Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008420.1 Hibiscus syriacus cultivar Beakdansim tig00111200_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1020524
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 6
Found at i:924171 original size:37 final size:37
Alignment explanation
Indices: 924098--924172 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
924088 GTTGGAAAAT
* *
924098 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
*
924135 ATTTATATAATTTGT-TTTATAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTT-TCTTTAAAAAATTGAAAATCATAAA
924172 A
1 A
924173 ATGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.42
38 18 0.55
39 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:924708 original size:24 final size:26
Alignment explanation
Indices: 924676--924727 Score: 90
Period size: 24 Copynumber: 2.1 Consensus size: 26
924666 GTATACGAAC
924676 TTATAAAATTTT-AAAAAAA-TAAAT
1 TTATAAAATTTTAAAAAAAATTAAAT
924700 TTATAAAATTTTAAAAAAAATTAAAT
1 TTATAAAATTTTAAAAAAAATTAAAT
924726 TT
1 TT
924728 TTATTAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 12 0.46
25 7 0.27
26 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
TTATAAAATTTTAAAAAAAATTAAAT
Found at i:931612 original size:20 final size:20
Alignment explanation
Indices: 931587--931626 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
931577 AGCAACAAAA
*
931587 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
931607 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
931627 AACTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:931669 original size:20 final size:21
Alignment explanation
Indices: 931640--931679 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
931630 TAATAGAATA
*
931640 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
931661 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
931680 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:931718 original size:20 final size:20
Alignment explanation
Indices: 931693--931731 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
931683 TAATAGAATA
*
931693 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
931713 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
931732 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:931722 original size:52 final size:52
Alignment explanation
Indices: 931585--931732 Score: 271
Period size: 53 Copynumber: 2.8 Consensus size: 52
931575 TTAGCAACAA
931585 AATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
931636 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
*
931689 AATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
931733 TTTAATTTAG
Statistics
Matches: 94, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 3 0.03
52 45 0.48
53 46 0.49
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (52 bp):
AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
Found at i:936326 original size:20 final size:20
Alignment explanation
Indices: 936301--936340 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
936291 AGCAACAAAA
936301 TAAAAATGAT-TCTATCTAAT
1 TAAAAATGATCT-TATCTAAT
936321 TAAAAATGATCTTATCTAAT
1 TAAAAATGATCTTATCTAAT
936341 AACTAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (20 bp):
TAAAAATGATCTTATCTAAT
Found at i:936383 original size:20 final size:21
Alignment explanation
Indices: 936354--936393 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
936344 TAATAGAATA
*
936354 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
936375 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
936394 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:936432 original size:20 final size:20
Alignment explanation
Indices: 936407--936445 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
936397 TAATAGAATA
*
936407 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
936427 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
936446 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:936436 original size:52 final size:52
Alignment explanation
Indices: 936299--936446 Score: 262
Period size: 52 Copynumber: 2.8 Consensus size: 52
936289 TTAGCAACAA
*
936299 AATAAAAA-TGATTCTATCTAATTAAAAATGATCTTATCTAATAACTAATAG
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
936350 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
*
936403 AATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
936447 TTTAATTTAG
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 3 0.03
52 45 0.48
53 45 0.48
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (52 bp):
AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
Found at i:942155 original size:12 final size:14
Alignment explanation
Indices: 942127--942160 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
942117 TTTACCGGAT
942127 AAAAACCGGTTTGA
1 AAAAACCGGTTTGA
942141 AAAAACCGG-TT-A
1 AAAAACCGGTTTGA
942153 AAAAACCG
1 AAAAACCG
942161 TTTTTATCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
13 2 0.10
14 9 0.45
ACGTcount: A:0.50, C:0.18, G:0.18, T:0.15
Consensus pattern (14 bp):
AAAAACCGGTTTGA
Found at i:944477 original size:21 final size:21
