Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 119 of 438
Found at i:34858559 original size:79 final size:81
Alignment explanation
Indices: 34858458--34858642 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
34858448 ACGACTCGCT
** * *
34858458 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
34858521 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
34858538 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
34858602 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
34858618 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34858643 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:34858642 original size:40 final size:39
Alignment explanation
Indices: 34858451--34858642 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
34858441 GGATATAACG
* ** * *
34858451 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
34858491 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
34858531 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
34858570 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
34858610 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
34858643 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:34867363 original size:49 final size:49
Alignment explanation
Indices: 34867203--34867486 Score: 479
Period size: 49 Copynumber: 5.9 Consensus size: 49
34867193 GTAGGAGATG
*
34867203 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
34867250 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
34867298 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
34867347 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
34867394 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
34867443 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
34867487 CATATGTGTG
Statistics
Matches: 224, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
46 4 0.02
47 84 0.38
48 40 0.18
49 96 0.43
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:34867378 original size:144 final size:145
Alignment explanation
Indices: 34867203--34867486 Score: 552
Period size: 144 Copynumber: 2.0 Consensus size: 145
34867193 GTAGGAGATG
34867203 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
34867268 TAATGGCCGATGTGATGAATGTGAA-GTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAT
34867332 GAATGTGAAAGTGTA
131 GAATGTGAAAGTGTA
34867347 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
*
34867412 TAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAT
34867477 GAATGTGAAA
131 GAATGTGAAA
34867487 CATATGTGTG
Statistics
Matches: 138, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
144 90 0.65
145 48 0.35
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (145 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAT
GAATGTGAAAGTGTA
Found at i:34867529 original size:96 final size:94
Alignment explanation
Indices: 34867250--34867729 Score: 344
Period size: 96 Copynumber: 5.0 Consensus size: 94
34867240 TGTGAAAGAG
* * * * *
34867250 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATAT-ATATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGTGTGATATGT-ATATG
* * *
34867313 -GCCTAATGGCC-AATGTGATGAATGTGAAAGTGTA
65 TG--TAA-AGCCGAATG-GCT-AATGTGAAA-TATA
* * * *
34867347 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG-AAAGA-GTAT-ATATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGTGTGATATGT-ATATG
* * * *
34867409 -GCCTAATGGCCG-ATGTGATGAATGTGAAGGTGTA
65 TG--TAA-AGCCGAATG-GCT-AATGTGAA-ATATA
34867443 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACATATGTGTGATATGTATATG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-ATATGTGTGATATGTATATG
34867508 TGTAAAGCCGAATGGCTAATGTGAAATATA
65 TGTAAAGCCGAATGGCTAATGTGAAATATA
* * * * * * *
34867538 TGTGTGATGTGTATATGTG-GTAA-AGCCGAAG-GCT-AATGTGAAATATATGTGTGATATGTAT
1 TATAT-ATGTG-ATAAG-GCCTAATGGCCGATGTGATGAATGTGAAA-ATATGTGTGATATGTAT
34867599 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATA
62 ATGT-GTAAAGCCGAATGGCTAATGTGAAATATA
* * * * * * * *
34867633 TGTGTGATGTGTATATGTG-GTAA-AGCCGAAGGGCT-AATGTGAAATATATGTGTGATATGTAT
1 TATAT-ATGTG-ATAAG-GCCTAATGGCCGATGTGATGAATGTGAAA-ATATGTGTGATATGTAT
34867695 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATA
62 ATGT-GTAAAGCCGAATGGCTAATGTGAAATATA
34867729 T
1 T
34867730 GTGTGATGTG
Statistics
Matches: 348, Mismatches: 22, Indels: 27
0.88 0.06 0.07
Matches are distributed among these distances:
94 30 0.09
95 68 0.20
96 170 0.49
97 57 0.16
98 9 0.03
99 7 0.02
100 7 0.02
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.31
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGTGTGATATGTATATGT
GTAAAGCCGAATGGCTAATGTGAAATATA
Found at i:34867565 original size:48 final size:48
Alignment explanation
Indices: 34867478--34867771 Score: 520
Period size: 48 Copynumber: 6.2 Consensus size: 48
34867468 CGATGTGATG
*
34867478 AATGTGAAACATATGTGTGATATGTATATGT-GTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
34867525 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAA-GGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
34867572 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
34867620 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
34867668 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
34867716 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
34867764 AATGTGAA
1 AATGTGAA
34867772 TGTTGTAACA
Statistics
Matches: 236, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
47 75 0.32
48 161 0.68
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:34875663 original size:39 final size:40
Alignment explanation
Indices: 34875532--34875669 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 40
34875522 GGATATAACG
* * * **
34875532 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGG-TTATAGCG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
*
34875572 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * *
34875612 ACTTGCAC-AATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
34875650 ACTCGCACGAATGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
34875670 ATCCTAGTCC
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
38 22 0.26
39 23 0.27
40 36 0.42
41 4 0.05
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:34875667 original size:78 final size:80
Alignment explanation
Indices: 34875572--34875720 Score: 205
Period size: 78 Copynumber: 1.9 Consensus size: 80
34875562 GGTTATAGCG
* * * *
34875572 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
34875634 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
34875650 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
34875715 AGCCCG
66 AGCCCG
34875721 AACATCATTC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
77 3 0.05
78 34 0.56
79 15 0.25
80 9 0.15
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:34877676 original size:46 final size:46
Alignment explanation
Indices: 34877516--34877682 Score: 194
Period size: 46 Copynumber: 3.6 Consensus size: 46
34877506 TTGTGTGCTC
*
34877516 GTGTAAGACATGTCTAGGACATGCATCAGCCTCTTGATGTAAGCTA
1 GTGTAAGACATGTCTAGGACATGCATCGGCCTCTTGATGTAAGCTA
* * * * *
34877562 GTGTAAGACCATGTCTGGGACATGGCATTGGCAT-TGAGACG-AGAGCTA
1 GTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCT-TGATGTA-AGCTA
* * *
34877610 GTGTAAGACATGTCTGGGACATGCATCGGCCTCTTCATGTAAGCCA
1 GTGTAAGACATGTCTAGGACATGCATCGGCCTCTTGATGTAAGCTA
*
34877656 ATGTAAGACATGTCTAGGACATGCATC
1 GTGTAAGACATGTCTAGGACATGCATC
34877683 AGCTTCATGA
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
46 47 0.47
47 31 0.31
48 23 0.23
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (46 bp):
GTGTAAGACATGTCTAGGACATGCATCGGCCTCTTGATGTAAGCTA
Found at i:34878750 original size:28 final size:28
Alignment explanation
Indices: 34878718--34878783 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
34878708 ACATGGACCA
34878718 GGACACGGGCATGTAATGGCCATGTAAG
1 GGACACGGGCATGTAATGGCCATGTAAG
* * *
34878746 GGACACGGGCATGTCATGGCCGTGTGAG
1 GGACACGGGCATGTAATGGCCATGTAAG
34878774 GGACACGGGC
1 GGACACGGGC
34878784 CATAGACACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.23, C:0.21, G:0.41, T:0.15
Consensus pattern (28 bp):
GGACACGGGCATGTAATGGCCATGTAAG
Found at i:34878973 original size:21 final size:22
Alignment explanation
Indices: 34878934--34878974 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
34878924 TCGAATTAGT
34878934 CACACAGGCGTGTTGCCCCTCC
1 CACACAGGCGTGTTGCCCCTCC
34878956 CACACAGGCGTG-TGCCCCT
1 CACACAGGCGTGTTGCCCCT
34878975 GTGTCTAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.15, C:0.44, G:0.24, T:0.17
Consensus pattern (22 bp):
CACACAGGCGTGTTGCCCCTCC
Found at i:34885247 original size:94 final size:93
Alignment explanation
Indices: 34885047--34885221 Score: 228
Period size: 94 Copynumber: 1.9 Consensus size: 93
34885037 ATGTTTGTGT
* * ** * *
34885047 GCTAGTGTAAGACATGTCTGGGACATTCATCGGCCTCTTGATGTAAGCTAATGTAATACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCACGATGT-AGCTAATATAAGACCATGTC
* *
34885112 TGGGACATGGCATTGGCATTGAGACGAGA
65 TGGGACATGGCATCGGCATCGAGACGAGA
* *
34885141 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTTCACGATGT-G-TCAGTATAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCACGATGTAGCT-AATATAAGACCATGTC
34885204 TGGGACATGGCATCGGCA
65 TGGGACATGGCATCGGCA
34885222 CGAATACATG
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
91 1 0.01
92 31 0.44
94 39 0.55
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCACGATGTAGCTAATATAAGACCATGTCT
GGGACATGGCATCGGCATCGAGACGAGA
Found at i:34888708 original size:34 final size:35
Alignment explanation
Indices: 34888669--34888742 Score: 98
Period size: 34 Copynumber: 2.1 Consensus size: 35
34888659 TGATAAAATA
34888669 TTATTAATA-TAAAATAAAAATAATTATAACTAT-T
1 TTATTAATAGTAAAAT-AAAATAATTATAACTATCT
* * *
34888703 TTATTAATAGTAATATAAAATAATTTTAATTATCT
1 TTATTAATAGTAAAATAAAATAATTATAACTATCT
34888738 TTATT
1 TTATT
34888743 TTATTAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 24 0.69
35 11 0.31
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (35 bp):
TTATTAATAGTAAAATAAAATAATTATAACTATCT
Found at i:34890598 original size:17 final size:17
Alignment explanation
