCGAA
1 AGATCTCAATAGCAGTCGTCGCGAATCAGGTGTGTACCGAA
32218970 CACCCTTTCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (41 bp):
AGATCTCAATAGCAGTCGTCGCGAATCAGGTGTGTACCGAA
Found at i:32222386 original size:18 final size:18
Alignment explanation
Indices: 32222363--32222404 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
32222353 CTGTACCTTT
*
32222363 AATTTTGAAATTGTTAAA
1 AATTTTGAAACTGTTAAA
32222381 AATTTTGAAACTGTTAAA
1 AATTTTGAAACTGTTAAA
*
32222399 GATTTT
1 AATTTT
32222405 AAGATTTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.45
Consensus pattern (18 bp):
AATTTTGAAACTGTTAAA
Found at i:32225963 original size:27 final size:27
Alignment explanation
Indices: 32225933--32226082 Score: 153
Period size: 27 Copynumber: 5.6 Consensus size: 27
32225923 AAAGGTATTA
*
32225933 CGATAATTTTACAAATTGGGGGTGTTT
1 CGATAATTTTACAAATTGAGGGTGTTT
*
32225960 CGATAATTTTAGAAATTGAGGGTGTTT
1 CGATAATTTTACAAATTGAGGGTGTTT
* * *
32225987 CGATAATTTTAAAAATTGAAGGTGCTT
1 CGATAATTTTACAAATTGAGGGTGTTT
* * * *
32226014 CAATAATTTCACAAATCG-GGGATATTT
1 CGATAATTTTACAAATTGAGGG-TGTTT
* * *
32226041 C-AGTAATTTTACAAA-TCAAGGTATTT
1 CGA-TAATTTTACAAATTGAGGGTGTTT
32226067 CGATAATTTTACAAAT
1 CGATAATTTTACAAAT
32226083 CGAAGGTATC
Statistics
Matches: 102, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
26 21 0.21
27 81 0.79
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (27 bp):
CGATAATTTTACAAATTGAGGGTGTTT
Found at i:32226022 original size:81 final size:80
Alignment explanation
Indices: 32225935--32226155 Score: 207
Period size: 80 Copynumber: 2.8 Consensus size: 80
32225925 AGGTATTACG
* * * * * * * *
32225935 ATAATTTTACAAATTGGGGGTGTTTC-GATAATTTTAGAAATTGAGGGTGTTTCGATAATTTTAA
1 ATAATTTCACAAATCGGGGATATTTCAG-TAATTTTACAAA-TCAAGGTATTTCGATAATTTTAA
*
32225999 AAATTGAAGGTGCTTCA
64 AAATCGAAGGTGCTTCA
*
32226016 ATAATTTCACAAATCGGGGATATTTCAGTAATTTTACAAATCAAGGTATTTCGATAATTTTACAA
1 ATAATTTCACAAATCGGGGATATTTCAGTAATTTTACAAATCAAGGTATTTCGATAATTTTAAAA
*
32226081 ATCGAAGGT-ATCTCA
66 ATCGAAGGTGCT-TCA
* * * * ** *
32226096 ACAATTTCAC-AGTCAAGGG-TATTTCTGTAATTTTACAAATCGGCGGTATTTCGGTAATTT
1 ATAATTTCACAAATC-GGGGATATTTCAGTAATTTTACAAATC-AAGGTATTTCGATAATTT
32226156 CTATTTATTA
Statistics
Matches: 118, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
79 25 0.21
80 59 0.50
81 33 0.28
82 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (80 bp):
ATAATTTCACAAATCGGGGATATTTCAGTAATTTTACAAATCAAGGTATTTCGATAATTTTAAAA
ATCGAAGGTGCTTCA
Found at i:32226081 original size:53 final size:53
Alignment explanation
Indices: 32225957--32226155 Score: 165
Period size: 53 Copynumber: 3.7 Consensus size: 53
32225947 ATTGGGGGTG
* * * * * *
32225957 TTTCGATAATTTTAGAAATTGAGGGTGTTTC-GATAATTTTAAAAATTGAAGGTG
1 TTTCGATAATTTTACAAATCGAGGGTATTTCAG-TAATTTTACAAA-TCAAGGTA
* * *
32226011 CTTCAATAATTTCACAAATCG-GGGATATTTCAGTAATTTTACAAATCAAGGTA
1 TTTCGATAATTTTACAAATCGAGGG-TATTTCAGTAATTTTACAAATCAAGGTA
* * ** * *
32226064 TTTCGATAATTTTACAAATCGAAGGTATCTCAACAATTTCAC-AGTCAAGGGTA
1 TTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCAA-GGTA
*
32226117 TTTCTG-TAATTTTACAAATCG-GCGGTATTTCGGTAATTT
1 TTTC-GATAATTTTACAAATCGAG-GGTATTTCAGTAATTT
32226156 CTATTTATTA
Statistics
Matches: 116, Mismatches: 23, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
52 5 0.04
53 75 0.65
54 35 0.30
55 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (53 bp):
TTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCAAGGTA
Found at i:32226102 original size:80 final size:80
Alignment explanation
Indices: 32225963--32226155 Score: 212
Period size: 80 Copynumber: 2.4 Consensus size: 80
32225953 GGTGTTTCGA
* * * * * *
32225963 TAATTTTAGAAATTGAGGGTGTTTCGATAATTTTAAAAATTGAAGGTGCTTCAATAATTTCACAA
1 TAATTTTACAAATCGAAGGTATTTCGATAATTTTAAAAATCGAAGGTGCTTCAACAATTTCAC-A
*
32226028 ATC-GGGGATATTTCAG
65 ATCAAGGG-TATTTCAG
* *
32226044 TAATTTTACAAATC-AAGGTATTTCGATAATTTTACAAATCGAAGGT-ATCTCAACAATTTCACA
1 TAATTTTACAAATCGAAGGTATTTCGATAATTTTAAAAATCGAAGGTGCT-TCAACAATTTCACA
* *
32226107 GTCAAGGGTATTTCTG
65 ATCAAGGGTATTTCAG
** *
32226123 TAATTTTACAAATCGGCGGTATTTCGGTAATTT
1 TAATTTTACAAATCGAAGGTATTTCGATAATTT
32226156 CTATTTATTA
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
79 25 0.26
80 58 0.61
81 12 0.13
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (80 bp):
TAATTTTACAAATCGAAGGTATTTCGATAATTTTAAAAATCGAAGGTGCTTCAACAATTTCACAA
TCAAGGGTATTTCAG
Found at i:32226152 original size:27 final size:26
Alignment explanation
Indices: 32225926--32226155 Score: 151
Period size: 27 Copynumber: 8.6 Consensus size: 26
32225916 ACACTACAAA
* *
32225926 GGTATTACGATAATTTTACAAATTGGG
1 GGTATTTCGATAATTTTACAAA-TCGG
* * *
32225953 GGTGTTTCGATAATTTTAGAAATTGAG
1 GGTATTTCGATAATTTTACAAATCG-G
* * * *
32225980 GGTGTTTCGATAATTTTAAAAATTGAA
1 GGTATTTCGATAATTTTACAAATCG-G
** * *
32226007 GGTGCTTCAATAATTTCACAAATCGG
1 GGTATTTCGATAATTTTACAAATCGG
**
32226033 GGATATTTC-AGTAATTTTACAAATCAA
1 GG-TATTTCGA-TAATTTTACAAATCGG
*
32226060 GGTATTTCGATAATTTTACAAATCGAA
1 GGTATTTCGATAATTTTACAAATCG-G
* * * * * *
32226087 GGTATCTCAACAATTTCAC-AGTCAAG
1 GGTATTTCGATAATTTTACAAATC-GG
32226113 GGTATTTCTG-TAATTTTACAAATCGG
1 GGTATTTC-GATAATTTTACAAATCGG
*
32226139 CGGTATTTCGGTAATTT
1 -GGTATTTCGATAATTT
32226156 CTATTTATTA
Statistics
Matches: 162, Mismatches: 31, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
26 44 0.27
27 118 0.73
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (26 bp):
GGTATTTCGATAATTTTACAAATCGG
Found at i:32226504 original size:28 final size:28
Alignment explanation
Indices: 32226472--32226534 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
32226462 GGCTCCTTAG
* *
32226472 GGCCCAATCTCGTTAACATGGCCCATCA
1 GGCCCAATCACATTAACATGGCCCATCA
* *
32226500 GGCCCAATCACATTCATATGGCCCATCA
1 GGCCCAATCACATTAACATGGCCCATCA
*
32226528 AGCCCAA
1 GGCCCAA
32226535 CTACTTCCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.37, G:0.16, T:0.19
Consensus pattern (28 bp):
GGCCCAATCACATTAACATGGCCCATCA
Found at i:32229437 original size:27 final size:27
Alignment explanation
Indices: 32229363--32229693 Score: 155
Period size: 27 Copynumber: 11.3 Consensus size: 27
32229353 CAAAATAGTC
* * * * *
32229363 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATTTCGATA
32229390 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
* *
32229417 ATTTTACACTATAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATTTCGATA
* * *
32229444 ATTATGTCGGTCATTTTACACTACAAGGGTATTTCAATA
1 ATT-T-T---ACA--CT--A---CAAGGGTATTTCGATA
32229483 ATTTTTACACTACAAGGGTATTTCGATA
1 A-TTTTACACTACAAGGGTATTTCGATA
*
32229511 ATTTTACACTACAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATTTCGATA
* *
32229538 ATTATGTTGGTCATTTTACACTACAAGGGTATTTCGATA
1 A-T-T-TT--ACA--CT--A---CAAGGGTATTTCGATA
*
32229577 ATTTTTACACTACAAGGGTATTTTGATA
1 A-TTTTACACTACAAGGGTATTTCGATA
* * *
32229605 ATTTTACA-AATCGAGGGTGTTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* ** *
32229632 ATTTTACA-AATCGGGGGTGTTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* ** *
32229659 ATTTTACA-AATTGAGGGTGTTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
32229686 ATTTTACA
1 ATTTTACA
32229694 AATCAAGGGT
Statistics
Matches: 249, Mismatches: 29, Indels: 52
0.75 0.09 0.16
Matches are distributed among these distances:
26 1 0.00
27 155 0.62
28 34 0.14
29 2 0.01
30 2 0.01
31 2 0.01
32 4 0.02
33 2 0.01
34 2 0.01
35 4 0.02
36 2 0.01
37 2 0.01
38 2 0.01
39 33 0.13
40 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:32229486 original size:66 final size:67
Alignment explanation
Indices: 32229380--32229513 Score: 234
Period size: 66 Copynumber: 2.0 Consensus size: 67
32229370 CCTACAGGGG
* * *
32229380 TATGTCGGTCATTTTACACTACAAGGGTATTTCGATAA-TTTTACACTATAAGGGTATTTTGATA
1 TATGTCGGTCATTTTACACTACAAGGGTATTTCAATAATTTTTACACTACAAGGGTATTTCGATA
32229444 AT
66 AT
32229446 TATGTCGGTCATTTTACACTACAAGGGTATTTCAATAATTTTTACACTACAAGGGTATTTCGATA
1 TATGTCGGTCATTTTACACTACAAGGGTATTTCAATAATTTTTACACTACAAGGGTATTTCGATA
32229511 AT
66 AT
32229513 T
1 T
32229514 TTACACTACA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
66 37 0.58
67 27 0.42
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (67 bp):
TATGTCGGTCATTTTACACTACAAGGGTATTTCAATAATTTTTACACTACAAGGGTATTTCGATA
AT
Found at i:32229495 original size:28 final size:27
Alignment explanation
Indices: 32229456--32229532 Score: 136
Period size: 28 Copynumber: 2.8 Consensus size: 27
32229446 TATGTCGGTC
32229456 ATTTTACACTACAAGGGTATTTCAATA
1 ATTTTACACTACAAGGGTATTTCAATA
*
32229483 ATTTTTACACTACAAGGGTATTTCGATA
1 A-TTTTACACTACAAGGGTATTTCAATA
32229511 ATTTTACACTACAAGGGTATTT
1 ATTTTACACTACAAGGGTATTT
32229533 TGATAATTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 22 0.46
28 26 0.54
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAATA
Found at i:32229520 original size:94 final size:94
Alignment explanation
Indices: 32229360--32229612 Score: 418
Period size: 94 Copynumber: 2.7 Consensus size: 94
32229350 GGGCAAAATA
* * * * *
32229360 GTCATTTTACCCTACAGGGGTATGTCGGTCA-TTTTACACTACAAGGGTATTTCGATAATTTTAC
1 GTCATTTTACACTACAAGGGTATTTCGATAATTTTTACACTACAAGGGTATTTCGATAATTTTAC
*
32229424 ACTATAAGGGTATTTTGATAATTATGTCG
66 ACTACAAGGGTATTTTGATAATTATGTCG
*
32229453 GTCATTTTACACTACAAGGGTATTTCAATAATTTTTACACTACAAGGGTATTTCGATAATTTTAC
1 GTCATTTTACACTACAAGGGTATTTCGATAATTTTTACACTACAAGGGTATTTCGATAATTTTAC
*
32229518 ACTACAAGGGTATTTTGATAATTATGTTG
66 ACTACAAGGGTATTTTGATAATTATGTCG
*
32229547 GTCATTTTACACTACAAGGGTATTTCGATAATTTTTACACTACAAGGGTATTTTGATAATTTTAC
1 GTCATTTTACACTACAAGGGTATTTCGATAATTTTTACACTACAAGGGTATTTCGATAATTTTAC
32229612 A
66 A
32229613 AATCGAGGGT
Statistics
Matches: 149, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
93 25 0.17
94 124 0.83
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (94 bp):
GTCATTTTACACTACAAGGGTATTTCGATAATTTTTACACTACAAGGGTATTTCGATAATTTTAC
ACTACAAGGGTATTTTGATAATTATGTCG
Found at i:32229589 original size:28 final size:28
Alignment explanation
Indices: 32229551--32229636 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
32229541 ATGTTGGTCA
32229551 TTTTACACTACAAGGGTATTTCGATAAT
1 TTTTACACTACAAGGGTATTTCGATAAT
*
32229579 TTTTACACTACAAGGGTATTTTGATAA-
1 TTTTACACTACAAGGGTATTTCGATAAT
* * *
32229606 TTTTACA-AATCGAGGGTGTTTCGATAAT
1 TTTTACACTA-CAAGGGTATTTCGATAAT
32229634 TTT
1 TTT
32229637 ACAAATCGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 1 0.02
27 21 0.41
28 29 0.57
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (28 bp):
TTTTACACTACAAGGGTATTTCGATAAT
Found at i:32229694 original size:27 final size:27
Alignment explanation
Indices: 32229563--32230025 Score: 434
Period size: 27 Copynumber: 17.3 Consensus size: 27
32229553 TTACACTACA
* *
32229563 AGGGTATTTCGATAATTTTTAC-ACTACA
1 AGGGTATTTCGATAA-TTTTACAAAT-CG
*
32229591 AGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
32229618 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
32229645 GGGGTGTTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
32229672 AGGGTGTTTCGATAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* *
32229699 AGGGTGTTTTCG-TAATTTCAC-AATCG
1 AGGGT-ATTTCGATAATTTTACAAATCG
* * * *
32229725 AGGGTATTTTGGTAATTTTGCAAAGT-A
1 AGGGTATTTCGATAATTTTACAAA-TCG
* *
32229752 AGGGTATTTC-AGTAATTTCAC-AATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
32229778 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
32229805 -GGAGTATTT-TAGTAATTTTACAAATCG
1 AGG-GTATTTCGA-TAATTTTACAAATCG
* * *
32229832 AGGCTATTT-TAGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
32229858 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
32229885 GGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
32229912 AGGGTATTT-TAGTAATTTCAC-AATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
32229938 AGGGTA-TTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
32229964 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
32229991 AGGGTATTT-TAGTAATTTCAC-AATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
32230017 AGGGTATTT
1 AGGGTATTT
32230026 ACTAATCGGG
Statistics
Matches: 368, Mismatches: 48, Indels: 40
0.81 0.11 0.09
Matches are distributed among these distances:
25 15 0.04
26 94 0.26
27 235 0.64
28 24 0.07
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:32229755 original size:53 final size:53
Alignment explanation
Indices: 32229591--32230025 Score: 445
Period size: 53 Copynumber: 8.2 Consensus size: 53
32229581 TTACACTACA
* * * *
32229591 AGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
* * * * * * *
32229645 GGGGTGTTTCGATAATTTTACAAATTGAGGGTGTTTCGATAATTTTACAAATCA
1 AGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
* * * *
32229699 AGGGTGTTTTCGTAATTTCAC-AATCGAGGGTATTTTGGTAATTTTGCAAAGT-A
1 AGGGT-ATTTCGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAA-TCG
* *
32229752 AGGGTATTTCAGTAATTTCAC-AATTGAGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTC-GTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
* * * *
32229805 -GGAGTATTTTAGTAATTTTACAAATCGAGGCTATTTTAGTAATTTCAC-AATCG
1 AGG-GTA-TTTCGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
*
32229858 AGGGTATTTCGATAATTTTACAAATCGGGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
* * * * * *
32229912 AGGGTATTTTAGTAATTTCAC-AATTGAGGGTA-TTCGATAATTTTACAAATTG
1 AGGGTA-TTTCGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
* * *
32229964 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTCAC-AATTG
1 AGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
32230017 AGGGTATTT
1 AGGGTATTT
32230026 ACTAATCGGG
Statistics
Matches: 325, Mismatches: 42, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
51 4 0.01
52 42 0.13
53 152 0.47
54 118 0.36
55 9 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGTATTTCGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCG
Found at i:32229804 original size:80 final size:80
Alignment explanation
Indices: 32229591--32230025 Score: 515
Period size: 80 Copynumber: 5.4 Consensus size: 80
32229581 TTACACTACA
* * * * *
32229591 AGGGTATTTT-GATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGGGGGTGTTTC
1 AGGGTATTTTAG-TAATTTCAC-AATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTT
* *
32229655 GATAATTTTACAAATTG
64 GGTAATTTTACAAATCG
* * * * * *
32229672 AGGGT-GTTTCGATAATTTTACAAATCAAGGGTGTTTTCG-TAATTTCAC-AATCGAGGGTATTT
1 AGGGTATTTTAG-TAATTTCAC-AATCGAGGGT-ATTTCGATAATTTTACAAATCGAGGGTATTT
* *
32229734 TGGTAATTTTGCAAAGT-A
63 TGGTAATTTTACAAA-TCG
* * * * *
32229752 AGGGTATTTCAGTAATTTCACAATTGAGGGTATTTTGGTAATTTTACAAATCG-GGAGTATTTTA
1 AGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGG-GTATTTTG
32229816 GTAATTTTACAAATCG
65 GTAATTTTACAAATCG
* *
32229832 AGGCTATTTTAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGGGGGTATTTTGG
1 AGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGG
32229897 TAATTTTACAAATCG
66 TAATTTTACAAATCG
* * * *
32229912 AGGGTATTTTAGTAATTTCACAATTGAGGGTA-TTCGATAATTTTACAAATTGAGGGTATTTCGA
1 AGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGG
32229976 TAATTTTACAAATCG
66 TAATTTTACAAATCG
*
32229991 AGGGTATTTTAGTAATTTCACAATTGAGGGTATTT
1 AGGGTATTTTAGTAATTTCACAATCGAGGGTATTT
32230026 ACTAATCGGG
Statistics
Matches: 310, Mismatches: 34, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
78 4 0.01
79 94 0.30
80 167 0.54
81 40 0.13
82 5 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
AGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGG
TAATTTTACAAATCG
Found at i:32237163 original size:46 final size:46
Alignment explanation
Indices: 32237113--32237975 Score: 1556
Period size: 46 Copynumber: 18.7 Consensus size: 46
32237103 TGGTTGAGCA
32237113 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237159 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237205 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237251 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237297 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237343 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237389 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237435 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237481 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237527 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237573 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237619 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237665 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237711 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
32237757 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
32237803 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
32237849 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
32237894 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
32237942 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
32237976 GGGGCGGGTT
Statistics
Matches: 794, Mismatches: 13, Indels: 20
0.96 0.02 0.02
Matches are distributed among these distances:
42 2 0.00
43 5 0.01
45 7 0.01
46 743 0.94
47 28 0.04
48 3 0.00
50 4 0.01
51 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:32238237 original size:19 final size:20
Alignment explanation
Indices: 32238200--32238237 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
32238190 ATAAGGTGGT
32238200 AAGATGATGAATGATGTTTC
1 AAGATGATGAATGATGTTTC
32238220 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
32238238 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTC
Found at i:32243561 original size:22 final size:22
Alignment explanation
Indices: 32243530--32243573 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32243520 ACTGAATTGG
32243530 TTTCTAAATAAGTACCAGGGGA
1 TTTCTAAATAAGTACCAGGGGA
*
32243552 TTTCTTAATAAGTACCAGGGGA
1 TTTCTAAATAAGTACCAGGGGA
32243574 CACACGACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (22 bp):
TTTCTAAATAAGTACCAGGGGA
Found at i:32247964 original size:49 final size:49
Alignment explanation
Indices: 32247907--32248132 Score: 281
Period size: 49 Copynumber: 4.6 Consensus size: 49
32247897 CTGGTATGCA
* * *
32247907 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** * *
32247956 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * *
32248006 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* * *
32248057 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
32248106 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
32248133 ATGACCTCAC
Statistics
Matches: 149, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 66 0.44
50 46 0.31
51 37 0.25
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:32252533 original size:37 final size:37
Alignment explanation
Indices: 32252474--32252582 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
32252464 AGCTCAGACG
* * * *
32252474 AAATCTCTACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
32252511 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
32252548 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
32252583 ATATATTTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:32252849 original size:93 final size:100
Alignment explanation
Indices: 32252744--32253174 Score: 383
Period size: 98 Copynumber: 4.3 Consensus size: 100
32252734 CGTACATATC
* * * * *
32252744 TCACATTAGCCATTTGGCTTTA-C-CACATATCCATCT-CA-TACACGTT-TCGCATTAGCCATT
1 TCACATTGGCCATTCGGCTTTATCACACATAT--ATATACAGTACACATTATCACATTAGCCATT
*
32252804 CGGCCTTA-C-CACATATAT-T-CATGTTCACATTCA
64 CGGCCTTATCACACATATATATACAGGTTCACATTCA
* *
32252837 TCACATTGGCCATTCGGCTTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATT
1 TCACATTGGCCATTCGGCTTTATCACACATATATATACA-GTACACATT-ATCACATTAGCCATT
*
32252902 CGGCTTTATCACACATATATATACAGGTTCACATTCA
64 CGGCCTTATCACACATATATATACAGGTTCACATTCA
*
32252939 TCACATTGGCCATTCGGCTTTATCACACATATATATACAGTATATGCATGTTCACATTCATTACA
1 TCACATTGGCCATTCGGCTTTATCACACATATATATACAG----T--A----CACATT-ATCACA
* ** * *
32253004 TTGGCCATTCGGCCTTATCACAC----ATACGCATGTTCACATCCA
55 TTAGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCA
* * ** * *
32253046 TCACAGTGGCCATTCGGCCTTAT--CACA-A-ATACGCATGTTCACATTCATCACATTGGCCATT
1 TCACATTGGCCATTCGGCTTTATCACACATATATATACA-GTACACATT-ATCACATTAGCCATT
*
32253107 CGGCTTTATCACACATATATATACAGGTTCACATTCA
64 CGGCCTTATCACACATATATATACAGGTTCACATTCA
*
32253144 TCACATTGGCCATTCGGCCTTATCACACATA
1 TCACATTGGCCATTCGGCTTTATCACACATA
32253175 CGCATGTTCA
Statistics
Matches: 281, Mismatches: 28, Indels: 50
0.78 0.08 0.14
Matches are distributed among these distances:
93 23 0.08
94 37 0.13
95 7 0.02
96 6 0.02
98 56 0.20
99 1 0.00
100 14 0.05
101 3 0.01
102 52 0.19
103 5 0.02
104 2 0.01
105 5 0.02
107 36 0.13
111 34 0.12
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (100 bp):
TCACATTGGCCATTCGGCTTTATCACACATATATATACAGTACACATTATCACATTAGCCATTCG
GCCTTATCACACATATATATACAGGTTCACATTCA
Found at i:32252881 original size:51 final size:51
Alignment explanation
Indices: 32252793--32253217 Score: 477
Period size: 51 Copynumber: 8.5 Consensus size: 51
32252783 ACACGTTTCG
* *
32252793 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
*
32252840 CATTGGCCATTCGGCTTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
*
32252891 CATTGGCCATTCGGCTTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
* *
32252942 CATTGGCCATTCGGCTTTATCACACATATATATACAGTATATGCATGTTCACATTCATTA
1 CATTGGCCATTCGGCCTTATCACACATATATATAC-----A-G---GTTCACATTCATCA
** * *
32253002 CATTGGCCATTCGGCCTTATCACAC----ATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
* ** *
32253049 CAGTGGCCATTCGGCCTTAT--CACA-A-ATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
*
32253096 CATTGGCCATTCGGCTTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
** * *
32253147 CATTGGCCATTCGGCCTTATCACAC----ATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
*
32253194 CAGTGGCCATTCGGCCTTATCACA
1 CATTGGCCATTCGGCCTTATCACA
32253218 AATACGCATG
Statistics
Matches: 336, Mismatches: 23, Indels: 38
0.85 0.06 0.10