Alignment explanation
Indices: 944453--944492 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
944443 TTTATTTTAT
944453 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
944474 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
944493 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:944540 original size:33 final size:33
Alignment explanation
Indices: 944487--944585 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
944477 TTTGTTTCAA
944487 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
944519 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
944552 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
944585 T
1 T
944586 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:944614 original size:13 final size:13
Alignment explanation
Indices: 944571--944625 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
944561 TTGGAAGTAT
944571 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
944584 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
944598 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
944611 TTAAGTATTTGAA
1 TTAAGTATTTCAA
944624 TT
1 TT
944626 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:945047 original size:15 final size:15
Alignment explanation
Indices: 945022--945077 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
945012 ATCTGGAATA
*
945022 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
945037 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
945052 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
945069 TTAAAACCG
1 TTAAAACCG
945078 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:945086 original size:21 final size:18
Alignment explanation
Indices: 945041--945074 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
945031 GTTTTTTTAT
945041 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
945058 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
945075 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:945195 original size:15 final size:17
Alignment explanation
Indices: 945169--945200 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
945159 TTCTATGGGA
945169 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
945185 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
945201 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:945728 original size:35 final size:35
Alignment explanation
Indices: 945682--945752 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
945672 CAACCCTAGA
945682 GCACATTGATTTCCATTTAAAGACATGGAAGAAAT
1 GCACATTGATTTCCATTTAAAGACATGGAAGAAAT
945717 GCACATTGATTTCCATTTAAAGACATGGAAGAAAT
1 GCACATTGATTTCCATTTAAAGACATGGAAGAAAT
945752 G
1 G
945753 GACTGATTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (35 bp):
GCACATTGATTTCCATTTAAAGACATGGAAGAAAT
Found at i:947930 original size:22 final size:23
Alignment explanation
Indices: 947905--947947 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
947895 TTACATAATA
947905 AATTCAATATTT-AG-ACTATTTG
1 AATTCAA-ATTTAAGTACTATTTG
*
947927 AATTTAAATTTAAGTACTATT
1 AATTCAAATTTAAGTACTATT
947948 CACAGTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (23 bp):
AATTCAAATTTAAGTACTATTTG
Found at i:948557 original size:21 final size:21
Alignment explanation
Indices: 948506--948558 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
948496 ATTCTGACTA
948506 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * * *
948527 TTGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
948548 TCGCAATGCGA
1 TCGCATTGCGA
948559 ATACGTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:948573 original size:20 final size:20
Alignment explanation
Indices: 948548--948674 Score: 148
Period size: 20 Copynumber: 6.3 Consensus size: 20
948538 TTTTCCTAAT
948548 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
948568 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
948589 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
948609 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
948629 TCGCAATACGAATACATAAA
1 TCGCAATGCGAATACGTAAA
*
948649 TCGTAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
948669 TCGCAA
1 TCGCAA
948675 CGAGATTCTG
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
19 1 0.01
20 73 0.82
21 15 0.17
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:949563 original size:24 final size:24
Alignment explanation
Indices: 949536--949589 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
949526 GTATTCGAAA
*
949536 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTAGTCAATACCCGGAC
* *
949560 TTTGATCTTAGTCAATACTCGGAT
1 TTTGATCTTAGTCAATACCCGGAC
949584 TTTGAT
1 TTTGAT
949590 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTAGTCAATACCCGGAC
Found at i:952048 original size:20 final size:21
Alignment explanation
Indices: 952016--952104 Score: 114
Period size: 20 Copynumber: 4.4 Consensus size: 21
952006 CAACGCGGAA
952016 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAATATGACT
* * * *
952036 ATCGTAACAC-GAAAATGATT
1 ATCGCAACGCGGAATATGACT
952056 ATCGCAACGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
952076 ATCGCAACGCGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
