Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 118 of 204
Found at i:36029162 original size:182 final size:182
Alignment explanation
Indices: 36028855--36029478 Score: 1007
Period size: 182 Copynumber: 3.4 Consensus size: 182
36028845 TAGTTTCCAA
* *
36028855 CACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAACAATCAAACACTTCAATTT
1 CACTTAAACACTTCAATTTACATCATTTAAGCACCTCAATTTACAACAATTAAACACTTCAATTT
* *
36028920 ACAGCATTTAAACACCTCAACTTACAACACCTTAACATCCCAATTAACAACATTTATACACCTCA
66 ACAACATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTCA
* *
36028985 ATTACATCAATAAACATCTCAATTTCCAACAACTAAACAATTCAATTTGCAG
131 ATTACATCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAG
*
36029037 CACTTAAACACTTCAATTTACATCATTTAAGCACCTCAATGTACAACAATTAAACACTTCAATTT
1 CACTTAAACACTTCAATTTACATCATTTAAGCACCTCAATTTACAACAATTAAACACTTCAATTT
* *
36029102 ACAGCATTTAAACACCTCAACTTCCAACACTTTAACATCCCAATTAACAACATTTATACACCTCA
66 ACAACATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTCA
* * * *
36029167 ATTATAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTCGTAG
131 ATTACATCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAG
* *
36029219 CACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAATAATTAAACACTTCAATTT
1 CACTTAAACACTTCAATTTACATCATTTAAGCACCTCAATTTACAACAATTAAACACTTCAATTT
36029284 ACAACATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTCA
66 ACAACATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTCA
*
36029349 ATTACAGT-GATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAA
131 ATTACA-TCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAG
* * * * * * *
36029401 TACTTAAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAACACTTTAACACTTCAATT
1 CACTT-AAACACTTCAATTTACATCATTTAAGCACCTCAATTTACAACAATTAAACACTTCAATT
*
36029466 CACAACATTTAAA
65 TACAACATTTAAA
36029479 TACTTTTATT
Statistics
Matches: 409, Mismatches: 31, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
182 346 0.85
183 63 0.15
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.30
Consensus pattern (182 bp):
CACTTAAACACTTCAATTTACATCATTTAAGCACCTCAATTTACAACAATTAAACACTTCAATTT
ACAACATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTCA
ATTACATCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAG
Found at i:36033322 original size:21 final size:21
Alignment explanation
Indices: 36033296--36033338 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
36033286 TACTTGAGAT
36033296 TAATGATGATTGGATTTACAA
1 TAATGATGATTGGATTTACAA
36033317 TAATGATGATTGGATTTACAA
1 TAATGATGATTGGATTTACAA
36033338 T
1 T
36033339 TGGGAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (21 bp):
TAATGATGATTGGATTTACAA
Found at i:36035165 original size:39 final size:39
Alignment explanation
Indices: 36035143--36035296 Score: 245
Period size: 39 Copynumber: 3.9 Consensus size: 39
36035133 ACATTACACG
36035143 TATAATTACATAATGTTCAAGCACATGTTGCAATACTAA
1 TATAATTACATAATGTTCAAGCACATGTTGCAATACTAA
*
36035182 TATAATTACATAATGTTCAAACACATGTTGCAATACTAA
1 TATAATTACATAATGTTCAAGCACATGTTGCAATACTAA
*
36035221 TATAATTACATAATGTTCAAGCACATGTTGCAATACTCA
1 TATAATTACATAATGTTCAAGCACATGTTGCAATACTAA
** * * *
36035260 TATAATCGCATAATGTTCAAGCATATATCGCAATACT
1 TATAATTACATAATGTTCAAGCACATGTTGCAATACT
36035297 CAAAAAATTT
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (39 bp):
TATAATTACATAATGTTCAAGCACATGTTGCAATACTAA
Found at i:36035455 original size:43 final size:43
Alignment explanation
Indices: 36035394--36035478 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
36035384 TGTCACTTGA
36035394 AAGTGAGCTCTATCATCACTCATCGGATACACGGATCTCCAAC
1 AAGTGAGCTCTATCATCACTCATCGGATACACGGATCTCCAAC
* *
36035437 AAGTGAGCTCTATCATCACTCATTGGATACACGGGTCTCCAA
1 AAGTGAGCTCTATCATCACTCATCGGATACACGGATCTCCAA
36035479 TACACCAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
AAGTGAGCTCTATCATCACTCATCGGATACACGGATCTCCAAC
Found at i:36045126 original size:103 final size:104
Alignment explanation
Indices: 36044786--36045156 Score: 611
Period size: 105 Copynumber: 3.6 Consensus size: 104
36044776 TGTATATAAA
** * * *
36044786 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
**
36044850 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
36044890 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
*
36044955 TTGAAATGAAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
36044995 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
36045060 TGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
36045098 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
36045157 ATAACGGCTA
Statistics
Matches: 253, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
103 87 0.34
104 69 0.27
105 96 0.38
106 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:36051719 original size:105 final size:104
Alignment explanation
Indices: 36051474--36051820 Score: 554
Period size: 105 Copynumber: 3.3 Consensus size: 104
36051464 TGGATCCCGT
* * *
36051474 ACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCTCTCGGGGGAATCAGCACATAG
1 ACTTAGCACCACCAATGAATCGGGGAATCAGCACTTACCAACCCCTCGGGGGAATCAGCACATAG
* ** * *
36051539 CAACCCCCTTT-TCATTTCAAAAATACAGTGGATATCGT
66 CAACCCCCTTTCACATTTCAAAGGTACGGTGGATATCGC
36051577 ACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTACCAACCCCTCGGGGGAATCAGCACATA
1 ACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTACCAACCCCTCGGGGGAATCAGCACATA
36051642 GCAACCCCCTTTCACATTTCAAAGGTACGGTGGATATCGC
65 GCAACCCCCTTTCACATTTCAAAGGTACGGTGGATATCGC
*
36051682 ACTTAGCACCACCAATGAAATCGGGGAATCAGTACTTACCAACCCCTCGGGGGAATCAGCACATA
1 ACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTACCAACCCCTCGGGGGAATCAGCACATA
*
36051747 GCAACCCCCTTTCACATTTCAAAGGTATGGTGGATCA-CGC
65 GCAACCCCCTTTCACATTTCAAAGGTACGGTGGAT-ATCGC
*
36051787 ACCTAGCACCACCAATGAATCGGGGAATCAGCAC
1 ACTTAGCACCACCAATGAATCGGGGAATCAGCAC
36051821 ACAGCAACCC
Statistics
Matches: 229, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
103 16 0.07
104 73 0.32
105 139 0.61
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (104 bp):
ACTTAGCACCACCAATGAATCGGGGAATCAGCACTTACCAACCCCTCGGGGGAATCAGCACATAG
CAACCCCCTTTCACATTTCAAAGGTACGGTGGATATCGC
Found at i:36059004 original size:105 final size:104
Alignment explanation
Indices: 36058747--36059106 Score: 562
Period size: 105 Copynumber: 3.5 Consensus size: 104
36058737 TAACCGTTAT
** *
36058747 CGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
* **
36058812 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAAATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGGTA
*
36058850 CGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTACCAACCCCTCGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
36058915 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGGTA
65 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGGTA
*
36058955 CGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAACACTTAGCAACCCCTCGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
* *