Matches are distributed among these distances:
45 3 0.01
47 128 0.38
48 1 0.00
49 13 0.04
50 2 0.01
51 146 0.43
56 5 0.01
57 1 0.00
60 37 0.11
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (51 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
Found at i:32253037 original size:47 final size:47
Alignment explanation
Indices: 32252984--32253235 Score: 369
Period size: 47 Copynumber: 5.3 Consensus size: 47
32252974 TACAGTATAT
*
32252984 GCATGTTCACATTCATTACATTGGCCATTCGGCCTTATCACACATAC
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
* * *
32253031 GCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACAAATAC
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
* *
32253078 GCATGTTCACATTCATCACATTGGCCATTCGGCTTTATCACACATATATAT
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC----ATAC
* *
32253129 ACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
* * *
32253176 GCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACAAATAC
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
32253223 GCATGTTCACATT
1 GCATGTTCACATT
32253236 ATATGCATGT
Statistics
Matches: 182, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
47 139 0.76
51 43 0.24
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (47 bp):
GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
Found at i:32253085 original size:256 final size:255
Alignment explanation
Indices: 32252798--32253306 Score: 817
Period size: 256 Copynumber: 2.0 Consensus size: 255
32252788 TTTCGCATTA
* **
32252798 GCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCTTTATCAC
1 GCCATTCGGCCTTACCACAAATACGCATGTTCACATTCATCACATTGGCCATTCGGCTTTATCAC
* *
32252863 ACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCTTTATCACACATATATATACAG
66 ACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC----ATACACAG
* * * * *
32252928 GTTCACATTCATCACATTGGCCATTCGGCTTTATCACACATA-TAT-AT-ACAGTATATGCATGT
127 GTTCACATCCATCACAGTGGCCATTCGGCCTTATCACAAATACCATGATCACAGTATATGCATGT
32252990 TCACATTCATTACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTG
192 TCACATTCATTACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTG
*
32253054 GCCATTCGGCCTTATCACAAATACGCATGTTCACATTCATCACATTGGCCATTCGGCTTTATCAC
1 GCCATTCGGCCTTACCACAAATACGCATGTTCACATTCATCACATTGGCCATTCGGCTTTATCAC
* *
32253119 ACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
66 ACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAGGTTC
* *
32253184 ACATCCATCACAGTGGCCATTCGGCCTTATCACAAATACGCATGTTCACATTATATGCATGTTCA
131 ACATCCATCACAGTGGCCATTCGGCCTTATCACAAATAC-CATGATCACAGTATATGCATGTTCA
32253249 CATTCATTACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACA
195 CATTCATTACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACA
32253307 TAAAATCCTA
Statistics
Matches: 234, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
252 43 0.18
254 2 0.01
255 1 0.00
256 188 0.80
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (255 bp):
GCCATTCGGCCTTACCACAAATACGCATGTTCACATTCATCACATTGGCCATTCGGCTTTATCAC
ACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAGGTTC
ACATCCATCACAGTGGCCATTCGGCCTTATCACAAATACCATGATCACAGTATATGCATGTTCAC
ATTCATTACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTG
Found at i:32253179 original size:98 final size:94
Alignment explanation
Indices: 32252984--32253234 Score: 349
Period size: 98 Copynumber: 2.6 Consensus size: 94
32252974 TACAGTATAT
* * *
32252984 GCATGTTCACATTCATTACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAGGTTCACATCCATCA
32253049 CAGTGGCCATTCGGCCTTATCACAAATAC
66 CAGTGGCCATTCGGCCTTATCACAAATAC
* * *
32253078 GCATGTTCACATTCATCACATTGGCCATTCGGCTTTATCACACATATATATACAGGTTCACATTC
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC----ATACACAGGTTCACATCC
* *
32253143 ATCACATTGGCCATTCGGCCTTATCACACATAC
62 ATCACAGTGGCCATTCGGCCTTATCACAAATAC
* * * * *
32253176 GCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACAAATACGCATGTTCACAT
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAGGTTCACAT
32253235 TATATGCATG
Statistics
Matches: 138, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
94 54 0.39
98 84 0.61
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (94 bp):
GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAGGTTCACATCCATCA
CAGTGGCCATTCGGCCTTATCACAAATAC
Found at i:32253249 original size:64 final size:64
Alignment explanation
Indices: 32253176--32253298 Score: 210
Period size: 64 Copynumber: 1.9 Consensus size: 64
32253166 TCACACATAC
32253176 GCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACAAATACGCATGTTCACATTATAT
1 GCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACAAATACGCATGTTCACATTATAT
* * * *
32253240 GCATGTTCACATTCATTACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
1 GCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACAAATACGCATGTTCACAT
32253299 CCATCACATA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (64 bp):
GCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACAAATACGCATGTTCACATTATAT
Found at i:32253339 original size:111 final size:112
Alignment explanation
Indices: 32253118--32253321 Score: 288
Period size: 111 Copynumber: 1.8 Consensus size: 112
32253108 GGCTTTATCA
32253118 CACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
1 CACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
*** * ***
32253183 CACATCCATCACAGTGGCCATTCGGCCTTATCACAAATACGCATGTT
66 CACATCCATCACAGTGAAAATCCGAAATTATCACAAATACGCATGTT
* * *
32253230 CACAT-TATATGCATGTTCACATTCATTACATTGGCCATTCGGCCTTATCACACATACGCATGTT
1 CACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
*
32253294 CACATCCATCACA-T-AAAATCCTAAATTA
66 CACATCCATCACAGTGAAAATCCGAAATTA
32253322 AAATATAAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
109 6 0.07
110 1 0.01
111 69 0.85
112 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.30
Consensus pattern (112 bp):
CACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
CACATCCATCACAGTGAAAATCCGAAATTATCACAAATACGCATGTT
Found at i:32255632 original size:85 final size:85
Alignment explanation
Indices: 32255489--32255667 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
32255479 TATTTTATTG
* * *
32255489 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTACTAACCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
32255554 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
32255574 CCCATGCTCTTTATTTTACTAACCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTACTAACCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
32255639 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
32255659 CCCATGCTC
1 CCCATGCTC
32255668 ATGGCCGGCC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.26, C:0.29, G:0.08, T:0.36
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTACTAACCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:32257063 original size:52 final size:52
Alignment explanation
Indices: 32256985--32257090 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
32256975 ACTTCTCACC
32256985 AAACAAATAATGTTGCCAAATTTTCAATGCAAAAACAATAGCGGCTAACACT
1 AAACAAATAATGTTGCCAAATTTTCAATGCAAAAACAATAGCGGCTAACACT
32257037 AAACAAATAATGTTGCCAAATTTTCAATGCAAAAACAATAGCGGCTAACACT
1 AAACAAATAATGTTGCCAAATTTTCAATGCAAAAACAATAGCGGCTAACACT
32257089 AA
1 AA
32257091 GTCGTGCGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (52 bp):
AAACAAATAATGTTGCCAAATTTTCAATGCAAAAACAATAGCGGCTAACACT
Found at i:32259637 original size:28 final size:28
Alignment explanation
Indices: 32259603--32259659 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
32259593 GTTCATCAAA
*
32259603 TACCCAGATCGTATTCTCTAGCCAAAAC
1 TACCCAGATCATATTCTCTAGCCAAAAC
32259631 TACCCAGATCATATTCTCTAGCCAAAAC
1 TACCCAGATCATATTCTCTAGCCAAAAC
32259659 T
1 T
32259660 CAGCTTTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.32, G:0.09, T:0.26
Consensus pattern (28 bp):
TACCCAGATCATATTCTCTAGCCAAAAC
Found at i:32261574 original size:23 final size:24
Alignment explanation
Indices: 32261487--32261576 Score: 78
Period size: 26 Copynumber: 3.7 Consensus size: 24
32261477 GGACTCACCA
* *
32261487 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCATAAGAGCTTACCGAT-T-T
* *
32261513 CAGCTCATAAGAGCTTACTGTTTT
1 CAGCTCATAAGAGCTTACCGATTT
*
32261537 CAGCTCGTCAA-AGCTTACCG-TTT
1 CAGCTCAT-AAGAGCTTACCGATTT
32261560 CAGCTCA-ATAGAGCTTA
1 CAGCTCATA-AGAGCTTA
32261577 TTGTCTATCA
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 15 0.28
24 16 0.30
25 3 0.06
26 18 0.33
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (24 bp):
CAGCTCATAAGAGCTTACCGATTT
Found at i:32261787 original size:18 final size:19
Alignment explanation
Indices: 32261746--32261787 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
32261736 AAAAAGCTAT
*
32261746 ATGTTATACGGATGAATTA
1 ATGTTATACGGATGAAGTA
* *
32261765 CTGTTATA-TGATGAAGTA
1 ATGTTATACGGATGAAGTA
32261783 ATGTT
1 ATGTT
32261788 TAAACAGATG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (19 bp):
ATGTTATACGGATGAAGTA
Found at i:32264305 original size:46 final size:46
Alignment explanation
Indices: 32264252--32264420 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 46
32264242 GCATCTGAAA
* * *
32264252 TCGTTGAGTTGTGTCTGAGTTCACTTATGGATGCGAATGTCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGC
*** * *
32264298 TCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--TCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCCGAGC
* * *
32264345 TTGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGC
32264391 TCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGG
32264421 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 58 0.59
47 30 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (46 bp):
TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGC
Found at i:32269821 original size:46 final size:46
Alignment explanation
Indices: 32269771--32269946 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
32269761 TGTTTGGGCA
*
32269771 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
32269817 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GAGGGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * * *
32269862 CATCCGAGCTCGTTGAGTTGAGTTCAAGTTCATTTATGGATACGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
32269910 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32269947 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 1 0.01
45 2 0.02
46 59 0.56
47 25 0.24
48 1 0.01
50 6 0.06
51 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:32269926 original size:93 final size:93
Alignment explanation
Indices: 32269767--32269938 Score: 267
Period size: 93 Copynumber: 1.8 Consensus size: 93
32269757 AGGATGTTTG
* *
32269767 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATACGAATGTCCGAACTCGTTGAG
32269832 TTGAGTCCGAGTTCGAGGGATGTAACTA
66 TTGAGTCCGAGTTCGAGGGATGTAACTA
* * *
32269860 GGCATCCGAGCTCGTTGAGTTGAGT-TCAAGTTCATTTATGGATACGAATG-CTCGAGCTCGTTG
1 GGCATCCGAACTCGTTGAGTTGAGTCT-AAGTTCACTTATGGATACGAATGTC-CGAACTCGTTG