952096 ATCGCAACG
1 ATCGCAACG
952105 AGAGAATCGC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
20 56 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:952075 original size:40 final size:40
Alignment explanation
Indices: 952016--952104 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
952006 CAACGCGGAA
* *
952016 ATCGCAACGCGAATATGACTATCGTAACACGAAAATGATT
1 ATCGCAACGCGAATATGACTATCGCAACACGAAAATGACT
* *
952056 ATCGCAACGCGGAAT-TGACTATCGCAACGCGGAAATGACT
1 ATCGCAACGC-GAATATGACTATCGCAACACGAAAATGACT
952096 ATCGCAACG
1 ATCGCAACG
952105 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACTATCGCAACACGAAAATGACT
Found at i:952141 original size:19 final size:19
Alignment explanation
Indices: 952109--952154 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
952099 GCAACGAGAG
952109 AATCGCAATACGAAATGAA
1 AATCGCAATACGAAATGAA
* *
952128 AATCGTAATGCGAAATGAA
1 AATCGCAATACGAAATGAA
*
952147 AAGCGCAA
1 AATCGCAA
952155 CGAGTGAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.15, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATACGAAATGAA
Found at i:952329 original size:14 final size:14
Alignment explanation
Indices: 952310--952346 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
952300 CATCAATTAA
952310 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
952324 ACAAATCATCTTTT
1 ACAAATCAACATTT
952338 ACAAATCAA
1 ACAAATCAA
952347 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:953809 original size:42 final size:42
Alignment explanation
Indices: 953702--953813 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
953692 TCTAGAATGT
* ** *
953702 TGGGAG-GGACCTCTTCAACGATGACAGTTGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* * ** *
953744 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
953786 TAGGG-GAGGCCTCTTGAACGATGACAGG
1 T-GGGAGAGGCCTCTTGAACGATGACAGG
953814 TGAGTCTGGC
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 50 0.91
43 5 0.09
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:954385 original size:20 final size:20
Alignment explanation
Indices: 954360--954428 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
954350 CAACAACAAA
954360 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
954380 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
** *
954400 ATCGCAATACG-AATTCGACT
1 ATCGCAACGCGAAAAT-GACT
954420 ATCGCAACG
1 ATCGCAACG
954429 AGAGAATCGC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 3 0.07
20 40 0.93
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:954492 original size:34 final size:37
Alignment explanation
Indices: 954453--954559 Score: 121
Period size: 40 Copynumber: 2.8 Consensus size: 37
954443 CGATTTTCAT
954453 TTCGCATTGCGAT-TC-TTTCG-TTGCGATAGTCAAA
1 TTCGCATTGCGATATCATTTCGATTGCGATAGTCAAA
**
954487 TTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATT
1 TTCGCATTGCGATA-TCA-TTTCG-ATTGCGATAGTCAAA
954527 TTCGCATTGCGATAGTCATTTTCGCATTGCGAT
1 TTCGCATTGCGATA-TCA-TTTCG-ATTGCGAT
954560 TCTCTCGTTG
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
34 13 0.20
36 2 0.03
38 5 0.08
40 45 0.69
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (37 bp):
TTCGCATTGCGATATCATTTCGATTGCGATAGTCAAA
Found at i:954498 original size:20 final size:20
Alignment explanation
Indices: 954473--954596 Score: 170
Period size: 20 Copynumber: 6.5 Consensus size: 20
954463 GATTCTTTCG
**
954473 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
954493 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
954513 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
954533 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
954553 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
954567 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
954587 TTGCGATAGT
1 TTGCGATAGT
954597 AAACTATTCT
Statistics
Matches: 94, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.07
16 6 0.06
18 6 0.06
20 75 0.80
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:956546 original size:33 final size:34
Alignment explanation
Indices: 956488--956561 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
956478 CAAAACTTTA
**
956488 AATCGCAACACGAAAATGACTATCGCAACG-CAAG
1 AATCGCAACACGAAAATGAAAATCGCAACGAC-AG
*
956522 AATCGCAACGCG-AAATGAAAATCGCAACGACAG
1 AATCGCAACACGAAAATGAAAATCGCAACGACAG
956555 AATCGCA
1 AATCGCA
956562 TTGCGATAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 24 0.67
34 12 0.33
ACGTcount: A:0.45, C:0.26, G:0.19, T:0.11
Consensus pattern (34 bp):
AATCGCAACACGAAAATGAAAATCGCAACGACAG
Found at i:957151 original size:21 final size:20
Alignment explanation
Indices: 957127--957178 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
957117 GCTATGTAAA
*
957127 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACAAAT
* **
957148 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACAAAT
957168 TCGCATTGCGA
1 TCGCATTGCGA
957179 ATTAGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACAAAT
Found at i:957199 original size:21 final size:21
Alignment explanation
Indices: 957175--957220 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
957165 TATTCGCATT
