Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 299 of 362
Found at i:100464065 original size:115 final size:119
Alignment explanation
Indices: 100463917--100464173 Score: 371
Period size: 129 Copynumber: 2.1 Consensus size: 119
100463907 TGCGAATGTC
100463917 GTGATC-TTCAGGAGCTATTGGGATTTGGAAGTAGCC-AGAGA-T-GCAGTAGTACATGTGCCC-
1 GTGATCATTCAGGAGCTATTGGGATTTGGAAGTAGCCAAGAGACTAGCAGTAGTACATGTGCCCA
100463977 GATAATCTTTCCAACATTTGATCAATGAATGGCAAGGGGAAGTGATCTTTTCTT
66 GATAATCTTTCCAACATTTGATCAATGAATGGCAAGGGGAAGTGATCTTTTCTT
100464031 GTGATCATTCAGGAGCTATTGGGATTTGGAAGTAGCCAGAGAGACTGTCTAAAAAAGCAGTAGTA
1 GTGATCATTCAGGAGCTATTGGGATTTGGAAGTAGCCA-AGAGA----CT-----AGCAGTAGTA
100464096 CATGTGCCCAGATAATCTTTCCAACATTTGATCAATGAATGGCAAGGGGAAGTGATCTTTTCTT
56 CATGTGCCCAGATAATCTTTCCAACATTTGATCAATGAATGGCAAGGGGAAGTGATCTTTTCTT
100464160 GTGACATCATTCAG
1 GTG--ATCATTCAG
100464174 TTTCCTATAA
Statistics
Matches: 126, Mismatches: 0, Indels: 17
0.88 0.00 0.12
Matches are distributed among these distances:
114 6 0.05
115 30 0.24
117 5 0.04
122 1 0.01
128 18 0.14
129 57 0.45
131 9 0.07
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (119 bp):
GTGATCATTCAGGAGCTATTGGGATTTGGAAGTAGCCAAGAGACTAGCAGTAGTACATGTGCCCA
GATAATCTTTCCAACATTTGATCAATGAATGGCAAGGGGAAGTGATCTTTTCTT
Found at i:100469455 original size:9 final size:9
Alignment explanation
Indices: 100469393--100469485 Score: 59
Period size: 9 Copynumber: 10.3 Consensus size: 9
100469383 TATAATTAAA
100469393 TTATGTAAG
1 TTATGTAAG
*
100469402 TTATGATATG
1 TTATG-TAAG
* * *
100469412 ATATAT-AT
1 TTATGTAAG
100469420 TTATG-AA-
1 TTATGTAAG
100469427 TTATGTAAG
1 TTATGTAAG
*
100469436 TAATGTAAG
1 TTATGTAAG
100469445 TTATGTAAG
1 TTATGTAAG
*
100469454 TTATGATATG
1 TTATG-TAAG
*
100469464 ATATATTTAAG
1 -T-TATGTAAG
100469475 TTAT-TAAG
1 TTATGTAAG
100469483 TTA
1 TTA
100469486 AGATCCAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
7 5 0.08
8 13 0.20
9 30 0.46
10 10 0.15
11 4 0.06
12 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:100473727 original size:40 final size:40
Alignment explanation
Indices: 100473637--100473715 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
100473627 TAAGTTTTTT
* ** *
100473637 GCAGCGATTTTCAAAAAGCGCCGCTAATTCTTGATCTATA
1 GCAGCGTTTTTCAAAAAAAGCCGCTAATTCTTAATCTATA
*
100473677 GCAGCGTTTTTCAAAAAAAGCTGCTAATTCTTAATCTAT
1 GCAGCGTTTTTCAAAAAAAGCCGCTAATTCTTAATCTAT
100473716 TGCTACGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (40 bp):
GCAGCGTTTTTCAAAAAAAGCCGCTAATTCTTAATCTATA
Found at i:100474090 original size:22 final size:20
Alignment explanation
Indices: 100474046--100474091 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
100474036 TTTTAAAAAA
* *
100474046 TAAAACCAAACCTTAAACTC
1 TAAAACCAAACCCTAAACCC
100474066 TAAAACCATAATCCCTAAACCC
1 TAAAACCA-AA-CCCTAAACCC
100474088 TAAA
1 TAAA
100474092 CCCTAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 2 0.09
22 12 0.55
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAACCAAACCCTAAACCC
Found at i:100474394 original size:21 final size:21
Alignment explanation
Indices: 100474370--100474423 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
100474360 CATATACCCT
100474370 AAACTTTAAACCCAAAAAAAC
1 AAACTTTAAACCCAAAAAAAC
** *
100474391 AAACTCCAAACCCAAAATAAC
1 AAACTTTAAACCCAAAAAAAC
*
100474412 AAACCTTAAACC
1 AAACTTTAAACC
100474424 ATAAACTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (21 bp):
AAACTTTAAACCCAAAAAAAC
Found at i:100474429 original size:28 final size:28
Alignment explanation
Indices: 100474398--100474456 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
100474388 AACAAACTCC
*
100474398 AAACCCAAAATAAC-AAACCTTAAACCAT
1 AAACCCAAAAT-ACTAAACATTAAACCAT
** *
100474426 AAACTTAAAATACTAAACATTAAACCCT
1 AAACCCAAAATACTAAACATTAAACCAT
100474454 AAA
1 AAA
100474457 TTATAAGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.19
Consensus pattern (28 bp):
AAACCCAAAATACTAAACATTAAACCAT
Found at i:100475047 original size:41 final size:40
Alignment explanation
Indices: 100474971--100475047 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 40
100474961 ACCTTTTGTT
* *
100474971 GCATTTGGATAAAAACGCCACAATTGCTCAGCTTTTAGCA
1 GCATTTGAATAAAAACGCCACAATTGCTCAACTTTTAGCA
* *
100475011 GCATTTGAAATAAAAGCGCCACTATTGAC-CAACTTTT
1 GCATTTG-AATAAAAACGCCACAATTG-CTCAACTTTT
100475048 TGTGGCGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
40 7 0.23
41 23 0.74
42 1 0.03
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (40 bp):
GCATTTGAATAAAAACGCCACAATTGCTCAACTTTTAGCA
Found at i:100475066 original size:41 final size:40
Alignment explanation
Indices: 100475021--100475140 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 40
100475011 GCATTTGAAA
* *
100475021 TAAAAGCGCCACTATTGACCAACTTTTTGTGGCGTTTGGGC
1 TAAAAACGCCACTATT-ACCAACTTTTTGCGGCGTTTGGGC
* ** * *
100475062 TAAAAACACCA-TAATTACTTAGTTTTTAGCGGCGTTTGGTC
1 TAAAAACGCCACT-ATTACCAACTTTTT-GCGGCGTTTGGGC
100475103 TAAAAACGCCACTATTACTCAACTTTTTGCGGCGTTTG
1 TAAAAACGCCACTATTAC-CAACTTTTTGCGGCGTTTG
100475141 CTAAATCATA
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
40 9 0.14
41 48 0.75
42 7 0.11
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (40 bp):
TAAAAACGCCACTATTACCAACTTTTTGCGGCGTTTGGGC
Found at i:100475113 original size:82 final size:82
Alignment explanation
Indices: 100474941--100475140 Score: 206
Period size: 82 Copynumber: 2.5 Consensus size: 82
100474931 TTTTGGATAA
* ** * * * * *
100474941 AAAAACGCCACTATAGTTCAACCTTTTGTTGCATTT-GGATAAAAACGCCACAATTGCTCAGCTT
1 AAAAACGCCACTATTGACCAACTTTTTGTGGCGTTTGGGATAAAAACACCACAATTACTCAGCTT
100475005 TTAGCAGCATTTGAAAT
66 TTAGCAGCATTTGAAAT
* * * * *
100475022 AAAAGCGCCACTATTGACCAACTTTTTGTGGCGTTTGGGCTAAAAACACCATAATTACTTAGTTT
1 AAAAACGCCACTATTGACCAACTTTTTGTGGCGTTTGGGATAAAAACACCACAATTACTCAGCTT
* * ***
100475087 TTAGCGGCGTTTGGTCT
66 TTAGCAGCATTTGAAAT
*
100475104 AAAAACGCCACTATT-ACTCAACTTTTTGCGGCGTTTG
1 AAAAACGCCACTATTGAC-CAACTTTTTGTGGCGTTTG
100475141 CTAAATCATA
Statistics
Matches: 97, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
81 31 0.32
82 66 0.68
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (82 bp):
AAAAACGCCACTATTGACCAACTTTTTGTGGCGTTTGGGATAAAAACACCACAATTACTCAGCTT
TTAGCAGCATTTGAAAT
Found at i:100483163 original size:18 final size:18
Alignment explanation
Indices: 100483137--100483171 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100483127 AAGTTAAAAA
* *
100483137 AATCTAGTTATTTGAGTT
1 AATCGAGTTATTCGAGTT
100483155 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
100483172 CAATTCGAAT
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:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:100483497 original size:19 final size:20
Alignment explanation
Indices: 100483467--100483507 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
100483457 CAAAAACTCT
*
100483467 CAAAACTTTTTATTTTCTCC
1 CAAAACTTTTTACTTTCTCC
100483487 CAAAA-TTTTTACTTTCTCC
1 CAAAACTTTTTACTTTCTCC
100483506 CA
1 CA
100483508 CTTTCCCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (20 bp):
CAAAACTTTTTACTTTCTCC
Found at i:100484601 original size:43 final size:41
Alignment explanation
Indices: 100484528--100484613 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 41
100484518 ATACATATCT
* * ** *
100484528 TTTATTTTATATATTAAAGACATCATTTTTTTTATTTCATAAA
1 TTTACTTTATATACTAAAGACAT-AAATTTTTAATTT-ATAAA
*
100484571 TTTACTTTATATACTAAAGAGATAAATTTTTAATTTATAAA
1 TTTACTTTATATACTAAAGACATAAATTTTTAATTTATAAA
100484612 TT
1 TT
100484614 AATTTTTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
41 7 0.19
42 10 0.27
43 20 0.54
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (41 bp):
TTTACTTTATATACTAAAGACATAAATTTTTAATTTATAAA
Found at i:100485413 original size:21 final size:20
Alignment explanation
Indices: 100485387--100485435 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
100485377 TAAAAATTAT
100485387 TATAATTTAAAAAATTTAAGA
1 TATAATTTAAAAAATTT-AGA
* * * *
100485408 TATAATATATAAACTTTATA
1 TATAATTTAAAAAATTTAGA
100485428 TATAATTT
1 TATAATTT
100485436 TTTAAAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TATAATTTAAAAAATTTAGA
Found at i:100485549 original size:42 final size:44
Alignment explanation
Indices: 100485495--100485590 Score: 151
Period size: 44 Copynumber: 2.2 Consensus size: 44
100485485 TTAATAAATT
*
100485495 ATAAAACTTACTTAATATTTCTAAAAA-A-ATGTAAAATGTGAAA
1 ATAAAA-TTACTTAATATTTCTAAAAATATATGTAAAATCTGAAA
*
100485538 ATAAAATTACTTAATATTTCTAAAAATATGTGTAAAATCTGAAA
1 ATAAAATTACTTAATATTTCTAAAAATATATGTAAAATCTGAAA
100485582 ATAAAATTA
1 ATAAAATTA
100485591 TAAAATTTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
42 20 0.41
43 7 0.14
44 22 0.45