32269923 AGTTGAGTCCGAGTTC
64 AGTTGAGTCCGAGTTC
32269939 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATACGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGGGATGTAACTA
Found at i:32277278 original size:37 final size:37
Alignment explanation
Indices: 32277237--32277324 Score: 176
Period size: 37 Copynumber: 2.4 Consensus size: 37
32277227 AACATAGACA
32277237 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
1 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
32277274 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
1 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
32277311 TGTATGTTCGGCCA
1 TGTATGTTCGGCCA
32277325 TAGGTAGCCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (37 bp):
TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
Found at i:32278139 original size:119 final size:121
Alignment explanation
Indices: 32277923--32278186 Score: 358
Period size: 119 Copynumber: 2.2 Consensus size: 121
32277913 TCGAATGATG
* * *
32277923 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGACCCGAAGGCATT
* * *
32277987 TGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTA-AA
66 GGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTATAA
* * * * *
32278042 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGACCCGAAGGCATT
* *
32278105 GGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
66 GGTGCGAGTTACTAAATCCGGGCTAAG-CCCGAAGGCATTGGTACGAGTTACTATAA
*
32278162 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32278187 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
118 35 0.28
119 83 0.65
120 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGACCCGAAGGCATT
GGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTATAA
Found at i:32278200 original size:40 final size:40
Alignment explanation
Indices: 32277924--32278186 Score: 315
Period size: 40 Copynumber: 6.6 Consensus size: 40
32277914 CGAATGATGT
* * * * *
32277924 CCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
32277964 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
32278004 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
32278042 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
32278083 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
32278121 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
32278162 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
32278187 AACGAGTAGC
Statistics
Matches: 196, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
39 69 0.35
40 113 0.58
41 12 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:32278219 original size:79 final size:79
Alignment explanation
Indices: 32277976--32278184 Score: 366
Period size: 79 Copynumber: 2.6 Consensus size: 79
32277966 GGACTAAGAT
*
32277976 CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTA
32278040 AATCCGGGTTAAGTC
65 AATCCGGGTTAAGTC
32278055 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
32278120 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
32278134 CCGAAGGCATTTGTACGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAG-CCCGAAGGCATT
32278185 TGAACGAGTA
Statistics
Matches: 125, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
79 112 0.90
80 13 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:32279712 original size:226 final size:226
Alignment explanation
Indices: 32279299--32279719 Score: 790
Period size: 226 Copynumber: 1.9 Consensus size: 226
32279289 CCCTGTAACA
32279299 TGGGAGACTTTGACTAATAAACTGTACTAATTGGACCAACCAAAAATTCTAGGAAAAAATATGTA
1 TGGGAGACTTTGACTAATAAACTGTACTAATTGGACCAACCAAAAATTCTAGGAAAAAATATGTA
32279364 GATGGGCATATGAGTCTAGTTTCATGGAAAAATTACGAAACTGATTTTCGAGTTGTGAAACTCAA
66 GATGGGCATATGAGTCTAGTTTCATGGAAAAATTACGAAACTGATTTTCGAGTTGTGAAACTCAA
*
32279429 GATATGATTTTTAAGGTGACAGTGACGCAGTTAGCCAGCTTGCCTGGAAAATTTAAAATGGACTG
131 GATATGATTTTTAAGGTGACAGTGACGCAGTTAGCCAACTTGCCTGGAAAATTTAAAATGGACTG
32279494 TGCAAAGAAGTGATTTAAGTCTGCGAACCCT
196 TGCAAAGAAGTGATTTAAGTCTGCGAACCCT
32279525 TGGGAGACTTTGACTAATAAACTGTACTAATTGGACCAACCAAAAATTCTAGGAAAAAATATGTA
1 TGGGAGACTTTGACTAATAAACTGTACTAATTGGACCAACCAAAAATTCTAGGAAAAAATATGTA
32279590 GATGGGCATATGAGTCTAGTTTCATGGAAAAATTACGAAACTGATTTTCGAGTTGTGAAACTCAA
66 GATGGGCATATGAGTCTAGTTTCATGGAAAAATTACGAAACTGATTTTCGAGTTGTGAAACTCAA
* * *
32279655 GATATGATTTTTAAGGTGACAGTGATGCAGTTATCCAAC-TGCCTGGAAATTTTTAAAATGGACT
131 GATATGATTTTTAAGGTGACAGTGACGCAGTTAGCCAACTTGCCTGGAAA-ATTTAAAATGGACT
32279719 G
195 G
32279720 CGATAGTAAG
Statistics
Matches: 190, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
225 10 0.05
226 180 0.95
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (226 bp):
TGGGAGACTTTGACTAATAAACTGTACTAATTGGACCAACCAAAAATTCTAGGAAAAAATATGTA
GATGGGCATATGAGTCTAGTTTCATGGAAAAATTACGAAACTGATTTTCGAGTTGTGAAACTCAA
GATATGATTTTTAAGGTGACAGTGACGCAGTTAGCCAACTTGCCTGGAAAATTTAAAATGGACTG
TGCAAAGAAGTGATTTAAGTCTGCGAACCCT
Found at i:32291361 original size:6 final size:6
Alignment explanation
Indices: 32291343--32291394 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
32291333 ATAACCCAAC
*
32291343 AAAAAT AATAAT AAAAAT --AAAT AAAAAT AAAAAT -AAAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
32291387 -AAAAT AAA
1 AAAAAT AAA
32291395 TTATAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 4 0.10
5 15 0.37
6 22 0.54
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:32291364 original size:16 final size:16
Alignment explanation
Indices: 32291345--32291402 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
32291335 AACCCAACAA
32291345 AAATAATAATAAAAAT
1 AAATAATAATAAAAAT
*
32291361 AAATAAAAATAAAAAT
1 AAATAATAATAAAAAT
32291377 AAAATAA-AAT-AAAAT
1 -AAATAATAATAAAAAT
*
32291392 AAATTATAATA
1 AAATAATAATA
32291403 TTAAAAGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 18 0.49
17 6 0.16
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAATAATAAAAAT
Found at i:32291367 original size:10 final size:11
Alignment explanation
Indices: 32291352--32291400 Score: 59
Period size: 10 Copynumber: 4.6 Consensus size: 11
32291342 CAAAAATAAT
32291352 AATA-AAAATA
1 AATATAAAATA
32291362 AATA-AAAATA
1 AATATAAAATA
*
32291372 AAAATAAAATA
1 AATATAAAATA
32291383 AA-ATAAAATA
1 AATATAAAATA
32291393 AATTATAA
1 AA-TATAA
32291401 TATTAAAAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
10 23 0.66
11 8 0.23
12 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AATATAAAATA
Found at i:32291368 original size:22 final size:22
Alignment explanation
Indices: 32291344--32291394 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
32291334 TAACCCAACA
*
32291344 AAAATAATAATAAAAAT-AAAT
1 AAAATAAAAATAAAAATAAAAT
32291365 AAAAATAAAAAT-AAAATAAAAT
1 -AAAATAAAAATAAAAATAAAAT
32291387 AAAATAAA
1 AAAATAAA
32291395 TTATAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAATAAAAATAAAAATAAAAT
Found at i:32291402 original size:10 final size:10
Alignment explanation
Indices: 32291344--32291394 Score: 59
Period size: 10 Copynumber: 4.8 Consensus size: 10
32291334 TAACCCAACA
32291344 AAAATAATAAT
1 AAAATAA-AAT
32291355 AAAA-ATAAAT
1 AAAATA-AAAT
32291365 AAAAATAAAAAT
1 -AAAAT-AAAAT
32291377 AAAATAAAAT
1 AAAATAAAAT
32291387 AAAATAAA
1 AAAATAAA
32291395 TTATAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 17 0.47
11 14 0.39
12 4 0.11
13 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:32291951 original size:39 final size:39
Alignment explanation
Indices: 32291907--32291991 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
32291897 ATATATGGTG
32291907 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCAGGA
1 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCAGGA
*
32291946 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
1 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCAGGA
*
32291985 ATCATAT
1 ATTATAT
32291992 TCGAACTTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (39 bp):
ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCAGGA
Found at i:32292228 original size:74 final size:74
Alignment explanation
Indices: 32292107--32292255 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
32292097 ACGCCGGTGA
*
32292107 TTTGAGTAAAATCGTGAATTTGAATATTCGAGAAAACCACTATTGATTTGGTATGATACACTAAG
1 TTTGAGTAAAATCATGAATTTGAATATTCGAGAAAACCACTATTGATTTGGTATGATACACTAAG
32292172 ATAGCCAGG
66 ATAGCCAGG
32292181 TTTGAGTAAAATCATGAATTTGAATATTCGAGAAAACCACTATTGATTTGGTATGATACACTAAG
1 TTTGAGTAAAATCATGAATTTGAATATTCGAGAAAACCACTATTGATTTGGTATGATACACTAAG
32292246 ATAGCCAGG
66 ATAGCCAGG
32292255 T
1 T
32292256 ACGTACTACG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (74 bp):
TTTGAGTAAAATCATGAATTTGAATATTCGAGAAAACCACTATTGATTTGGTATGATACACTAAG
ATAGCCAGG
Found at i:32304508 original size:15 final size:15
Alignment explanation
Indices: 32304466--32304508 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
32304456 TGTGTTGTTG
*
32304466 GATTAAATTGAATGA
1 GATTAATTTGAATGA
* *
32304481 AATTATGTTTGAATGA
1 GATTA-ATTTGAATGA
32304497 GATTAATTTGAA
1 GATTAATTTGAA
32304509 ATTGTATAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (15 bp):
GATTAATTTGAATGA
Found at i:32312191 original size:43 final size:42
Alignment explanation
Indices: 32312134--32312265 Score: 169
Period size: 43 Copynumber: 3.1 Consensus size: 42
32312124 ACATACCGTA
32312134 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCC-ACGTCCCAGACGTGGTCTTACATGTAATCACATAT
* *
32312177 CAATGCCACTGTCCCAGACAG-GGTCTTAC-TCATAAACACATAT
1 CAATGCCAC-GTCCCAGAC-GTGGTCTTACAT-GTAATCACATAT
* *
32312220 CGATGGCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAAT-GCCACGTCCCAGACGTGGTCTTACATGTAATCACATAT
32312263 CAA
1 CAA
32312266 AAATCCTATG
Statistics
Matches: 76, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
42 4 0.05
43 66 0.87
44 6 0.08
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
CAATGCCACGTCCCAGACGTGGTCTTACATGTAATCACATAT
Found at i:32316871 original size:38 final size:38
Alignment explanation
Indices: 32316787--32316987 Score: 188
Period size: 38 Copynumber: 5.2 Consensus size: 38
32316777 TAAAATAAAC
* * * *
32316787 TGTGCTGAGATTGTATCCGGGCTTAAAGACCCGCAGGCTA
1 TGTGCTGAAATTATATCCGGG-TTAAA-TCCCGCAGGCTT
* *
32316827 TATGCTGAAATTATATCCGGGATAAATCCCGCAGGCTT
1 TGTGCTGAAATTATATCCGGGTTAAATCCCGCAGGCTT
*
32316865 TGTGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTT
1 TGTGCT-GAAATTATATCCGGGTTAAATCCCGCAGGCTT
* ** *
32316903 CGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCT
1 TGTGCTGAAATTATATCCGGGTTAAATCCCGCAGGCTT
* ** * * *
32316941 AGTGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTT
1 TGTGCTGAAATTATATCCG-GGTTAAA-TCCCGCAGGCTT
*
32316981 CGTGCTG
1 TGTGCTG
32316988 GTGTTATGTT
Statistics
Matches: 138, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
37 2 0.01
38 89 0.64
39 13 0.09
40 34 0.25
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (38 bp):
TGTGCTGAAATTATATCCGGGTTAAATCCCGCAGGCTT
Found at i:32316909 original size:76 final size:77
Alignment explanation
Indices: 32316800--32316987 Score: 236