957175 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
957196 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
957217 GCGA
1 GCGA
957221 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:962046 original size:15 final size:15
Alignment explanation
Indices: 962014--962047 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
962004 AAAAAGAAAG
* *
962014 TAAAAAAATATTAGA
1 TAAAAAAATAATAAA
962029 TAAAAAAATAATAAA
1 TAAAAAAATAATAAA
962044 TAAA
1 TAAA
962048 TACTAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
TAAAAAAATAATAAA
Found at i:962081 original size:14 final size:15
Alignment explanation
Indices: 962056--962088 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
962046 AATACTAAAT
962056 AAATTAAAGAGAAAA
1 AAATTAAAGAGAAAA
962071 AAATT-AAGAGAAAA
1 AAATTAAAGAGAAAA
962085 AAAT
1 AAAT
962089 GTTAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (15 bp):
AAATTAAAGAGAAAA
Found at i:963727 original size:3 final size:3
Alignment explanation
Indices: 963719--963769 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
963709 AAAATAAAAT
* * *
963719 TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA AAA TAG TAAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
963764 TAA TAA
1 TAA TAA
963770 AATGTTTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:964273 original size:84 final size:84
Alignment explanation
Indices: 964083--964279 Score: 270
Period size: 84 Copynumber: 2.3 Consensus size: 84
964073 TAGTTGAATA
* * * * *
964083 TAATCGAACTCGAAGGTCTTTGGTTAGAAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
1 TAATCAAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGA
* *
964148 TGTGCATTTGAGCATAGTG
66 TATGCATTTGAGCATAGCG
* * *
964167 TAATCGAACTCGAAGGTTTTTTGTTGGCAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGA
1 TAATCAAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGA
*
964232 TATGCCTTTGAGC-TGAGCG
66 TATGCATTTGAGCAT-AGCG
*
964251 TAGTCAAACTCGAAGGTCTTTTGTTGGCA
1 TAATCAAACTCGAAGGTCTTTTGTTGGCA
964280 AATGCCATTC
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
83 1 0.01
84 99 0.99
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (84 bp):
TAATCAAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGA
TATGCATTTGAGCATAGCG
Found at i:964511 original size:124 final size:124
Alignment explanation
Indices: 964369--964592 Score: 376
Period size: 124 Copynumber: 1.8 Consensus size: 124
964359 CTGCTTGTGG
* * * *
964369 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGACTCATTCTTTGTGAAGTTGAGCCTTAA
1 CACGATTCCCTTCATCGTGAAGTTAAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTTAA
* *
964434 CTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTGGAGATGAATGTTGATGGTGAA
66 CTTAAATATCATTCGTCGTGAAGTTGAAATCCAAGCTGGAGATGAATGTTGATGGTGAA
* *
964493 CACGATTCCCTTCATCGTGAAGTTAAAACTGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTAA
1 CACGATTCCCTTCATCGTGAAGTTAAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTTAA
964558 CTTAAATATCATTCGTCGTGAAGTTGAAATCCAAG
66 CTTAAATATCATTCGTCGTGAAGTTGAAATCCAAG
964593 TTTGTATTGT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
124 92 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (124 bp):
CACGATTCCCTTCATCGTGAAGTTAAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTTAA
CTTAAATATCATTCGTCGTGAAGTTGAAATCCAAGCTGGAGATGAATGTTGATGGTGAA
Found at i:964903 original size:116 final size:113
Alignment explanation
Indices: 964671--964948 Score: 377
Period size: 116 Copynumber: 2.5 Consensus size: 113
964661 CCCTTTCGCC
* **
964671 GTGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCC---AATCTAGATTTGG
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATAATCTAGAGATGG
* * *
964733 CACGATATCCTTCGTCATGAAGTTGAAATCGTGGATAGCCCCTTCGTT
66 CACGATATCCTTCGTCATAAAGTTGAAACCGTGGATAGCCCATTCGTT
* * *
964781 GCGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATGAATGTGGCAGAT
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAT-AATCTAG-AGAT
*
964846 GAGCACGAT-TCCCTTCGTCGTAAAGTTGAAACCGTGGAT-GACCCATTCGTT
64 G-GCACGATAT-CCTTCGTCATAAAGTTGAAACCGTGGATAG-CCCATTCGTT
*
964897 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAATTGAAATCCAAT
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAT
964949 CTAAAGATGA
Statistics
Matches: 148, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
110 47 0.32
114 5 0.03
115 5 0.03
116 91 0.61
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (113 bp):
GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATAATCTAGAGATGG
CACGATATCCTTCGTCATAAAGTTGAAACCGTGGATAGCCCATTCGTT
Found at i:965062 original size:363 final size:361
Alignment explanation
Indices: 964366--965194 Score: 1106
Period size: 363 Copynumber: 2.3 Consensus size: 361
964356 TTACTGCTTG
* * * *
964366 TGGCACGAT-TCCCTTCGTCGTGAAGTTGAAACCGTGGATGACTCATTCTTTGTGAAGTTGAGCC
1 TGGCACGATAT-CCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCATTGTGAAGTTGAGCC
*
964430 TT-AACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTGGAGATGAATGTTGATGGTGAAC
65 TTGAA-TTGAATATCCTTCGTCGTGAAGTTGAAATCCAA-CTGGAGATG-ATG-TGATGATGAAC
* * *
964494 ACGATTCCCTTCATCGTGAAGTTAAAACTGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTAAC
126 ACGATTCCCTTCATCGTAAAGTTAAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTTAAC
* *
964559 TTAAATATCATTCGTCGTGAAGTTGAAATCCAAGTTTGTATTGTTTCGAGTCCAATATCTTTCAC
191 TTAAATATCATTCGTCGTGAAATTGAAATCCAAGTTTGTATTGCTTCGAGTCCAATATCTTTCAC
* * * *
964624 CGTGAAGTTGGAATTGGCTCTGAATGAATCTGGGAAGCCCTTTCGCCGTGAAGTTGAGCTTTGAA
256 CGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCCGTGAAGTTAAGCTTTGAA
* *
964689 TTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAGATT
321 TTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAGAGT
* * *
964730 TGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGAT-AGCCCCTTCGTTGCGAAGTTGAGCC
1 TGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGA-CCCCTTCATTGTGAAGTTGAGCC
* *
964794 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAA-T-GA-ATG-TG-GCA-GATGAGCACG
65 TTGAATTGAATATCCTTCGTCGTGAAGTTGAAATCCAACTGGAGATGATGTG-ATGATGAACACG
* *
964853 ATTCCCTTCGTCGTAAAGTTGAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTTGAA-TT
129 ATTCCCTTCATCGTAAAGTTAAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTT-AACTT
** * *
964917 GGATATCCTTCGTCGTGAAATTGAAATCCAA-TCTAAAGATGAATGTTGCTTCGAGTCCAATATC
193 AAATATCATTCGTCGTGAAATTGAAATCCAAGT-T-----TG--TATTGCTTCGAGTCCAATAT-
* *
964981 CTTT-GCCGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGTAGCCCCTTCGCCGTGAAGTTAAG
249 CTTTCACCGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCCGTGAAGTTAAG
965045 CTTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAGAGT
314 CTTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAGAGT
* *
965093 TGGCACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGACCCCTTCATTGTGAAGTTGAGCAT
1 TGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCATTGTGAAGTTGAGCCT
* * * *
965158 TGACTTAAATATCCTTCGTCATGAAGTTAAAATCCAA
66 TGAATTGAATATCCTTCGTCGTGAAGTTGAAATCCAA
965195 GCTTGTATTG
Statistics
Matches: 412, Mismatches: 38, Indels: 31
0.86 0.08 0.06
Matches are distributed among these distances:
355 1 0.00
356 93 0.23
357 3 0.01
358 2 0.00
360 3 0.01
361 4 0.01
362 1 0.00
363 209 0.51
364 93 0.23
365 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (361 bp):
TGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCATTGTGAAGTTGAGCCT
TGAATTGAATATCCTTCGTCGTGAAGTTGAAATCCAACTGGAGATGATGTGATGATGAACACGAT
TCCCTTCATCGTAAAGTTAAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTTAACTTAAA
TATCATTCGTCGTGAAATTGAAATCCAAGTTTGTATTGCTTCGAGTCCAATATCTTTCACCGTGA
AGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCCGTGAAGTTAAGCTTTGAATTGGA
TATCCTTCATCGTGAAGTTGAAATCCAATCTAGAGT
Found at i:965343 original size:239 final size:242
Alignment explanation
Indices: 964783--965360 Score: 741
Period size: 239 Copynumber: 2.4 Consensus size: 242
964773 CCTTCGTTGC
* * * *
964783 GAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATGAATGTGGCAGATGA
1 GAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCC----AATCTAG-AGTTG-
* * * *
964848 GCACGAT-TCCCTTCGTCGTAAAGTTGAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTT
60 GCACGATAT-CCTTCGTCGTGAAGTTGAAACCATGGATGACCCATTCATTGTGAAGTTGAGCATT
** * * * *
964912 GAATTGGATATCCTTCGTCGTGAAATTGAAATCCAATCTAAAGATGAATGTTGCTTCGAGTCCAA
124 GAATTAAATATCCTTCGTCATGAAATTAAAATCCAAGCT----ATG-ATATTGCTTCGAGTCCAA
* * * * * *
964977 TATCCTTTGCCGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGTAGCCCCTTCGCCGT
184 TATCCTTCGCCGTGAAGTTAAAATTGACTCTGAATGAAACTGGGAAGCCCATTCACCGT
* *
965036 GAAGTTAAGCTTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAGAGTTGGCACGA
1 GAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCACGA
* * *
965101 TATCCTTCGTCGTGAAGTTGAAATCATGGATGACCCCTTCATTGTGAAGTTGAGCATTGACTTAA
66 TATCCTTCGTCGTGAAGTTGAAACCATGGATGACCCATTCATTGTGAAGTTGAGCATTGAATTAA
* *
965166 ATATCCTTCGTCATGAAGTTAAAATCCAAGCT-TG-TATTGTTTCGAGTCCAATATCCTTCGCCG
131 ATATCCTTCGTCATGAAATTAAAATCCAAGCTATGATATTGCTTCGAGTCCAATATCCTTCGCCG
*
965229 TGAAGTTAAAATTGACTCTGAATG-AACTGGGAAGCCCATTCACCTT
196 TGAAGTTAAAATTGACTCTGAATGAAACTGGGAAGCCCATTCACCGT
* * *
965275 GAAGTTGAGCTTTGAATTGGATATCATTTGTCGTGAAGTTGATATCCAATCTAGAGTTGGCACGA
1 GAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCACGA
965340 TATCCTTCGTCGTGAAGTTGA
66 TATCCTTCGTCGTGAAGTTGA
965361 GCCTTGACTT
Statistics
Matches: 291, Mismatches: 33, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
239 99 0.34
240 48 0.16
242 2 0.01
247 88 0.30
248 5 0.02
249 5 0.02
253 44 0.15
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (242 bp):
GAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGTTGGCACGA
TATCCTTCGTCGTGAAGTTGAAACCATGGATGACCCATTCATTGTGAAGTTGAGCATTGAATTAA
ATATCCTTCGTCATGAAATTAAAATCCAAGCTATGATATTGCTTCGAGTCCAATATCCTTCGCCG
TGAAGTTAAAATTGACTCTGAATGAAACTGGGAAGCCCATTCACCGT
Found at i:966624 original size:94 final size:95
Alignment explanation
Indices: 966442--966686 Score: 316
Period size: 94 Copynumber: 2.6 Consensus size: 95
966432 AGCTGAATCT
* * ** * *
966442 ATAAAGCCAGGGCGTTTAACCAATTGCTCTAAAGGGACCGCTCAA-TATCT-TTGTATAGATATT
1 ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCAT-TATT-T-T--CTATT
*
966505 ATAATCACCTTTATCAGGCTAGCTGAATATTATCC