Indices: 34890573--34890609 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
34890563 TTCAATTATC
*
34890573 TAAAAATATTTAAATTT
1 TAAAAATATTAAAATTT
*
34890590 TAAAGATATTAAAATTT
1 TAAAAATATTAAAATTT
34890607 TAA
1 TAA
34890610 TTTTAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TAAAAATATTAAAATTT
Found at i:34890609 original size:24 final size:25
Alignment explanation
Indices: 34890575--34890622 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
34890565 CAATTATCTA
34890575 AAAATATTTAAATTTTAAA-GATATT
1 AAAATATTT-AATTTTAAATGATATT
34890600 AAAAT-TTTAATTTTAAATGATAT
1 AAAATATTTAATTTTAAATGATAT
34890623 ATTTAAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.41
24 8 0.36
25 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
AAAATATTTAATTTTAAATGATATT
Found at i:34890891 original size:13 final size:13
Alignment explanation
Indices: 34890873--34890902 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
34890863 TTTTTGAGTT
34890873 AATCGAGTTTTTG
1 AATCGAGTTTTTG
34890886 AATCGAGTTTTTG
1 AATCGAGTTTTTG
34890899 AATC
1 AATC
34890903 CTAACTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (13 bp):
AATCGAGTTTTTG
Found at i:34890934 original size:5 final size:5
Alignment explanation
Indices: 34890924--34890970 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
34890914 TGAATTTTTC
* *
34890924 TCGAA TCGAA TCGAG T-GAGA TAGAA TTCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGA-A TCGAA -TCGAA TCGAA TCGAA TCGAA T
34890971 ATATTTGTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.06
5 28 0.78
6 6 0.17
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:34893833 original size:90 final size:90
Alignment explanation
Indices: 34893729--34894038 Score: 433
Period size: 90 Copynumber: 3.4 Consensus size: 90
34893719 ATTAAAAATT
** *
34893729 AATTAATATAATAGTATGGCAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACATTTTAAAC
1 AATTAATATAATAGTATAACAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTTAAAC
34893794 TTTAAAGTTAGTTAATTGAAGCCTA
66 TTTAAAGTTAGTTAATTGAAGCCTA
* * * *
34893819 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTCTGTTAAGCTATC-GTTTAAA
1 AATTAATATAATAGTATAACAGCATAAATTAAACAAAAAAAAGTATGTTAAACTA-CAGTTTAAA
34893883 CTTTAAAGTTAGTTAATTGAAGCCTA
65 CTTTAAAGTTAGTTAATTGAAGCCTA
* *
34893909 AATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAAAAGTATGTTAGACCACA
1 AATTAATATAATAGT---A-T--AACAGCATAAATTAAAC--AAAAAAAAGTATGTTAAACTACA
34893974 GTTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
58 GTTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
* *
34894007 AATTAATATAATAGTACAACAACATAAATTAA
1 AATTAATATAATAGTATAACAGCATAAATTAA
34894039 TTAATTAAAG
Statistics
Matches: 195, Mismatches: 15, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
90 96 0.49
91 1 0.01
92 14 0.07
93 1 0.01
95 1 0.01
96 16 0.08
97 1 0.01
98 65 0.33
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.30
Consensus pattern (90 bp):
AATTAATATAATAGTATAACAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTTAAAC
TTTAAAGTTAGTTAATTGAAGCCTA
Found at i:34894757 original size:19 final size:18
Alignment explanation
Indices: 34894733--34894794 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 18
34894723 GGAGAAGGAA
34894733 AATAGAGCGAAAATCATTC
1 AATAGAGC-AAAATCATTC
*
34894752 AATAGAGCAAAA-CAGATGC
1 AATAGAGCAAAATC--ATTC
*
34894771 AAATAGAGCTAAATTCATTC
1 -AATAGAGC-AAAATCATTC
34894791 AATA
1 AATA
34894795 ATTCAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 1 0.03
18 4 0.11
19 15 0.43
20 11 0.31
21 3 0.09
22 1 0.03
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.21
Consensus pattern (18 bp):
AATAGAGCAAAATCATTC
Found at i:34897481 original size:24 final size:24
Alignment explanation
Indices: 34897449--34897655 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
34897439 TATCTCAAAT
*
34897449 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
34897473 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
34897497 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
34897521 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
34897545 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
34897569 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
34897593 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
34897617 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
34897641 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
34897656 ACATAATAAG
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:34905223 original size:24 final size:24
Alignment explanation
Indices: 34905191--34905397 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
34905181 TATCTCAAAT
*
34905191 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
34905215 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
34905239 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
34905263 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
34905287 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
34905311 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
34905335 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
34905359 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
34905383 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
34905398 ACATAATAAG
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:34908099 original size:47 final size:48
Alignment explanation
Indices: 34908029--34908160 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 48
34908019 CTCAATCGAT
* *
34908029 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATC-CCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACCA
* * * * *
34908076 GAGTACCTATACCATGGTCCGTAGCCAAAACAAGGTAACTCCTCACTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACCA
* *
34908124 AAATACCTATACCATGGCCCATAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
34908161 TCACTCGCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 39 0.54
48 33 0.46
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.20
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACCA
Found at i:34911480 original size:40 final size:40
Alignment explanation
Indices: 34911421--34911628 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
34911411 CATTGGAATG
* * *
34911421 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
34911461 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
34911501 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
34911541 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
34911581 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
34911621 ATATCCGG
1 ATATCCGG
34911629 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:34919503 original size:40 final size:40
Alignment explanation
Indices: 34919444--34919651 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
34919434 CATTGGAATG
* * *
34919444 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
34919484 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
34919524 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
34919564 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
34919604 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
34919644 ATATCCGG
1 ATATCCGG
34919652 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:34922507 original size:37 final size:37
Alignment explanation
Indices: 34922457--34922547 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
34922447 TTATTACGAA
34922457 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
34922494 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
34922531 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
34922548 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:34922645 original size:48 final size:48
Alignment explanation
Indices: 34922587--34922738 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
34922577 TGTTACAACA
*
34922587 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
34922635 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
34922683 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
34922731 TTCACATT
1 TTCACATT
34922739 CATCACATCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:34922888 original size:49 final size:49
Alignment explanation
Indices: 34922730--34923062 Score: 550
Period size: 49 Copynumber: 6.9 Consensus size: 49
34922720 CACACATATA
* *
34922730 TTTCACATTCATCACATCGGCCATTAGGCCGTATCACATATATAT-CAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
34922778 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
34922825 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
34922874 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
34922921 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
34922970 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
34923019 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
34923063 CATCTCATAC
Statistics
Matches: 267, Mismatches: 13, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
46 6 0.02
47 82 0.31
48 35 0.13
49 144 0.54
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:34923003 original size:145 final size:143
Alignment explanation
Indices: 34922730--34923064 Score: 580
Period size: 145 Copynumber: 2.3 Consensus size: 143
34922720 CACACATATA
*
34922730 TTTCACATTCATCACATCGGCCATTAGGCCGTATCACATATATATCACCTTCACATTCATCACAT
1 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA-CACCTTCACATTCATCACAT
*
34922795 CGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATC
65 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATC
*
34922860 ACATGTATATACAC
130 ACATATATATACAC
* * * *
34922874 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
1 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATACACCTTCACATTCATCACATC
34922939 GGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 GGCCATTAGGCCTTATCACA--TATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
34923004 CACATATATATACAC
129 CACATATATATACAC
34923019 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATACA
1 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATACA
34923065 TCTCATACAT
Statistics
Matches: 180, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