Period size: 76 Copynumber: 2.4 Consensus size: 77
32316790 GCTGAGATTG
* * *
32316800 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGAAATTATATCCGGGATAAATCCCGCAGGCT
1 TATCCGGG-TTAAAGTCCCGCAGGCT-TCGTGCTGAAATTATATCCGGGATAAATCCCGCAGGCC
*
32316864 TTGTGCTGGTAATA
64 TAGTGCTGGTAATA
** *
32316878 TATCCGGGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGAAATTATATCCGGGATAAATCCCGCAGGCCTA
*
32316942 GTGCTGGTATTA
66 GTGCTGGTAATA
* * *
32316954 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTG
1 TATCCG-GGTTAAAGTCCCGCAGGCTTCGTGCTG
32316988 GTGTTATGTT
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
75 1 0.01
76 58 0.60
77 11 0.11
78 26 0.27
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (77 bp):
TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGAAATTATATCCGGGATAAATCCCGCAGGCCTA
GTGCTGGTAATA
Found at i:32324453 original size:43 final size:43
Alignment explanation
Indices: 32324395--32324522 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 43
32324385 ATATCGTACA
* *
32324395 ATGCCAAAGTCCCAGACGTGGTCTCACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * * *
32324438 ATGCC-ACTGTTCCAGATAG-GGTCTTACTTGTAAACACATATCG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACATGTAATCACATATCG
* **
32324481 TTGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATC
32324523 AGAAATCATA
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
42 2 0.03
43 63 0.93
44 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:32325282 original size:59 final size:59
Alignment explanation
Indices: 32325202--32325324 Score: 237
Period size: 59 Copynumber: 2.1 Consensus size: 59
32325192 AATATTCATC
*
32325202 AAAATCAGAAATTCAAGCATGGGCTTTGTACATTACACTGCAATGATCTCAAAAACGTA
1 AAAATCAAAAATTCAAGCATGGGCTTTGTACATTACACTGCAATGATCTCAAAAACGTA
32325261 AAAATCAAAAATTCAAGCATGGGCTTTGTACATTACACTGCAATGATCTCAAAAACGTA
1 AAAATCAAAAATTCAAGCATGGGCTTTGTACATTACACTGCAATGATCTCAAAAACGTA
32325320 AAAAT
1 AAAAT
32325325 TGTCAAAAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (59 bp):
AAAATCAAAAATTCAAGCATGGGCTTTGTACATTACACTGCAATGATCTCAAAAACGTA
Found at i:32327642 original size:37 final size:37
Alignment explanation
Indices: 32327600--32327674 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
32327590 GTGAAATATG
32327600 TAAATTGAAGGGTTGAAAAGTCAAATAAATGAAAGTT
1 TAAATTGAAGGGTTGAAAAGTCAAATAAATGAAAGTT
*
32327637 TAAATTGAAGGGTTGAAAAGTTAAATAAATGAAAGTT
1 TAAATTGAAGGGTTGAAAAGTCAAATAAATGAAAGTT
32327674 T
1 T
32327675 TGGGCTGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.48, C:0.01, G:0.21, T:0.29
Consensus pattern (37 bp):
TAAATTGAAGGGTTGAAAAGTCAAATAAATGAAAGTT
Found at i:32329335 original size:34 final size:34
Alignment explanation
Indices: 32329290--32329357 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
32329280 ACAGTCAAAT
32329290 ACAGTTTTGGGCCTAAGCCTC-TTTCAGTATCAGTA
1 ACAGTTTTGGGCCTAAGCC-CATTTCAGTA-CAGTA
*
32329325 ACAG-TTTGGGCCTTAGCCCATTTCAGTACAGTA
1 ACAGTTTTGGGCCTAAGCCCATTTCAGTACAGTA
32329358 TCAAATATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 6 0.19
34 21 0.68
35 4 0.13
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (34 bp):
ACAGTTTTGGGCCTAAGCCCATTTCAGTACAGTA
Found at i:32335932 original size:17 final size:17
Alignment explanation
Indices: 32335910--32335949 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
32335900 CCCTGAGGTA
32335910 CTCACACGATATTTTAG
1 CTCACACGATATTTTAG
32335927 CTCACACGATATTTTAG
1 CTCACACGATATTTTAG
32335944 CTCACA
1 CTCACA
32335950 TGATTACAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (17 bp):
CTCACACGATATTTTAG
Found at i:32338274 original size:20 final size:18
Alignment explanation
Indices: 32338228--32338266 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
32338218 AGAGCGAAAG
32338228 AAACGAG-AAATGGGCCA
1 AAACGAGAAAATGGGCCA
32338245 AAACCGGAGAAAATGGGCCA
1 AAA-C-GAGAAAATGGGCCA
32338265 AA
1 AA
32338267 GTACGAGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 1 0.05
19 3 0.16
20 12 0.63
ACGTcount: A:0.49, C:0.18, G:0.28, T:0.05
Consensus pattern (18 bp):
AAACGAGAAAATGGGCCA
Found at i:32344527 original size:16 final size:17
Alignment explanation
Indices: 32344506--32344538 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32344496 AGTCTCTAGC
*
32344506 AGTTT-ACTATAGTTTT
1 AGTTTAACTACAGTTTT
32344522 AGTTTAACTACAGTTTT
1 AGTTTAACTACAGTTTT
32344539 TAGTATATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (17 bp):
AGTTTAACTACAGTTTT
Found at i:32344792 original size:21 final size:21
Alignment explanation
Indices: 32344766--32344809 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
32344756 TTGCAACTTG
*
32344766 ACTCTGATACTACTAAATGTA
1 ACTCTGATACCACTAAATGTA
32344787 ACTCTGATACCACTAAATGTA
1 ACTCTGATACCACTAAATGTA
32344808 AC
1 AC
32344810 ACCCCAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (21 bp):
ACTCTGATACCACTAAATGTA
Found at i:32345985 original size:20 final size:19
Alignment explanation
Indices: 32345949--32345999 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
32345939 AAGGGCTATT
*
32345949 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
32345968 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
32345988 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
32346000 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:32346764 original size:48 final size:47
Alignment explanation
Indices: 32346651--32346862 Score: 236
Period size: 46 Copynumber: 4.5 Consensus size: 47
32346641 TATGTGTGCT
*
32346651 AGTGTAAGACATGTCTGGGACATGCATCGGC-C-ACAT-TACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATATAC-A-AGCC
32346697 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGATATACAAGCC
* * * ** * *
32346745 AATGTAAGACATGTCTGGGACATGCATCAGGATTGAGA-CGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTCGAGATATACAAGCC
* *
32346791 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGATATACAAGCC
* *
32346839 AGTGTAAGACCTATCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
32346863 GTGTCAGCTT
Statistics
Matches: 143, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
45 2 0.01
46 66 0.46
47 3 0.02
48 63 0.44
49 6 0.04
50 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATATACAAGCC
Found at i:32346800 original size:94 final size:94
Alignment explanation
Indices: 32346653--32346862 Score: 305
Period size: 94 Copynumber: 2.2 Consensus size: 94
32346643 TGTGTGCTAG
* *
32346653 TGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGAGCCAGTGTAAGACATGTCTGGGAC
1 TGTAAGACATGTCTGGGACATGCATCGGACACATGACGAGAGCCAGTGTAAGACATGTCTGGGAC
32346718 ATGCATCGGCCTCGAGATATACAAGCCAA
66 ATGCATCGGCCTCGAGATATACAAGCCAA
*** *
32346747 TGTAAGACATGTCTGGGACATGCATCAGGATTGA-GACGAGAGCTAGTGTAAGACATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATC-GGACACATGACGAGAGCCAGTGTAAGACATGTCTGGGA
* * *
32346811 CATGCATCGGCCTTGAGATATACAAGCTAG
65 CATGCATCGGCCTCGAGATATACAAGCCAA
* *
32346841 TGTAAGACCTATCTGGGACATG
1 TGTAAGACATGTCTGGGACATG
32346863 GTGTCAGCTT
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 101 0.97
95 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (94 bp):
TGTAAGACATGTCTGGGACATGCATCGGACACATGACGAGAGCCAGTGTAAGACATGTCTGGGAC
ATGCATCGGCCTCGAGATATACAAGCCAA
Found at i:32346955 original size:49 final size:48
Alignment explanation
Indices: 32346651--32347011 Score: 150
Period size: 49 Copynumber: 7.6 Consensus size: 48
32346641 TATGTGTGCT
* * * *
32346651 AGTGTAAGACATGTCTGGGACAT-GCATCG-GC-C-ACATTACGAGAGCC
1 AGTGTAAGAC-TGTCTGGGACATGGCATCGACCTCGACA-GATGAAAGCC
* * *
32346697 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAAGCC
1 AGTGTAAGAC-TGTCTGGGACATGGCATCGACCTCGACAGATGA-AAGCC
* * * * *
32346745 AATGTAAGACATGTCTGGGACAT-GCATCAGGA--TTG--AGACGAGAGCT
1 AGTGTAAGAC-TGTCTGGGACATGGCATC--GACCTCGACAGATGAAAGCC
* * * * *
32346791 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGATAT-ACAAGCT
1 AGTGTAAGAC-TGTCTGGGACATGGCATCGACCTCGACAGATGA-AAGCC
* ** * * ** * **
32346839 AGTGTAAGACCTATCTGGGACATGGTGTC-AGCTTG-TTG-TG--TGTT
1 AGTGTAAGA-CTGTCTGGGACATGGCATCGACCTCGACAGATGAAAGCC
32346883 AGTGTAAGACTTGTCTGGGACATGGCATCGACAC-CGACAGATGAAAGCC
1 AGTGTAAGAC-TGTCTGGGACATGGCATCGAC-CTCGACAGATGAAAGCC
* * * * **
32346932 AGTGTAAGAGCTGTTTGGGACATGACATCTG-CCTCGATATATGAAAGTT
1 AGTGTAAGA-CTGTCTGGGACATGGCATC-GACCTCGACAGATGAAAGCC
32346981 AGTGTAAGACCTGTCTGGGACATGGCATCGA
1 AGTGTAAGA-CTGTCTGGGACATGGCATCGA
32347012 ATTTGATTTG
Statistics
Matches: 244, Mismatches: 45, Indels: 49
0.72 0.13 0.14
Matches are distributed among these distances:
43 1 0.00
44 27 0.11
45 2 0.01
46 67 0.27
47 6 0.02
48 68 0.28
49 70 0.29
50 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACTGTCTGGGACATGGCATCGACCTCGACAGATGAAAGCC
Found at i:32348926 original size:31 final size:31
Alignment explanation
Indices: 32348889--32348958 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
32348879 ATACTGGGCT
*
32348889 AAGCCTTTTCATTATTCATATCACAGGGCCG
1 AAGCCTTTTCATTATTCATATCACAGGGCCA
* *
32348920 AAGCCTTTTCATTATTTATATCACTGGGCCA
1 AAGCCTTTTCATTATTCATATCACAGGGCCA
32348951 AAGCCTTT
1 AAGCCTTT
32348959 ACTGTAAGCG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (31 bp):
AAGCCTTTTCATTATTCATATCACAGGGCCA
Found at i:32349248 original size:25 final size:26
Alignment explanation
Indices: 32349179--32349248 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 26
32349169 CTCTTTTAAT
32349179 AACTGGGGCAAAGCCC-TTTCTGGTA
1 AACTGGGGCAAAGCCCTTTTCTGGTA
*
32349204 AACTGGGGCAAAGCCTTTTTC-GGTA
1 AACTGGGGCAAAGCCCTTTTCTGGTA
*
32349229 AATTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
32349249 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCTGGTA
Found at i:32349307 original size:10 final size:10
Alignment explanation
Indices: 32349294--32349333 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
32349284 CATATATGAA
32349294 CATATCATGG
1 CATATCATGG
32349304 CATATCATGTG
1 CATATCATG-G
32349315 CATATCATGG
1 CATATCATGG
32349325 CATATCATG
1 CATATCATG
32349334 TATAAAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (10 bp):
CATATCATGG
Found at i:32349320 original size:21 final size:21
Alignment explanation
Indices: 32349294--32349334 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
32349284 CATATATGAA
32349294 CATATCATGGCATATCATGTG
1 CATATCATGGCATATCATGTG
32349315 CATATCATGGCATATCATGT
1 CATATCATGGCATATCATGT
32349335 ATAAAACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (21 bp):
CATATCATGGCATATCATGTG
Found at i:32349412 original size:25 final size:25
Alignment explanation
Indices: 32349373--32349423 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
32349363 ATAACATATC
* *
32349373 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
32349398 CCTAGGGGCAAAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
32349423 C
1 C
32349424 ATTATAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTCA
Found at i:32362169 original size:19 final size:19
Alignment explanation