61 ATAATCACCTTTATCAAGCTAGCTGAATATTATCC
966540 ATAAAGCCGGGG-GTTTAACCAATTGCTCTAGAGGGACAACTCAAGCATTATTTTCTATTATAAT
1 ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCATTATTTTCTATTATAAT
*
966604 CACCTTTATCAAGCTAGCTGAATCTTATCC
66 CACCTTTATCAAGCTAGCTGAATATTATCC
* * * *
966634 ATAAAGTCGGGGCTTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATT
1 ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCATTATT
966687 GTATATATGT
Statistics
Matches: 132, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
94 48 0.36
95 37 0.28
96 1 0.01
97 31 0.23
98 15 0.11
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (95 bp):
ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCATTATTTTCTATTATAAT
CACCTTTATCAAGCTAGCTGAATATTATCC
Found at i:969131 original size:14 final size:15
Alignment explanation
Indices: 969106--969135 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
969096 AATACTAAAT
969106 AAATTAAAGAGAAAA
1 AAATTAAAGAGAAAA
969121 AAATT-AAGAGAAAA
1 AAATTAAAGAGAAAA
969135 A
1 A
969136 TGTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (15 bp):
AAATTAAAGAGAAAA
Found at i:970751 original size:3 final size:3
Alignment explanation
Indices: 970737--970802 Score: 82
Period size: 3 Copynumber: 22.3 Consensus size: 3
970727 GAGGTTTAAA
* * *
970737 AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
970785 AAAT AAT -AT AAT AA- AAT A
1 -AAT AAT AAT AAT AAT AAT A
970803 TTTTTATAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.07
3 47 0.87
4 3 0.06
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:972757 original size:125 final size:125
Alignment explanation
Indices: 972535--972787 Score: 497
Period size: 125 Copynumber: 2.0 Consensus size: 125
972525 AGGTAGCATC
972535 TGTTCTAAACACTCTCAACCATTTGACAATGAACACTCAATCACTCATGATGCATTATCTCTCAA
1 TGTTCTAAACACTCTCAACCATTTGACAATGAACACTCAATCACTCATGATGCATTATCTCTCAA
972600 AAATTTTAAAGCTCTTTACCTCTTCTTTATTCTTGGTTGATAGGAGGTGATATCAACTTT
66 AAATTTTAAAGCTCTTTACCTCTTCTTTATTCTTGGTTGATAGGAGGTGATATCAACTTT
*
972660 TGTTCTAAACACTCTCAACCATTTGACAATGAATACTCAATCACTCATGATGCATTATCTCTCAA
1 TGTTCTAAACACTCTCAACCATTTGACAATGAACACTCAATCACTCATGATGCATTATCTCTCAA
972725 AAATTTTAAAGCTCTTTACCTCTTCTTTATTCTTGGTTGATAGGAGGTGATATCAACTTT
66 AAATTTTAAAGCTCTTTACCTCTTCTTTATTCTTGGTTGATAGGAGGTGATATCAACTTT
972785 TGT
1 TGT
972788 GCTGGTTTTT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 127 1.00
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.38
Consensus pattern (125 bp):
TGTTCTAAACACTCTCAACCATTTGACAATGAACACTCAATCACTCATGATGCATTATCTCTCAA
AAATTTTAAAGCTCTTTACCTCTTCTTTATTCTTGGTTGATAGGAGGTGATATCAACTTT
Found at i:973475 original size:31 final size:31
Alignment explanation
Indices: 973419--973508 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 31
973409 TATAAAAAAA
* *
973419 ATAAAATAATCATTAAAATTTATCAAAAC-ATT
1 ATAAAATAGTC-TTTAAA-TTATCAAAACTATT
973451 ATAAAATAGTCTTTAAATTAATC-AAACTATT
1 ATAAAATAGTCTTTAAATT-ATCAAAACTATT
* * *
973482 TTGAAATAGTCCTTAAACTTATCAAAA
1 ATAAAATAGTCTTTAAA-TTATCAAAA
973509 TTTATTGCTC
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
30 6 0.12
31 28 0.57
32 15 0.31
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (31 bp):
ATAAAATAGTCTTTAAATTATCAAAACTATT
Found at i:973734 original size:31 final size:30
Alignment explanation
Indices: 973676--973735 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
973666 TGTAAACTTT
*
973676 TGATAAATTTAATGATTATCTTGTAATAAA
1 TGATAAATTTAATGATTATCTTATAATAAA
973706 TGATAATATTTAATGATTAT-TTAATAATAA
1 TGATAA-ATTTAATGATTATCTT-ATAATAA
973736 TTTAATACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (30 bp):
TGATAAATTTAATGATTATCTTATAATAAA
Found at i:980975 original size:40 final size:40
Alignment explanation
Indices: 980931--981006 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
980921 AGGACAATGA
*
980931 AAAAATACAGATCCAGAAGATCCTACTCAAAGCAAAGTAG
1 AAAAATACAGATCCAGAAGATCATACTCAAAGCAAAGTAG
* *
980971 AAAAATATAGATCCAGTAGATCATACTCAAAGCAAA
1 AAAAATACAGATCCAGAAGATCATACTCAAAGCAAA
981007 ACTACTTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.17
Consensus pattern (40 bp):
AAAAATACAGATCCAGAAGATCATACTCAAAGCAAAGTAG
Found at i:982391 original size:39 final size:39
Alignment explanation
Indices: 982348--982423 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
982338 TGTGCACTCT
*
982348 TGGGGTATTC-TCAATTTACTTGAAGACGTCATGTAGTTG
1 TGGGGTATTCTTC-ATTTACCTGAAGACGTCATGTAGTTG
* *
982387 TGGGGTCTTCTTCATTTTCCTGAAGACGTCATGTAGT
1 TGGGGTATTCTTCATTTACCTGAAGACGTCATGTAGT
982424 CATAGAGTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 31 0.94
40 2 0.06
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (39 bp):
TGGGGTATTCTTCATTTACCTGAAGACGTCATGTAGTTG
Found at i:983061 original size:2 final size:2
Alignment explanation
Indices: 983054--983084 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
983044 ACTCTAAATA
983054 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
983085 AGTGACTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:983754 original size:17 final size:18
Alignment explanation
Indices: 983732--983765 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