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (44 bp):
ATAAAATTACTTAATATTTCTAAAAATATATGTAAAATCTGAAA
Found at i:100491550 original size:54 final size:55
Alignment explanation
Indices: 100491491--100491602 Score: 190
Period size: 54 Copynumber: 2.1 Consensus size: 55
100491481 TAAATTTCTT
* *
100491491 CTATTTTATCGTGATAATTACAAAACAAAGCTAATGAA-ATATACACACAACTAA
1 CTATTTTATCGTGATAATTACAAAACAAAACCAATGAATATATACACACAACTAA
*
100491545 CTATTTTATCGTGATAATTACAAAACAAAACCAATGAATATATACACACAACTGA
1 CTATTTTATCGTGATAATTACAAAACAAAACCAATGAATATATACACACAACTAA
100491600 CTA
1 CTA
100491603 CCTAATTGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.28
Consensus pattern (55 bp):
CTATTTTATCGTGATAATTACAAAACAAAACCAATGAATATATACACACAACTAA
Found at i:100494723 original size:53 final size:53
Alignment explanation
Indices: 100494661--100494766 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
100494651 TTAAGATAGC
*
100494661 CCTATAATTGTTGATTTATGGATATGATGTATAAATGTATGTAAACACCGTTG
1 CCTATAATTGTTGATTTATGGACATGATGTATAAATGTATGTAAACACCGTTG
*
100494714 CCTATAATTGTTGATTTATGGACATGATGTATAAATGTATGTAAACACTGTTG
1 CCTATAATTGTTGATTTATGGACATGATGTATAAATGTATGTAAACACCGTTG
100494767 ATGACTATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (53 bp):
CCTATAATTGTTGATTTATGGACATGATGTATAAATGTATGTAAACACCGTTG
Found at i:100496529 original size:41 final size:39
Alignment explanation
Indices: 100496420--100496532 Score: 122
Period size: 37 Copynumber: 2.9 Consensus size: 39
100496410 ATCAGATAAT
* ** *
100496420 TCGAAGTAATAAGTTGACACCCAGTGTCTTATCGGCTAAA
1 TCGAAGTAATAA-TTGACACCCAGTGTCTCATCGAATTAA
* * *
100496460 TCGAAGT-A-AATTGGCACCCAATGCCTCATCGAATTAA
1 TCGAAGTAATAATTGACACCCAGTGTCTCATCGAATTAA
100496497 TCCGAAGTAATAGATTGACACCCAGTGTCTCATCGA
1 T-CGAAGTAATA-ATTGACACCCAGTGTCTCATCGA
100496533 CTCGAAGTCA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
37 21 0.36
38 8 0.14
39 2 0.03
40 8 0.14
41 20 0.34
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (39 bp):
TCGAAGTAATAATTGACACCCAGTGTCTCATCGAATTAA
Found at i:100496664 original size:15 final size:15
Alignment explanation
Indices: 100496644--100496676 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
100496634 TGCCACAATC
100496644 ATCCAATATTCAAAT
1 ATCCAATATTCAAAT
100496659 ATCCAATATTCAAAT
1 ATCCAATATTCAAAT
100496674 ATC
1 ATC
100496677 ACATTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (15 bp):
ATCCAATATTCAAAT
Found at i:100509836 original size:19 final size:19
Alignment explanation
Indices: 100509812--100509849 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
100509802 CTCTGATAAT
* *
100509812 CTCAAAATGTTGAAACTGA
1 CTCAAAACGATGAAACTGA
100509831 CTCAAAACGATGAAACTGA
1 CTCAAAACGATGAAACTGA
100509850 GTCTAGGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (19 bp):
CTCAAAACGATGAAACTGA
Found at i:100513346 original size:12 final size:12
Alignment explanation
Indices: 100513331--100513355 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100513321 AAAATCAAGC
100513331 TATAAATATTTT
1 TATAAATATTTT
100513343 TATAAATATTTT
1 TATAAATATTTT
100513355 T
1 T
100513356 GAAGTTTCAG
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATAAATATTTT
Found at i:100514137 original size:53 final size:53
Alignment explanation
Indices: 100513981--100514146 Score: 212
Period size: 53 Copynumber: 3.1 Consensus size: 53
100513971 GACGAAAAAT
* **
100513981 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
100514033 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * * *
100514086 ATGTGATAATGTGATTCCGTATAAGGCCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
100514140 TATGTGA
1 -ATGTGA
100514147 ACAATGTAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 80 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:100522408 original size:24 final size:26
Alignment explanation
Indices: 100522358--100522409 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
100522348 ATCGATAAGA
*
100522358 ATTATAAGTTGAGAATAATTTATCTTG
1 ATTATAAGTTGAGAAT-ATTTAGCTTG
*
100522385 ATTATGAGTTGAGAAT-TTT-GCTTG
1 ATTATAAGTTGAGAATATTTAGCTTG
100522409 A
1 A
100522410 GGACAAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
25 3 0.13
27 15 0.65
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTATAAGTTGAGAATATTTAGCTTG
Found at i:100526925 original size:50 final size:49
Alignment explanation
Indices: 100526808--100527127 Score: 228
Period size: 46 Copynumber: 6.8 Consensus size: 49
100526798 TGGGGTAAGT
* *
100526808 TGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGA
* * * *
100526857 GGCCGATGCTATGTCCCAGACATGATCTTACACTAGCTCTCGCAT-ATCCG-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT--CATCAT-CGA
*
100526907 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAAC-A-CATC-TCG-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGA
* * * * *
100526952 TAGTCAATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACGTC-TCGA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CATCATCGA
* * ** **
100526999 AGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTTGTC-TTAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCATCGA
* * * *
100527045 TGTCGATGCCATGTCCC-GAACATGGTCTTACACTGGCTCTCATAAT-G-
1 TGCCGATGCCATGTCCCAG-ACATGGTCTTACACTAGCTATCATCATCGA
*
100527092 TGGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
100527128 CCACAATAAC
Statistics
Matches: 215, Mismatches: 38, Indels: 39
0.74 0.13 0.13
Matches are distributed among these distances:
44 11 0.05
45 16 0.07
46 67 0.31
47 26 0.12
48 20 0.09
49 35 0.16
50 35 0.16
51 5 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGA
Found at i:100526997 original size:99 final size:91
Alignment explanation
Indices: 100526808--100527127 Score: 255
Period size: 94 Copynumber: 3.4 Consensus size: 91
100526798 TGGGGTAAGT
* * *
100526808 TGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCG-AGGCCGATGCTATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-A-CATC-TCGTAGGTCGATGC-ATGTC
* * *
100526872 CCAGACATGATCTTACACTAGCTCTCGC-ATA
62 CCAAACATG-TCTTACACTGGCTCTCTCGA-A
* *
100526903 TCCGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTA-GTCAATGCATGTC
1 ----TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATCTCGTAGGTCGATGCATGTC
100526967 CCAAACATGTCTTACACTGGCTTACGTCTCGAA
62 CCAAACATGTCTTACACTGGC-T-C-TCTCGAA
* * * * *
100527000 -GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTTGTCTTAATGTCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATCTCGT-AGGTCGATG-CATGTCCC
*
100527062 GAACATGGTCTTACACTGGCTCTCAT--AA
64 AAACAT-GTCTTACACTGGCTCTC-TCGAA
*
100527090 TGTGGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 --T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
100527128 CCACAATAAC
Statistics
Matches: 192, Mismatches: 15, Indels: 33
0.80 0.06 0.14
Matches are distributed among these distances:
90 20 0.10
91 17 0.09
92 14 0.07
93 14 0.07
94 58 0.30
95 14 0.07
96 10 0.05
97 9 0.05
98 2 0.01
99 34 0.18
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (91 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATCTCGTAGGTCGATGCATGTCCCAA
ACATGTCTTACACTGGCTCTCTCGAA
Found at i:100527071 original size:138 final size:142
Alignment explanation
Indices: 100526817--100527078 Score: 342
Period size: 138 Copynumber: 1.9 Consensus size: 142
100526807 TTGCCGATGC
* * *
100526817 CATGTCCCAGATATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCTATGTCCCAGACATGA
1 CATGTCCCAAACATGGTCTTACACTGGCTATCATCATCGAAGCCGATGCTATGTCCCAGACATGA
*
100526882 TCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAACACA
66 TCTTACACTAGCACTCGCATAT-CGT-CCGATGCCATGTCCCAGACATGGTCTTACACTAACACA
100526947 TCTCGTAGTCAATG
129 TCTCGTAGTCAATG
* *
100526961 CATGTCCCAAACAT-GTCTTACACTGGCT-TACGTC-TCGAAGCTGATGC-ATGTCCCAGACATG
1 CATGTCCCAAACATGGTCTTACACTGGCTAT-CATCATCGAAGCCGATGCTATGTCCCAGACATG
* *
100527022 -TCTTACACTAGCACTTGTCTTAAT-GT-CGATGCCATGTCCC-GAACATGGTCTTACACT
65 ATCTTACACTAGCACTCG-CAT-ATCGTCCGATGCCATGTCCCAG-ACATGGTCTTACACT
100527079 GGCTCTCATA
Statistics
Matches: 106, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
137 1 0.01
138 29 0.27
140 17 0.16
141 16 0.15
142 14 0.13
143 17 0.16
144 12 0.11
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (142 bp):
CATGTCCCAAACATGGTCTTACACTGGCTATCATCATCGAAGCCGATGCTATGTCCCAGACATGA
TCTTACACTAGCACTCGCATATCGTCCGATGCCATGTCCCAGACATGGTCTTACACTAACACATC
TCGTAGTCAATG
Found at i:100527074 original size:94 final size:90
Alignment explanation
Indices: 100526911--100527127 Score: 258
Period size: 94 Copynumber: 2.3 Consensus size: 90
100526901 TATCCGTGCC
*
100526911 GATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAGTCAATGCATGTCCCAAACATG
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACATCTCGTAGTCAATGCATGTCCCAAACATG