36059020 GAATCAACACATAGCAACCCCTTTTCACATTTCAAAGGTA
65 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGGTA
** *
36059060 TTGTGGATCA-CGCACCTAGCACCACCAATGAATCGGGGAATCAGCAC
1 CGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCAC
36059107 ACAACAACCC
Statistics
Matches: 239, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
103 27 0.11
104 74 0.31
105 137 0.57
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGGTA
Found at i:36059025 original size:27 final size:27
Alignment explanation
Indices: 36058990--36059041 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
36058980 CAATGAAATC
*
36058990 GGGGAATCAACACTTAGCAACCCCTCG
1 GGGGAATCAACACATAGCAACCCCTCG
36059017 GGGGAATCAACACATAGCAACCCCT
1 GGGGAATCAACACATAGCAACCCCT
36059042 TTTCACATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.13
Consensus pattern (27 bp):
GGGGAATCAACACATAGCAACCCCTCG
Found at i:36059481 original size:30 final size:29
Alignment explanation
Indices: 36059447--36059511 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
36059437 TAACCCACCA
36059447 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
36059477 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
36059507 CCCAA
1 CCCAA
36059512 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:36059485 original size:31 final size:30
Alignment explanation
Indices: 36059454--36059511 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
36059444 CCACCCAACT
36059454 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
36059484 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
36059512 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:36061587 original size:21 final size:19
Alignment explanation
Indices: 36061544--36061587 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
36061534 TATCGTTAAC
* *
36061544 AGAAGCTCATAAGCTGAAC
1 AGAAGCTCATAAGCTAAAA
36061563 AGAAGCTCATAAAAGCTAAAA
1 AGAAGCTCAT--AAGCTAAAA
36061584 AGAA
1 AGAA
36061588 ACCCATAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
21 11 0.52
ACGTcount: A:0.52, C:0.16, G:0.18, T:0.14
Consensus pattern (19 bp):
AGAAGCTCATAAGCTAAAA
Found at i:36061667 original size:42 final size:42
Alignment explanation
Indices: 36061603--36061737 Score: 148
Period size: 42 Copynumber: 3.2 Consensus size: 42
36061593 TAAGGGTTGC
* *
36061603 ACAGAAGCTT-GTAAGAGCTGAACGAAAAGC-CATAAGGGTTAA
1 ACAGAAGCTTAAT-AGAGCTGAACGAAAA-CTCATAAGAGTTAA
* * * *
36061645 ACAGAAGCTTAATAGAGTTGAACGGAAACTTATAAGAGTTGA
1 ACAGAAGCTTAATAGAGCTGAACGAAAACTCATAAGAGTTAA
* * * *
36061687 ACAGAAGCTCAATAGAGCTGAGCAAAAACTCATATGAGTTAA
1 ACAGAAGCTTAATAGAGCTGAACGAAAACTCATAAGAGTTAA
36061729 ACAGAAGCT
1 ACAGAAGCT
36061738 CATAAGAGCT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 75 0.97
43 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.19
Consensus pattern (42 bp):
ACAGAAGCTTAATAGAGCTGAACGAAAACTCATAAGAGTTAA
Found at i:36061703 original size:21 final size:21
Alignment explanation
Indices: 36061644--36061739 Score: 79
Period size: 21 Copynumber: 4.6 Consensus size: 21
36061634 ATAAGGGTTA
*
36061644 AACAGAAGCTTAATAGAGTTG
1 AACAGAAGCTCAATAGAGTTG
* * *
36061665 AACGGAAACT-TATAAGAGTTG
1 AACAGAAGCTCAAT-AGAGTTG
*
36061686 AACAGAAGCTCAATAGAGCTG
1 AACAGAAGCTCAATAGAGTTG
* * * *
36061707 AGCAAAAACTC-ATATGAGTTA
1 AACAGAAGCTCAATA-GAGTTG
36061728 AACAGAAGCTCA
1 AACAGAAGCTCA
36061740 TAAGAGCTAA
Statistics
Matches: 56, Mismatches: 15, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
20 5 0.09
21 49 0.88
22 2 0.04
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.20
Consensus pattern (21 bp):
AACAGAAGCTCAATAGAGTTG
Found at i:36061741 original size:21 final size:21
Alignment explanation
Indices: 36061640--36061750 Score: 64
Period size: 21 Copynumber: 5.3 Consensus size: 21
36061630 AGCCATAAGG
*
36061640 GTTAAACAGAAGCTTA-ATAGA
1 GTTAAACAGAAGCTCATAT-GA
* * * * *
36061661 GTTGAACGGAAACTTATAAGA
1 GTTAAACAGAAGCTCATATGA
*
36061682 GTTGAACAGAAGCTCA-ATAGA
1 GTTAAACAGAAGCTCATAT-GA
* * * * *
36061703 GCTGAGCAAAAACTCATATGA
1 GTTAAACAGAAGCTCATATGA
*
36061724 GTTAAACAGAAGCTCATAAGA
1 GTTAAACAGAAGCTCATATGA
*
36061745 GCTAAA
1 GTTAAA
36061751 TGGAAAGTAA
Statistics
Matches: 68, Mismatches: 19, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.01
21 64 0.94
22 3 0.04
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (21 bp):
GTTAAACAGAAGCTCATATGA
Found at i:36061756 original size:84 final size:84
Alignment explanation
Indices: 36061560--36061756 Score: 193
Period size: 84 Copynumber: 2.3 Consensus size: 84
36061550 TCATAAGCTG
* * * * **
36061560 AACAGAAGCTCATAAAAGCTAAAAAGAAACCCATAAGGGTTGCACAGAAGCTTGTAAGAGCTGAA
1 AACAGAAGCTCATAAGAGCTAAAAGGAAACCCATAAGAGTTGAACAGAAGCTAATAAGAGCTGAA
* *
36061625 CGAAAAGCCATAAGGGTTA
66 CGAAAAACCATAAGAGTTA
* * * * **
36061644 AACAGAAGCTTA-ATAGAGTTGAACGGAAACTTATAAGAGTTGAACAGAAGCTCAAT-AGAGCTG
1 AACAGAAGCTCATA-AGAGCTAAAAGGAAACCCATAAGAGTTGAACAGAAGCT-AATAAGAGCTG
* *
36061707 AGC-AAAAACTCATATGAGTTA
64 AACGAAAAAC-CATAAGAGTTA
*
36061728 AACAGAAGCTCATAAGAGCTAAATGGAAA
1 AACAGAAGCTCATAAGAGCTAAAAGGAAA
36061757 GTAAAACATA
Statistics
Matches: 89, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
83 6 0.07
84 81 0.91
85 2 0.02
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.18
Consensus pattern (84 bp):
AACAGAAGCTCATAAGAGCTAAAAGGAAACCCATAAGAGTTGAACAGAAGCTAATAAGAGCTGAA
CGAAAAACCATAAGAGTTA
Found at i:36067095 original size:16 final size:16
Alignment explanation
Indices: 36067074--36067109 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
36067064 TTTGGTTCGC
36067074 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
36067090 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
36067106 TGTA
1 TGTA
36067110 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:36067433 original size:157 final size:157
Alignment explanation
Indices: 36067232--36067548 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
36067222 TAGAATACCC
*
36067232 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
36067297 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
36067362 TATAGAATTTAATAAAATTCTTAATAA
131 TATAGAATTTAATAAAATTCTTAATAA
*
36067389 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
36067454 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
*
36067519 TATATAATTTAATAAAATTCTTAATAA
131 TATAGAATTTAATAAAATTCTTAATAA
36067546 TTA
1 TTA
36067549 ATATTCTTAT
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATAGAATTTAATAAAATTCTTAATAA
Found at i:36067523 original size:18 final size:17
Alignment explanation
Indices: 36067502--36067536 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36067492 TTATTATTAA
*
36067502 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
36067520 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
36067537 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:36069290 original size:2 final size:2
Alignment explanation
Indices: 36069283--36069307 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36069273 AAATTTAAGC