143 38 0.21
144 42 0.23
145 100 0.56
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (143 bp):
TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATACACCTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCA
CATATATATACAC
Found at i:34923063 original size:96 final size:95
Alignment explanation
Indices: 34922730--34923064 Score: 557
Period size: 96 Copynumber: 3.5 Consensus size: 95
34922720 CACACATATA
* *
34922730 TTTCACATTCATCACATCGGCCATTAGGCCGTATCACA-TATATATCACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACAGTATATA-CACTTTCACATTCATCACA
*
34922794 TCGGCCATTAGGCCTTATCACATATATACTC
65 TTGGCCATTAGGCCTTATCACATATATACTC
*
34922825 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACA-GTATATACACTTTCACATTCATCACA
34922890 TTGGCCATTAGGCCTTATCACATATATACTC
65 TTGGCCATTAGGCCTTATCACATATATACTC
*
34922921 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACA-GTATATACACTTTCACATTCATCACA
*
34922986 TTGGCCATTAGGCCTTATCACATATATATACAC
65 TTGGCCATTAGGCCTTATCAC--ATATATACTC
34923019 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACA-TATATACA
1 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACAGTATATACA
34923065 TCTCATACAT
Statistics
Matches: 230, Mismatches: 6, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
95 36 0.16
96 142 0.62
97 6 0.03
98 46 0.20
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (95 bp):
TTTCACATTCATCACATTGGCCATTAGGCCGTATCACAGTATATACACTTTCACATTCATCACAT
TGGCCATTAGGCCTTATCACATATATACTC
Found at i:34930946 original size:27 final size:28
Alignment explanation
Indices: 34930909--34930985 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 28
34930899 ACATATATCA
* *
34930909 TATAGGGGCAAAATAGTCATTTTACC-C
1 TATAAGGGCAAAACAGTCATTTTACCAC
34930936 TATAAGGGCAAAACAGTCATTTTACCAC
1 TATAAGGGCAAAACAGTCATTTTACCAC
*
34930964 -ATAAGGGTAAAACAGTCATTTT
1 TATAAGGGCAAAACAGTCATTTT
34930986 GTCAATTTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (28 bp):
TATAAGGGCAAAACAGTCATTTTACCAC
Found at i:34936513 original size:63 final size:63
Alignment explanation
Indices: 34936390--34936513 Score: 230
Period size: 63 Copynumber: 2.0 Consensus size: 63
34936380 AGACCGTGTC
**
34936390 CAACCTGTAGGGTATACTGACTTAAATTCGAAGGGTACCCCAGGGGACACACAGTTGTGCATG
1 CAACCTGTAGGGTATACTGACTTAAATTCGAAGGGTACCCCAGGGGACACACAGCCGTGCATG
34936453 CAACCTGTAGGGTATACTGACTTAAATTCGAAGGGTACCCCAGGGGACACACAGCCGTGCA
1 CAACCTGTAGGGTATACTGACTTAAATTCGAAGGGTACCCCAGGGGACACACAGCCGTGCA
34936514 GCATGACCAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (63 bp):
CAACCTGTAGGGTATACTGACTTAAATTCGAAGGGTACCCCAGGGGACACACAGCCGTGCATG
Found at i:34941350 original size:15 final size:15
Alignment explanation
Indices: 34941330--34941359 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34941320 AATTTCATGC
*
34941330 TTCAATCACCGTGTT
1 TTCAATCACCATGTT
34941345 TTCAATCACCATGTT
1 TTCAATCACCATGTT
34941360 ATCACTTAGA
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:0.23, C:0.27, G:0.10, T:0.40
Consensus pattern (15 bp):
TTCAATCACCATGTT
Found at i:34952304 original size:215 final size:215
Alignment explanation
Indices: 34951933--34952361 Score: 840
Period size: 215 Copynumber: 2.0 Consensus size: 215
34951923 ACAAAATCTT
* *
34951933 CCGTTTATTGAATTAATTCCTGCTCGATCATTTTTCTTTTACTCAATTCTATCCAACAAACAGGT
1 CCGTTTATTGAATTAATTCCTGCTCGATCATTCTTCTTTCACTCAATTCTATCCAACAAACAGGT
34951998 GACCAGCACCTACAACCGTATAAGGCCTAATACGGAGCCATTTGAATACTCAATTGAAAACTATT
66 GACCAGCACCTACAACCGTATAAGGCCTAATACGGAGCCATTTGAATACTCAATTGAAAACTATT
34952063 ATTATAAACAAATTCAGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACACAAG
131 ATTATAAACAAATTCAGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACACAAG
34952128 TACGAAACATGTCTTCCAAG
196 TACGAAACATGTCTTCCAAG
34952148 CCGTTTATTGAATTAATTCCTGCTCGATCATTCTTCTTTCACTCAATTCTATCCAACAAACAGGT
1 CCGTTTATTGAATTAATTCCTGCTCGATCATTCTTCTTTCACTCAATTCTATCCAACAAACAGGT
34952213 GACCAGCACCTACAACCGTATAAGGCCTAATACGGAGCCATTTGAATACTCAATTGAAAACTATT
66 GACCAGCACCTACAACCGTATAAGGCCTAATACGGAGCCATTTGAATACTCAATTGAAAACTATT
34952278 ATTATAAACAAATTCAGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACACAAG
131 ATTATAAACAAATTCAGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACACAAG
34952343 TACGAAACATGTCTTCCAA
196 TACGAAACATGTCTTCCAA
34952362 AATCTGAATA
Statistics
Matches: 212, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
215 212 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (215 bp):
CCGTTTATTGAATTAATTCCTGCTCGATCATTCTTCTTTCACTCAATTCTATCCAACAAACAGGT
GACCAGCACCTACAACCGTATAAGGCCTAATACGGAGCCATTTGAATACTCAATTGAAAACTATT
ATTATAAACAAATTCAGCCAAAGGTAAGTAACGCTCCCAACCTGATTCAAAATCAATAACACAAG
TACGAAACATGTCTTCCAAG
Found at i:34954732 original size:12 final size:12
Alignment explanation
Indices: 34954715--34954757 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
34954705 GTTTGTCTCC
34954715 TTCTTTCCTCTT
1 TTCTTTCCTCTT
34954727 TTCTTTCC-CTTT
1 TTCTTTCCTC-TT
34954739 TTCTTT--TCTT
1 TTCTTTCCTCTT
34954749 TTCTTTCCT
1 TTCTTTCCT
34954758 TTCTGTTTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 8 0.30
11 2 0.07
12 17 0.63
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (12 bp):
TTCTTTCCTCTT
Found at i:34960950 original size:21 final size:21
Alignment explanation
Indices: 34960900--34960950 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
34960890 AAGCAGCTAA
* * *
34960900 GGTTCGCATATAATTTCTATG
1 GGTTCACATATAACTTCTACG
*
34960921 GGTTTACATATAACTTCTACG
1 GGTTCACATATAACTTCTACG
*
34960942 TGTTCACAT
1 GGTTCACAT
34960951 TACAATTCCT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (21 bp):
GGTTCACATATAACTTCTACG
Found at i:34966596 original size:25 final size:25
Alignment explanation
Indices: 34966550--34966605 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
34966540 AACATAGCCT
* * *
34966550 TTGTGGCAAGTTATTTGTAAAGTCC
1 TTGTGGCAAATTATTTGAAAAGACC
*
34966575 TTGTGGCAAATTATCTT-AAAAGACT
1 TTGTGGCAAATTAT-TTGAAAAGACC
34966600 TTGTGG
1 TTGTGG
34966606 TGTATTATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (25 bp):
TTGTGGCAAATTATTTGAAAAGACC
Found at i:34972175 original size:21 final size:22
Alignment explanation
Indices: 34972149--34972202 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
34972139 TGGCCTGTAG
*
34972149 CACGGGCGTGTCCCATGG-TCA
1 CACGGGCGTGTCCCATGGACCA
* *
34972170 CACGGGCATGTCCCTTGGACCA
1 CACGGGCGTGTCCCATGGACCA
*
34972192 CACGGGTGTGT
1 CACGGGCGTGT
34972203 GAGCTCTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.20
Consensus pattern (22 bp):
CACGGGCGTGTCCCATGGACCA
Found at i:34972948 original size:12 final size:12
Alignment explanation
Indices: 34972933--34972957 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34972923 GATATTAGAT
34972933 TTTTTCTGAAAA
1 TTTTTCTGAAAA
34972945 TTTTTCTGAAAA
1 TTTTTCTGAAAA
34972957 T
1 T
34972958 GTGTTGTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTTTCTGAAAA
Found at i:34976391 original size:57 final size:58
Alignment explanation
Indices: 34976265--34976404 Score: 142
Period size: 57 Copynumber: 2.4 Consensus size: 58
34976255 CTCATTTATT
* * * * * **
34976265 AAAGGATTTAGCCCGGATGGGTAATCCTAATATAAGTCCTCTCGAGCATATGTTATGT
1 AAAGGATTTAGCCTGGACGGGTAATCCTAATACAAGTCCTCTAGAGCATATGTCATAA
**
34976323 ATTGGATTTAGCCTGGACGGGTAATCC-AGAT-CAAGCTCCT-TAGAGCATATGTCATAA
1 AAAGGATTTAGCCTGGACGGGTAATCCTA-ATACAAG-TCCTCTAGAGCATATGTCATAA
* *
34976380 AAAGGATTTAGCTTGGACTGGTAAT
1 AAAGGATTTAGCCTGGACGGGTAAT
34976405 GCTGTTGTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
57 38 0.57
58 29 0.43
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (58 bp):
AAAGGATTTAGCCTGGACGGGTAATCCTAATACAAGTCCTCTAGAGCATATGTCATAA
Found at i:34976995 original size:19 final size:19
Alignment explanation
Indices: 34976973--34977011 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
34976963 TGAGAATGTG
34976973 TGTAGGGCTTGAGGTCAAA
1 TGTAGGGCTTGAGGTCAAA
34976992 TGTAGGGCTTGAGGTCAAA
1 TGTAGGGCTTGAGGTCAAA
34977011 T
1 T
34977012 TGATTGATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.36, T:0.28
Consensus pattern (19 bp):
TGTAGGGCTTGAGGTCAAA
Found at i:34993094 original size:20 final size:20
Alignment explanation
Indices: 34993062--34993133 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
34993052 ATGTGGTCAC
*
34993062 ACACGCCCATGTGGCATGGG
1 ACACGCCCGTGTGGCATGGG
*
34993082 ACACACCCGTGTGGCATGGG
1 ACACGCCCGTGTGGCATGGG
34993102 ACACGCCCGTGTGGCATGGG
1 ACACGCCCGTGTGGCATGGG
34993122 ACACGCCCGTGT
1 ACACGCCCGTGT
34993134 CCTCAGCCTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.18, C:0.32, G:0.35, T:0.15
Consensus pattern (20 bp):
ACACGCCCGTGTGGCATGGG
Found at i:34994381 original size:12 final size:12
Alignment explanation
Indices: 34994364--34994394 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
34994354 AAGACATATC
34994364 CCCGTGTCTTAG
1 CCCGTGTCTTAG
34994376 CCCGTGTCTTAG
1 CCCGTGTCTTAG
34994388 CCCGTGT
1 CCCGTGT
34994395 GTTTACTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.35, G:0.26, T:0.32
Consensus pattern (12 bp):
CCCGTGTCTTAG
Found at i:34995759 original size:44 final size:44
Alignment explanation
Indices: 34995684--34995769 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
34995674 TACATGTATC
34995684 GCATCCATAATGAACTCAGACCAACTCAACAAACTCGGATGCTG
1 GCATCCATAATGAACTCAGACCAACTCAACAAACTCGGATGCTG
* * * *
34995728 GCATCCATAATGAACTCGGACTAACTTAACAAGCTCGGATGC
1 GCATCCATAATGAACTCAGACCAACTCAACAAACTCGGATGC
34995770 CTCATATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (44 bp):
GCATCCATAATGAACTCAGACCAACTCAACAAACTCGGATGCTG
Found at i:35000710 original size:68 final size:64
Alignment explanation
Indices: 35000593--35000742 Score: 167
Period size: 68 Copynumber: 2.3 Consensus size: 64
35000583 ATACAGATAG
* * * * *
35000593 TATGTAGCTAGGTCACATGTATGGTGCTAAATGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGGATGATACTAAATGCACACCATGTGTACAAGAGAGCTAC--GACA-
35000658 TA
63 TA
** * *
35000660 TGATGTAGCTAGGTCGCATGGATGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGAGAT
1 T-ATGTAGCTAGGTCGCATGGATGATACTAAATGCACACCATGT-GTACAAGAGAGCTACGACAT
35000724 A
64 A
35000725 TATGTAGCTAGGTCGCAT
1 TATGTAGCTAGGTCGCAT