* *
100526976 TCTTACACTGGCT-TACGT-CTCGAAGCT
64 TCTTACACTGGCTCT-CATAAT-GAAGCT
* * * * *
100527003 GATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTTAATGTCGATGCCATGTCCCGAACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGT-A-GTCAATG-CATGTCCCAAACAT
**
100527068 GGTCTTACACTGGCTCTCATAATGTGGCT
63 -GTCTTACACTGGCTCTCATAATGAAGCT
100527097 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
100527128 CCACAATAAC
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
90 18 0.17
91 15 0.14
92 10 0.09
93 13 0.12
94 51 0.47
95 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (90 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGTCAATGCATGTCCCAAACATGTC
TTACACTGGCTCTCATAATGAAGCT
Found at i:100527115 original size:140 final size:140
Alignment explanation
Indices: 100526811--100527124 Score: 331
Period size: 140 Copynumber: 2.2 Consensus size: 140
100526801 GGTAAGTTGC
* *
100526811 CGATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCTATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAAGCCGATGCTATGTCCCAG
*
100526876 ACATGATCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATGTCCCAGACATGGTCTTACACT
64 ACATGATCTTACACTAGCACTCGCATAT-CGT-CCGATGCCATGTCCCAGACATGGTCTTACACT
*
100526941 AACACATCTCGTAGT
127 -ACACATCTCATAGT
* * * *
100526956 CAATGCATGTCCCAAACATGTCTTACACTGGCT-TACGTC-TCGAAGCTGATGC-ATGTCCCAGA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTAT-CATCATCGAAGCCGATGCTATGTCCCAGA
* *
100527018 CATG-TCTTACACTAGCACTTGTCTTAAT-GT-CGATGCCATGTCCC-GAACATGGTCTTACACT
65 CATGATCTTACACTAGCACTCG-CAT-ATCGTCCGATGCCATGTCCCAG-ACATGGTCTTACACT
**
100527079 -GGC-TCTCATAATGT
127 ACACATCTCAT-A-GT
100527093 GGCTGATGCATGTCCCAGACATGTCTTACACT
1 --C-GATGCATGTCCCAGACATGTCTTACACT
100527125 AGCCCACAAT
Statistics
Matches: 146, Mismatches: 14, Indels: 23
0.80 0.08 0.13
Matches are distributed among these distances:
135 5 0.03
136 2 0.01
137 3 0.02
138 29 0.20
139 1 0.01
140 43 0.29
141 16 0.11
142 14 0.10
143 17 0.12
144 12 0.08
145 4 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (140 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAAGCCGATGCTATGTCCCAGAC
ATGATCTTACACTAGCACTCGCATATCGTCCGATGCCATGTCCCAGACATGGTCTTACACTACAC
ATCTCATAGT
Found at i:100528959 original size:33 final size:33
Alignment explanation
Indices: 100528922--100529019 Score: 88
Period size: 42 Copynumber: 2.7 Consensus size: 33
100528912 CTTCCCCTTA
100528922 ATAAAAGTTATTTTCAATCTAAGTTCCCCCTGT
1 ATAAAAGTTATTTTCAATCTAAGTTCCCCCTGT
100528955 ATAAAAATCATTTTCGTTATTTTCAATCTAAGTTCCCCCTGT
1 AT--AAA--A-----GTTATTTTCAATCTAAGTTCCCCCTGT
* * *
100528997 ATAAAAATCATTTTCAATTTAAG
1 ATAAAAGTTATTTTCAATCTAAG
100529020 GCATAAAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
33 16 0.30
35 3 0.06
37 1 0.02
38 1 0.02
40 3 0.06
42 29 0.55
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (33 bp):
ATAAAAGTTATTTTCAATCTAAGTTCCCCCTGT
Found at i:100528987 original size:42 final size:42
Alignment explanation
Indices: 100528928--100529011 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
100528918 CTTAATAAAA
100528928 GTTATTTTCAATCTAAGTTCCCCCTGTATAAAAATCATTTTC
1 GTTATTTTCAATCTAAGTTCCCCCTGTATAAAAATCATTTTC
100528970 GTTATTTTCAATCTAAGTTCCCCCTGTATAAAAATCATTTTC
1 GTTATTTTCAATCTAAGTTCCCCCTGTATAAAAATCATTTTC
100529012 AATTTAAGGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (42 bp):
GTTATTTTCAATCTAAGTTCCCCCTGTATAAAAATCATTTTC
Found at i:100535341 original size:30 final size:31
Alignment explanation
Indices: 100535298--100535356 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
100535288 TAAATTTTAG
*
100535298 TTTTTATACTTTTATA-TTTAAGAATTTAATC
1 TTTTTATACTTTTAGATTTTAA-AATTTAATC
100535329 TTTTTATA-TTTTAGATTTTAAAATTTAA
1 TTTTTATACTTTTAGATTTTAAAATTTAA
100535357 GTGGAACAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
TTTTTATACTTTTAGATTTTAAAATTTAATC
Found at i:100542399 original size:12 final size:12
Alignment explanation
Indices: 100542382--100542406 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100542372 TTTAAAAATC
100542382 GAATTTAAATTA
1 GAATTTAAATTA
100542394 GAATTTAAATTA
1 GAATTTAAATTA
100542406 G
1 G
100542407 TTACAGAGTT
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (12 bp):
GAATTTAAATTA
Found at i:100546878 original size:2 final size:2
Alignment explanation
Indices: 100546873--100546899 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
100546863 ATATATATAT
100546873 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
100546900 AAATATGCAT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:100547139 original size:17 final size:17
Alignment explanation
Indices: 100547108--100547164 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
100547098 TAACAGATTT
*
100547108 AAAATATAATATATAATA
1 AAAATAT-ATTTATAATA
*
100547126 AAAATATATTTATAAGA
1 AAAATATATTTATAATA
*
100547143 ATAATA-A-TTAT-ATA
1 AAAATATATTTATAATA
100547157 AAAATATA
1 AAAATATA
100547165 AAATATATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 7 0.21
15 5 0.15
16 1 0.03
17 13 0.39
18 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATATTTATAATA
Found at i:100547493 original size:47 final size:45
Alignment explanation
Indices: 100547441--100547553 Score: 115
Period size: 47 Copynumber: 2.4 Consensus size: 45
100547431 ATAAAGGTAT
* *
100547441 AAAATATAAAATAATTATAATTTATAATATGAAAGT-GTATATATGTA
1 AAAATATAAAATAA-TATAATTAATAATATGAAA-TAATATAT-TGTA
*
100547488 AAAATAATATATAATAA-ATAA-TAATAATATGAAATAATATATTGTT
1 AAAAT-ATA-A-AATAATATAATTAATAATATGAAATAATATATTGTA
*
100547534 AAAATGTAAAATAATATAAT
1 AAAATATAAAATAATATAAT
100547554 AGTATAAAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
43 5 0.09
44 5 0.09
45 2 0.04
46 9 0.16
47 22 0.39
48 7 0.12
49 1 0.02
50 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (45 bp):
AAAATATAAAATAATATAATTAATAATATGAAATAATATATTGTA
Found at i:100554475 original size:28 final size:27
Alignment explanation
Indices: 100554435--100554534 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
100554425 GCACGTCAAG
100554435 AAAA-GAATGCCTTTGTGGCAAAATTAT
1 AAAAGGAATGCCTTTGTGGCAAAA-TAT
* * *
100554462 AAAAGGAACGCCTTTGTGGCGAAGTAT
1 AAAAGGAATGCCTTTGTGGCAAAATAT
* * * * *
100554489 GAAAGAAATGCCTCTGTGGTACAATAT
1 AAAAGGAATGCCTTTGTGGCAAAATAT
* *
100554516 AAAATGAAAGCCTTTGTGG
1 AAAAGGAATGCCTTTGTGG
100554535 TGTAATATGT
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
27 40 0.71
28 16 0.29
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (27 bp):
AAAAGGAATGCCTTTGTGGCAAAATAT
Found at i:100554501 original size:27 final size:25
Alignment explanation
Indices: 100554435--100554556 Score: 84
Period size: 27 Copynumber: 4.6 Consensus size: 25
100554425 GCACGTCAAG
*
100554435 AAAAGAATGCCTTTGTGGCAAAATTAT
1 AAAAGAATGCCTTTGTGGC-GAA-TAT
*
100554462 AAAAGGAACGCCTTTGTGGCGAAGTAT
1 AAAA-GAATGCCTTTGTGGCGAA-TAT
* *
100554489 GAAAGAAATGCCTCTGTGGTAC-AATAT
1 AAAAG-AATGCCTTTGTGG--CGAATAT
* *
100554516 AAAATGAAAGCCTTTGTGGTGTAATAT
1 AAAA-GAATGCCTTTGTGGCG-AATAT
**
100554543 GTAAGAATGCCTTT
1 AAAAGAATGCCTTT
100554557 TTGGAAAACT
Statistics
Matches: 75, Mismatches: 13, Indels: 15
0.73 0.13 0.15
Matches are distributed among these distances:
26 10 0.13
27 47 0.63
28 17 0.23
29 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGAATGCCTTTGTGGCGAATAT
Found at i:100554549 original size:54 final size:54
Alignment explanation
Indices: 100554436--100554554 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 54
100554426 CACGTCAAGA
* *
100554436 AAAGAATGCCTTTGTGGCAAAATTATAAAAGGAACGCCTTTGTGGCGAAGTATG
1 AAAGAATGCCTCTGTGGCAAAATTATAAAAGGAAAGCCTTTGTGGCGAAGTATG
* * * *
100554490 AAAGAAATGCCTCTGTGGTACAA-TATAAAATGAAAGCCTTTGTGGTGTAA-TATG
1 AAAG-AATGCCTCTGTGGCAAAATTATAAAAGGAAAGCCTTTGTGGCG-AAGTATG
*
100554544 TAAGAATGCCT
1 AAAGAATGCCT
100554555 TTTTGGAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
53 7 0.12
54 32 0.57
55 17 0.30
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (54 bp):
AAAGAATGCCTCTGTGGCAAAATTATAAAAGGAAAGCCTTTGTGGCGAAGTATG
Found at i:100567738 original size:14 final size:13
Alignment explanation
Indices: 100567720--100567758 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
100567710 CAAAAGTAAA
100567720 AAATAAAAAAATT
1 AAATAAAAAAATT
*
100567733 AGAATATAAAAATT
1 A-AATAAAAAAATT
100567747 AAATTAAAAAAA
1 AAA-TAAAAAAA
100567759 ATATTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AAATAAAAAAATT
Found at i:100567756 original size:12 final size:13
Alignment explanation
Indices: 100567720--100567779 Score: 65
Period size: 12 Copynumber: 4.8 Consensus size: 13
100567710 CAAAAGTAAA
*
100567720 AAATAAAAAAATT
1 AAATATAAAAATT
100567733 AGAATATAAAAATT
1 A-AATATAAAAATT
100567747 AAAT-TAAAAA--