36069283 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 A
36069308 CAAGCAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36072079 original size:11 final size:11
Alignment explanation
Indices: 36072065--36072090 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36072055 TCGGGAGGCA
36072065 AAGGTAGAACG
1 AAGGTAGAACG
36072076 AAGGTAGAACG
1 AAGGTAGAACG
36072087 AAGG
1 AAGG
36072091 AAGAGGGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.38, T:0.08
Consensus pattern (11 bp):
AAGGTAGAACG
Found at i:36080440 original size:18 final size:18
Alignment explanation
Indices: 36080417--36080461 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
36080407 ATTTTGAAAG
* *
36080417 TGGTCAAAATTATGTTTC
1 TGGTCAAAATTATGATTA
*
36080435 TGGTCAAAATTTTGATTA
1 TGGTCAAAATTATGATTA
36080453 TGGTCAAAA
1 TGGTCAAAA
36080462 GTGGCTTGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (18 bp):
TGGTCAAAATTATGATTA
Found at i:36080696 original size:69 final size:69
Alignment explanation
Indices: 36080580--36080716 Score: 211
Period size: 69 Copynumber: 2.0 Consensus size: 69
36080570 GCGCCGAACA
* * * * *
36080580 TATAGGCCTCAAGAGTATGGGCCGCATGATGGGATTGATGGGGCTGTTGGGCCGACTGGTGGTGT
1 TATAGGCCTCAAAAGTATGGGCCACATGATGGAATTGATGGGACTGTTGGGCCGAATGGTGGTGT
36080645 TGGT
66 TGGT
* *
36080649 TATAGGCCTCAAAATTATGGGCCACATGATGGAATTGATGGTACTGTTGGGCCGAATGGTGGTGT
1 TATAGGCCTCAAAAGTATGGGCCACATGATGGAATTGATGGGACTGTTGGGCCGAATGGTGGTGT
36080714 TGG
66 TGG
36080717 GTCGAAAGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.20, C:0.14, G:0.38, T:0.28
Consensus pattern (69 bp):
TATAGGCCTCAAAAGTATGGGCCACATGATGGAATTGATGGGACTGTTGGGCCGAATGGTGGTGT
TGGT
Found at i:36080714 original size:18 final size:18
Alignment explanation
Indices: 36080693--36080747 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
36080683 TTGATGGTAC
*
36080693 TGTTGGGCCGAATGGTGG
1 TGTTGGGCCGAATGATGG
* *
36080711 TGTTGGGTCGAAAGATGG
1 TGTTGGGCCGAATGATGG
* * *
36080729 TATTGGGCCAAATGTTGG
1 TGTTGGGCCGAATGATGG
36080747 T
1 T
36080748 AATAATCCTT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.18, C:0.09, G:0.42, T:0.31
Consensus pattern (18 bp):
TGTTGGGCCGAATGATGG
Found at i:36090371 original size:19 final size:19
Alignment explanation
Indices: 36090347--36090457 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
36090337 AATCTTCAGG
36090347 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
36090366 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
* **
36090385 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
36090404 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
36090423 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
36090442 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
36090458 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:36090397 original size:38 final size:38
Alignment explanation
Indices: 36090354--36090457 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
36090344 AGGGATATGC
*
36090354 AATCTTAGATATGATATGCAATCTTAGGTATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
36090392 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
36090430 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
36090458 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:36090471 original size:19 final size:20
Alignment explanation
Indices: 36090354--36090476 Score: 143
Period size: 19 Copynumber: 6.5 Consensus size: 20
36090344 AGGGATATGC
*
36090354 AATCTTAGATATGATATG-C
1 AATCTTAGATATGATATGAT
* *
36090373 AATCTTAGGTATAATAT-AT
1 AATCTTAGATATGATATGAT
*
36090392 AATCTTAGATATGATATG-C
1 AATCTTAGATATGATATGAT
36090411 AATCTTAGATATGATAT-AT
1 AATCTTAGATATGATATGAT
*
36090430 AATCTTAGATATGATATG-C
1 AATCTTAGATATGATATGAT
36090449 AATCTTAGA-A-GATATGATT
1 AATCTTAGATATGATATGA-T
36090468 AATCTTAGA
1 AATCTTAGA
36090477 GATTTAATTT
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
17 6 0.07
18 1 0.01
19 82 0.92
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (20 bp):
AATCTTAGATATGATATGAT
Found at i:36090471 original size:38 final size:37
Alignment explanation
Indices: 36090354--36090476 Score: 171
Period size: 38 Copynumber: 3.2 Consensus size: 37
36090344 AGGGATATGC
36090354 AATCTTAGATATGATATGCAATCTTAG--GTATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGAAG-AT-ATAT-T
36090392 AATCTTAGATATGATATGCAATCTTAGATATGATATA-T
1 AATCTTAGATATGATATGCAATCTTAGA-A-GATATATT
36090430 AATCTTAGATATGATATGCAATCTTAGAAGATATGATT
1 AATCTTAGATATGATATGCAATCTTAGAAGATAT-ATT
36090468 AATCTTAGA
1 AATCTTAGA
36090477 GATTTAATTT
Statistics
Matches: 79, Mismatches: 0, Indels: 12
0.87 0.00 0.13
Matches are distributed among these distances:
36 5 0.06
37 2 0.03
38 66 0.84
40 3 0.04
41 2 0.03
42 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (37 bp):
AATCTTAGATATGATATGCAATCTTAGAAGATATATT
Found at i:36093368 original size:24 final size:24
Alignment explanation
Indices: 36093341--36093386 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
36093331 AGAACAATCC
* *
36093341 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
36093365 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
36093387 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:36097494 original size:132 final size:132
Alignment explanation
Indices: 36097310--36097697 Score: 584
Period size: 132 Copynumber: 2.9 Consensus size: 132
36097300 CTGCATTGAC
* * *
36097310 AGTGAAGCAGATCGAAGATGGCGGATTTTACCTCCATGTGCTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
36097375 GTAATTCTATTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTATTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
36097440 GT
131 GT
* * *
36097442 AGTGGAGCAGATCGAAGATGGAGGATTTTACCTCCCTGTGGTTATAGCGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * **
36097507 GTAATTCTACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAATTA
66 GTAATTCTATTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
36097572 GT
131 GT
36097574 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * * * * *
36097639 GTAA-TCATATCTCCCTGGTCAATAGTGGAGTAGATCGAAGA-TACA-AGTCTTATCTCCCT
66 GTAATTC-TATTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGA-TCTTATCTCCCT
36097698 GAAGTTGCAG
Statistics
Matches: 232, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
130 1 0.00
131 17 0.07
132 214 0.92
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTATTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GT
Found at i:36098020 original size:17 final size:17
Alignment explanation
Indices: 36097998--36098041 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
36097988 ATGGAAACAT
36097998 AATCTTCAGG-GATATGC
1 AATCTT-AGGTGATATGC
36098015 AATCTTAGGTATGATATGC
1 AATCTTAGG--TGATATGC
36098034 AATCTTAG
1 AATCTTAG
36098042 ATATAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.12
17 6 0.25
19 15 0.62
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (17 bp):