Indices: 32362147--32362188 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
32362137 AGAACAGATG
*
32362147 AGAAAAGAAA-GAAAGAAGA
1 AGAAAA-AAATGAAAAAAGA
32362166 AGAAAAAAATGAAAAAAGA
1 AGAAAAAAATGAAAAAAGA
32362185 AGAA
1 AGAA
32362189 GTCGACGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (19 bp):
AGAAAAAAATGAAAAAAGA
Found at i:32372145 original size:46 final size:46
Alignment explanation
Indices: 32372078--32372294 Score: 362
Period size: 46 Copynumber: 4.7 Consensus size: 46
32372068 AACCCACTCC
* *
32372078 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
32372124 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
* * *
32372170 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
* * *
32372216 TAAGTGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
32372262 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
32372295 ATGCTCAACC
Statistics
Matches: 160, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 160 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
Found at i:32372529 original size:249 final size:249
Alignment explanation
Indices: 32372091--32372588 Score: 852
Period size: 249 Copynumber: 2.0 Consensus size: 249
32372081 GTGAACTCGG
* * *
32372091 ACTCAACTCAACGAGCTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 ACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGCGAACTCGGACTCAACTCAACGAGCTCG
* *
32372156 GGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
66 GGCATTCGCATCCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGC
*
32372221 GAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
131 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32372286 CGAGTTCGGATGCTCAACCATCCTAGTGACATGTAACTTGTATCCTAATCTATT
196 CGAGTTCGGATGCTCAACCATCCTAGTGACATGTAACTTGTATCCTAATCTATT
*
32372340 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGCGAACTCGGACTCAACTCAACGAGCTCG
1 ACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGCGAACTCGGACTCAACTCAACGAGCTCG
* *
32372405 GGCGTTCGCATCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGC
66 GGCATTCGCATCCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGC
* * * * *
32372470 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCGATAAGTGAACTCGGACTCAACTCAA
131 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
32372535 CGAGTTCGGATGCTCAATCATCCTAGTGACATGTCACTTGTATCCTAATCTATT
196 CGAGTTCGGATGCTCAACCATCCTAGTGACATGTAACTTGTATCCTAATCTATT
32372589 CCTAAGGTTC
Statistics
Matches: 233, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
249 233 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (249 bp):
ACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGCGAACTCGGACTCAACTCAACGAGCTCG
GGCATTCGCATCCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGC
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCTCAACCATCCTAGTGACATGTAACTTGTATCCTAATCTATT
Found at i:32372563 original size:46 final size:46
Alignment explanation
Indices: 32372340--32372543 Score: 381
Period size: 46 Copynumber: 4.4 Consensus size: 46
32372330 CTAATCTATT
32372340 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGCGAACTCGG
1 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGCGAACTCGG
32372386 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGCGAACTCGG
1 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGCGAACTCGG
32372432 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGCGAACTCGG
1 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGCGAACTCGG
* *
32372478 ACTCAACTCAACGAGCTCGGGCGTTCGCATCGATAAGTGAACTCGG
1 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGCGAACTCGG
*
32372524 ACTCAACTCAACGAGTTCGG
1 ACTCAACTCAACGAGCTCGG
32372544 ATGCTCAATC
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 155 1.00
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.18
Consensus pattern (46 bp):
ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGCGAACTCGG
Found at i:32380014 original size:24 final size:24
Alignment explanation
Indices: 32379986--32380063 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
32379976 GCCAACACCG
*
32379986 TTCTCCCTAATCAGCTCCTAAATC
1 TTCTCCCTTATCAGCTCCTAAATC
*
32380010 TTCTCCCTTATCAGCTCCTACATC
1 TTCTCCCTTATCAGCTCCTAAATC
* *
32380034 CTCTCCCTTATCAGCTCCTAAATT
1 TTCTCCCTTATCAGCTCCTAAATC
32380058 TTCTCC
1 TTCTCC
32380064 TGACAGCCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.19, C:0.40, G:0.04, T:0.37
Consensus pattern (24 bp):
TTCTCCCTTATCAGCTCCTAAATC
Found at i:32382291 original size:43 final size:44
Alignment explanation
Indices: 32382135--32382292 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 44
32382125 ATGTGATTTT
* * * *
32382135 GTGTAAGACCACATCTAGGACGTTGGCATCGAT-TTTAGATTTAT
1 GTGTAAGACCACGTCTAGGATGTTGGCATCGATATTT-GACTTAC
* * *
32382179 GTGTAAGACCATGTCTGGGATATCT-GCATC-ATATTTGACTT-C
1 GTGTAAGACCACGTCTAGGATGT-TGGCATCGATATTTGACTTAC
** * *
32382221 GTGTAAGACCTTGTCTAAGACAG-TGGCATCGATATTTGA-TTAC
1 GTGTAAGACCACGTCTAGGA-TGTTGGCATCGATATTTGACTTAC
* *
32382264 ATGTAAGACCACGTCTGGGATGTTGGCAT
1 GTGTAAGACCACGTCTAGGATGTTGGCAT
32382293 TGTACGAGGT
Statistics
Matches: 89, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
41 1 0.01
42 25 0.28
43 36 0.40
44 26 0.29
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (44 bp):
GTGTAAGACCACGTCTAGGATGTTGGCATCGATATTTGACTTAC
Found at i:32384070 original size:40 final size:41
Alignment explanation
Indices: 32384016--32384137 Score: 124
Period size: 40 Copynumber: 3.0 Consensus size: 41
32384006 GTCAAGGGAA
32384016 TCAAAGTG-AGAACAGAGGCATAGACGTGCAAATAGGGACAC
1 TCAAAGTGCA-AACAGAGGCATAGACGTGCAAATAGGGACAC
* * * * *
32384057 TTAAA-TGCAAACAGGGGCACAGACGTACAAATAGAGACAC
1 TCAAAGTGCAAACAGAGGCATAGACGTGCAAATAGGGACAC
* * * * *
32384097 -CAAAGTGTATACAGATGCATCGAAGTGCAAATAGGGACAC
1 TCAAAGTGCAAACAGAGGCATAGACGTGCAAATAGGGACAC
32384137 T
1 T
32384138 GAAGTATATA
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
39 3 0.05
40 55 0.87
41 5 0.08
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (41 bp):
TCAAAGTGCAAACAGAGGCATAGACGTGCAAATAGGGACAC
Found at i:32384141 original size:20 final size:20
Alignment explanation
Indices: 32384118--32384237 Score: 52
Period size: 20 Copynumber: 6.0 Consensus size: 20
32384108 CAGATGCATC
32384118 GAAGTGCAAATAGGGACACT
1 GAAGTGCAAATAGGGACACT
** * *
32384138 GAAGTATATATAGGGGCA-T
1 GAAGTGCAAATAGGGACACT
* *
32384157 CAAAGTGCAAAAAGAGG-CAC-
1 -GAAGTGCAAATAG-GGACACT
* * *
32384177 AAACGTGCAAATAGAGACACC
1 GAA-GTGCAAATAGGGACACT
* *
32384198 GAAGTG-AATACAGTGG-CACC
1 GAAGTGCAA-ATAG-GGACACT
*
32384218 GAAGTGCAAATAGGAACACT
1 GAAGTGCAAATAGGGACACT
32384238 AAACTATATA
Statistics
Matches: 73, Mismatches: 17, Indels: 20
0.66 0.15 0.18
Matches are distributed among these distances:
19 8 0.11
20 58 0.79
21 7 0.10
ACGTcount: A:0.42, C:0.17, G:0.27, T:0.14
Consensus pattern (20 bp):
GAAGTGCAAATAGGGACACT
Found at i:32384194 original size:100 final size:100
Alignment explanation
Indices: 32384062--32384255 Score: 273
Period size: 100 Copynumber: 1.9 Consensus size: 100
32384052 GACACTTAAA
* * * * *
32384062 TGCAAACAGGGGCACAGACGTACAAATAGAGACACCAAAGTGTATACAGAT-GCATCGAAGTGCA
1 TGCAAAAAGAGGCACAAACGTACAAATAGAGACACCAAAGTGAATACAG-TGGCACCGAAGTGCA
* * * *
32384126 AATAGGGACACTGAAGTATATATAGGGGCATCAAAG
65 AATAGGAACACTAAACTATATACAGGGGCATCAAAG
* *
32384162 TGCAAAAAGAGGCACAAACGTGCAAATAGAGACACCGAAGTGAATACAGTGGCACCGAAGTGCAA
1 TGCAAAAAGAGGCACAAACGTACAAATAGAGACACCAAAGTGAATACAGTGGCACCGAAGTGCAA
32384227 ATAGGAACACTAAACTATATACAGGGGCA
66 ATAGGAACACTAAACTATATACAGGGGCA
32384256 GTTCTTCATT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 1 0.01
100 81 0.99
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.14
Consensus pattern (100 bp):
TGCAAAAAGAGGCACAAACGTACAAATAGAGACACCAAAGTGAATACAGTGGCACCGAAGTGCAA
ATAGGAACACTAAACTATATACAGGGGCATCAAAG
Found at i:32392222 original size:31 final size:31
Alignment explanation
Indices: 32392172--32392254 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
32392162 TCAGTCTTAA
*
32392172 CATAT-ACT-GGCCTAAGCCTTTTCATTATT
1 CATATCACTGGGCCAAAGCCTTTTCATTATT
*
32392201 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCAAAGCCTTTTCATTATT
*
32392232 TATATCACTGGGCCAAAGCCTTT
1 CATATCACTGGGCCAAAGCCTTT
32392255 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
29 5 0.10
30 3 0.06
31 41 0.84
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.36
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTTCATTATT
Found at i:32392626 original size:25 final size:25
Alignment explanation
Indices: 32392598--32392648 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
32392588 ATAACATATC
* *
32392598 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGAAAAATGGTCATTTTCA
32392623 CCTAGGGGAAAAATGGTCATTTTCA
1 CCTAGGGGAAAAATGGTCATTTTCA
32392648 C
1 C
32392649 ATTATAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (25 bp):
CCTAGGGGAAAAATGGTCATTTTCA
Found at i:32400088 original size:31 final size:31
Alignment explanation
Indices: 32400035--32400117 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
32400025 TCAGTCTCAA
* *
32400035 CATAT-ACTGGG-CTAACCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
32400064 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
*
32400095 TATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
32400118 ACTGTAAACG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
29 5 0.10
30 6 0.12
31 38 0.78
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:32400366 original size:25 final size:25
Alignment explanation
Indices: 32400338--32400407 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
32400328 CACTTTTAAT
*
32400338 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
32400363 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
32400388 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
32400408 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:32400466 original size:10 final size:10
Alignment explanation
Indices: 32400453--32400492 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
32400443 CATAAATGAA
32400453 CATATCATGG
1 CATATCATGG
32400463 CATATCATGTG
1 CATATCATG-G
32400474 CATATCATGG
1 CATATCATGG
32400484 CATATCATG
1 CATATCATG
32400493 TACAAAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (10 bp):
CATATCATGG
Found at i:32400478 original size:21 final size:21
Alignment explanation
Indices: 32400453--32400493 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
32400443 CATAAATGAA
32400453 CATATCATGGCATATCATGTG
1 CATATCATGGCATATCATGTG
32400474 CATATCATGGCATATCATGT
1 CATATCATGGCATATCATGT
32400494 ACAAAACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (21 bp):
CATATCATGGCATATCATGTG
Found at i:32402037 original size:31 final size:31
Alignment explanation
Indices: 32401984--32402066 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
32401974 TCAGTCTCAA
* *
32401984 CATAT-ACTGGG-CTAACCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
32402013 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