1 AAATATAAAAATT
*
100567757 AAATATTAAAATT
1 AAATATAAAAATT
100567770 AAA-ATAAAAA
1 AAATATAAAAA
100567780 CGACTAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 4 0.10
11 5 0.12
12 12 0.30
13 7 0.17
14 12 0.30
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (13 bp):
AAATATAAAAATT
Found at i:100567761 original size:23 final size:23
Alignment explanation
Indices: 100567735--100567779 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
100567725 AAAAAATTAG
*
100567735 AATATAAAAATTAAATTAAAAAA
1 AATATAAAAATTAAAATAAAAAA
*
100567758 AATATTAAAATTAAAATAAAAA
1 AATATAAAAATTAAAATAAAAA
100567780 CGACTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
AATATAAAAATTAAAATAAAAAA
Found at i:100572582 original size:43 final size:42
Alignment explanation
Indices: 100572502--100572743 Score: 132
Period size: 43 Copynumber: 5.7 Consensus size: 42
100572492 ATTTATGTGA
* * ** *
100572502 AAAAAGCCGCTATAGAACATGACCTTTAGCGGCGCTTCTCTTG
1 AAAACGCCGCTA-AAAACATGACCTTTAGCAACGCTTCTCCTG
* * *
100572545 CAAACGCCGTTAAAAGACATGACCTTTAGCAATGCTTCTCCTG
1 AAAACGCCGCTAAAA-ACATGACCTTTAGCAACGCTTCTCCTG
* ** * *
100572588 AAAATGCCGCTAAAAAGCATGACCTTTAGTGACACTTCTAC--
1 AAAACGCCGCTAAAAA-CATGACCTTTAGCAACGCTTCTCCTG
* * * * * *
100572629 -AAATGCCACTAAAAATCATAACATTTAGCGACGCTTCTCC-C
1 AAAACGCCGCTAAAAA-CATGACCTTTAGCAACGCTTCTCCTG
* * * *** *
100572670 ACAATCGCCGTTAAATAGCATGACCTTTAGCAATTTTTCTCCTC
1 A-AAACGCCGCTAAA-AACATGACCTTTAGCAACGCTTCTCCTG
* * *
100572714 AAAATGCCACTAAAGAACATAACCTTTAGC
1 AAAACGCCGCTAAA-AACATGACCTTTAGC
100572744 GGCACTTCTT
Statistics
Matches: 151, Mismatches: 41, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
40 33 0.22
42 3 0.02
43 112 0.74
44 3 0.02
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (42 bp):
AAAACGCCGCTAAAAACATGACCTTTAGCAACGCTTCTCCTG
Found at i:100572656 original size:40 final size:40
Alignment explanation
Indices: 100572589--100572666 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
100572579 CTTCTCCTGA
* * * *
100572589 AAATGCCGCTAAAAAGCATGACCTTTAGTGACACTTCTAC
1 AAATGCCACTAAAAAGCATAACATTTAGCGACACTTCTAC
* *
100572629 AAATGCCACTAAAAATCATAACATTTAGCGACGCTTCT
1 AAATGCCACTAAAAAGCATAACATTTAGCGACACTTCT
100572667 CCCACAATCG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (40 bp):
AAATGCCACTAAAAAGCATAACATTTAGCGACACTTCTAC
Found at i:100572751 original size:126 final size:126
Alignment explanation
Indices: 100572526--100572752 Score: 314
Period size: 126 Copynumber: 1.8 Consensus size: 126
100572516 GAACATGACC
* *** *
100572526 TTTAGCGGCGCTTCTCTTGCAAACGCCGTTAAAAGACATGACCTTTAGCAATGCTTCTCCTGAAA
1 TTTAGCGACGCTTCTCCCACAAACGCCGTTAAAAGACATGACCTTTAGCAATGCTTCTCCTCAAA
* * *
100572591 ATGCCGCTAAAAAGCATGACCTTTAGTGACACTTCTACAAATGCCACTAAAAATCATAACA
66 ATGCCACTAAAAAGCATAACCTTTAGCGACACTTCTACAAATGCCACTAAAAATCATAACA
* **
100572652 TTTAGCGACGCTTCTCCCACAATCGCCGTTAAATAG-CATGACCTTTAGCAATTTTTCTCCTCAA
1 TTTAGCGACGCTTCTCCCACAAACGCCGTTAAA-AGACATGACCTTTAGCAATGCTTCTCCTCAA
*
100572716 AATGCCACTAAAGAA-CATAACCTTTAGCGGCACTTCT
65 AATGCCACTAAA-AAGCATAACCTTTAGCGACACTTCT
100572753 TATACAAACG
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
126 83 0.95
127 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (126 bp):
TTTAGCGACGCTTCTCCCACAAACGCCGTTAAAAGACATGACCTTTAGCAATGCTTCTCCTCAAA
ATGCCACTAAAAAGCATAACCTTTAGCGACACTTCTACAAATGCCACTAAAAATCATAACA
Found at i:100575599 original size:16 final size:16
Alignment explanation
Indices: 100575578--100575608 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100575568 TGAGATTATC
100575578 ATTTTTTGAAATTTTT
1 ATTTTTTGAAATTTTT
*
100575594 ATTTTTTTAAATTTT
1 ATTTTTTGAAATTTT
100575609 GAATATTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTTTGAAATTTTT
Found at i:100576771 original size:28 final size:28
Alignment explanation
Indices: 100576713--100576772 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
100576703 AATAAACCCC
* **
100576713 AAACTCTAAACTCTAAACCATAAATCCT
1 AAACTCAAAACTCTAAACCATAAATAAT
*
100576741 AAACTCAAAACTCTAATCACA-AAATAAT
1 AAACTCAAAACTCTAAAC-CATAAATAAT
100576769 AAAC
1 AAAC
100576773 ATTATATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (28 bp):
AAACTCAAAACTCTAAACCATAAATAAT
Found at i:100576826 original size:21 final size:22
Alignment explanation
Indices: 100576778--100576844 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 22
100576768 TAAACATTAT
** * *
100576778 ATCATAAACCCTAAAACCCAAA
1 ATCATAAACATTAAATCCTAAA
* * *
100576800 ACCATAGACATTAAA-CCTTAA
1 ATCATAAACATTAAATCCTAAA
*
100576821 ATCATAAACCTTAAATCCTAAA
1 ATCATAAACATTAAATCCTAAA
100576843 AT
1 AT
100576845 AAAATATTTT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.51, C:0.25, G:0.01, T:0.22
Consensus pattern (22 bp):
ATCATAAACATTAAATCCTAAA
Found at i:100576828 original size:14 final size:14
Alignment explanation
Indices: 100576811--100576842 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
100576801 CCATAGACAT
100576811 TAAACCTTAAATCA
1 TAAACCTTAAATCA
*
100576825 TAAACCTTAAATCC
1 TAAACCTTAAATCA
100576839 TAAA
1 TAAA
100576843 ATAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAACCTTAAATCA
Found at i:100576995 original size:40 final size:40
Alignment explanation
Indices: 100576951--100577065 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
100576941 AAAAGCGCAG
100576951 CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAACGACA
1 CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAACGACA
* * * * * * *
100576991 CTAATTCTCGATCTATTGCAGCATTTTCCTAAAAGCGCCA
1 CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAACGACA
* *
100577031 CTAATGCTCAATCTTTAGCGGCATTTTTCAAAAAA
1 CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAA
100577066 GTGCCGCTAG
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (40 bp):
CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAACGACA
Found at i:100583469 original size:18 final size:18
Alignment explanation
Indices: 100583415--100583487 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
100583405 CAATCCCAAC
100583415 TACTGTATACGTGAAC-AG
1 TACTGTATACGTG-ACTAG
* * *
100583433 TACTATATACGTAAATAG
1 TACTGTATACGTGACTAG
*
100583451 TACTGTATACATGACTAG
1 TACTGTATACGTGACTAG
* * *
100583469 TGCCGTATACGTGAATAG
1 TACTGTATACGTGACTAG
100583487 T
1 T
100583488 GTCGTAAATG
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
17 1 0.02
18 42 0.98
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (18 bp):
TACTGTATACGTGACTAG
Found at i:100583493 original size:18 final size:18
Alignment explanation
Indices: 100583455--100583493 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
100583445 AAATAGTACT
*
100583455 GTATACATGACTAGTGCC
1 GTATACATGAATAGTGCC
* *
100583473 GTATACGTGAATAGTGTC
1 GTATACATGAATAGTGCC
100583491 GTA
1 GTA
100583494 AATGGTCGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (18 bp):
GTATACATGAATAGTGCC
Found at i:100585970 original size:3 final size:3
Alignment explanation
Indices: 100585962--100586016 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
100585952 TTAACTCCAA
100585962 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
100586010 AAT AAT A
1 AAT AAT A
100586017 CCAGGCAGGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:100588455 original size:20 final size:20
Alignment explanation
Indices: 100588419--100588456 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
100588409 GATTTTTGGG
*
100588419 AAAATTAATTTTGATCAAGT
1 AAAATTAATTTTAATCAAGT
100588439 AAAATTTAA-TTTAATCAA
1 AAAA-TTAATTTTAATCAA
100588457 TTTAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (20 bp):
AAAATTAATTTTAATCAAGT
Found at i:100588969 original size:31 final size:31
Alignment explanation
Indices: 100588920--100589051 Score: 144
Period size: 31 Copynumber: 4.3 Consensus size: 31
100588910 TTAATAAATT
* *
100588920 TAATATTTAATTTAATTTAATTTTTATCTAGA
1 TAATATTTTA-TTAATTTAATATTTATCTAGA
* * *
100588952 TAGTATTTTATTAATTTAATATTAATAT-GA
1 TAATATTTTATTAATTTAATATTTATCTAGA
**
100588982 -AATATTAAATTTAATTTAATATTTATCTAGA
1 TAATATTTTA-TTAATTTAATATTTATCTAGA
*
100589013 TAATATTTTATTAATTTAATATTTATGT-GA
1 TAATATTTTATTAATTTAATATTTATCTAGA
100589043 TTAATATTT
1 -TAATATTT
100589052 AACTAGATAA
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
29 6 0.07
30 20 0.24
31 42 0.51
32 15 0.18
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (31 bp):
TAATATTTTATTAATTTAATATTTATCTAGA
Found at i:100588994 original size:61 final size:61
Alignment explanation
Indices: 100588921--100589035 Score: 203
Period size: 61 Copynumber: 1.9 Consensus size: 61
100588911 TAATAAATTT
* * *
100588921 AATATTTAATTTAATTTAATTTTTATCTAGATAGTATTTTATTAATTTAATATTAATATGA
1 AATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGA
100588982 AATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATT
1 AATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATT
100589036 TATGTGATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (61 bp):
AATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGA
Found at i:100589018 original size:15 final size:16
Alignment explanation
Indices: 100588997--100589066 Score: 69
Period size: 15 Copynumber: 4.6 Consensus size: 16
100588987 TAAATTTAAT
100588997 TTAATATTTATCTAGA
1 TTAATATTTATCTAGA
100589013 -TAATATTTTAT-TA-A
1 TTAATA-TTTATCTAGA
*
100589027 TTTAATATTTATGT-GA
1 -TTAATATTTATCTAGA
*
100589043 TTAATATTTAACTAGA
1 TTAATATTTATCTAGA
100589059 -TAATATTT
1 TTAATATTT
100589067 TATTAATTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
14 1 0.02
15 31 0.67
16 14 0.30
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TTAATATTTATCTAGA
Found at i:100598292 original size:35 final size:35
Alignment explanation
Indices: 100598248--100598414 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
100598238 TCCTCATTGA
* *
100598248 AATACCATACCTACATTTTTCAACTCGGTATGAGA-
1 AATACCATACCTACATTTTACAACTCAGTATG-GAT
* * *
100598283 AATGCCATACCTACATTTCT-TAACTCGGTATGGATTTGAT
1 AATACCATACCTACATTT-TACAACTCAGTAT-G----GAT
* *
100598323 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTTACAACTCAGTATGGAT
*
100598358 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTTACAACTCAGTATGGAT
**
100598393 GCTACCATACCTACATTTTACA
1 AATACCATACCTACATTTTACA
100598415 CTTTTCCATG
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
35 83 0.73
36 2 0.02
39 3 0.03
40 25 0.22
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTTACAACTCAGTATGGAT
Found at i:100598331 original size:75 final size:74
Alignment explanation
Indices: 100598244--100598392 Score: 201
Period size: 75 Copynumber: 2.0 Consensus size: 74
100598234 GTTTTCCTCA
** * * **
100598244 TTGAAATACCATACCTACATTTTTCAACTCGGTATGAGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCAGTATG-GATAATACCATACCTACATTTCACAACT
*
100598308 CGGTATGGAT
65 CAGTATGGAT
*
100598318 TTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
100598383 CAGTATGGAT
65 CAGTATGGAT
100598393 GCTACCATAC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
74 6 0.09
75 59 0.91
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTC
AGTATGGAT
Found at i:100605786 original size:35 final size:36
Alignment explanation
Indices: 100605742--100605908 Score: 196
Period size: 35 Copynumber: 4.6 Consensus size: 36
100605732 TCCTCATTGA
** *
100605742 AATACCATACCTACATTTTTCAACTCGGTATGAGA-
1 AATACCATACCTACATTTCACAACTCAGTATGAGAT
* * **
100605777 AATGCCATACCTATATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-GA---GAT
*
100605817 AATACCATACCTACATTTCACAGCTCAGTATGA-AT
1 AATACCATACCTACATTTCACAACTCAGTATGAGAT
100605852 AATACCATACCTACATTTCACAACTCAGTATG-GAT
1 AATACCATACCTACATTTCACAACTCAGTATGAGAT
*
100605887 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
100605909 CTTTGCCATG
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
35 82 0.72
36 2 0.02
39 4 0.04
40 26 0.23
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.32
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGAGAT
Found at i:100605825 original size:75 final size:73
Alignment explanation
Indices: 100605737--100605908 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
100605727 GGTTTTCCTC
** * * * **
100605737 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGAGA-AATGCCATACCTATATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTATGA-ATAATACCATACCTACATTTCACAAC
100605801 TCAGTATGG
65 TCAGTATGG
*
100605810 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGAATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGAATAATACCATACCTACATTTCACAA
100605875 CTCAGTATGG
64 CTCAGTATGG
100605885 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
100605909 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 5 0.06
75 59 0.67
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGAATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:100608848 original size:11 final size:11
Alignment explanation
Indices: 100608832--100608861 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
100608822 GCAAAATTGT
100608832 AATTAAAGCAA
1 AATTAAAGCAA
*
100608843 AATTAAAACAA
1 AATTAAAGCAA
100608854 AATTAAAG
1 AATTAAAG
100608862 GAAGAAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (11 bp):
AATTAAAGCAA
Found at i:100609719 original size:40 final size:40
Alignment explanation
Indices: 100609617--100609768 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 40
100609607 ATTGTATGAT
* * *
100609617 TGCAAATACGTGCCTCTATTTGTACTTTGGTACCCCTGAA
1 TGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAAA
***
100609657 TGCACATACGTGCTGTTATTTGTACTTTGGTACCCCTAAA
1 TGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAAA
* * * * **
100609697 TGCACATAAGTGCCCCTGTTTGTACTTCGATACCTTTGAAA
1 TGCACATACGTGCCCCTATTTGTACTTTGGTACCCCT-AAA
* * * *
100609738 -GCACATACGAGCCCCTGTTTATACTCTGGTA
1 TGCACATACGTGCCCCTATTTGTACTTTGGTA
100609769 ACTTTGAATC
Statistics
Matches: 91, Mismatches: 20, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
40 88 0.97
41 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (40 bp):
TGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAAA
Found at i:100609774 original size:40 final size:40
Alignment explanation
Indices: 100609698--100609776 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
100609688 ACCCCTAAAT
* * *
100609698 GCACATAAGTGCCCCTGTTTGTACTTCGATACCTTTGAAA
1 GCACATAAGAGCCCCTGTTTATACTTCGATAACTTTGAAA
* *
100609738 GCACATACGAGCCCCTGTTTATAC-TCTGGTAACTTTGAA
1 GCACATAAGAGCCCCTGTTTATACTTC-GATAACTTTGAA
100609777 TCAAATAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (40 bp):
GCACATAAGAGCCCCTGTTTATACTTCGATAACTTTGAAA
Found at i:100620551 original size:19 final size:20
Alignment explanation
Indices: 100620501--100620551 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
100620491 GTTAAGTGAG
100620501 AGGTTAATTAGATCTTAATTA
1 AGGTTAATTAGA-CTTAATTA
*
100620522 A-GTAAATTTAG-CTTAATTA
1 AGGTTAA-TTAGACTTAATTA
100620541 AGGTTAATTAG
1 AGGTTAATTAG
100620552 GTATAAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 13 0.50
20 8 0.31
21 5 0.19
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (20 bp):
AGGTTAATTAGACTTAATTA
Found at i:100620757 original size:17 final size:18
Alignment explanation
Indices: 100620716--100620758 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
100620706 TGTATTTACT
100620716 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
100620734 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
100620751 TATTATAT
1 TATTATAT
100620759 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:100620885 original size:6 final size:6
Alignment explanation
Indices: 100620857--100620896 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
100620847 AACATCAGAG
*
100620857 AAAGAA AGAAGGAA AAAGGA AAAGAA AAAGAA AAAGAA AA
1 AAAGAA A-AA-GAA AAAGAA AAAGAA AAAGAA AAAGAA AA
100620897 TTTAGGGTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 22 0.73
7 4 0.13
8 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:100627641 original size:19 final size:20
Alignment explanation
Indices: 100627591--100627641 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
100627581 GTTAAGTGAG
*
100627591 AGGTTAATTAGATTTTAATTA
1 AGGTTAATTAGA-CTTAATTA
*
100627612 A-GTAAATTTAG-CTTAATTA
1 AGGTTAA-TTAGACTTAATTA
100627631 AGGTTAATTAG
1 AGGTTAATTAG
100627642 GTATAAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 12 0.48
20 8 0.32
21 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (20 bp):
AGGTTAATTAGACTTAATTA
Found at i:100631142 original size:27 final size:26
Alignment explanation
Indices: 100631111--100631190 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 26
100631101 ATTGACAGTA
100631111 TTAATATATTTTATTTAGTCATTAATT
1 TTAATATATTTTATTTAGT-ATTAATT
*
100631138 TTAATAGTTTTTTAATTTAGT-TTACATT
1 TTAATA-TATTTT-ATTTAGTATTA-ATT
*
100631166 TT-ATATGATTTT-TTTAATTATTAAT
1 TTAATAT-ATTTTATTT-AGTATTAAT
100631191 GTCTTTGTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
25 3 0.07
26 5 0.11
27 19 0.43
28 10 0.23
29 7 0.16
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (26 bp):
TTAATATATTTTATTTAGTATTAATT
Found at i:100632696 original size:28 final size:29
Alignment explanation
Indices: 100632644--100632713 Score: 99
Period size: 28 Copynumber: 2.4 Consensus size: 29
100632634 AGGTTCCATG
100632644 TTATTTTGATAAATAATTTATATTTTATA
1 TTATTTTGATAAATAATTTATATTTTATA
*
100632673 TTATTTCTGA-AATTAATTT-TATTTTATA
1 TTATTT-TGATAAATAATTTATATTTTATA
*
100632701 TTATTTTCATAAA
1 TTATTTTGATAAA