AATCTTAGGTGATATGC
Found at i:36098032 original size:19 final size:19
Alignment explanation
Indices: 36098008--36098141 Score: 169
Period size: 19 Copynumber: 6.8 Consensus size: 19
36097998 AATCTTCAGG
*
36098008 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
36098027 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
36098046 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
36098065 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
36098084 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
36098103 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTT---AGATAT
*
36098125 GATTATGTAATCTTAGA
1 GA-TATGCAATCTTAGA
36098142 GATTTAATTT
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
19 78 0.79
20 3 0.03
22 8 0.08
23 10 0.10
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:36098058 original size:38 final size:38
Alignment explanation
Indices: 36098015--36098118 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
36098005 AGGGATATGC
*
36098015 AATCTTAGGTATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
36098053 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
36098091 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
36098119 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:36101013 original size:22 final size:21
Alignment explanation
Indices: 36100982--36101023 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
36100972 AGTTAGATAA
36100982 AAAATTAAATA-AATAGCTAAG
1 AAAATTAAATAGAATA-CTAAG
36101003 AAAATTAAAATAGAATACTAA
1 AAAATT-AAATAGAATACTAA
36101024 ATTTACAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (21 bp):
AAAATTAAATAGAATACTAAG
Found at i:36117789 original size:43 final size:39
Alignment explanation
Indices: 36117742--36117855 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 39
36117732 TGATTTCGTC
*
36117742 TAAGACCATGTCTGGGACATTGGCATCGAAGTGAAAGAACGTG
1 TAAGACCATGTCTGGGACATTGGCATCGAA-TG--AG-ACGTA
* *
36117785 TAAGACCATGTCTAGGACATTGGCATCGTATATGAGTCGTA
1 TAAGACCATGTCTGGGACATTGGCATCG-A-ATGAGACGTA
* *
36117826 TAAGACCCTGTCTGGGACAGTGGCATCGAA
1 TAAGACCATGTCTGGGACATTGGCATCGAA
36117856 ATGTTCTAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.02
40 1 0.02
41 28 0.44
42 2 0.03
43 27 0.43
44 3 0.05
45 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (39 bp):
TAAGACCATGTCTGGGACATTGGCATCGAATGAGACGTA
Found at i:36117844 original size:41 final size:42
Alignment explanation
Indices: 36117737--36117855 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 42
36117727 AGATGTGATT
*
36117737 TCGTCTAAGACCATGTCTGGGACATTGGCATCGAAGTGAAAGA
1 TCGTATAAGACCATGTCTGGGACATTGGCATCGAAGTG-AAGA
* * *
36117780 ACGTGTAAGACCATGTCTAGGACATTGGCATCGTATA-TG-AG-
1 TCGTATAAGACCATGTCTGGGACATTGGCATCG-A-AGTGAAGA
* *
36117821 TCGTATAAGACCCTGTCTGGGACAGTGGCATCGAA
1 TCGTATAAGACCATGTCTGGGACATTGGCATCGAA
36117856 ATGTTCTAGC
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
39 1 0.02
40 1 0.02
41 28 0.42
42 2 0.03
43 30 0.45
44 3 0.05
45 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (42 bp):
TCGTATAAGACCATGTCTGGGACATTGGCATCGAAGTGAAGA
Found at i:36130390 original size:26 final size:23
Alignment explanation
Indices: 36130344--36130390 Score: 58
Period size: 26 Copynumber: 1.9 Consensus size: 23
36130334 CGAAGCCTAA
*
36130344 TAGAGCAGTCAATGTTTTCAATC
1 TAGAGCAGTCAATGTTATCAATC
36130367 TAGATGCAGTCACTATGTTATCAA
1 TAGA-GCAGTCA--ATGTTATCAA
36130391 ATCAGGTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
26 9 0.45
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (23 bp):
TAGAGCAGTCAATGTTATCAATC
Found at i:36131206 original size:29 final size:29
Alignment explanation
Indices: 36131173--36131235 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
36131163 GTGTACCGCT
* * *
36131173 CGTGTATGACACACGCTCGTGTGCCCACC
1 CGTGTACGACACACACCCGTGTGCCCACC
36131202 CGTGTACGACACACACCCGTGTGCCCACC
1 CGTGTACGACACACACCCGTGTGCCCACC
36131231 CGTGT
1 CGTGT
36131236 GGTCACAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.17, C:0.40, G:0.24, T:0.19
Consensus pattern (29 bp):
CGTGTACGACACACACCCGTGTGCCCACC
Found at i:36133620 original size:95 final size:94
Alignment explanation
Indices: 36133504--36133691 Score: 313
Period size: 95 Copynumber: 2.0 Consensus size: 94
36133494 CAGTGTACAA
36133504 TAAGTGTAATCAACACATACCAAATCACGCATTCATTTACACACTAATTATAACATCGACCATAT
1 TAAGTGTAATCAACACATACCAAATCACGCATTCATTTACACACTAATTATAACATC-ACCATAT
36133569 TCCCATGCTACAATGCTCACACAATCAAAG
65 TCCCATGCTACAATGCTCACACAATCAAAG
* * *
36133599 TAAGTGTAATCAATACATACCAAATTACGCATTCATTTACACACTAATTATAACATCATCATATT
1 TAAGTGTAATCAACACATACCAAATCACGCATTCATTTACACACTAATTATAACATCACCATATT
* **
36133664 TCCATTTTACAATGCTCACACAATCAAA
66 CCCATGCTACAATGCTCACACAATCAAA
36133692 CATATGTTCA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 32 0.37
95 55 0.63
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (94 bp):
TAAGTGTAATCAACACATACCAAATCACGCATTCATTTACACACTAATTATAACATCACCATATT
CCCATGCTACAATGCTCACACAATCAAAG
Found at i:36136293 original size:21 final size:20
Alignment explanation
Indices: 36136262--36136318 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 20
36136252 AATGAGAGTG
36136262 ATTTTGTAAATTATTTTTATAT
1 ATTTT-TAAATTATTTTTA-AT
**
36136284 ATTTTTAAATATAAATTTAAT
1 ATTTTTAAAT-TATTTTTAAT
36136305 A-TTTTAATATTATT
1 ATTTTTAA-ATTATT
36136319 ATTCATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 8 0.28
21 10 0.34
22 11 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTTTAAATTATTTTTAAT
Found at i:36141269 original size:17 final size:16
Alignment explanation
Indices: 36141247--36141304 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
36141237 TATTCATGTG
36141247 TTTTATTTTCGTTTCAT
1 TTTTATTTTCGTTT-AT
*
36141264 TTTTATTTT-GTCTAT
1 TTTTATTTTCGTTTAT
* *
36141279 TTTTGTTTTCTTTTTAT
1 TTTTATTTTC-GTTTAT
*
36141296 TTTTCTTTT
1 TTTTATTTT
36141305 ACTTGAGAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 10 0.29
16 3 0.09
17 21 0.62
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.78
Consensus pattern (16 bp):
TTTTATTTTCGTTTAT
Found at i:36141298 original size:11 final size:12
Alignment explanation
Indices: 36141258--36141304 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
36141248 TTTATTTTCG
36141258 TTTCATTTTTATT
1 TTTC-TTTTTATT
36141271 TTGTCTATTTT-TGT
1 TT-TCT-TTTTAT-T
36141285 TTTCTTTTTATT
1 TTTCTTTTTATT
36141297 TTTCTTTT
1 TTTCTTTT
36141305 ACTTGAGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
12 13 0.43
13 8 0.27
14 9 0.30
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.79
Consensus pattern (12 bp):
TTTCTTTTTATT
Found at i:36154788 original size:43 final size:43
Alignment explanation
Indices: 36154727--36154864 Score: 147
Period size: 42 Copynumber: 3.5 Consensus size: 43
36154717 AGCGATTCGG
36154727 GGAATCAGCACTTAGCAACCCCTTTCACATCCAATGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATCCAATGATACGGT
*