983722 GATTCGCTAA
983732 CTTTAATTAAT-TTAATT
1 CTTTAATTAATGTTAATT
983749 CTTTAATTAATGTTAAT
1 CTTTAATTAATGTTAAT
983766 GATTATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (18 bp):
CTTTAATTAATGTTAATT
Found at i:990831 original size:28 final size:27
Alignment explanation
Indices: 990778--990841 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
990768 AAATGAAAAC
990778 ATAACT-AAACTTTCATCATAACAAAT
1 ATAACTAAAACTTTCATCATAACAAAT
* *
990804 ATCAAGTAAAACTTTCATCAATTA-AAAT
1 AT-AACTAAAACTTTCATC-ATAACAAAT
990832 ATAACTAAAA
1 ATAACTAAAA
990842 TTTAATAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 2 0.06
27 10 0.31
28 17 0.53
29 3 0.09
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.30
Consensus pattern (27 bp):
ATAACTAAAACTTTCATCATAACAAAT
Found at i:997464 original size:21 final size:21
Alignment explanation
Indices: 997438--997482 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
997428 ATTATGAAAA
997438 AAAATTAAAAGTTTAAGTACT
1 AAAATTAAAAGTTTAAGTACT
* * * *
997459 AAAATTGATAGTTTATGTATT
1 AAAATTAAAAGTTTAAGTACT
997480 AAA
1 AAA
997483 TATGTAGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (21 bp):
AAAATTAAAAGTTTAAGTACT
Found at i:1001182 original size:30 final size:29
Alignment explanation
Indices: 1001142--1001203 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
1001132 TAGACTCCCC
1001142 AAACAATACATTTATAGAAGGATTAATATA
1 AAACAATACATTTATAGAA-GATTAATATA
*
1001172 AAACAGTACATTTATAGAAGATTAATATA
1 AAACAATACATTTATAGAAGATTAATATA
1001201 AAA
1 AAA
1001204 ATAAGTGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.29
Consensus pattern (29 bp):
AAACAATACATTTATAGAAGATTAATATA
Found at i:1002004 original size:16 final size:17
Alignment explanation
Indices: 1001983--1002020 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1001973 TTAAATTGCG
1001983 AAATATAAAAAAGAAA-
1 AAATATAAAAAAGAAAT
* *
1001999 AAATATTAAAAATAAAT
1 AAATATAAAAAAGAAAT
1002016 AAATA
1 AAATA
1002021 AAGATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AAATATAAAAAAGAAAT
Found at i:1004230 original size:55 final size:55
Alignment explanation
Indices: 1004164--1004366 Score: 156
Period size: 55 Copynumber: 3.5 Consensus size: 55
1004154 CTTTGAATTG
*
1004164 GATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTTCATTGCTGTTTGTGGGCAC
1 GATATCCTTCGTCGTGAAGTTAAAATCCAAGGGTTTCATTGCTGTTTGTGGGCAC
* * * * * ** *
1004219 GATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCTTTG-TGAAGTTAAGCTTAGAAT
1 GATATCCTTCGTCGTGAAGTTAAAATC---CAAGGGT--TTCATTGCT---GTT-TG-TGGGCA-
*
1004283 TG
55 -C
* * * * *
1004285 GATATCCTTCGTTGTGAAGTTGAAATCCAAGGGTTACATTGCTGCTTGTGGGCAT
1 GATATCCTTCGTCGTGAAGTTAAAATCCAAGGGTTTCATTGCTGTTTGTGGGCAC
1004340 GATATCCTTCGTCGTGAAGTTAAAATC
1 GATATCCTTCGTCGTGAAGTTAAAATC
1004367 ATGGATGACT
Statistics
Matches: 110, Mismatches: 25, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
55 51 0.46
57 3 0.03
58 5 0.05
59 3 0.03
60 6 0.05
61 5 0.05
62 4 0.04
63 5 0.05
64 3 0.03
66 25 0.23
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (55 bp):
GATATCCTTCGTCGTGAAGTTAAAATCCAAGGGTTTCATTGCTGTTTGTGGGCAC
Found at i:1004305 original size:121 final size:121
Alignment explanation
Indices: 1004091--1004808 Score: 1168
Period size: 121 Copynumber: 5.9 Consensus size: 121
1004081 GTCGATCTGT
1004091 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
* *
1004156 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTTCATTGCTGTTTG
66 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTG
* * *
1004212 TGGGCACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCTTTGTGAAGTTAAGCT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
* * *
1004277 TAGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGGGTTACATTGCTGCTTG
66 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTG
* * * *
1004333 TGGGCATGATATCCTTCGTCGTGAAGTTAAAATCATGGATGACTCATTCGTTGTGAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
* * *
1004398 TTGAATTGGATATCCTTCATCGTAAAGGTT-AAATCCAAGGGTTGCATTGCTGCTTA
66 TTGAATTGGATATCCTTCGTCGTGAA-GTTGAAATCCAAGGGTTGCATTGCTGCTTG
*
1004454 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAATTTGAGCT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
* *
1004519 TTAAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTG
66 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTG
* * *
1004575 TGGACACGATATCCTTCATCGTGAAGTTGAAATCGTGGATAGCTCATTCGTTGTGAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
* * *
1004640 TTGAATTAGATATCCTTCATCGTGAAGTTAAAATCCAAGGGTTGCATTGCTGCTTG
66 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTG
* * *
1004696 TGGGCACGATATCATTCTTCGTGAAGTTGAAATCATGGATGGCTCATTCGTTGTGAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
*
1004761 TTGAATTGGATATCCTTCGTAGTGAAGTTGAAATCCAAGGGTTGCATT
66 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATT
1004809 ACTTCGAGTC
Statistics
Matches: 549, Mismatches: 46, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
120 3 0.01
121 543 0.99
122 3 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.35
Consensus pattern (121 bp):
TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCT
TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTG
Found at i:1004925 original size:56 final size:59
Alignment explanation
Indices: 1004831--1005099 Score: 240
Period size: 64 Copynumber: 4.4 Consensus size: 59
1004821 TTATCCTTCG
* * *
1004831 CTGTGAAGTTGAAATTGACTTTAAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATAT-A
1 CTGT-AAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGAGTCCAATATCA
*
1004890 CT-T-AGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTAAGTCCAATATCCTTCA
1 CTGTAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGAGTCCAATA----TCA
* * * * * *
1004951 CTGTGAAGTTGAAATTGAATCTGAATGGAACTG-AAAGTCGTTTGATGAGTCCATTATCCTTCG
1 CTGT-AAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGAGTCCA--AT--ATCA
* * * *
1005014 CTGTGAAGTTAAAATTGACTCTGAATGAATCTGAAAAGTTATTTATTGAGTCCAATATTCTTCA
1 CTGT-AAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGAGTCCAATA----TCA
1005078 CTGTAAAGTTGAAATTGACTCT
1 CTGT-AAGTTGAAATTGACTCT
1005100 AAAAGCTACA
Statistics
Matches: 170, Mismatches: 23, Indels: 29
0.77 0.10 0.13
Matches are distributed among these distances:
56 47 0.28
58 1 0.01
59 2 0.01
60 1 0.01
61 3 0.02
62 3 0.02
63 48 0.28
64 63 0.37
65 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (59 bp):
CTGTAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGAGTCCAATATCA
Found at i:1004967 original size:64 final size:64
Alignment explanation
Indices: 1004893--1005099 Score: 290
Period size: 64 Copynumber: 3.2 Consensus size: 64
1004883 CAATATACTT
*
1004893 AGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTAAGTCCAATATCCTTCACTGTGA
1 AGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGAGTCCAATATCCTTCACTGTGA
* * * * * *
1004957 AGTTGAAATTGAATCTGAATGGAACTG-AAAGTCGTTTGATGAGTCCATTATCCTTCGCTGTGA
1 AGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGAGTCCAATATCCTTCACTGTGA
* * * * * *
1005020 AGTTAAAATTGACTCTGAATGAATCTGAAAAGTTATTTATTGAGTCCAATATTCTTCACTGTAA
1 AGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGAGTCCAATATCCTTCACTGTGA
1005084 AGTTGAAATTGACTCT
1 AGTTGAAATTGACTCT
1005100 AAAAGCTACA
Statistics
Matches: 122, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
63 54 0.44
64 68 0.56
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (64 bp):
AGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGAGTCCAATATCCTTCACTGTGA
Found at i:1005066 original size:127 final size:120
Alignment explanation
Indices: 1004814--1005102 Score: 337
Period size: 127 Copynumber: 2.4 Consensus size: 120
1004804 GCATTACTTC
* * * * * *
1004814 GAGTCCATTATCCTTCGCTGTGAAGTTGAAATTGACTTTAAATGAAACTGGAAAGTTGTTTGTTG
1 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGAATCTAAATGAAACTGGAAAGTCGTTTGATG
* * *
1004879 AGTCCAATATACTTAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTT
66 AGTCCAATATACTTAGTTAAAATTGACTCTGAATGAAACTGAAAAGTTATTTATT
* * *
1004934 AAGTCCAATATCCTTCACTGTGAAGTTGAAATTGAATCTGAATGGAACT-GAAAGTCGTTTGATG
1 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGAATCTAAATGAAACTGGAAAGTCGTTTGATG
* * *
1004998 AGTCCATTATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAATCTGAAAAGTTATTTATT
66 AGTCCA--AT--AT-ACT-T--AGTTAAAATTGACTCTGAATGAAACTGAAAAGTTATTTATT
* * *
1005061 GAGTCCAATATTCTTCACTGTAAAGTTGAAATTGACTCTAAA
1 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGAATCTAAA
1005103 AGCTACAAAA
Statistics
Matches: 141, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
119 19 0.13
120 42 0.30
121 2 0.01
123 1 0.01
124 2 0.01
125 1 0.01
127 74 0.52
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (120 bp):
GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGAATCTAAATGAAACTGGAAAGTCGTTTGATG
AGTCCAATATACTTAGTTAAAATTGACTCTGAATGAAACTGAAAAGTTATTTATT
Found at i:1009711 original size:3 final size:3
Alignment explanation
Indices: 1009703--1009739 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1009693 ATATTAGATG
1009703 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1009740 ACAAATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1010396 original size:21 final size:21
Alignment explanation
Indices: 1010372--1010411 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1010362 GTCCTCCTAC
*
1010372 TTGACGATAGATAAATGAACT
1 TTGACGACAGATAAATGAACT
1010393 TTGACGACAGATAAATGAA
1 TTGACGACAGATAAATGAA
1010412 GAATCGTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (21 bp):
TTGACGACAGATAAATGAACT
Found at i:1012941 original size:25 final size:22
Alignment explanation
Indices: 1012925--1012973 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 22
1012915 TAGTATATTC
1012925 ATAAATAGAGTCTATTAATATAT
1 ATAAA-AGAGTCTATTAATATAT
*
1012948 ATTAAAGAGTCTATTAATATAAT
1 ATAAAAGAGTCTATTAATAT-AT
1012971 ATA
1 ATA
1012974 TAATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (22 bp):
ATAAAAGAGTCTATTAATATAT
Found at i:1013913 original size:3 final size:3
Alignment explanation
Indices: 1013907--1013954 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
1013897 TTCTCAGATA
1013907 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1013955 GGTTATGATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Done.