100632714 AAAACCTCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.06
28 17 0.47
29 14 0.39
30 3 0.08
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (29 bp):
TTATTTTGATAAATAATTTATATTTTATA
Found at i:100635089 original size:57 final size:57
Alignment explanation
Indices: 100635001--100635116 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
100634991 TTTCTTTTAT
*
100635001 TATTATAATGCACGAATGGTGATGTATTAGAGAATAACTGGAGTGAGGACATCCATC
1 TATTATAATGCACGAATGGTGATGTATTAGAGAATAACTGGAGTAAGGACATCCATC
*
100635058 TATTATAATGCACGAATGGTGATGTATTAGAGAATAGCTGGAGTAAGGACATCCATC
1 TATTATAATGCACGAATGGTGATGTATTAGAGAATAACTGGAGTAAGGACATCCATC
100635115 TA
1 TA
100635117 CAAAGTTGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (57 bp):
TATTATAATGCACGAATGGTGATGTATTAGAGAATAACTGGAGTAAGGACATCCATC
Found at i:100636879 original size:20 final size:20
Alignment explanation
Indices: 100636854--100636892 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
100636844 AGGGATGAAA
* *
100636854 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
100636874 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
100636893 TATAAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:100649583 original size:26 final size:24
Alignment explanation
Indices: 100649541--100649589 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
100649531 ACACACCTTA
100649541 GCTCTTATGAGCATCCCGATTAAAG
1 GCTCTTATGAGCATCCC-ATTAAAG
**
100649566 GCTCTTCATGAGTTTCCCATTAAA
1 GCTCTT-ATGAGCATCCCATTAAA
100649590 TTGGCTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (24 bp):
GCTCTTATGAGCATCCCATTAAAG
Found at i:100650014 original size:51 final size:51
Alignment explanation
Indices: 100649954--100650054 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
100649944 ATATGAGTAT
100649954 GATGATACATGATATATGAAAGTATGAGATGGTGATATATGAACATGGAAG
1 GATGATACATGATATATGAAAGTATGAGATGGTGATATATGAACATGGAAG
*
100650005 GATGATACATGATATATGGAAGTATGAGATGGTGATATATGAACATGGAA
1 GATGATACATGATATATGAAAGTATGAGATGGTGATATATGAACATGGAA
100650055 CTTGTTTGAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.41, C:0.04, G:0.28, T:0.28
Consensus pattern (51 bp):
GATGATACATGATATATGAAAGTATGAGATGGTGATATATGAACATGGAAG
Found at i:100651548 original size:26 final size:26
Alignment explanation
Indices: 100651519--100651569 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
100651509 GATTTGGGCT
100651519 TCGAGGGCTAATGTAAGGGACTATGC
1 TCGAGGGCTAATGTAAGGGACTATGC
*
100651545 TCGAGGGCTCATGTAAGGGACTATG
1 TCGAGGGCTAATGTAAGGGACTATG
100651570 TGGTGAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (26 bp):
TCGAGGGCTAATGTAAGGGACTATGC
Found at i:100658546 original size:23 final size:24
Alignment explanation
Indices: 100658516--100658571 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
100658506 AGCTCAGATA
* *
100658516 AGCTTCCCGATA-GACTCTTTATG
1 AGCTTCCCGAAATGACTCTGTATG
* *
100658539 AGCTTCCCGAAATGGCTCTGTGTG
1 AGCTTCCCGAAATGACTCTGTATG
100658563 AGCTTCCCG
1 AGCTTCCCG
100658572 TTACAAGGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCTTCCCGAAATGACTCTGTATG
Found at i:100660492 original size:23 final size:23
Alignment explanation
Indices: 100660466--100660598 Score: 115
Period size: 23 Copynumber: 5.8 Consensus size: 23
100660456 TCTCACACTA
* *
100660466 GCCAAATAGAATATGCCACAAAG
1 GCCAAACAGAATACGCCACAAAG
** * *
100660489 GCCAAATGGATTACGCCATAAAG
1 GCCAAACAGAATACGCCACAAAG
* * *
100660512 GCCAAACAAAATATGCCACAAAT
1 GCCAAACAGAATACGCCACAAAG
** * *
100660535 GCCAAACCTAATACACCGCAAAG
1 GCCAAACAGAATACGCCACAAAG
100660558 GCCAAACA-AATTACGCCACAAAG
1 GCCAAACAGAA-TACGCCACAAAG
* *
100660581 GCCAACCAGAATGCGCCA
1 GCCAAACAGAATACGCCA
100660599 TGGATTTGCC
Statistics
Matches: 86, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
22 2 0.02
23 82 0.95
24 2 0.02
ACGTcount: A:0.44, C:0.29, G:0.16, T:0.11
Consensus pattern (23 bp):
GCCAAACAGAATACGCCACAAAG
Found at i:100667727 original size:37 final size:38
Alignment explanation
Indices: 100667685--100667761 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 38
100667675 AATATAATAA
100667685 AACAAAAG-AAAAAAAATGTTATCACCTATTCACTTAT
1 AACAAAAGAAAAAAAAATGTTATCACCTATTCACTTAT
100667722 AACAAAAGAACAAAAAAAATGTTATCACCTATTCACTTAT
1 AACAAAAG-A-AAAAAAAATGTTATCACCTATTCACTTAT
100667762 CTTCTTCCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
37 8 0.22
40 29 0.78
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (38 bp):
AACAAAAGAAAAAAAAATGTTATCACCTATTCACTTAT
Found at i:100672567 original size:98 final size:98
Alignment explanation
Indices: 100672398--100672595 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 98
100672388 ATCACATGGG
*
100672398 GCTCCGAATCCGACCCATAAAACACCCCCCGTTCTGATATCCAGTTTTCTGCCCCTTCCAGAAAT
1 GCTCCGAATCCGACCCATAAAACACCCCCCGTACTGATATCCAGTTTTCTGCCCCTTCCAGAAAT
100672463 GCTTCGCCCAAGTCCTTAACTCTGTTCCCGATA
66 GCTTCGCCCAAGTCCTTAACTCTGTTCCCGATA
100672496 GCTCCGAATCCGACCCATAAAACACCCCCCGTACTGATATCCAGTTTTCTGCCCCTTCCAGAAAT
1 GCTCCGAATCCGACCCATAAAACACCCCCCGTACTGATATCCAGTTTTCTGCCCCTTCCAGAAAT
100672561 GCTTCGCCCAAGTCCTTAACTCTGTTCCCGATA
66 GCTTCGCCCAAGTCCTTAACTCTGTTCCCGATA
100672594 GC
1 GC
100672596 ATCTGCTGCA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.23, C:0.38, G:0.14, T:0.26
Consensus pattern (98 bp):
GCTCCGAATCCGACCCATAAAACACCCCCCGTACTGATATCCAGTTTTCTGCCCCTTCCAGAAAT
GCTTCGCCCAAGTCCTTAACTCTGTTCCCGATA
Found at i:100675176 original size:22 final size:21
Alignment explanation
Indices: 100675149--100675193 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
100675139 ACAAATAAAT
100675149 AAAAGGAAAGAAAGGAAAAGAA
1 AAAAGGAAAGAAA-GAAAAGAA
*
100675171 AAAAGGAAAGAAAGAAAGGAA
1 AAAAGGAAAGAAAGAAAAGAA
100675192 AA
1 AA
100675194 GAACATAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
AAAAGGAAAGAAAGAAAAGAA
Found at i:100675184 original size:26 final size:27
Alignment explanation
Indices: 100675154--100675219 Score: 102
Period size: 26 Copynumber: 2.5 Consensus size: 27
100675144 TAAATAAAAG
100675154 GAAAGAAAGGAAAAGAA-A-AAAGGAAA
1 GAAAGAAAGGAAAAGAACATAAAGG-AA
100675180 GAAAGAAAGGAAAAGAACATAAAGGAA
1 GAAAGAAAGGAAAAGAACATAAAGGAA
100675207 -AAAGAAAGGAAAA
1 GAAAGAAAGGAAAA
100675220 TTTTCTCATG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 30 0.79
27 3 0.08
28 5 0.13
ACGTcount: A:0.71, C:0.02, G:0.26, T:0.02
Consensus pattern (27 bp):
GAAAGAAAGGAAAAGAACATAAAGGAA
Found at i:100676502 original size:27 final size:28
Alignment explanation
Indices: 100676438--100676506 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 28
100676428 GAATATCCAA
*
100676438 CCCAAACACACCCGGAATATTATAAATCCT
1 CCCAAACACA-CCGG-ATATAATAAATCCT
*
100676468 -CCATAACACACCGG-TATAATATATCCT
1 CCCA-AACACACCGGATATAATAAATCCT
100676495 CCCAAACACACC
1 CCCAAACACACC
100676507 AATAAGGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 19 0.54
28 3 0.09
29 7 0.20
30 6 0.17
ACGTcount: A:0.39, C:0.36, G:0.06, T:0.19
Consensus pattern (28 bp):
CCCAAACACACCGGATATAATAAATCCT
Found at i:100677572 original size:12 final size:12
Alignment explanation
Indices: 100677557--100677587 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
100677547 TTCTCTTTTA
100677557 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
100677569 TTTTTCTTTCTC
1 TTTTTCTTTCCC
100677581 TTTTTCT
1 TTTTTCT
100677588 CCCCTGCTTC
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:100677688 original size:16 final size:16
Alignment explanation
Indices: 100677667--100677697 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100677657 TTTATTATTT
100677667 TATTAACATAATATAA
1 TATTAACATAATATAA
*
100677683 TATTAATATAATATA
1 TATTAACATAATATA
100677698 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:100682897 original size:27 final size:27
Alignment explanation
Indices: 100682834--100682903 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
100682824 TATATGTGTT
* * * *
100682834 TTGGCGAACTATGGTCGCAGTTATGCT
1 TTGGCGAACTAAGTTCGCAGATATGCC
* * *
100682861 TTTGCAAACTAAGTTCGTAGATATGCC
1 TTGGCGAACTAAGTTCGCAGATATGCC
*
100682888 TTGGCGAACTACGTTC
1 TTGGCGAACTAAGTTC
100682904 ACAGTTGTGT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (27 bp):
TTGGCGAACTAAGTTCGCAGATATGCC
Found at i:100686794 original size:50 final size:52
Alignment explanation
Indices: 100686696--100686813 Score: 186
Period size: 50 Copynumber: 2.3 Consensus size: 52
100686686 ATGAACAAAT
* *
100686696 GAGTTACTTAATGCATAACTTAATTTCATAATGCAAACTTTAACTAACATGA
1 GAGTTACATAATGCATAACATAATTTCATAATGCAAACTTTAACTAACATGA
* *
100686748 GAGTTACATAATGCATATCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATAACATAATTTCATAATGCAAACTTTAACTAACATGA
100686798 GAGTTACATAATGCAT
1 GAGTTACATAATGCAT