*
32402044 TATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
32402067 ACTGTAAACG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
29 5 0.10
30 6 0.12
31 38 0.78
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:32402315 original size:25 final size:25
Alignment explanation
Indices: 32402287--32402356 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
32402277 CACTTTTAAT
*
32402287 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
32402312 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
32402337 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
32402357 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:32402415 original size:10 final size:10
Alignment explanation
Indices: 32402402--32402441 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
32402392 CATAAATGAA
32402402 CATATCATGG
1 CATATCATGG
32402412 CATATCATGTG
1 CATATCATG-G
32402423 CATATCATGG
1 CATATCATGG
32402433 CATATCATG
1 CATATCATG
32402442 TACAAAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (10 bp):
CATATCATGG
Found at i:32402427 original size:21 final size:21
Alignment explanation
Indices: 32402402--32402442 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
32402392 CATAAATGAA
32402402 CATATCATGGCATATCATGTG
1 CATATCATGGCATATCATGTG
32402423 CATATCATGGCATATCATGT
1 CATATCATGGCATATCATGT
32402443 ACAAAACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (21 bp):
CATATCATGGCATATCATGTG
Found at i:32404337 original size:22 final size:22
Alignment explanation
Indices: 32404312--32404355 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
32404302 AATTCTTAAC
*
32404312 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
*
32404334 ATAATAAATTTTCATTAATTTT
1 ATAATAAATTTTAATTAATTTT
32404356 GATTATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:32408176 original size:46 final size:46
Alignment explanation
Indices: 32408095--32408407 Score: 520
Period size: 46 Copynumber: 6.8 Consensus size: 46
32408085 TGATGTCATA
* * * * *
32408095 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAGGTTGCCATG
32408141 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
* * *
32408187 GTATCTTTCAACCATGGTCTTACACATTCCCTATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
32408233 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
32408279 GTATCTTTCAACCATGGTCTTACATATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
32408325 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
32408371 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
32408408 AGAGCACACT
Statistics
Matches: 252, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 248 0.98
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
Found at i:32412707 original size:43 final size:43
Alignment explanation
Indices: 32412659--32412764 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
32412649 CAATGCCAAC
* *
32412659 GTCCCAGA-AGTGGTCTTACATGTAAT-TCAGTATCGAAGCCTCT
1 GTCCCAGACAG-GGTCTTACATGAAATCTCA-AATCGAAGCCTCT
* *
32412702 GTCCCAGACAGGGTCTTACATGAAATCTCAAATCGAGGCCTGT
1 GTCCCAGACAGGGTCTTACATGAAATCTCAAATCGAAGCCTCT
* **
32412745 GTCCCAAACACAGTCTTACA
1 GTCCCAGACAGGGTCTTACA
32412765 CAAAATCACA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 49 0.91
44 5 0.09
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACATGAAATCTCAAATCGAAGCCTCT
Found at i:32415168 original size:18 final size:18
Alignment explanation
Indices: 32415134--32415186 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
32415124 TATAAAATAA
*
32415134 TATATATTATT-TTTTATT
1 TATATATTATTATTATA-T
32415152 TATATATTATTCATTATAT
1 TATATATTATT-ATTATAT
*
32415171 TAT-TTTTATTATTATA
1 TATATATTATTATTATA
32415187 CGTTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 6 0.19
18 17 0.55
19 4 0.13
20 4 0.13
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATATTATTATTATAT
Found at i:32415390 original size:21 final size:21
Alignment explanation
Indices: 32415366--32415405 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
32415356 TATATGATAG
32415366 TTATCATATTA-TTATATTTCA
1 TTAT-ATATTATTTATATTTCA
*
32415387 TTATATTTTATTTATATTT
1 TTATATATTATTTATATTT
32415406 TTTATTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATATATTATTTATATTTCA
Found at i:32415434 original size:10 final size:10
Alignment explanation
Indices: 32415366--32415438 Score: 53
Period size: 10 Copynumber: 7.2 Consensus size: 10
32415356 TATATGATAG
32415366 TTATCATATTA
1 TTAT-ATATTA
32415377 TTATAT-TTCA
1 TTATATATT-A
*
32415387 TTATATTTTA
1 TTATATATTA
32415397 TT-TATATT-
1 TTATATATTA
* *
32415405 TTTTATTACATA
1 TTATA-TA-TTA
*
32415417 TCATATATTA
1 TTATATATTA
32415427 TTATATATTA
1 TTATATATTA
32415437 TT
1 TT
32415439 CCCTATATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
8 2 0.04
9 9 0.18
10 27 0.54
11 9 0.18
12 3 0.06
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATATATTA
Found at i:32415471 original size:7 final size:7
Alignment explanation
Indices: 32415457--32415492 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
32415447 TTATCTTCCT
32415457 TTTATTA
1 TTTATTA
*
32415464 TATATTA
1 TTTATTA
32415471 TTTCATTA
1 TTT-ATTA
32415479 TTTATTA
1 TTTATTA
32415486 TTTATTA
1 TTTATTA
32415493 GTATAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:32415478 original size:15 final size:14
Alignment explanation
Indices: 32415457--32415497 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
32415447 TTATCTTCCT
32415457 TTTATTATATATTA
1 TTTATTATATATTA
*
32415471 TTTCATTATTTATTA
1 TTT-ATTATATATTA
32415486 TTTATTAGTATA
1 TTTATTA-TATA
32415498 AAAAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (14 bp):
TTTATTATATATTA
Found at i:32429425 original size:44 final size:44
Alignment explanation
Indices: 32429364--32429778 Score: 546
Period size: 44 Copynumber: 9.7 Consensus size: 44
32429354 AAGACAATGT
* * *
32429364 AGATCGAAGATAGCAGATTTGGTGTCTCTGTATTATCAGAGAGT
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * *
32429408 AGATCGAAGAGAACAGATTTGGCGTCTCTGTATTGTCAAAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * ** *
32429452 AGATTGAAGAGAATAGATTTGGCATCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
*
32429496 AGATCGAAGATAGCAGATTTGACGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* *
32429540 AGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGT
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
32429584 AGATCGAAGATAGCAGATTTGGCGTCTC-------T----GAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * *
32429617 AGATCCAAGATAGAAGATTTGGCGTCTCTGTATTGTTAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* **
32429661 AGATCGAAGGTAGCAGATTTGGCACCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* *
32429705 AGATCGAAAATAGCAGATTTGGCGTCTCTGTATTGTCAGGGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
*
32429749 AGATCGAAGATAGCATATTTGGCGTCTCTG
1 AGATCGAAGATAGCAGATTTGGCGTCTCTG
32429779 AGCAGATCGA
Statistics
Matches: 324, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
33 29 0.09
37 1 0.00
40 1 0.00
44 293 0.90
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (44 bp):
AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
Found at i:32429627 original size:33 final size:33
Alignment explanation
Indices: 32429584--32429646 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
32429574 GTCAGAGAGT
* *
32429584 AGATCGAAGATAGCAGATTTGGCGTCTCTGAGC
1 AGATCCAAGATAGAAGATTTGGCGTCTCTGAGC
32429617 AGATCCAAGATAGAAGATTTGGCGTCTCTG
1 AGATCCAAGATAGAAGATTTGGCGTCTCTG
32429647 TATTGTTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (33 bp):
AGATCCAAGATAGAAGATTTGGCGTCTCTGAGC
Found at i:32429643 original size:121 final size:121
Alignment explanation
Indices: 32429364--32429987 Score: 522
Period size: 121 Copynumber: 5.0 Consensus size: 121
32429354 AAGACAATGT
* * * * * * *
32429364 AGATCGAAGATAGCAGATTTGGTGTCTCTGTATTATCAGAGAGTAGATCGAAGAGAACAGATTTG
1 AGATCCAAGATAGAAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTG
* * * * ** *
32429429 GCGTCTCTGTATTGTCAAAGAGCAGATTGAAGAGAATAGATTTGGCATCTCTGTATTGTCAGAGA
66 GCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTC-------T----GA
32429494 GC
120 GC
* * * *
32429496 AGATCGAAGATAGCAGATTTGACGTCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCAGATTTG
1 AGATCCAAGATAGAAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTG
* *
32429561 GCGTCTCTGTATTGTCAGAGAGTAGATCGAAGATAGCAGATTTGGCGTCTCTGAGC
66 GCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGAGC
* *
32429617 AGATCCAAGATAGAAGATTTGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGGTAGCAGATTTG
1 AGATCCAAGATAGAAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTG
* *
32429682 GCACCTCTGTATTGTCAGAGAGCAGATCGAAAATAGCAGATTTGGCGTCTCTGTATTGTC
66 GCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTG-A--G-C
* * * * * *** ***
32429742 AGGGA-GC-AGATCGAAGA--TAGCATAT-T-TGGCGTCTCTGAGCAGATCGAAGATAGCAGATT
1 A--GATCCAAGATAGAAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATT
* * * *
32429801 TGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGGTTGCAGATTTGGCGTCTCTGTATTGTCAGA
64 TGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTC-------T----
32429866 GAGC
118 GAGC
* * * * *
32429870 AGATCAAAGATGGCAGATTTGGCGTCTCTGTATTGTCAGAAAGCAGATCGAAGATAACAGATTTG
1 AGATCCAAGATAGAAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTG
* * * *
32429935 GTATCTCTGTATTGTCAAAGAGCAGATCAAAGATAGCAGATTCGGCGTCTCTG
66 GCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTG
32429988 TATAGTCAGA
Statistics
Matches: 403, Mismatches: 66, Indels: 57
0.77 0.13 0.11
Matches are distributed among these distances:
121 185 0.46
122 2 0.00
123 5 0.01
124 1 0.00
125 13 0.03
126 3 0.01
127 2 0.00
128 11 0.03
129 1 0.00
130 5 0.01
131 2 0.00
132 173 0.43
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (121 bp):
AGATCCAAGATAGAAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTG
GCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGAGC
Found at i:32429720 original size:165 final size:165
Alignment explanation
Indices: 32429466--32429935 Score: 771
Period size: 165 Copynumber: 2.8 Consensus size: 165
32429456 TGAAGAGAAT
* * * *
32429466 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGACGTCTCTGTATTG
1 AGATTTGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGGTAGCAGATTTGGCGTCTCTGTATTG
* * *
32429531 TCAGAGAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGATA
66 TCAGAGAGCAGATCGAAAATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
32429596 GCAGATTTGGCGTCTCTGAGCAGATCCAAGATAGA
131 GCAGATTTGGCGTCTCTGAGCAGATCCAAGATAGA
**
32429631 AGATTTGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGGTAGCAGATTTGGCACCTCTGTATTG
1 AGATTTGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGGTAGCAGATTTGGCGTCTCTGTATTG
*
32429696 TCAGAGAGCAGATCGAAAATAGCAGATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATA
66 TCAGAGAGCAGATCGAAAATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