36154770 GGAATCAGCACTTAGCAA-------C-CA-CCAATGA-ATCAG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATCCAATGATA-CGGT
**
36154803 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAT-ATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATCCAATGATACGGT
*
36154845 GGGATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
36154865 ACCAATGAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 25
0.72 0.05 0.23
Matches are distributed among these distances:
33 19 0.24
34 9 0.12
35 2 0.03
36 1 0.01
40 1 0.01
41 5 0.06
42 23 0.29
43 18 0.23
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATCCAATGATACGGT
Found at i:36154816 original size:76 final size:75
Alignment explanation
Indices: 36154690--36154901 Score: 325
Period size: 76 Copynumber: 2.8 Consensus size: 75
36154680 TATCCGTTAT
* ** *
36154690 CGGTGGATTCAGCACTTAGCAACCACCAGCGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
36154755 ATCCAATGATA
66 ATCCAAT-ATA
*
36154766 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
**
36154831 ATTTAATATA
66 ATCCAATATA
* * *
36154841 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGTAGTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
36154902 GGGGGAATCA
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 60 0.48
76 65 0.52
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATCCAATATA
Found at i:36154919 original size:27 final size:27
Alignment explanation
Indices: 36154876--36154928 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
36154866 CCAATGAATC
* *
36154876 GGGGAATCAGTAGTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
36154903 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
36154929 TCACATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:36154926 original size:102 final size:102
Alignment explanation
Indices: 36154802--36155028 Score: 400
Period size: 102 Copynumber: 2.2 Consensus size: 102
36154792 CAATGAATCA
* *
36154802 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAATATACGGTGGGATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
* *
36154867 CAATGAATCGGGGAATCAGTAGTTAGCAACCCCTTGG
66 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGG
*
36154904 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
*
36154969 CAATGAATCGGGGAATCAGCACTTGGCAACCCCTTGG
66 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGG
36155006 GGGAATCAGCACTTAGCAACCCC
1 GGGAATCAGCACTTAGCAACCCC
36155029 CTTTATATTC
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 119 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (102 bp):
GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGG
Found at i:36158444 original size:24 final size:25
Alignment explanation
Indices: 36158412--36158459 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
36158402 CCTATGGGTT
*
36158412 CAAATTCAAG-CAAAAAGAAAAAGG
1 CAAAATCAAGACAAAAAGAAAAAGG
*
36158436 CAAAATCAAGATCAAAAATAAAAA
1 CAAAATCAAGA-CAAAAAGAAAAA
36158460 AGAAGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
26 11 0.55
ACGTcount: A:0.67, C:0.12, G:0.10, T:0.10
Consensus pattern (25 bp):
CAAAATCAAGACAAAAAGAAAAAGG
Found at i:36159418 original size:7 final size:7
Alignment explanation
Indices: 36159381--36159436 Score: 69
Period size: 7 Copynumber: 7.9 Consensus size: 7
36159371 TGAGTCAGAA
36159381 AAAATATG
1 AAAA-ATG
36159389 AAAAATG
1 AAAAATG
36159396 ATAAAATG
1 A-AAAATG
*
36159404 -AGAATG
1 AAAAATG
36159410 AAAAATG
1 AAAAATG
36159417 AAAAATG
1 AAAAATG
*
36159424 AAAAATT
1 AAAAATG
36159431 AAAAAT
1 AAAAAT
36159437 AGAGAGGCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
6 5 0.12
7 28 0.65
8 10 0.23
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (7 bp):
AAAAATG
Found at i:36160743 original size:44 final size:44
Alignment explanation
Indices: 36160678--36160885 Score: 344
Period size: 44 Copynumber: 4.7 Consensus size: 44
36160668 AAATCACAAA
*
36160678 CCTAGCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
36160722 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGAAAGT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
36160766 CCTAGCTCCCTGACCAGTAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
36160810 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAATT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
** **
36160854 CCTATATCCCTGGTCAGCAGTGGAATAGGTTG
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTG
36160886 GGAAATTACA
Statistics
Matches: 154, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 154 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (44 bp):
CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
Found at i:36160997 original size:129 final size:129
Alignment explanation
Indices: 36160849--36161227 Score: 618
Period size: 129 Copynumber: 2.9 Consensus size: 129
36160839 TTGAAGATTG
36160849 CAATTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGT
1 CAATTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGT
*
36160914 AGTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* *
36160978 CAATTCCTATATCCATGGTCAGCAGTGGAATAGGTTGGAAAATTACAGATCTTGTCTCCCTAAGT
1 CAATTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGT
36161043 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* * * **
36161107 CAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTT-GGAAATTATAGATCTTGTCTCCCTAAAC
1 CAATTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGT
* * * * *
36161171 AGTA-CTAGAGTAGATCGAAGACGGCGAATCCTATCTTAAAGCGTAAGGAAGCAGATT
66 AGTAGC-GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATT
36161228 GAAGTCGATA
Statistics
Matches: 234, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
127 1 0.00
128 74 0.32
129 159 0.68
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (129 bp):
CAATTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGT
AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
Found at i:36161507 original size:44 final size:44
Alignment explanation
Indices: 36161242--36161517 Score: 159
Period size: 44 Copynumber: 6.3 Consensus size: 44
36161232 TCGATAATCC
* * * *
36161242 TATCTCCCTGAAGTTGTAGTGGAGCTGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAACAGATCT
* * ** ** *
36161286 TATCTCTCTGAAGTTGCAGTAGAGTGGA-T-CCAT--CAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAACAGATCT
* * * * *
36161326 TATCTCCCTGAAGTTGCAGCGGAGCAGACT-CAGTAAGCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAA-CAGATCT
* * ** * **
36161370 TATCCCCCTGAAGTTGCAGTGGGGCAGACCGAAGATGGCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAATAACAGATCT
* * * * * * *** *
36161415 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAG-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAAC-AGATCT
* *
36161459 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAACAGATCT
*
36161503 TATCTCTCTGAAGTT
1 TATCTCCCTGAAGTT
36161518 ACAATAGAGT
Statistics
Matches: 168, Mismatches: 56, Indels: 16
0.70 0.23 0.07
Matches are distributed among these distances:
40 28 0.17