100686814 GACTTTATTA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 29 0.47
51 10 0.16
52 23 0.37
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATAACATAATTTCATAATGCAAACTTTAACTAACATGA
Found at i:100688555 original size:29 final size:31
Alignment explanation
Indices: 100688507--100688570 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
100688497 TTTATAATTA
*
100688507 TTTAATTAGATGATTATTATT-TATTTAATAT
1 TTTAATAAGATGATTATTATTAT-TTTAATAT
*
100688538 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATGATTATTATTATTTTAATAT
100688567 TTTA
1 TTTA
100688571 TTTAGTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATGATTATTATTATTTTAATAT
Found at i:100688559 original size:8 final size:8
Alignment explanation
Indices: 100688548--100688572 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
100688538 TTTAATAAGA
100688548 TATTTTAT
1 TATTTTAT
100688556 TATTTTAT
1 TATTTTAT
100688564 TATTTTAT
1 TATTTTAT
100688572 T
1 T
100688573 TAGTCAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:100688589 original size:2 final size:2
Alignment explanation
Indices: 100688582--100688613 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
100688572 TTAGTCAATA
*
100688582 TG TG TG TG TG TG TC TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
100688614 GAAAAGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:100691275 original size:46 final size:46
Alignment explanation
Indices: 100691225--100691400 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
100691215 TGATTGAGCA
100691225 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
100691271 TCCGAACTCGTTGAGTGGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
100691316 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
100691364 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100691401 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:100691385 original size:93 final size:93
Alignment explanation
Indices: 100691222--100691393 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
100691212 GGATGATTGA
*
100691222 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
100691287 GGAGTCCGAGTTCGTGAGATGTAACTAG
66 GGAGTCCGAGTTCGTGAGATGTAACTAG
*
100691315 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
100691379 TTGAGTCCGAGTTCG
65 TGGAGTCCGAGTTCG
100691394 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
GGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:100693782 original size:19 final size:19
Alignment explanation
Indices: 100693760--100693804 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
100693750 CTGTTTTGTT
*
100693760 ATGGGCTAACTGTATTGAA
1 ATGGGCCAACTGTATTGAA
* *
100693779 ATGGGCCCAACTGTGTTGAT
1 ATGGG-CCAACTGTATTGAA
100693799 ATGGGC
1 ATGGGC
100693805 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (19 bp):
ATGGGCCAACTGTATTGAA
Found at i:100693792 original size:20 final size:20
Alignment explanation
Indices: 100693767--100693804 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
100693757 GTTATGGGCT
100693767 AACTGTATTGAAATGGGCCC
1 AACTGTATTGAAATGGGCCC
* *
100693787 AACTGTGTTGATATGGGC
1 AACTGTATTGAAATGGGC
100693805 AAGGCCCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
AACTGTATTGAAATGGGCCC
Found at i:100693860 original size:59 final size:59
Alignment explanation
Indices: 100693794--100693932 Score: 149
Period size: 60 Copynumber: 2.3 Consensus size: 59
100693784 CCCAACTGTG
* * *
100693794 TTGATATGGGCAAGGCCCAATATA-TCTCG-ACTTGTATA-GGGCTACGGCCCATATTGATA
1 TTGATATGGGCAAGGCCCAATATACTCT-GTAC-TGTA-AGGGGCTACAGCCCAGATTAATA
* * * *
100693853 TTGATATGGGCTAGGCCTAGTATACTCTGTTACTGTAAGGGGCTATAGCCCAGATTAATA
1 TTGATATGGGCAAGGCCCAATATACTCTG-TACTGTAAGGGGCTACAGCCCAGATTAATA
100693913 TTGATATGGGCTAAGGCCCA
1 TTGATATGGGC-AAGGCCCA
100693933 GTTAACACTA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
59 23 0.35
60 35 0.53
61 8 0.12
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (59 bp):
TTGATATGGGCAAGGCCCAATATACTCTGTACTGTAAGGGGCTACAGCCCAGATTAATA
Found at i:100698524 original size:14 final size:14
Alignment explanation
Indices: 100698492--100698524 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
100698482 GTTAAAATTT
*
100698492 TAAAACACAACATG
1 TAAAATACAACATG
100698506 T-AAATACAACATG
1 TAAAATACAACATG
100698519 TAAAAT
1 TAAAAT
100698525 TTTGTGTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (14 bp):
TAAAATACAACATG
Found at i:100699104 original size:18 final size:19
Alignment explanation
Indices: 100699073--100699112 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
100699063 GCAAAACGAG
100699073 ATTATGTGAAAAGACTTGT
1 ATTATGTGAAAAGACTTGT
*
100699092 ATTA-GTGACAAGACTTGT
1 ATTATGTGAAAAGACTTGT
100699110 ATT
1 ATT
100699113 GAACAAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (19 bp):
ATTATGTGAAAAGACTTGT
Found at i:100709084 original size:16 final size:16
Alignment explanation
Indices: 100709039--100709085 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
100709029 TAGAAATTAG
100709039 ACTCAATAATTATTTTA
1 ACTC-ATAATTATTTTA
*
100709056 A-TCAT-ATAAATTTTA
1 ACTCATAAT-TATTTTA
100709071 ACTCATAATTATTTT
1 ACTCATAATTATTTT
100709086 TTTTACAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
14 2 0.08
15 9 0.36
16 11 0.44
17 3 0.12
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (16 bp):
ACTCATAATTATTTTA
Found at i:100709802 original size:44 final size:43
Alignment explanation
Indices: 100709654--100709812 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
100709644 AGCATATATA
* *
100709654 ATGCCAACATCCCAGACGTGGTCTTACATGT-AATCAAACATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAAATCAAA-ATCG
* *
100709697 ATGCC-ACTATCCCAGACAGGGTCTTACACG-AAATC-AGATACG
1 ATGCCAAC-ATCCCAGACATGGTCTTACACGTAAATCAAAAT-CG
** * *
100709739 ATGCCAATGTCCTAGACATGGTCTTACACGTAAAACAAAAGTCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAAATCAAAA-TCG
* *
100709783 ATGCCAACGTCCCATACATGGTCTTACACG
1 ATGCCAACATCCCAGACATGGTCTTACACG
100709813 ATACCACATA
Statistics
Matches: 96, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 33 0.34
44 31 0.32
45 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAACATCCCAGACATGGTCTTACACGTAAATCAAAATCG
Found at i:100711933 original size:19 final size:20
Alignment explanation
Indices: 100711909--100711946 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
100711899 GGTACCACCA
100711909 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
100711928 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
100711947 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:100712286 original size:93 final size:93
Alignment explanation
Indices: 100712176--100712346 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
100712166 GCCCCTAAGT
* *
100712176 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
100712241 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
100712269 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
100712334 CGAGTTCGGATGC
66 CGAGTTCGGATGC
100712347 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:100712336 original size:46 final size:46
Alignment explanation
Indices: 100712171--100712343 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
100712161 AACCCGCCCC
* * * * *
100712171 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
100712217 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
100712265 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
100712310 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
100712344 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:100712800 original size:30 final size:30
Alignment explanation
Indices: 100712766--100712825 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
100712756 ATTTAATACG
100712766 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
100712796 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
100712826 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:100714637 original size:25 final size:25
Alignment explanation
Indices: 100714609--100714660 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
100714599 CGAAAACTTC
100714609 ATCATTCGTAGTAGCCTTAACTCAT
1 ATCATTCGTAGTAGCCTTAACTCAT
100714634 ATCATTCGTAGTAGCCTTAACTCAT
1 ATCATTCGTAGTAGCCTTAACTCAT
100714659 AT
1 AT
100714661 TCTCGATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.37
Consensus pattern (25 bp):
ATCATTCGTAGTAGCCTTAACTCAT
Found at i:100722439 original size:46 final size:46
Alignment explanation
Indices: 100722351--100722439 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 46
100722341 CTCGTTTCTA
* * *
100722351 GTATGGTGCCATAATGTTTTACAAATATGGTCTTATTTATTTTTCG
1 GTATAGTGCCATAATGTTTTACAAATATGGTCTTAATCATTTTTCG
* * *
100722397 GTATAGTGCCATAGTGTCTTT-CAACTATGGTTTTAATCATTTT