* * *
32429761 GCATATTTGGCGTCTCTGAGCAGATCGAAGATAGC
131 GCAGATTTGGCGTCTCTGAGCAGATCCAAGATAGA
*
32429796 AGATTTGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGGTTGCAGATTTGGCGTCTCTGTATTG
1 AGATTTGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGGTAGCAGATTTGGCGTCTCTGTATTG
* *
32429861 TCAGAGAGCAGATC-AAAGATGGCAGATTTGGCGTCTCTGTATTGTCAGAAAGCAGATCGAAGAT
66 TCAGAGAGCAGATCGAAA-ATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
*
32429925 AACAGATTTGG
130 AGCAGATTTGG
32429936 TATCTCTGTA
Statistics
Matches: 283, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
164 3 0.01
165 280 0.99
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (165 bp):
AGATTTGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGGTAGCAGATTTGGCGTCTCTGTATTG
TCAGAGAGCAGATCGAAAATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
GCAGATTTGGCGTCTCTGAGCAGATCCAAGATAGA
Found at i:32429782 original size:33 final size:33
Alignment explanation
Indices: 32429745--32429811 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
32429735 TATTGTCAGG
*
32429745 GAGCAGATCGAAGATAGCATATTTGGCGTCTCT
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCT
32429778 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCT
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCT
32429811 G
1 G
32429812 TATTGTTAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (33 bp):
GAGCAGATCGAAGATAGCAGATTTGGCGTCTCT
Found at i:32429828 original size:44 final size:44
Alignment explanation
Indices: 32429778--32430024 Score: 343
Period size: 44 Copynumber: 5.6 Consensus size: 44
32429768 TGGCGTCTCT
*
32429778 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTTAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* *
32429822 GAGCAGATCGAAGGTTGCAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* *
32429866 GAGCAGATCAAAGATGGCAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* * ** *
32429910 AAGCAGATCGAAGATAACAGATTTGGTATCTCTGTATTGTCAAA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* * *
32429954 GAGCAGATCAAAGATAGCAGATTCGGCGTCTCTGTATAGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* *
32429998 GAGCAGGTC-AGAGATAACAGATTTGGC
1 GAGCAGATCGA-AGATAGCAGATTTGGC
32430025 ATTCTTAAGT
Statistics
Matches: 178, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
43 1 0.01
44 177 0.99
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
Found at i:32430066 original size:132 final size:132
Alignment explanation
Indices: 32429613--32430024 Score: 481
Period size: 132 Copynumber: 3.2 Consensus size: 132
32429603 TGGCGTCTCT
* * * *
32429613 GAGCAGATCCAAGATAGA-AGATTTGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGGTAGCAG
1 GAGCAGATCAAAGATA-ACAGATTTGGCGTCTCTGTATTGTCAGAAAGCAGATCGAAGATAGCAG
* * * *
32429677 ATTTGGCACCTCTGTATTGTCAGAGAGCAGATCGAAA-ATAGCAGATTTGGCGTCTCTGTATTGT
65 ATTTGGCATCTCTGTATTGTCAAAGAGCAGATC-AAAGATAGCAGATTCGGCGTCTCTGTATAGT
*
32429741 CAGG
129 CAGA
* * *
32429745 GAGCAGATCGAAGATAGCATATTTGGCGTCTC-------T--G--AGCAGATCGAAGATAGCAGA
1 GAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAAAGCAGATCGAAGATAGCAGA
* * * * * * * *
32429799 TTTGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGGTTGCAGATTTGGCGTCTCTGTATTGTCA
66 TTTGGCATCTCTGTATTGTCAAAGAGCAGATCAAAGATAGCAGATTCGGCGTCTCTGTATAGTCA
32429864 GA
131 GA
** *
32429866 GAGCAGATCAAAGATGGCAGATTTGGCGTCTCTGTATTGTCAGAAAGCAGATCGAAGATAACAGA
1 GAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAAAGCAGATCGAAGATAGCAGA
*
32429931 TTTGGTATCTCTGTATTGTCAAAGAGCAGATCAAAGATAGCAGATTCGGCGTCTCTGTATAGTCA
66 TTTGGCATCTCTGTATTGTCAAAGAGCAGATCAAAGATAGCAGATTCGGCGTCTCTGTATAGTCA
32429996 GA
131 GA
* *
32429998 GAGCAGGTCAGAGATAACAGATTTGGC
1 GAGCAGATCAAAGATAACAGATTTGGC
32430025 ATTCTTAAGT
Statistics
Matches: 239, Mismatches: 28, Indels: 26
0.82 0.10 0.09
Matches are distributed among these distances:
120 2 0.01
121 105 0.44
123 1 0.00
125 1 0.00
128 1 0.00
130 1 0.00
132 128 0.54
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (132 bp):
GAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAAAGCAGATCGAAGATAGCAGA
TTTGGCATCTCTGTATTGTCAAAGAGCAGATCAAAGATAGCAGATTCGGCGTCTCTGTATAGTCA
GA
Found at i:32431666 original size:18 final size:18
Alignment explanation
Indices: 32431632--32431684 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
32431622 TATAAAATAA
*
32431632 TATATATTATT-TTTTATT
1 TATATATTATTATTATA-T
32431650 TATATATTATTCATTATAT
1 TATATATTATT-ATTATAT
*
32431669 TAT-TTTTATTATTATA
1 TATATATTATTATTATA
32431685 CATTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 6 0.19
18 17 0.55
19 4 0.13
20 4 0.13
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATATTATTATTATAT
Found at i:32431892 original size:21 final size:21
Alignment explanation
Indices: 32431868--32431907 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
32431858 TATATGATAG
32431868 TTATCATATTA-TTATATTTCA
1 TTAT-ATATTATTTATATTTCA
*
32431889 TTATATTTTATTTATATTT
1 TTATATATTATTTATATTT
32431908 TTTATTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATATATTATTTATATTTCA
Found at i:32431936 original size:10 final size:10
Alignment explanation
Indices: 32431868--32431940 Score: 53
Period size: 10 Copynumber: 7.2 Consensus size: 10
32431858 TATATGATAG
32431868 TTATCATATTA
1 TTAT-ATATTA
32431879 TTATAT-TTCA
1 TTATATATT-A
*
32431889 TTATATTTTA
1 TTATATATTA
32431899 TT-TATATT-
1 TTATATATTA
* *
32431907 TTTTATTACATA
1 TTATA-TA-TTA
*
32431919 TCATATATTA
1 TTATATATTA
32431929 TTATATATTA
1 TTATATATTA
32431939 TT
1 TT
32431941 CCCTATATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
8 2 0.04
9 9 0.18
10 27 0.54
11 9 0.18
12 3 0.06
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATATATTA
Found at i:32431972 original size:7 final size:7
Alignment explanation
Indices: 32431958--32431993 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
32431948 TTATCTTCCT
32431958 TTTATTA
1 TTTATTA
*
32431965 TATATTA
1 TTTATTA
32431972 TTTCATTA
1 TTT-ATTA
32431980 TTTATTA
1 TTTATTA
32431987 TTTATTA
1 TTTATTA
32431994 GTATAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:32431985 original size:15 final size:14
Alignment explanation
Indices: 32431958--32431998 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
32431948 TTATCTTCCT
32431958 TTTATTATATATTA
1 TTTATTATATATTA
*
32431972 TTTCATTATTTATTA
1 TTT-ATTATATATTA
32431987 TTTATTAGTATA
1 TTTATTA-TATA
32431999 AAAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (14 bp):
TTTATTATATATTA
Found at i:32436588 original size:23 final size:22
Alignment explanation
Indices: 32436542--32436585 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32436532 AAATATTAAA
*
32436542 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
* *
32436564 ATAATAAATTTTTATTATTTTT
1 ATAATAAATTTTAATTAATTTT
32436586 TATTATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:32445163 original size:18 final size:19
Alignment explanation
Indices: 32445117--32445164 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
32445107 AAAGTAAAAG
32445117 ATACAATTATTCAAATAGT
1 ATACAATTATTCAAATAGT
32445136 ATACAATTATTCAAATAGT
1 ATACAATTATTCAAATAGT
*
32445155 -TATAATTATT
1 ATACAATTATT
32445165 TGATAATTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (19 bp):
ATACAATTATTCAAATAGT
Found at i:32451081 original size:27 final size:27
Alignment explanation
Indices: 32451051--32451110 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
32451041 GTGGTGGGCC
32451051 TGCCACAGGCAGCACCGATGGTGCCAA
1 TGCCACAGGCAGCACCGATGGTGCCAA
* * * *
32451078 TGCCAGAGGTAGCACCGATGTTGCCAC
1 TGCCACAGGCAGCACCGATGGTGCCAA
32451105 TGCCAC
1 TGCCAC
32451111 CGGCGGCAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.15
Consensus pattern (27 bp):
TGCCACAGGCAGCACCGATGGTGCCAA
Found at i:32451227 original size:18 final size:18
Alignment explanation
Indices: 32451204--32451242 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32451194 GCTCATTTGG
32451204 GAAAGAAAAGAGAGAA-AA
1 GAAAGAAAAGA-AGAAGAA
*
32451222 GAAAGAAGAGAAGAAGAA
1 GAAAGAAAAGAAGAAGAA
32451240 GAA
1 GAA
32451243 GGAGCAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
GAAAGAAAAGAAGAAGAA
Found at i:32451394 original size:27 final size:27
Alignment explanation
Indices: 32451356--32451411 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
32451346 TCACCAACTG
*
32451356 GTGCCGCCTCTGGCAGAGGCAAGACCA
1 GTGCCGCCTCTGACAGAGGCAAGACCA
*
32451383 GTGCCGCCTCTGACAGAGGTAAGACCA
1 GTGCCGCCTCTGACAGAGGCAAGACCA
32451410 GT
1 GT
32451412 ATTTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.23, C:0.30, G:0.32, T:0.14
Consensus pattern (27 bp):
GTGCCGCCTCTGACAGAGGCAAGACCA
Found at i:32455251 original size:36 final size:36
Alignment explanation
Indices: 32455204--32455277 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
32455194 AATACAACTC
32455204 TTACAATCCAATGTATTCAAACTCACCAAAAGATAA
1 TTACAATCCAATGTATTCAAACTCACCAAAAGATAA
32455240 TTACAATCCAATGTATTCAAACTCACCAAAAGATAA
1 TTACAATCCAATGTATTCAAACTCACCAAAAGATAA
32455276 TT
1 TT
32455278 GTATTTGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (36 bp):
TTACAATCCAATGTATTCAAACTCACCAAAAGATAA
Found at i:32458692 original size:20 final size:20
Alignment explanation
Indices: 32458669--32458751 Score: 54
Period size: 20 Copynumber: 4.5 Consensus size: 20
32458659 ATTTTGAATA
*
32458669 TTATTTAATATTTTTTTCAT
1 TTATTTAATATTTTTTTAAT
*
32458689 TTA--T-ATA--ATTTTAAT
1 TTATTTAATATTTTTTTAAT
* *
32458704 TAATTT--TAATTTTTTAAT
1 TTATTTAATATTTTTTTAAT
*
32458722 ATTATTTAATATTTTTTTCAT
1 -TTATTTAATATTTTTTTAAT
*
32458743 TTATGTAAT
1 TTATTTAAT
32458752 TTTAATTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
15 8 0.17
16 2 0.04
17 4 0.08
18 8 0.17
19 5 0.10
20 11 0.23
21 10 0.21
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (20 bp):
TTATTTAATATTTTTTTAAT
Found at i:32458734 original size:54 final size:54
Alignment explanation
Indices: 32458652--32458775 Score: 212
Period size: 54 Copynumber: 2.3 Consensus size: 54
32458642 GTAACAGTTT
* *
32458652 ATTTTAAATTTTGAATATTATTTAATATTTTTTTCATTTATATAATTTTAATTA
1 ATTTTAATTTTTTAATATTATTTAATATTTTTTTCATTTATATAATTTTAATTA
*
32458706 ATTTTAATTTTTTAATATTATTTAATATTTTTTTCATTTATGTAATTTTAATTA
1 ATTTTAATTTTTTAATATTATTTAATATTTTTTTCATTTATATAATTTTAATTA
*
32458760 ATTTTAATTTTATAAT
1 ATTTTAATTTTTTAAT
32458776 TTTTTATAAC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (54 bp):
ATTTTAATTTTTTAATATTATTTAATATTTTTTTCATTTATATAATTTTAATTA
Found at i:32460249 original size:30 final size:30
Alignment explanation
Indices: 32460213--32460270 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32460203 GAAGGCACGG
** *
32460213 GCCCATCAACATTAGCCACACAATCACCTA
1 GCCCATCAACAGCACCCACACAATCACCTA
32460243 GCCCATCAACAGCACCCACACAATCACC
1 GCCCATCAACAGCACCCACACAATCACC
32460271 GAGCTCAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.45, G:0.07, T:0.12
Consensus pattern (30 bp):
GCCCATCAACAGCACCCACACAATCACCTA
Done.