35000743 ATGTAGTACT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 17 0.24
65 3 0.04
66 3 0.04
67 1 0.01
68 47 0.65
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATACTAAATGCACACCATGTGTACAAGAGAGCTACGACATA
Found at i:35000865 original size:49 final size:51
Alignment explanation
Indices: 35000735--35000880 Score: 197
Period size: 49 Copynumber: 2.9 Consensus size: 51
35000725 TATGTAGCTA
* *
35000735 GGTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTC
* * * * *
35000786 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTC
* *
35000835 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATA
35000881 GTTTGGCTAC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 40 0.49
50 2 0.02
51 40 0.49
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTC
Found at i:35005665 original size:20 final size:20
Alignment explanation
Indices: 35005640--35005679 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
35005630 AAAATAAGAT
35005640 GAAATATTTTATTATTTTAA
1 GAAATATTTTATTATTTTAA
35005660 GAAATATTTTATTATTTTAA
1 GAAATATTTTATTATTTTAA
35005680 CTTATATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
GAAATATTTTATTATTTTAA
Found at i:35011366 original size:2 final size:2
Alignment explanation
Indices: 35011359--35011385 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35011349 TCATTTGCAG
35011359 GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT G
35011386 CAATCCATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:35013189 original size:23 final size:23
Alignment explanation
Indices: 35013162--35013221 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
35013152 TACTTAAATT
35013162 TATTTCAAATATATAA-AATTATA
1 TATTT-AAATATATAATAATTATA
*
35013185 TATTTAAATTTATAATAATTATA
1 TATTTAAATATATAATAATTATA
35013208 T-TTTAAATTATATA
1 TATTTAAA-TATATA
35013222 TTCAAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 15 0.45
23 18 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTTAAATATATAATAATTATA
Found at i:35013192 original size:14 final size:13
Alignment explanation
Indices: 35013177--35013230 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
35013167 CAAATATATA
35013177 AAATTATATATTT
1 AAATTATATATTT
*
35013190 AAATT-TATA-AT
1 AAATTATATATTT
35013201 -AATTATAT-TTT
1 AAATTATATATTT
*
35013212 AAATTATATATTC
1 AAATTATATATTT
35013225 AAATTA
1 AAATTA
35013231 AATTTTACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 4 0.12
11 5 0.15
12 12 0.35
13 13 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATTATATATTT
Found at i:35013198 original size:22 final size:23
Alignment explanation
Indices: 35013162--35013221 Score: 79
Period size: 22 Copynumber: 2.6 Consensus size: 23
35013152 TACTTAAATT
*
35013162 TATTTCAAATATATAA-AATTATA
1 TATTT-AAATTTATAATAATTATA
35013185 TATTTAAATTTATAATAATTATA
1 TATTTAAATTTATAATAATTATA
35013208 T-TTTAAATTATATA
1 TATTTAAATT-TATA
35013222 TTCAAATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTTAAATTTATAATAATTATA
Found at i:35013305 original size:19 final size:19
Alignment explanation
Indices: 35013281--35013317 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35013271 TTATATTTCA
*
35013281 TATTTTAAAATAATTTTAC
1 TATTTTAAAATAAATTTAC
*
35013300 TATTTTAATATAAATTTA
1 TATTTTAAAATAAATTTA
35013318 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTTAAAATAAATTTAC
Found at i:35013667 original size:29 final size:29
Alignment explanation
Indices: 35013636--35013691 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
35013626 TTGTAAACTT
35013636 TTTTTTATTTCTT-T-AATTTTGATTTATA
1 TTTTTTATTT-TTATAAATTTTGATTTATA
35013664 TTTTTTATTTTTATAAATTTTGATTTAT
1 TTTTTTATTTTTATAAATTTTGATTTAT
35013692 TTGTTGGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 2 0.08
28 11 0.42
29 13 0.50
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (29 bp):
TTTTTTATTTTTATAAATTTTGATTTATA
Found at i:35015888 original size:29 final size:29
Alignment explanation
Indices: 35015855--35015937 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
35015845 GTGACGAGAT
*
35015855 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
35015884 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
35015913 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
35015938 AAAAAATAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:35024053 original size:29 final size:29
Alignment explanation
Indices: 35024020--35024178 Score: 169
Period size: 29 Copynumber: 5.6 Consensus size: 29
35024010 GTGACGAGAT
35024020 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
35024049 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
35024078 TGGCACTAAGTGTGCATGCTGG-AA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
35024105 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
35024134 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
35024163 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
35024179 GGCTTAAATT
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 22 0.20
28 4 0.04
29 86 0.77
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:35024090 original size:58 final size:57
Alignment explanation
Indices: 35024020--35024178 Score: 176
Period size: 56 Copynumber: 2.8 Consensus size: 57
35024010 GTGACGAGAT
* * *
35024020 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAA-ATATGGCACTATGTGTGCGAGCTGGAAAAATA
* * *
35024078 TGGCACTAAGTGTGCATGCTGG-AAATATGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAATATGGCACTATGTGTGCGAGCTGGAAAAATA
* ** * * **
35024134 CGGCACTGGGTGTGCGAGCTCGAAGGGTATGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCGTGCTGGAA-AATATGGCACTATGTGTGCG
35024179 GGCTTAAATT
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
56 43 0.52
57 3 0.04
58 37 0.45
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGTGCTGGAAAATATGGCACTATGTGTGCGAGCTGGAAAAATA
Found at i:35032109 original size:29 final size:29
Alignment explanation
Indices: 35032055--35032214 Score: 169
Period size: 29 Copynumber: 5.6 Consensus size: 29
35032045 GTGACGAGAT
*
35032055 TGGCACTAAGTGT-CGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
35032083 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
35032112 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
35032141 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* ** * * ***
35032170 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
35032199 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
35032215 GGCTTAAATT
Statistics
Matches: 114, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 13 0.11
29 101 0.89
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:35034312 original size:21 final size:21
Alignment explanation
Indices: 35034280--35034378 Score: 61
Period size: 20 Copynumber: 5.0 Consensus size: 21
35034270 ATTATATTAT
* *
35034280 AATAAAACAAAATAAATAAAG
1 AATAAAACAAAAGAAAGAAAG
35034301 AATAAATA-AAAAGAAAGAAAG
1 AATAAA-ACAAAAGAAAGAAAG
* *
35034322 -ATAGAAAC-GAA-ACAGAAAG
1 AATA-AAACAAAAGAAAGAAAG
*
35034341 -A-AAAA-GAAAGAAAGAAAG
1 AATAAAACAAAAGAAAGAAAG
* *
35034359 AATAGAA-AAAGGAAAGAAAG
1 AATAAAACAAAAGAAAGAAAG
35034379 GAAGGAGAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
17 5 0.08
18 8 0.13
19 9 0.15
20 20 0.32
21 19 0.31
22 1 0.02
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (21 bp):
AATAAAACAAAAGAAAGAAAG
Found at i:35034317 original size:4 final size:4
Alignment explanation
Indices: 35034310--35034378 Score: 63
Period size: 4 Copynumber: 17.0 Consensus size: 4
35034300 GAATAAATAA
*
35034310 AAAG AAAG AAAG ATAG AAACG AAACAG AAAG -AA- AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG AAAG AAAG
*
35034359 AATAG AAA- AAGG AAAG AAAG
1 AA-AG AAAG AAAG AAAG AAAG
35034379 GAAGGAGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
3 6 0.11
4 37 0.69
5 7 0.13
6 3 0.06
7 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.23, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:35034350 original size:33 final size:34
Alignment explanation
Indices: 35034308--35034377 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
35034298 AAGAATAAAT
* *
35034308 AAAAAGAAAGAAAGATAGAA-ACGAAACA-GAAAG
1 AAAAAGAAAGAAAGAAAGAATA-GAAAAAGGAAAG
35034341 AAAAAGAAAGAAAGAAAGAATAGAAAAAGGAAAG
1 AAAAAGAAAGAAAGAAAGAATAGAAAAAGGAAAG
35034375 AAA
1 AAA
35034378 GGAAGGAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 24 0.73
34 9 0.27
ACGTcount: A:0.73, C:0.03, G:0.21, T:0.03
Consensus pattern (34 bp):
AAAAAGAAAGAAAGAAAGAATAGAAAAAGGAAAG
Found at i:35034369 original size:29 final size:28
Alignment explanation
Indices: 35034297--35034378 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 28
35034287 CAAAATAAAT
*
35034297 AAAGAATAAATAAA-AAGAAAGAAAGATAG
1 AAAGAATAAA-AAAGAA-AAAGAAAGAAAG
*
35034326 AAACGAA-ACAGAAAGAAAAAGAAAGAAAG
1 AAA-GAATA-AAAAAGAAAAAGAAAGAAAG
*
35034355 AAAGAATAGAAAAAG-GAAAGAAAG
1 AAAGAATA-AAAAAGAAAAAGAAAG
35034379 GAAGGAGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
28 11 0.25
29 27 0.61
30 6 0.14
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (28 bp):
AAAGAATAAAAAAGAAAAAGAAAGAAAG
Found at i:35034389 original size:20 final size:20
Alignment explanation
Indices: 35034313--35034378 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 20
35034303 TAAATAAAAA
*
35034313 GAAAGAAAG-ATAGA-AACG
1 GAAAGAAAGAATAGAGAAAG
* *
35034331 AAACAGAAAGAA-AAAGAAA-
1 GAA-AGAAAGAATAGAGAAAG
*
35034350 GAAAGAAAGAATAGAAAAAG
1 GAAAGAAAGAATAGAGAAAG
35034370 GAAAGAAAG
1 GAAAGAAAG
35034379 GAAGGAGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
18 10 0.27
19 15 0.41
20 12 0.32
ACGTcount: A:0.70, C:0.03, G:0.24, T:0.03
Consensus pattern (20 bp):
GAAAGAAAGAATAGAGAAAG
Found at i:35036205 original size:93 final size:94
Alignment explanation
Indices: 35035998--35036360 Score: 274
Period size: 93 Copynumber: 3.9 Consensus size: 94
35035988 GTTATGTGAG
* *
35035998 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACGTG
* *
35036063 TCTGGGATATGCATCAATCACATTACGAT
66 TCTGGGACATGCATCAACCACATTACGAT
** * *
35036092 AGCCTA-TGTAAGACCATGTCT-GGACATGGCATCGGTGTAGAGATGAGTGCCAGTGTAAGACGT
1 AGCC-AGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACGT
* * * * *
35036155 GTCTGGGCCATGCATCAGCCTCATTGATGGT
65 GTCTGGGACATGCATCAACCACATT-ACGAT
** * * ** * * *
35036186 AGCCAGTGTAAGA-TGTGTCTGGGACAT-GCATTGGC-TA-AG-CTTCGTGCTAGTGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGAC-GAGGGCCAGTGTAAGACGT
* * *
35036246 GTTTGGGACATGCATCAA-CACTTATACACGAG
65 GTCTGGGACATGCATCAACCAC--AT-TACGAT
* * * * * * *** *
35036278 AGCTAGTGTAAGACCATGTCTGGGACATGGCACCGGCCTCGATGAAGCTAGCCAGTGTAAGACCA
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGA-GACGAGGGCCAGTGTAAGA-CG
35036343 TGTCTGGGACATGGCATC
64 TGTCTGGGACAT-GCATC
35036361 GGTAACTTAT
Statistics
Matches: 211, Mismatches: 42, Indels: 27
0.75 0.15 0.10
Matches are distributed among these distances:
90 2 0.01
91 32 0.15
92 18 0.09
93 80 0.38
94 45 0.21
95 2 0.01
96 1 0.00
97 13 0.06
98 13 0.06
99 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACGTG
TCTGGGACATGCATCAACCACATTACGAT
Found at i:35038035 original size:40 final size:40
Alignment explanation
Indices: 35037914--35038053 Score: 128
Period size: 40 Copynumber: 3.5 Consensus size: 40
35037904 GACTTCAAGT
* * * *
35037914 CGATGAGACACTGGGTGTCAATTTA-CTACTTTGGATTAATT
1 CGATGAGACACTGGGTGCCAAATTATC-ACTTCGGATT-ATC
* * *
35037955 CGATGATG-CACTGGATGCCAAA-T-T-ACTTCGGTTTAGC
1 CGATGA-GACACTGGGTGCCAAATTATCACTTCGGATTATC
* *
35037992 CGATGAGACACTGGGTGTCAAATTATCACTTCGAATTATC
1 CGATGAGACACTGGGTGCCAAATTATCACTTCGGATTATC
*
35038032 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGCCAAA
35038054 CTGGTGTGAT
Statistics
Matches: 79, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
36 1 0.01
37 19 0.24
38 9 0.11
39 1 0.01
40 31 0.39
41 17 0.22
42 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGGGTGCCAAATTATCACTTCGGATTATC
Found at i:35040198 original size:7 final size:7
Alignment explanation
Indices: 35040186--35040211 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35040176 TTTCATCATT
35040186 TCATATC
1 TCATATC
35040193 TCATATC
1 TCATATC
35040200 TCATATC
1 TCATATC
35040207 TCATA
1 TCATA
35040212 ATTCAATCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (7 bp):
TCATATC
Found at i:35041886 original size:19 final size:19
Alignment explanation
Indices: 35041862--35041916 Score: 94
Period size: 18 Copynumber: 2.9 Consensus size: 19
35041852 AAAATTGAGG
35041862 TTTGGGGGAAAGTAAAAGT
1 TTTGGGGGAAAGTAAAAGT
*
35041881 TTT-GGGGAAAGCAAAAGT
1 TTTGGGGGAAAGTAAAAGT
35041899 TTTGGGGGAAAGTAAAAG
1 TTTGGGGGAAAGTAAAAG
35041917 GAATTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.38, C:0.02, G:0.36, T:0.24
Consensus pattern (19 bp):
TTTGGGGGAAAGTAAAAGT
Found at i:35042010 original size:29 final size:30
Alignment explanation
Indices: 35041961--35042019 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
35041951 TTGGAGAGAA
*
35041961 AGTAAAAGCTAAAAAGTTTTGGGGGTTTGG
1 AGTAAAAGCGAAAAAGTTTTGGGGGTTTGG
35041991 AGTAAAAG-GAAAAAGTTTTGGGGGTTTGG
1 AGTAAAAGCGAAAAAGTTTTGGGGGTTTGG
35042020 GGGAAGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.34, C:0.02, G:0.36, T:0.29
Consensus pattern (30 bp):
AGTAAAAGCGAAAAAGTTTTGGGGGTTTGG
Found at i:35045647 original size:19 final size:19
Alignment explanation
Indices: 35045609--35045647 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
35045599 TAATTTTATT
* * *
35045609 TATCATATTATAATGTACA
1 TATCATATTAAAAAGAACA
35045628 TATCATATTAAAAAGAACA
1 TATCATATTAAAAAGAACA
35045647 T
1 T
35045648 TTCAATAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (19 bp):
TATCATATTAAAAAGAACA
Found at i:35049076 original size:25 final size:26
Alignment explanation
Indices: 35049047--35049109 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
35049037 TTCCAACTCT
35049047 TATGAGCTTACCGATATTCAGCTC-G
1 TATGAGCTTACCGATATTCAGCTCAG
* *
35049072 TATGAGCTTACTGTTATTCAGCTCAG
1 TATGAGCTTACCGATATTCAGCTCAG
*
35049098 -AGGAGCTTACCG
1 TATGAGCTTACCG
35049110 TTTATAGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (26 bp):
TATGAGCTTACCGATATTCAGCTCAG
Found at i:35055777 original size:43 final size:43
Alignment explanation
Indices: 35055729--35055813 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
35055719 CACATGTACT
*
35055729 GCATCCATTATGAACTCAGACCACTCAACGAGCTCGGATGCTC
1 GCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGCTC
* *
35055772 GCATCCATAATGAACTCGGACCACTCAATGAGCTCGGATGCT
1 GCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGCT
35055814 ACATATATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (43 bp):
GCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGCTC
Found at i:35059423 original size:27 final size:28
Alignment explanation
Indices: 35059367--35059436 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
35059357 AAACTTGTAC
35059367 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
35059395 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
35059422 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35059437 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:35059447 original size:27 final size:27
Alignment explanation
Indices: 35059367--35059448 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
35059357 AAACTTGTAC
* *
35059367 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
35059395 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
35059422 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
35059449 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:35062211 original size:19 final size:19
Alignment explanation
Indices: 35062187--35062226 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
35062177 AGCTAGAGGT
35062187 AGACCACCAAGAATTTCAG
1 AGACCACCAAGAATTTCAG
35062206 AGACCACCAAGAATTTCAG
1 AGACCACCAAGAATTTCAG
35062225 AG
1 AG
35062227 GTAGGGGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.15
Consensus pattern (19 bp):
AGACCACCAAGAATTTCAG
Found at i:35067447 original size:27 final size:28
Alignment explanation
Indices: 35067388--35067460 Score: 130
Period size: 27 Copynumber: 2.6 Consensus size: 28
35067378 TTAAAACTTG
35067388 TATAGCACTAAGTGTGCGAGTTTGATCA
1 TATAGCACTAAGTGTGCGAGTTTGATCA
*
35067416 TATAGCACTAAGTGTGCGAG-TTGATTA
1 TATAGCACTAAGTGTGCGAGTTTGATCA
35067443 TATAGCACTAAGTGTGCG
1 TATAGCACTAAGTGTGCG
35067461 GACTCACTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTTGATCA
Found at i:35082097 original size:23 final size:22
Alignment explanation
Indices: 35082053--35082107 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
35082043 TTGAAAGAAA
* *
35082053 AATAATAATATACATATAAAAAG
1 AATAATAA-AAACATATAAAAAC
*
35082076 AATAATAAAAACATCATTAAAAC
1 AATAATAAAAACAT-ATAAAAAC
35082099 AAT-ATAAAA
1 AATAATAAAA
35082108 TAAAAATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (22 bp):
AATAATAAAAACATATAAAAAC
Found at i:35082413 original size:140 final size:140
Alignment explanation
Indices: 35082197--35082518 Score: 373
Period size: 140 Copynumber: 2.3 Consensus size: 140
35082187 CGAAATGAGG
* * *
35082197 TAATATGTTAAAAATATTAATTAAAAATAAAAATAAAAAACTTGAAGCAACATAAAATAAAAATT
1 TAATATGTTAAAAATATTAATT---AA-AAAATTAAAAAGCTTGAAGCAACATAAAATAAAAAAT
* * * * * * * * *
35082262 ACAAATGTGAGT-AGTAAATGAATAAAACTCGAGACTCAATGTTGTAATTACAACTATCT-TACT
62 AAAAATATGAGTAAG-AAAGGAATAAAACTCGAGACTAAAGGATGTAATTACAACTAACTAAACA
*
35082325 ATCTAACGAAAA-AAT
126 ATCTAAC-AAAAGAAC
* * *
35082340 TAATATCTTAAAAAATATTAATTAAAAAATTAAAAAGCTTGAAGTAACATGAAATAAAAAATAAA
1 TAATATGTT-AAAAATATTAATTAAAAAATTAAAAAGCTTGAAGCAACATAAAATAAAAAATAAA
* * *
35082405 AATATGAGTAAGAGAGGAATTAAATTCGAGACTAAAGGATGTAATTACAACTAACTAAACAATCT
65 AATATGAGTAAGAAAGGAATAAAACTCGAGACTAAAGGATGTAATTACAACTAACTAAACAATCT
35082470 AACAAAAGAAC
130 AACAAAAGAAC
*
35082481 TAATATGTTAAAAA-ATTAATTAAAAATTTAAAAAGCTT
1 TAATATGTTAAAAATATTAATTAAAAAATTAAAAAGCTT
35082519 AATATGAAAA
Statistics
Matches: 154, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
139 23 0.15
140 87 0.56
141 23 0.15
143 8 0.05
144 13 0.08
ACGTcount: A:0.55, C:0.08, G:0.10, T:0.27
Consensus pattern (140 bp):
TAATATGTTAAAAATATTAATTAAAAAATTAAAAAGCTTGAAGCAACATAAAATAAAAAATAAAA
ATATGAGTAAGAAAGGAATAAAACTCGAGACTAAAGGATGTAATTACAACTAACTAAACAATCTA
ACAAAAGAAC
Found at i:35082800 original size:40 final size:40
Alignment explanation
Indices: 35082745--35082832 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
35082735 TATCAACAAA
*
35082745 GTAATCTAATTTTATGTATTTGTTTATCATAGAATCACGT
1 GTAATCTAATTTTATGCATTTGTTTATCATAGAATCACGT
* *
35082785 GTAATCTAATTTTATGCATTTGTTTATCGTGGAATCACGT
1 GTAATCTAATTTTATGCATTTGTTTATCATAGAATCACGT
35082825 GTAATCTA
1 GTAATCTA
35082833 GTTGCTTGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (40 bp):
GTAATCTAATTTTATGCATTTGTTTATCATAGAATCACGT
Found at i:35088264 original size:13 final size:13
Alignment explanation
Indices: 35088246--35088311 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
35088236 AATTTTAAAT
35088246 TATTTAGTGATAA
1 TATTTAGTGATAA
*
35088259 TATTTA-T-A-AT
1 TATTTAGTGATAA
*
35088269 TGTTTAGTGATAA
1 TATTTAGTGATAA
35088282 TATTTAG-GAT--
1 TATTTAGTGATAA
35088292 TATTTAGTGATAA
1 TATTTAGTGATAA
35088305 TATTTAG
1 TATTTAG
35088312 GAAAAAACTA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 13 0.30
11 5 0.12
12 5 0.12
13 20 0.47
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:35088312 original size:23 final size:23
Alignment explanation
Indices: 35088244--35088313 Score: 113
Period size: 23 Copynumber: 3.0 Consensus size: 23
35088234 TAAATTTTAA
**
35088244 ATTATTTAGTGATAATATTTATA
1 ATTATTTAGTGATAATATTTAGG
*
35088267 ATTGTTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
35088290 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
35088313 A
1 A
35088314 AAAAACTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:35090743 original size:46 final size:46
Alignment explanation
Indices: 35090589--35090945 Score: 217
Period size: 46 Copynumber: 7.5 Consensus size: 46
35090579 TTTGTGCGCT
* *
35090589 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * * *
35090635 AGTGTAAGACCATGTCTGGGACATGGCCTCGGCATTTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGATGAGAGCC
*
35090684 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* * *
35090730 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCC
* * * * * *
35090774 AGTGTAAGACCATGTATGGGACATGGCATC-GACACG-TATAGAGGTGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT-GA-GAGCC
* * * * *
35090822 AGTGTAAGACCATGTCTAGGACGTGGCATCGGCAC-AGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGA--TGAGAGCC
* * * * ** * *
35090872 AGTGTAAGACCATGTCTAGGACACGGCGTCAGCCTCGATTTTGATAGTC
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCTCGA-GATGAGAGCC
35090921 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
35090946 GCATTGGCAT
Statistics
Matches: 250, Mismatches: 39, Indels: 42
0.76 0.12 0.13
Matches are distributed among these distances:
44 13 0.05
45 18 0.07
46 58 0.23
47 22 0.09
48 53 0.21
49 46 0.18
50 36 0.14
51 3 0.01
52 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:35090830 original size:48 final size:47
Alignment explanation
Indices: 35090634--35090949 Score: 176
Period size: 48 Copynumber: 6.6 Consensus size: 47
35090624 TTATGAGAGC
* ** *
35090634 CAGTGTAAGACCATGTCTGGGACATGGCCTCG-GCATTTGAGACGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGAGC-TACGAGA-G-GTGT
* * *
35090682 CTAGTGTAAGA-CATGTTTGGGACAT-GCATCG-GCCT-CGAGATGTAAGC
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGAG-CTACGAGAGGT--GT
*
35090729 CAGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCTACGAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGAGCTACGAGAGGTGT
*
35090773 CAGTGTAAGACCATGTATGGGACATGGCATCGA-C-ACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGAGCTACG---AGAGGTGT
* * * * *
35090821 CAGTGTAAGACCATGTCTAGGACGTGGCATCG-GC-ACAGATATGTGAGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGAGCTAC-GAGA-G-GTG-T
* * * ** *
35090870 CTAGTGTAAGACCATGTCTAGGACACGGCGTC-AGCCT-CGATTTTGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGAG-CTACGA--GAGGT-GT
35090920 CAGTGTAAGACCATGTCTGGGACATGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCAT
35090950 TGGCATTATA
Statistics
Matches: 218, Mismatches: 25, Indels: 49
0.75 0.09 0.17
Matches are distributed among these distances:
44 12 0.06
45 18 0.08
46 49 0.22
47 10 0.05
48 56 0.26
49 37 0.17
50 31 0.14
51 4 0.02
52 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGAGCTACGAGAGGTGT
Found at i:35092794 original size:69 final size:70
Alignment explanation
Indices: 35092662--35092794 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
35092652 TAGTTTATTA
* * * *
35092662 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTATCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTA
35092727 CTTAG
66 CTTAG
*
35092732 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTATCCAAATTAGGACAAAATCATGGT
35092795 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:35093664 original size:40 final size:40
Alignment explanation
Indices: 35093575--35093863 Score: 318
Period size: 40 Copynumber: 7.3 Consensus size: 40
35093565 AGGTCCGCAA
* * * * *
35093575 GCTTCGTGCTAGAATTGTATCCAGACTTAAGGTCCGCA-A-
1 GCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACC-CACAG
*
35093614 GCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAG
1 GCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAG
* * * *
35093654 GCTAT-ATGCTGGAATTATATCCAGGCTTAAAGACCCGCAG
1 GCT-TCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAG
** * * **
35093694 GCTTTATGCTGGAATTGTAACCGGACTT-AAGGTCCACAG
1 GCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAG
*
35093733 GCTTCGTGTTGGAATTGTATCCGGGCTTAAAGACCCACAG
1 GCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAG
*
35093773 GCTTCGTGCTGGAATTGTATCTGGGCTTAAAGACCCACAG
1 GCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAG
* * * **
35093813 GCTTCGTGCTGGAATTGTATCCAGACTT-AAGATCCGTAG
1 GCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAG
35093852 GCTTCGTGCTGG
1 GCTTCGTGCTGG
35093864 TACTATATTC
Statistics
Matches: 214, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.00
39 83 0.39
40 129 0.60
41 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
GCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAG
Found at i:35093683 original size:79 final size:79
Alignment explanation
Indices: 35093575--35093863 Score: 330
Period size: 79 Copynumber: 3.6 Consensus size: 79
35093565 AGGTCCGCAA
* *
35093575 GCTTCGTGCTAGAATTGTATCCAGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGGGC
1 GCTTCGTGCTGGAATTGTATCCAGACTTAAGATCCGCAAGCTTCGTGCTGGAATTGTATCCGGGC
*
35093640 TTAAAGACCCGCAG
66 TTAAAGACCCACAG
* * * * * ** *
35093654 GCTAT-ATGCTGGAATTATATCCAGGCTTAAAGACCCGCAGGCTTTATGCTGGAATTGTAACCGG
1 GCT-TCGTGCTGGAATTGTATCCAGACTT-AAGATCCGCAAGCTTCGTGCTGGAATTGTATCCGG
* **
35093718 ACTT-AAGGTCCACAG
64 GCTTAAAGACCCACAG
* * * * * * *
35093733 GCTTCGTGTTGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTGCTGGAATTGTATCTGGG
1 GCTTCGTGCTGGAATTGTATCCAGACTT-AAGATCCGCAAGCTTCGTGCTGGAATTGTATCCGGG
35093798 CTTAAAGACCCACAG
65 CTTAAAGACCCACAG
* *
35093813 GCTTCGTGCTGGAATTGTATCCAGACTTAAGATCCGTAGGCTTCGTGCTGG
1 GCTTCGTGCTGGAATTGTATCCAGACTTAAGATCCGCAAGCTTCGTGCTGG
35093864 TACTATATTC
Statistics
Matches: 174, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
78 1 0.01
79 106 0.61
80 67 0.39
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (79 bp):
GCTTCGTGCTGGAATTGTATCCAGACTTAAGATCCGCAAGCTTCGTGCTGGAATTGTATCCGGGC
TTAAAGACCCACAG
Found at i:35093783 original size:119 final size:118
Alignment explanation
Indices: 35093581--35093935 Score: 408
Period size: 119 Copynumber: 3.0 Consensus size: 118
35093571 GCAAGCTTCG
* *
35093581 TGCTAGAATTGTATCCAGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAG
1 TGCTGGAATTGTATCCAGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAG
* *
35093646 ACCCGCAGGCTAT-ATGCTGGAATTATATCCAGGCTTAAAGACCCGCAGGCTTTA
66 ACCCACAGGCT-TCGTGCTGGAATTATATCC-GGCTTAAAGACCCGCAGGCTTTA
* * * *
35093700 TGCTGGAATTGTAACCGGACTTAAGGTCCACAGGCTTCGTGTTGGAATTGTATCCGGGCTTAAAG
1 TGCTGGAATTGTATCCAGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAG
* * * **
35093765 ACCCACAGGCTTCGTGCTGGAATTGTATCTGGGCTTAAAGACCCACAGGCTTCG
66 ACCCACAGGCTTCGTGCTGGAATTATATC-CGGCTTAAAGACCCGCAGGCTTTA
* * * * * * **
35093819 TGCTGGAATTGTATCCAGACTTAAGATCCGTAGGCTTCGTGCTGGTACTATATTCGAACTT-AAG
1 TGCTGGAATTGTATCCAGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAG
** * * * * *
35093883 GTCCACAGGCTTCGTACTGGTACTATATCCGAGCTTAAAGTCCCGTAGGCTTT
66 ACCCACAGGCTTCGTGCTGGAATTATATCCG-GCTTAAAGACCCGCAGGCTTT
35093936 GTGTTGCTGA
Statistics
Matches: 197, Mismatches: 36, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
117 1 0.01
118 44 0.22
119 152 0.77
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (118 bp):
TGCTGGAATTGTATCCAGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAG
ACCCACAGGCTTCGTGCTGGAATTATATCCGGCTTAAAGACCCGCAGGCTTTA
Found at i:35093880 original size:39 final size:39
Alignment explanation
Indices: 35093811--35093934 Score: 117
Period size: 39 Copynumber: 3.2 Consensus size: 39
35093801 AAAGACCCAC
* * * *
35093811 AGGCTTCGTGCTGGAATTGTA-TCCAGACTTAAGATCCGT
1 AGGCTTCGTGCTGGTACTATATTCGA-ACTTAAGATCCGT
* **
35093850 AGGCTTCGTGCTGGTACTATATTCGAACTTAAGGTCCAC
1 AGGCTTCGTGCTGGTACTATATTCGAACTTAAGATCCGT
* * *
35093889 AGGCTTCGTACTGGTACTATATCCGAGCTTAA-AGTCCCGT
1 AGGCTTCGTGCTGGTACTATATTCGAACTTAAGA-T-CCGT
35093929 AGGCTT
1 AGGCTT
35093935 TGTGTTGCTG
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
39 58 0.84
40 11 0.16
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (39 bp):
AGGCTTCGTGCTGGTACTATATTCGAACTTAAGATCCGT
Found at i:35100929 original size:12 final size:12
Alignment explanation
Indices: 35100912--35100942 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
35100902 CCTCACATGC
35100912 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
35100924 CCGTGTGCTAGG
1 CCGTGTGCCAGG
35100936 CCGTGTG
1 CCGTGTG
35100943 AAAACTGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.42, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:35110825 original size:24 final size:24
Alignment explanation
Indices: 35110798--35111008 Score: 395
Period size: 24 Copynumber: 8.8 Consensus size: 24
35110788 GCTGGAAATA
35110798 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
35110822 TATGGAACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
35110846 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
35110870 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
35110894 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
35110918 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
35110942 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
35110966 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
35110990 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
35111009 ACATAATAAG
Statistics
Matches: 183, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 183 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:35113565 original size:48 final size:48
Alignment explanation
Indices: 35113513--35113671 Score: 228
Period size: 48 Copynumber: 3.3 Consensus size: 48
35113503 CCTGGATATA
*
35113513 GTCTTACATGGGATCACATATCGATGCCAATGCCCTGTCCCAGACATG
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATG
* ** * * *
35113561 GTCTTACATGAGATCGTAAATTGATGCCAATACCATGTCCCAGACATG
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATG
* *
35113609 GTCTTACATGGGATCACATATCGATGCCAATGACATGACCCAGACATG
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATG
*
35113657 TTCTTACATGGGATC
1 GTCTTACATGGGATC
35113672 GCACATAACC
Statistics
Matches: 95, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 95 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (48 bp):
GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATG
Found at i:35115966 original size:18 final size:18
Alignment explanation
Indices: 35115945--35115997 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
35115935 TTGAGATATA
*
35115945 TATATATTTTTTATTTTT
1 TATATATTTTTTATTATT
*
35115963 TATAGT-TTTTTTATAATT
1 TATA-TATTTTTTATTATT
*
35115981 TATTAAATTTTTTATTA
1 TA-TATATTTTTTATTA
35115998 AGTTTTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
TATATATTTTTTATTATT
Found at i:35116023 original size:10 final size:10
Alignment explanation
Indices: 35115970--35116052 Score: 57