41 3 0.02
42 1 0.01
43 3 0.02
44 102 0.61
45 30 0.18
46 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAACAGATCT
Found at i:36170241 original size:19 final size:21
Alignment explanation
Indices: 36170198--36170243 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
36170188 CAAATCAATA
* *
36170198 TTTGATATTCCCTTAGAATAT
1 TTTGATATTCCCTCAGAAAAT
36170219 TTTG-TATTCCCTCA-AAAAT
1 TTTGATATTCCCTCAGAAAAT
36170238 TTTGAT
1 TTTGAT
36170244 TTTGGCATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 8 0.36
20 10 0.45
21 4 0.18
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (21 bp):
TTTGATATTCCCTCAGAAAAT
Found at i:36170469 original size:20 final size:20
Alignment explanation
Indices: 36170446--36170496 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
36170436 GTATTCTCTA
36170446 AGAAATTTTGGAATTCCGTT-
1 AGAAATTTTGGAATTCC-TTC
* * *
36170466 AGAATTTTTCGTATTCCTTC
1 AGAAATTTTGGAATTCCTTC
*
36170486 AAAAATTTTGG
1 AGAAATTTTGG
36170497 TTTTGAAATG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (20 bp):
AGAAATTTTGGAATTCCTTC
Found at i:36181421 original size:51 final size:51
Alignment explanation
Indices: 36181344--36181651 Score: 332
Period size: 51 Copynumber: 6.0 Consensus size: 51
36181334 GAAAGGTCAA
* * * * * *
36181344 TGAACTATATATGCAAAGTATCTGCATACTGATTACGTAAAGTTCTATGCG
1 TGAACTGTCTATGCAAAGTATGTGCATACTAATTATGTAAAGTTCTATGTG
* * * *
36181395 TGAACTATCTATACAAAGTATGTGCATACTAATTATGTAATGTTCTATGTT
1 TGAACTGTCTATGCAAAGTATGTGCATACTAATTATGTAAAGTTCTATGTG
* * * *
36181446 TGAATTGTCTATGCAAAGTATGTGCATACTAGTTATGTGACA-TTCTATATG
1 TGAACTGTCTATGCAAAGTATGTGCATACTAATTATGT-AAAGTTCTATGTG
* * ** ** *
36181497 TGAATTGTCTATAG-AAAGTATGTCCGCACTGGTTATGTAAAGTTTTATGTG
1 TGAACTGTCTAT-GCAAAGTATGTGCATACTAATTATGTAAAGTTCTATGTG
* *
36181548 TGAACTGTGTATGCAAAGTATGTGCATACTAATTATGTAAAGTTTTATGTG
1 TGAACTGTCTATGCAAAGTATGTGCATACTAATTATGTAAAGTTCTATGTG
* * * * *
36181599 TGAATTGTCTATGGAAAGGATGTGCGTACTAATTATGTAAAGTTCTATATG
1 TGAACTGTCTATGCAAAGTATGTGCATACTAATTATGTAAAGTTCTATGTG
36181650 TG
1 TG
36181652 CACTAGCACT
Statistics
Matches: 216, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
50 3 0.01
51 211 0.98
52 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (51 bp):
TGAACTGTCTATGCAAAGTATGTGCATACTAATTATGTAAAGTTCTATGTG
Found at i:36181554 original size:27 final size:26
Alignment explanation
Indices: 36181528--36181616 Score: 69
Period size: 27 Copynumber: 3.4 Consensus size: 26
36181518 GTCCGCACTG
36181528 GTTATGTAAAGTTTTATGTGTGAACT
1 GTTATGTAAAGTTTTATGTGTGAACT
* *
36181554 GTGTATGCAAAG---TATGTG-CATACT
1 GT-TATGTAAAGTTTTATGTGTGA-ACT
* *
36181578 AATTATGTAAAGTTTTATGTGTGAATT
1 -GTTATGTAAAGTTTTATGTGTGAACT
*
36181605 GTCTATGGAAAG
1 GT-TATGTAAAG
36181617 GATGTGCGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 15
0.67 0.11 0.21
Matches are distributed among these distances:
23 1 0.02
24 17 0.36
25 1 0.02
26 3 0.06
27 24 0.51
28 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (26 bp):
GTTATGTAAAGTTTTATGTGTGAACT
Found at i:36181636 original size:153 final size:153
Alignment explanation
Indices: 36181371--36181651 Score: 411
Period size: 153 Copynumber: 1.8 Consensus size: 153
36181361 GTATCTGCAT
*
36181371 ACTGATTACGTAAAGTTCTATGCGTGAACTATCTATACAAAGTATGTGCATACTAATTATGTAAT
1 ACTGATTACGTAAAGTTCTATGCGTGAACTATCTATACAAAGTATGTGCATACTAATTATGTAAA
* * * *
36181436 GTTCTATGTTTGAATTGTCTATGCAAAGTATGTGCATACTAGTTATGTGACA-TTCTATATGTGA
66 GTTCTATGTGTGAATTGTCTATGCAAAGGATGTGCATACTAATTATGT-AAAGTTCTATATGTGA
36181500 ATTGTCTATAGAAAGTATGTCCGC
130 ATTGTCTATAGAAAGTATGTCCGC
* * * * * * *
36181524 ACTGGTTATGTAAAGTTTTATGTGTGAACTGTGTATGCAAAGTATGTGCATACTAATTATGTAAA
1 ACTGATTACGTAAAGTTCTATGCGTGAACTATCTATACAAAGTATGTGCATACTAATTATGTAAA
* * *
36181589 GTTTTATGTGTGAATTGTCTATGGAAAGGATGTGCGTACTAATTATGTAAAGTTCTATATGTG
66 GTTCTATGTGTGAATTGTCTATGCAAAGGATGTGCATACTAATTATGTAAAGTTCTATATGTG
36181652 CACTAGCACT
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
152 2 0.02
153 110 0.98
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (153 bp):
ACTGATTACGTAAAGTTCTATGCGTGAACTATCTATACAAAGTATGTGCATACTAATTATGTAAA
GTTCTATGTGTGAATTGTCTATGCAAAGGATGTGCATACTAATTATGTAAAGTTCTATATGTGAA
TTGTCTATAGAAAGTATGTCCGC
Found at i:36200563 original size:2 final size:2
Alignment explanation
Indices: 36200556--36200585 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36200546 ATGTGGTGTG
36200556 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36200586 CCCAAGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36200749 original size:37 final size:37
Alignment explanation
Indices: 36200657--36200760 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 37
36200647 ATGATCGGGA
* * *
36200657 GGATTAGCTCTTATGAGTATTTGGCATGTTTTCGGTT
1 GGATTAGCTCTTATGAGCATTTGGCGTGTTATCGGTT
* ** *
36200694 GGACTAGCTCTTCGGAGCAATTGGCGTGTTATCGGTT
1 GGATTAGCTCTTATGAGCATTTGGCGTGTTATCGGTT
* *
36200731 GGATTAGCTCATATGAGCATTTGGTGTGTT
1 GGATTAGCTCTTATGAGCATTTGGCGTGTT
36200761 TTCAGTTCAA
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.17, C:0.13, G:0.30, T:0.39
Consensus pattern (37 bp):
GGATTAGCTCTTATGAGCATTTGGCGTGTTATCGGTT
Found at i:36201994 original size:25 final size:25
Alignment explanation
Indices: 36201933--36201996 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
36201923 ACGAGCTATA
36201933 AACGGTAAGCTTC-TCCGAGCTGAAT
1 AACGGTAAGC-TCATCCGAGCTGAAT
* *
36201958 AACGGTAAGCTCATGCGAGCTGAGT
1 AACGGTAAGCTCATCCGAGCTGAAT
*
36201983 ATCGGTAAGCTCAT
1 AACGGTAAGCTCAT
36201997 ACAAATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (25 bp):
AACGGTAAGCTCATCCGAGCTGAAT
Found at i:36202187 original size:36 final size:36
Alignment explanation
Indices: 36202147--36202219 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
36202137 TCTAATTCAA
36202147 TCAAAGAATATAATTACACAATTTAATTACACGAAC
1 TCAAAGAATATAATTACACAATTTAATTACACGAAC
*
36202183 TCAAAGCATATAATTACACAATTTAATTACACGAAC
1 TCAAAGAATATAATTACACAATTTAATTACACGAAC
36202219 T
1 T
36202220 TACCTCGACG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (36 bp):
TCAAAGAATATAATTACACAATTTAATTACACGAAC
Found at i:36202537 original size:17 final size:17
Alignment explanation
Indices: 36202515--36202547 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36202505 TATTCACAAA
36202515 TTAACACAGTTTTCAAT
1 TTAACACAGTTTTCAAT
*
36202532 TTAACACATTTTTCAA
1 TTAACACAGTTTTCAA
36202548 AATTTTTCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAACACAGTTTTCAAT
Found at i:36204093 original size:20 final size:20
Alignment explanation
Indices: 36204044--36204082 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
36204034 TGGAGCAGAA
36204044 ATATCGATACCTTAAGAAAT
1 ATATCGATACCTTAAGAAAT
*
36204064 ATATCGATACCTTCAGAAA
1 ATATCGATACCTTAAGAAA
36204083 AGTATCAATA
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:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:36206025 original size:20 final size:21
Alignment explanation