1 GTATAGTGCCATAATGT-TTTACAAATATGGTCTTAATCATTTT
100722440 CCTTCAAGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
46 33 0.92
47 3 0.08
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.47
Consensus pattern (46 bp):
GTATAGTGCCATAATGTTTTACAAATATGGTCTTAATCATTTTTCG
Found at i:100722487 original size:15 final size:16
Alignment explanation
Indices: 100722464--100722493 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
100722454 AACTCAATTC
100722464 ATATATAAACAATTAG
1 ATATATAAACAATTAG
100722480 ATAT-TAAACAATTA
1 ATATATAAACAATTA
100722494 AAACAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (16 bp):
ATATATAAACAATTAG
Found at i:100722997 original size:14 final size:14
Alignment explanation
Indices: 100722980--100723010 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
100722970 AGTAAAATAT
100722980 TTTCCGGAAAATGA
1 TTTCCGGAAAATGA
*
100722994 TTTCTGGAAAATGA
1 TTTCCGGAAAATGA
100723008 TTT
1 TTT
100723011 ACTTTTCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (14 bp):
TTTCCGGAAAATGA
Found at i:100723026 original size:19 final size:20
Alignment explanation
Indices: 100722994--100723039 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
100722984 CGGAAAATGA
100722994 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
100723014 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
100723033 TTTCTGG
1 TTTCTGG
100723040 TGTTTGGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:100723154 original size:36 final size:37
Alignment explanation
Indices: 100723106--100723181 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 37
100723096 ATTTTCTGGA
100723106 AAATTTGTTTTTACATATATTAATAAATTTATATTTT
1 AAATTTGTTTTTACATATATTAATAAATTTATATTTT
*
100723143 AAATTT-TTTTTATATATATTAATAAATTTATATTTT
1 AAATTTGTTTTTACATATATTAATAAATTTATATTTT
100723179 AAA
1 AAA
100723182 AGAGGTTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 32 0.84
37 6 0.16
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (37 bp):
AAATTTGTTTTTACATATATTAATAAATTTATATTTT
Found at i:100723172 original size:18 final size:18
Alignment explanation
Indices: 100723115--100723175 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
100723105 AAAATTTGTT
*
100723115 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
***
100723133 TTTATAT-T-TTAAATTTTT
1 TTTATATATATT-AA-TAAA
100723151 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
100723169 TTTATAT
1 TTTATAT
100723176 TTTAAAAGAG
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
16 2 0.06
17 3 0.09
18 22 0.69
19 3 0.09
20 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:100736320 original size:31 final size:31
Alignment explanation
Indices: 100736284--100736346 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
100736274 GGAGATGGAA
* *
100736284 AAAGTTGAAGAATGGAAGAAAAAGAAAGCTT
1 AAAGTTGAAGAAAGGAAGAAAAACAAAGCTT
*
100736315 AAAGTTGAAGAAAGGAAGAAAAACAAGGCTT
1 AAAGTTGAAGAAAGGAAGAAAAACAAAGCTT
100736346 A
1 A
100736347 CTTGGATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.56, C:0.05, G:0.25, T:0.14
Consensus pattern (31 bp):
AAAGTTGAAGAAAGGAAGAAAAACAAAGCTT
Found at i:100740046 original size:31 final size:31
Alignment explanation
Indices: 100740008--100740067 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
100739998 TCATATCCTT
100740008 ATTGCCAGAAAGACAATAGGAAGACAGAGCC
1 ATTGCCAGAAAGACAATAGGAAGACAGAGCC
100740039 ATTGCCAGAAAGACAATAGGAAGACAGAG
1 ATTGCCAGAAAGACAATAGGAAGACAGAG
100740068 ACAATCCAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.17, G:0.27, T:0.10
Consensus pattern (31 bp):
ATTGCCAGAAAGACAATAGGAAGACAGAGCC
Found at i:100742357 original size:29 final size:29
Alignment explanation
Indices: 100742324--100742392 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
100742314 CAGAATTGGT
*
100742324 CAGACACAGATTTGGGCTTAAGCCTATTA
1 CAGACACAGATTTGGGCTTAAGCCCATTA
*
100742353 CAGACACAGATTTGGGCTTGAGCCCATTA
1 CAGACACAGATTTGGGCTTAAGCCCATTA
100742382 CAGACACAGAT
1 CAGACACAGAT
100742393 ATAGATACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (29 bp):
CAGACACAGATTTGGGCTTAAGCCCATTA
Found at i:100744303 original size:39 final size:39
Alignment explanation
Indices: 100744249--100744327 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
100744239 GGTACCTCCT
100744249 CAACATCGATACGTGAAACACATCATGATTACGGTCTAA
1 CAACATCGATACGTGAAACACATCATGATTACGGTCTAA
100744288 CAACATCGATACGTGAAACACATCATGATTACGGTCTAA
1 CAACATCGATACGTGAAACACATCATGATTACGGTCTAA
100744327 C
1 C
100744328 TCTGGAGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (39 bp):
CAACATCGATACGTGAAACACATCATGATTACGGTCTAA
Found at i:100751225 original size:40 final size:41
Alignment explanation
Indices: 100751175--100751258 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 41
100751165 TTTTGGAGTA
100751175 CTTTAAATTGTAGAATTAGATCTCT-ACTTTTTTTATACTT
1 CTTTAAATTGTAGAATTAGATCTCTAACTTTTTTTATACTT
100751215 CTTTAAATTGTAGAATTAGATCTCTAACTTTTTTTATACTT
1 CTTTAAATTGTAGAATTAGATCTCTAACTTTTTTTATACTT
100751256 CTT
1 CTT
100751259 ATTCCTATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 25 0.58
41 18 0.42
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.52
Consensus pattern (41 bp):
CTTTAAATTGTAGAATTAGATCTCTAACTTTTTTTATACTT
Found at i:100753294 original size:63 final size:63
Alignment explanation
Indices: 100753195--100753320 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
100753185 CTAATAGTTA
100753195 AATCATTACTTATGAGAACTAAACTTTCTATTTCAGTATGAGATTATGTTGATTTATATGTTG
1 AATCATTACTTATGAGAACTAAACTTTCTATTTCAGTATGAGATTATGTTGATTTATATGTTG
100753258 AATCATTACTTATGAGAACTAAACTTTCTATTTCAGTATGAGATTATGTTGATTTATATGTTG
1 AATCATTACTTATGAGAACTAAACTTTCTATTTCAGTATGAGATTATGTTGATTTATATGTTG
100753321 TACGCATCAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (63 bp):
AATCATTACTTATGAGAACTAAACTTTCTATTTCAGTATGAGATTATGTTGATTTATATGTTG
Found at i:100756209 original size:14 final size:15
Alignment explanation
Indices: 100756174--100756211 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
100756164 TTTATATGTT
100756174 ATAAATTT-TTTATA
1 ATAAATTTATTTATA
*
100756188 ATATATTTATTTATA
1 ATAAATTTATTTATA
100756203 A-AAATTTAT
1 ATAAATTTAT
100756212 GGTCAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAAATTTATTTATA
Found at i:100756276 original size:21 final size:20
Alignment explanation
Indices: 100756248--100756286 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
100756238 CCATGCTATA
100756248 TATTATAAAAATAATATACT
1 TATTATAAAAATAATATACT
*
100756268 TATTCATAAAAATATTATA
1 TATT-ATAAAAATAATATA
100756287 ATTTTTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TATTATAAAAATAATATACT
Found at i:100760520 original size:26 final size:26
Alignment explanation
Indices: 100760489--100760545 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
100760479 CTAGATTTAG
* *
100760489 AAGTAAAATCGCTTCCTGAACATTTC
1 AAGTAAAACCGCTTCCTGAACATCTC
*
100760515 AAGTAAAACCGCTTCTTGAACATCTC
1 AAGTAAAACCGCTTCCTGAACATCTC
100760541 AAGTA
1 AAGTA
100760546 TGCGTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (26 bp):
AAGTAAAACCGCTTCCTGAACATCTC
Found at i:100763531 original size:21 final size:21
Alignment explanation
Indices: 100763488--100763537 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
100763478 TTTCTTTTTT
* **
100763488 ATTATTTATTATTATATTTTA
1 ATTATTTAATATTATATCGTA
*
100763509 ATTATTTAATATTTTATCGTA
1 ATTATTTAATATTATATCGTA
*
100763530 ATCATTTA
1 ATTATTTA
100763538 TTTTTTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTATTTAATATTATATCGTA
Found at i:100763551 original size:15 final size:16
Alignment explanation
Indices: 100763518--100763562 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
100763508 AATTATTTAA
100763518 TATTTTATCGTAATCATT
1 TATTTTAT--TAATCATT
*
100763536 TATTTT-TTAATTATT
1 TATTTTATTAATCATT
100763551 TATTTTATTAAT
1 TATTTTATTAAT
100763563 AAAATTTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 13 0.52
16 5 0.20
17 1 0.04
18 6 0.24
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (16 bp):
TATTTTATTAATCATT
Found at i:100764049 original size:5 final size:5
Alignment explanation
Indices: 100764039--100764066 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
100764029 AAAACTGTGA
100764039 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
100764067 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:100765596 original size:20 final size:20
Alignment explanation
Indices: 100765573--100765610 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
100765563 TTAAATTCCA
*
100765573 AAAGATAAATACAAATAATT
1 AAAGATAAATAAAAATAATT
100765593 AAAGATAAATAAAAATAA
1 AAAGATAAATAAAAATAA
100765611 ATCCTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Done.