Period size: 10 Copynumber: 8.4 Consensus size: 10
35115960 TTTTATAGTT
35115970 TTTTTATAA-
1 TTTTTATAAG
*
35115979 TTTATTA-AAT
1 TTT-TTATAAG
35115989 TTTTTATTAAG
1 TTTTTA-TAAG
35116000 -TTTTATAA-
1 TTTTTATAAG
*
35116008 TGTTTATAAG
1 TTTTTATAAG
**
35116018 TTTTTATGATT
1 TTTTTAT-AAG
*
35116029 TTTTTTTAAG
1 TTTTTATAAG
*
35116039 TTTTTATAAA
1 TTTTTATAAG
35116049 TTTT
1 TTTT
35116053 GTAATTTCTA
Statistics
Matches: 57, Mismatches: 10, Indels: 13
0.71 0.12 0.16
Matches are distributed among these distances:
9 18 0.32
10 30 0.53
11 9 0.16
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (10 bp):
TTTTTATAAG
Found at i:35116032 original size:29 final size:29
Alignment explanation
Indices: 35115959--35116032 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 29
35115949 TATTTTTTAT
* * *
35115959 TTTTTATAGTTTTTTTATAATTTATTAAAT
1 TTTTTAT-GATTTTTTATAATGTATTAAAG
* **
35115989 TTTTTATTAAGTTTTATAATGT-TTATAAG
1 TTTTTATGATTTTTTATAATGTATTA-AAG
35116018 TTTTTATGATTTTTT
1 TTTTTATGATTTTTT
35116033 TTTAAGTTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
28 3 0.09
29 24 0.71
30 7 0.21
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (29 bp):
TTTTTATGATTTTTTATAATGTATTAAAG
Found at i:35116052 original size:21 final size:20
Alignment explanation
Indices: 35115959--35116052 Score: 79
Period size: 20 Copynumber: 4.7 Consensus size: 20
35115949 TATTTTTTAT
*
35115959 TTTTTATAGTTTTTTTATAA-
1 TTTTTATAATTTTTTT-TAAG
35115979 TTTATTA-AATTTTTTATTAAG
1 TTT-TTATAATTTTTT-TTAAG
* *
35116000 -TTTTATAA-TGTTTATAAG
1 TTTTTATAATTTTTTTTAAG
*
35116018 TTTTTATGATTTTTTTTTAAG
1 TTTTTAT-AATTTTTTTTAAG
*
35116039 TTTTTATAAATTTT
1 TTTTTATAATTTTT
35116053 GTAATTTCTA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
18 4 0.07
19 13 0.22
20 23 0.39
21 19 0.32
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (20 bp):
TTTTTATAATTTTTTTTAAG
Found at i:35116414 original size:18 final size:18
Alignment explanation
Indices: 35116372--35116414 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
35116362 TTTATGACAC
*
35116372 CACATGCTTTAATTACTT
1 CACATGTTTTAATTACTT
35116390 CACATGTTTTAATTACTT
1 CACATGTTTTAATTACTT
35116408 CACATGT
1 CACATGT
35116415 AATTAAGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (18 bp):
CACATGTTTTAATTACTT
Found at i:35118560 original size:42 final size:42
Alignment explanation
Indices: 35118501--35118600 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
35118491 AAGGAGGAAG
* * *
35118501 TTCTGGTAGTTTATCTGCACTA-CTGGTGGCTTGTCCACATAT
1 TTCTGGAAGTTTATCTGCA-TATCTGATGGCTTATCCACATAT
* *
35118543 TTCTGGCAGTTTATCTGCATATTTGATGGCTTATCCACATAT
1 TTCTGGAAGTTTATCTGCATATCTGATGGCTTATCCACATAT
* *
35118585 TTTTGGAAGCTTATCT
1 TTCTGGAAGTTTATCT
35118601 ATAAATACAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 2 0.04
42 48 0.96
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (42 bp):
TTCTGGAAGTTTATCTGCATATCTGATGGCTTATCCACATAT
Found at i:35124530 original size:19 final size:19
Alignment explanation
Indices: 35124506--35124561 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
35124496 ATTCCAAAAA
*
35124506 TAATATTATTTTAATAGTT
1 TAATATTATATTAATAGTT
* *
35124525 TAATATTAAATTAA-AATT
1 TAATATTATATTAATAGTT
*
35124543 TAATACTTATCTTAATAGT
1 TAATA-TTATATTAATAGT
35124562 ATTTTATAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 8 0.28
19 19 0.66
20 2 0.07
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (19 bp):
TAATATTATATTAATAGTT
Found at i:35124715 original size:62 final size:60
Alignment explanation
Indices: 35124591--35124708 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 60
35124581 ATGTGATTAT
* * *
35124591 TTTAATATTAAATTAAATTTAATATTTATCATGTAGATAAATATTCTATTATTTTAATAAAA
1 TTTAATATTAAATTAAATCTAATATTTATCA--TAGATAAACATTATATTATTTTAATAAAA
* *
35124653 TTTAATATTAAATTTAATCTAATATTTATCA-AGATAAACATTATATTAGTTTAATA
1 TTTAATATTAAATTAAATCTAATATTTATCATAGATAAACATTATATTATTTTAATA
35124709 TTAAAATGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
59 22 0.43
62 29 0.57
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.47
Consensus pattern (60 bp):
TTTAATATTAAATTAAATCTAATATTTATCATAGATAAACATTATATTATTTTAATAAAA
Found at i:35125572 original size:16 final size:16
Alignment explanation
Indices: 35125551--35125582 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35125541 ACTTGAAATT
35125551 AACTCACAATTGATGA
1 AACTCACAATTGATGA
35125567 AACTCACAATTGATGA
1 AACTCACAATTGATGA
35125583 CAATGCAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (16 bp):
AACTCACAATTGATGA
Found at i:35130726 original size:21 final size:21
Alignment explanation
Indices: 35130679--35130741 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
35130669 CATAAGTTAA
35130679 TTATAAAA-ATA--TAAAAAT
1 TTATAAAATATATTTAAAAAT
*
35130697 CTA-ATAAAT-TATTTATAAAAT
1 TTATA-AAATATATTTA-AAAAT
35130718 TTATAAAATATATTTAAAAAT
1 TTATAAAATATATTTAAAAAT
35130739 TTA
1 TTA
35130742 AACCTCTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
17 1 0.03
18 7 0.19
20 2 0.06
21 19 0.53
22 7 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTATAAAATATATTTAAAAAT
Found at i:35130958 original size:12 final size:12
Alignment explanation
Indices: 35130941--35130965 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35130931 AGGGGTTTAA
35130941 ATTTTTAAATAT
1 ATTTTTAAATAT
35130953 ATTTTTAAATAT
1 ATTTTTAAATAT
35130965 A
1 A
35130966 CTTGAATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTTTAAATAT
Found at i:35138062 original size:26 final size:26
Alignment explanation
Indices: 35137971--35138063 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 26
35137961 AAATTTATCA
* * *
35137971 AATCGAATTGAGTATGATGAAATTAG
1 AATCGAATCGAATAAGATGAAATTAG
* * * *
35137997 AATTGAATCGAGTAAAGCTGGAATTAG
1 AATCGAATCGAAT-AAGATGAAATTAG
** * *
35138024 AATAAAATTGAATAAGATGAAATTTG
1 AATCGAATCGAATAAGATGAAATTAG
35138050 AATCGAATCGAATA
1 AATCGAATCGAATA
35138064 TATTTATTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
26 32 0.63
27 19 0.37
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.28
Consensus pattern (26 bp):
AATCGAATCGAATAAGATGAAATTAG
Found at i:35138509 original size:18 final size:18
Alignment explanation
Indices: 35138475--35138509 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35138465 AAAATTAGGG
* *
35138475 TTTGGGAAGAAATAAAAT
1 TTTGGGAAAAAACAAAAT
35138493 TTTGGGAAAAAACAAAA
1 TTTGGGAAAAAACAAAA
35138510 GAAAAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.20, T:0.23
Consensus pattern (18 bp):
TTTGGGAAAAAACAAAAT
Found at i:35140490 original size:8 final size:8
Alignment explanation
Indices: 35140449--35140511 Score: 58
Period size: 8 Copynumber: 8.0 Consensus size: 8
35140439 ACTAATTTTG
35140449 AATATTAA
1 AATATTAA
*
35140457 AATA-TCA
1 AATATTAA
*
35140464 CAT-TTAA
1 AATATTAA
* *
35140471 CAATAATCA
1 -AATATTAA
35140480 AATATTAA
1 AATATTAA
35140488 AATATTAA
1 AATATTAA
35140496 AATATTAA
1 AATATTAA
*
35140504 AATCTTAA
1 AATATTAA
35140512 TTCAATTAAG
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
7 6 0.14
8 35 0.81
9 2 0.05
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (8 bp):
AATATTAA
Found at i:35140491 original size:16 final size:16
Alignment explanation
Indices: 35140449--35140506 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
35140439 ACTAATTTTG
35140449 AATATTAAAAT-ATCA
1 AATATTAAAATAATCA
*
35140464 CAT-TTAACAATAATCA
1 AATATTAA-AATAATCA
* *
35140480 AATATTAAAATATTAA
1 AATATTAAAATAATCA
35140496 AATATTAAAAT
1 AATATTAAAAT
35140507 CTTAATTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 4 0.11
15 5 0.14
16 23 0.64
17 4 0.11
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (16 bp):
AATATTAAAATAATCA
Found at i:35140584 original size:6 final size:6
Alignment explanation
Indices: 35140573--35140696 Score: 221
Period size: 6 Copynumber: 20.7 Consensus size: 6
35140563 CTCATCTTTT
* * *
35140573 TATTCC TATTCC TATTCC TCTTCC TCTTCC TATTCC TCTTCC TATTCC
1 TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC
35140621 TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC
1 TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC
35140669 TATTCC TATTCC TATTCC TATTCC TATT
1 TATTCC TATTCC TATTCC TATTCC TATT
35140697 ATGGTTCATA
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 114 1.00
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.51
Consensus pattern (6 bp):
TATTCC
Found at i:35143341 original size:10 final size:10
Alignment explanation
Indices: 35143311--35143342 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
35143301 TTTAAATTTT
35143311 AAAAATTATTA
1 AAAAATTA-TA
35143322 AAAAATTATA
1 AAAAATTATA
35143332 AAAAATTATA
1 AAAAATTATA
35143342 A
1 A
35143343 TTATAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:35143428 original size:38 final size:39
Alignment explanation
Indices: 35143384--35143501 Score: 141
Period size: 38 Copynumber: 3.0 Consensus size: 39
35143374 CTGGGTGTTG
*
35143384 AAAATCTTATGAACATTAAAATTTAATAGTTGGATATT-
1 AAAATCTTATGACCATTAAAATTTAATAGTTGGATATTA
* ** *
35143422 AAAATCTTATGACCATTAAAATTTAATTGTTAAAAATTA
1 AAAATCTTATGACCATTAAAATTTAATAGTTGGATATTA
35143461 AAAATACTGTTATGACCATTAAAATTTAA-AGGTTGGATATT
1 AAAAT-C--TTATGACCATTAAAATTTAATA-GTTGGATATT
35143502 GTTATTTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
38 33 0.50
39 5 0.08
40 1 0.02
42 27 0.41
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (39 bp):
AAAATCTTATGACCATTAAAATTTAATAGTTGGATATTA
Found at i:35144067 original size:15 final size:15
Alignment explanation
Indices: 35144047--35144078 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
35144037 GAGTAAACTA
35144047 TACTAGCCATTTTAT
1 TACTAGCCATTTTAT
35144062 TACTAGCCATTTTAT
1 TACTAGCCATTTTAT
35144077 TA
1 TA
35144079 TCAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TACTAGCCATTTTAT
Found at i:35149632 original size:40 final size:40
Alignment explanation
Indices: 35149588--35149773 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
35149578 GCTACTCGTT
* * *
35149588 CAAATACCTTCGGGACATAGCCCAG-TTATAGTAGCTCGCA
1 CAAATACCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
35149628 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATACCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
35149668 CAAATGA-CTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAAT-ACCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
35149708 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATACCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
35149749 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATACCTTCGGGACTTAGCCCGGA
35149774 CATCATTCGA
Statistics
Matches: 128, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 3 0.02
40 112 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATACCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:35149700 original size:80 final size:80
Alignment explanation
Indices: 35149595--35149773 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 80
35149585 GTTCAAATAC
* * *
35149595 CTTCGGGACATAGCCCAG-TTATAGTAGCTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTA
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATTTA
*
35149658 GTAAC-TCGCACAAATGA
64 GTAACTTAGCACAAA-GA
* **
35149675 CTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAG
1 CTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATTTAG
* *
35149739 TCACTTAGCACAAAGC
65 TAACTTAGCACAAAGA
35149755 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
35149774 CATCATTCGA
Statistics
Matches: 84, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
79 6 0.07
80 65 0.77
81 13 0.15
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATTTAGT
AACTTAGCACAAAGA
Found at i:35150495 original size:2 final size:2
Alignment explanation
Indices: 35150488--35150515 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35150478 ATGTGCAAAC
35150488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35150516 GTGCAAGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35152635 original size:42 final size:42
Alignment explanation
Indices: 35152529--35152687 Score: 180
Period size: 42 Copynumber: 3.8 Consensus size: 42
35152519 TACCAATGCC
* *
35152529 ATATCCTAGATATGGTCTTACACGTAATCTCGTATCGATGCTA
1 ATATCCCAGATATGGTCTTACACGTAATCTCATATCGATG-TA
* * *
35152572 ATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCGATGTT
1 ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCGATGTA
* *
35152614 GTATCCCAGATATGGTCTTACACG-AAGTCTCATATCGAT-TCC
1 ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCGATGT-A
**
35152656 ATATCATAGATATGGTCTTACACGTAATCTCA
1 ATATCCCAGATATGGTCTTACACGTAATCTCA
35152688 GTAATCCTAA
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 65 0.64
43 35 0.35
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (42 bp):
ATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGTA
Found at i:35163611 original size:42 final size:42
Alignment explanation
Indices: 35163500--35163663 Score: 188
Period size: 42 Copynumber: 3.9 Consensus size: 42
35163490 TACCGTACCA
* * * *
35163500 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCA
1 ATGCAATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * *
35163542 ATGCCAATAGCCTAGTTATGGTCTTACACG-AAGTCTCATATCG
1 ATG-CAATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
**
35163585 ATGCTGTATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
1 ATGCAATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
* *
35163627 ATGCCATATCTCAGATATGGTCTTACACGTAATCTCA
1 ATGCAATATCCCAGATATGGTCTTACACGTAATCTCA
35163664 GTAACCCTAA
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 70 0.67
43 34 0.33
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCAATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:35163631 original size:85 final size:84
Alignment explanation
Indices: 35163506--35163663 Score: 214
Period size: 85 Copynumber: 1.9 Consensus size: 84
35163496 ACCAATGCCA
* * *
35163506 TATCCCAGATATGGTCTTACATGTAATCTCGTATCAATGCCAATAGCCT-AGTTATGGTCTTACA
1 TATCCCAGATATGGTCTTACACGTAATCTCATATCAATGCC-ATA-CCTCAGATATGGTCTTACA
35163570 CG-AAGTCTCATATCGATGCTG
64 CGTAA-TCTCATATCGATGCTG
* *
35163591 TATCCCAGATATGGTCTTACACG-AAGTCTCATATCGATGCCATATCTCAGATATGGTCTTACAC
1 TATCCCAGATATGGTCTTACACGTAA-TCTCATATCAATGCCATACCTCAGATATGGTCTTACAC
35163655 GTAATCTCA
65 GTAATCTCA
35163664 GTAACCCTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
83 2 0.03
84 26 0.40
85 37 0.57
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (84 bp):
TATCCCAGATATGGTCTTACACGTAATCTCATATCAATGCCATACCTCAGATATGGTCTTACACG
TAATCTCATATCGATGCTG
Found at i:35166111 original size:386 final size:386
Alignment explanation
Indices: 35165398--35166168 Score: 1258
Period size: 386 Copynumber: 2.0 Consensus size: 386
35165388 CTAGGGTCAC
* * *
35165398 ATGGGCGTGTCCTTTGGACCACATGGGCGTGTAAGCCGTACACCTTGGAAAAATTGTGAAAAGTC
1 ATGGGCGTGTCCTTTGGACCACACGCGCGTGTAAGCCCTACACCTTGGAAAAATTGTGAAAAGTC
* * * *
35165463 ACAAAAAATTCTTAGAGGTCCTAATTAAGTCCCGATTCGATTCTAATGCTCGTATTAGGCTTTGA
66 ACAAAAAATTCTTAAAGGTCCTAATTAAGTCCCGAATCGATTCTAATGCTCGTATTAGGCCTCGA
35165528 GGGCCTGATCAAGGGACATTATGGATGATCTCGATAAATAAATAGTAATTTACGTAGTTTAATGG
131 GGGCCTGATCAAGGGACATTATGGATGATCTCGATAAATAAATAGTAATTTACGTAGTTTAATGG
* *
35165593 AAAAATATTCTGAATGTTCTAGTAATGCTTCAAAACCCTATTTCGGCGAGGGATACAGGTTAAGG
196 AAAAACATTCTGAATGTTCTAGTAATACTTCAAAACCCTATTTCGGCGAGGGATACAGGTTAAGG
*
35165658 GTGTTACAAAAGAAATTTGAAAAGACTAAATCCAACTATATTTAGCAAAATTCCCACCTCTCTTC
261 GTGTTACAAAAGAAATTTGAAAAGACTAAACCCAACTATATTTAGCAAAATTCCCACCTCTCTTC
*
35165723 ACCTATAAATAAGACCCCTTAATTCCTTCATTCATCATCCCTCATCCATCATTACTCTCTA
326 ACCTATAAATAAGACCCCTTAATTCCTTCATTCATCATCCCTCATCCATCATCACTCTCTA
* *
35165784 ATGGGCGTGTCCTTTGGACCACACGCGCGTGTGAGCCCTACACCTTGGAAAAATTGTGAAAAGTT
1 ATGGGCGTGTCCTTTGGACCACACGCGCGTGTAAGCCCTACACCTTGGAAAAATTGTGAAAAGTC
** * *
35165849 ATGAAAAATTCTTAAAGGTCCTAATTAAGTCCCGAATCGATTCTAATGCTCGTGTTGGGCCTCGA
66 ACAAAAAATTCTTAAAGGTCCTAATTAAGTCCCGAATCGATTCTAATGCTCGTATTAGGCCTCGA
*
35165914 GGGCCTGATCAAGGGATATTATGGATGATCTCGATAAATAAATAGTAATTTACGTAGTTTAATGG
131 GGGCCTGATCAAGGGACATTATGGATGATCTCGATAAATAAATAGTAATTTACGTAGTTTAATGG
*
35165979 AAAAACGTTCTGAATGTTCTAGTAATACTTCAAAACCCTATTTCGGCGAGGCG-TAC-GGATTAA
196 AAAAACATTCTGAATGTTCTAGTAATACTTCAAAACCCTATTTCGGCGAGG-GATACAGG-TTAA
* * * * * * *
35166042 GGGTGTTACAAAAGAAGTTTGAAGAGACTAAACCCAACTATTTTTAGTAAACTTCCGAGCTCTCT
259 GGGTGTTACAAAAGAAATTTGAAAAGACTAAACCCAACTATATTTAGCAAAATTCCCACCTCTCT
* *
35166107 TCACCTATAAATAAGACCCCTTCATTCCTTCATTCATGATCCCTCATCCATCATCACTCTCT
324 TCACCTATAAATAAGACCCCTTAATTCCTTCATTCATCATCCCTCATCCATCATCACTCTCT
35166169 CAATTCTCTT
Statistics
Matches: 355, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
385 2 0.01
386 352 0.99
387 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (386 bp):
ATGGGCGTGTCCTTTGGACCACACGCGCGTGTAAGCCCTACACCTTGGAAAAATTGTGAAAAGTC
ACAAAAAATTCTTAAAGGTCCTAATTAAGTCCCGAATCGATTCTAATGCTCGTATTAGGCCTCGA
GGGCCTGATCAAGGGACATTATGGATGATCTCGATAAATAAATAGTAATTTACGTAGTTTAATGG
AAAAACATTCTGAATGTTCTAGTAATACTTCAAAACCCTATTTCGGCGAGGGATACAGGTTAAGG
GTGTTACAAAAGAAATTTGAAAAGACTAAACCCAACTATATTTAGCAAAATTCCCACCTCTCTTC
ACCTATAAATAAGACCCCTTAATTCCTTCATTCATCATCCCTCATCCATCATCACTCTCTA
Found at i:35168593 original size:71 final size:71
Alignment explanation
Indices: 35168507--35168670 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
35168497 CGATTTGTCT
35168507 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
35168572 CTTTCA
66 CTTTCA
*
35168578 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
35168643 CTTTCA
66 CTTTCA
35168649 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35168671 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
CTTTCA
Found at i:35168708 original size:71 final size:70
Alignment explanation
Indices: 35168507--35168704 Score: 267
Period size: 71 Copynumber: 2.8 Consensus size: 70
35168497 CGATTTGTCT
* * *
35168507 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAC
35168572 CTTTCA
65 CTTTCA
* * * *
35168578 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAC
35168643 CTTTCA
65 CTTTCA
* *
35168649 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
35168705 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 95 0.79
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTACC
TTTCA
Found at i:35175164 original size:71 final size:71
Alignment explanation
Indices: 35175078--35175241 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
35175068 CGATTTGTCT
35175078 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
35175143 CTTTCA
66 CTTTCA
*
35175149 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
35175214 CTTTCA
66 CTTTCA
35175220 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35175242 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
CTTTCA
Found at i:35175279 original size:71 final size:70
Alignment explanation
Indices: 35175078--35175275 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
35175068 CGATTTGTCT
* * * *
35175078 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCAACCTAGCTACATTTAC
35175143 CTTTCA
65 CTTTCA
* * * * *
35175149 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCAACCTAGCTACATTTAC
35175214 CTTTCA
65 CTTTCA
* *
35175220 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTAACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCAACCTAGCTAC
35175276 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCAACCTAGCTACATTTACC
TTTCA
Found at i:35177727 original size:22 final size:22
Alignment explanation
Indices: 35177702--35177745 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
35177692 TTATACTAAA
35177702 AGAGTCAGAATCTGCAAAGACT
1 AGAGTCAGAATCTGCAAAGACT
35177724 AGAGTCAGAATCTGCAAAGACT
1 AGAGTCAGAATCTGCAAAGACT
35177746 GACAAGGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (22 bp):
AGAGTCAGAATCTGCAAAGACT
Found at i:35184711 original size:41 final size:40
Alignment explanation
Indices: 35184584--35184728 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
35184574 CTCGCACAAG
* * * *
35184584 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
35184624 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
35184664 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
35184705 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
35184729 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Done.