Indices: 36205981--36206031 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
36205971 CGCAGCCTTA
*
36205981 TGTTGAGCCACAGCAGTCCTG
1 TGTTGAGCCACAGCAGACCTG
* *
36206002 TGTTGAGCCACATCA-ACTTG
1 TGTTGAGCCACAGCAGACCTG
*
36206022 TGTTGTGCCA
1 TGTTGAGCCA
36206032 TAAAGCCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.29
Consensus pattern (21 bp):
TGTTGAGCCACAGCAGACCTG
Found at i:36208163 original size:18 final size:18
Alignment explanation
Indices: 36208140--36208176 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
36208130 AGTTGGGACT
36208140 ATTAAATAATTAAATTTA
1 ATTAAATAATTAAATTTA
*
36208158 ATTAAATAATTAAGTTTA
1 ATTAAATAATTAAATTTA
36208176 A
1 A
36208177 AATGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAAATAATTAAATTTA
Found at i:36216456 original size:19 final size:20
Alignment explanation
Indices: 36216432--36216479 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
36216422 GATCAGTTGG
36216432 ACCTTT-GATTAATTAACAT
1 ACCTTTGGATTAATTAACAT
36216451 ACCTTTTTTGGATTAATTAACAT
1 ACC---TTTGGATTAATTAACAT
*
36216474 GCCTTT
1 ACCTTT
36216480 TTTTACTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
22 3 0.12
23 15 0.62
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (20 bp):
ACCTTTGGATTAATTAACAT
Found at i:36216464 original size:23 final size:23
Alignment explanation
Indices: 36216438--36216482 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
36216428 TTGGACCTTT
36216438 GATTAATTAACATACCTTTTTTG
1 GATTAATTAACATACCTTTTTTG
*
36216461 GATTAATTAACATGCCTTTTTT
1 GATTAATTAACATACCTTTTTT
36216483 TACTGACGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (23 bp):
GATTAATTAACATACCTTTTTTG
Found at i:36219205 original size:50 final size:50
Alignment explanation
Indices: 36219097--36219287 Score: 229
Period size: 50 Copynumber: 3.7 Consensus size: 50
36219087 GGGAATGAGA
* *
36219097 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGTGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
*
36219153 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * **
36219203 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
36219253 TCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG
36219288 TAGTACAGAA
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 80 0.67
53 3 0.03
55 1 0.01
56 36 0.30
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:36219555 original size:12 final size:12
Alignment explanation
Indices: 36219538--36219576 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
36219528 ATGAGTTATT
36219538 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
36219550 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
36219562 TAAGTGAGTAAG
1 TAAGTAAGCAAG
36219574 TAA
1 TAA
36219577 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:36221207 original size:36 final size:36
Alignment explanation
Indices: 36221160--36221228 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
36221150 GGAAATAAAA
* *
36221160 TAGCACATAAGATTACAACATTGGCTTTTGACTAAC
1 TAGCAAATAAGATTACAACAATGGCTTTTGACTAAC
36221196 TAGCAAATAAGATTACAACAATGGCTTTTGACT
1 TAGCAAATAAGATTACAACAATGGCTTTTGACT
36221229 GTCCACCTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (36 bp):
TAGCAAATAAGATTACAACAATGGCTTTTGACTAAC
Found at i:36222871 original size:23 final size:23
Alignment explanation
Indices: 36222845--36222920 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
36222835 ATAAGTGTCA
**
36222845 CACTGATATGTAGCTAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36222868 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36222891 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36222914 CACTGAT
1 CACTGAT
36222921 CAATAACATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:36223172 original size:18 final size:17
Alignment explanation
Indices: 36223146--36223184 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
36223136 ATTTTCCTTC
36223146 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
36223163 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
36223181 CACA
1 CACA
36223185 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:36224766 original size:15 final size:16
Alignment explanation
Indices: 36224746--36224785 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
36224736 TGTTTAGTTC
*
36224746 TAGGGTTTTTTGG-TT
1 TAGGGTTTTTAGGATT
36224761 TAGGGTTTTTAGGATT
1 TAGGGTTTTTAGGATT
36224777 TAGGGTTTT
1 TAGGGTTTT
36224786 GTTAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.12, C:0.00, G:0.33, T:0.55
Consensus pattern (16 bp):
TAGGGTTTTTAGGATT
Found at i:36224838 original size:14 final size:14
Alignment explanation
Indices: 36224819--36224851 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36224809 GTTTTAGGTA
36224819 GGTTTA-GGATTTAT
1 GGTTTATGG-TTTAT
36224833 GGTTTATGGTTTAT
1 GGTTTATGGTTTAT
36224847 GGTTT
1 GGTTT
36224852 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (14 bp):
GGTTTATGGTTTAT
Found at i:36224930 original size:34 final size:34
Alignment explanation
Indices: 36224836--36224958 Score: 151
Period size: 34 Copynumber: 3.6 Consensus size: 34
36224826 GATTTATGGT
*
36224836 TTATGGTTTATGGTTTTTTTAAAAAAA-TAATTAAA
1 TTATGGTTTA-GG-GTTTTTAAAAAAATTAATTAAA
* * *
36224871 TTATGTTTTTGGG-TTTTAAATAAATTAATTAAA
1 TTATGGTTTAGGGTTTTTAAAAAAATTAATTAAA
*
36224904 TTAGGGTTTAGGGTTTTTAAAAAAATTAATTAAA
1 TTATGGTTTAGGGTTTTTAAAAAAATTAATTAAA
**
36224938 TTATGGTTTAGTTTTTTTAAA
1 TTATGGTTTAGGGTTTTTAAA
36224959 TAATTTTGTG
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
32 10 0.13
33 18 0.24
34 39 0.52
35 8 0.11
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.50
Consensus pattern (34 bp):
TTATGGTTTAGGGTTTTTAAAAAAATTAATTAAA
Found at i:36224980 original size:7 final size:7
Alignment explanation
Indices: 36224968--36225017 Score: 73
Period size: 7 Copynumber: 7.1 Consensus size: 7
36224958 ATAATTTTGT
36224968 GTTTAGG
1 GTTTAGG
36224975 GTTTAGG
1 GTTTAGG
*
36224982 GTTTAGA
1 GTTTAGG
*
36224989 GTTTAGA
1 GTTTAGG
36224996 GTTTAGG
1 GTTTAGG
*
36225003 GTTTAGA
1 GTTTAGG
36225010 GTTTAGG
1 GTTTAGG
36225017 G
1 G
36225018 AAAATTATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:36224987 original size:14 final size:14
Alignment explanation
Indices: 36224968--36225017 Score: 82
Period size: 14 Copynumber: 3.6 Consensus size: 14
36224958 ATAATTTTGT
*
36224968 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGA
*
36224982 GTTTAGAGTTTAGA
1 GTTTAGGGTTTAGA
36224996 GTTTAGGGTTTAGA
1 GTTTAGGGTTTAGA
36225010 GTTTAGGG
1 GTTTAGGG
36225018 AAAATTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:36224992 original size:21 final size:21
Alignment explanation
Indices: 36224968--36225017 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
36224958 ATAATTTTGT
36224968 GTTTAGGGTTTAGGGTTTAGA
1 GTTTAGGGTTTAGGGTTTAGA
*
36224989 GTTTAGAGTTTAGGGTTTAGA
1 GTTTAGGGTTTAGGGTTTAGA
36225010 GTTTAGGG
1 GTTTAGGG
36225018 AAAATTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGTTTAGA
Found at i:36225281 original size:126 final size:126
Alignment explanation
Indices: 36225051--36225445 Score: 542
Period size: 126 Copynumber: 3.1 Consensus size: 126
36225041 ACTTTTGTTT
* * *
36225051 TTTTTCTACAGTTGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAA-AGATAATGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCT-AAACAAATAGTGTCAAA
* * *
36225115 AATGCTTCAAGCAGGATGCAGTGTCAGCAAAATT-ACTGAAAAAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGTAAAATTGA-TGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
36225177 TTTTTCTACAGTAGATCCTAAAAAAATAATTTTGAGATGAAGGTTCTAAACAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAAAA
* * * * *
36225242 ACACTTCAAACAGGATGCACTGTTAGTAAAATTGATGAAAAAAGCTCCCACGTAGACTCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
*
36225303 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAAAA
* * * * * *
36225368 ACGCTTCAAGTAAGATTCACTATCAGTAAAATTGATGGAAAAAGCTCCCACATGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
*
36225429 TTTTTCTATAGTAGTTC
1 TTTTTCTACAGTAGTTC
36225446 ATGTTTGGCC
Statistics
Matches: 233, Mismatches: 34, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
125 3 0.01
126 229 0.98
127 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
Found at i:36230583 original size:24 final size:23
Alignment explanation
Indices: 36230552--36230601 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 23
36230542 GACTGTTATA
36230552 AAAATTATA-AAATAAAAACTAATT
1 AAAATTATATAAATAAAAA--AATT
36230576 AAAATTATATAAATAAAAAAATT
1 AAAATTATATAAATAAAAAAATT
36230599 AAA
1 AAA
36230602 TAATGTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 7 0.28
24 9 0.36
25 9 0.36
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAATTATATAAATAAAAAAATT
Found at i:36231255 original size:50 final size:50
Alignment explanation
Indices: 36231201--36231340 Score: 176
Period size: 50 Copynumber: 2.8 Consensus size: 50
36231191 TTAATAAAGT
36231201 CATGCATTATGTAACTTTCCTGTTAGTTAAGTATGCATCATAAATAATGA
1 CATGCATTATGTAACTTTCCTGTTAGTTAAGTATGCATCATAAATAATGA
* * * * *
36231251 CATGCATTATGTAACTCTCATGTTAGTTAAG-ATTGCATCATATATTATGT
1 CATGCATTATGTAACTTTCCTGTTAGTTAAGTA-TGCATCATAAATAATGA
* *
36231301 CATGCATTATGTAAC-TTCCATGTCAGTTAAAGTTTGCATC
1 CATGCATTATGTAACTTTCC-TGTTAGTT-AAGTATGCATC
36231341 TTTAAATGAA
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
49 3 0.04
50 65 0.84
51 9 0.12
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (50 bp):
CATGCATTATGTAACTTTCCTGTTAGTTAAGTATGCATCATAAATAATGA
Found at i:36233833 original size:126 final size:126
Alignment explanation
Indices: 36233661--36233888 Score: 384
Period size: 126 Copynumber: 1.8 Consensus size: 126
36233651 TGGGTAAAAT
* *
36233661 AATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATCCGTTAGCAAGTTAAT
1 AATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATCCGTTACCAAATTAAT
*
36233726 AAAAAGATAATTTAAATGATAAATTTCGAATAGTTAAGTGATTAAATTGTAAGTTTTCATA
66 AAAAAGATAATTTAAATGATAAATTTCGAATAATTAAGTGATTAAATTGTAAGTTTTCATA
* *
36233787 AATTAGTAGTATATATGATGAATAGTGATTAAACAACTCATGTTGAGATTCGTTACCAAATTAAT
1 AATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATCCGTTACCAAATTAAT
* * *
36233852 AAAGAGATAATTTAAGTGATAAATTTTGAATAATTAA
66 AAAAAGATAATTTAAATGATAAATTTCGAATAATTAA
36233889 ATTAGTAGTA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 94 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (126 bp):
AATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATCCGTTACCAAATTAAT
AAAAAGATAATTTAAATGATAAATTTCGAATAATTAAGTGATTAAATTGTAAGTTTTCATA
Found at i:36233937 original size:101 final size:101
Alignment explanation
Indices: 36233785--36233989 Score: 347
Period size: 101 Copynumber: 2.0 Consensus size: 101
36233775 TAAGTTTTCA
*
36233785 TAAATTAGTAGTATATATGATGAATAGTGATTAAACAACTCATGTTGAGATTCGTTACCAAATTA
1 TAAATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATTCGTTACCAAATTA
* *
36233850 ATAAAGAGATAATTTAAGTGATAAATTTTGAATAAT
66 ATAAAGAGATAATTTAAATGATAAATTTCGAATAAT
* * * *
36233886 TAAATTAGTAGTATATATGAGGAATAGTGATTAAACAGCTCATGTTGAGATTTGTTAGCAAGTTA
1 TAAATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATTCGTTACCAAATTA
36233951 ATAAAGAGATAATTTAAATGATAAATTTCGAATAAT
66 ATAAAGAGATAATTTAAATGATAAATTTCGAATAAT
36233987 TAA
1 TAA
36233990 GTGATTAAAT
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.35
Consensus pattern (101 bp):
TAAATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATTCGTTACCAAATTA
ATAAAGAGATAATTTAAATGATAAATTTCGAATAAT
Found at i:36235284 original size:18 final size:19
Alignment explanation
Indices: 36235250--36235290 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
36235240 TTTGATTGCT
36235250 GGGTCGTTGCCAAGTTT-C
1 GGGTCGTTGCCAAGTTTAC
**
36235268 GGGTCGTTGCCGGGTTTAC
1 GGGTCGTTGCCAAGTTTAC
36235287 GGGT
1 GGGT
36235291 TTTGAGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.07, C:0.20, G:0.41, T:0.32
Consensus pattern (19 bp):
GGGTCGTTGCCAAGTTTAC
Found at i:36236335 original size:89 final size:89
Alignment explanation
Indices: 36236184--36236363 Score: 360
Period size: 89 Copynumber: 2.0 Consensus size: 89
36236174 TACTCAATGC
36236184 AGAAGATTTTTTGTACATGGATATCCGACAAATGCGAATCACTGAGTCCCATAAATGAAACATTT
1 AGAAGATTTTTTGTACATGGATATCCGACAAATGCGAATCACTGAGTCCCATAAATGAAACATTT
36236249 AACTGTAGCAAAAACCAGTAGTTT
66 AACTGTAGCAAAAACCAGTAGTTT
36236273 AGAAGATTTTTTGTACATGGATATCCGACAAATGCGAATCACTGAGTCCCATAAATGAAACATTT
1 AGAAGATTTTTTGTACATGGATATCCGACAAATGCGAATCACTGAGTCCCATAAATGAAACATTT
36236338 AACTGTAGCAAAAACCAGTAGTTT
66 AACTGTAGCAAAAACCAGTAGTTT
36236362 AG
1 AG
36236364 TCTTTGTGTT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (89 bp):
AGAAGATTTTTTGTACATGGATATCCGACAAATGCGAATCACTGAGTCCCATAAATGAAACATTT
AACTGTAGCAAAAACCAGTAGTTT
Found at i:36244474 original size:6 final size:6
Alignment explanation
Indices: 36244457--36244494 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
36244447 TACCCTTTTC
*
36244457 TCCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
36244495 GGGTTGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCCT
Found at i:36244482 original size:18 final size:18
Alignment explanation
Indices: 36244459--36244494 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
36244449 CCCTTTTCTC
36244459 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
36244477 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
36244495 GGGTTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (18 bp):
CCCTTTCCCCTTCCCCTT
Found at i:36247393 original size:12 final size:12
Alignment explanation
Indices: 36247363--36247395 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
36247353 ATGCAACAGG
36247363 AAACCAGCA-GC
1 AAACCAGCATGC
36247374 AAACCAGCATGC
1 AAACCAGCATGC
*
36247386 AGACCAGCAT
1 AAACCAGCAT
36247396 CCAAGCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.42, C:0.33, G:0.18, T:0.06
Consensus pattern (12 bp):
AAACCAGCATGC
Found at i:36255444 original size:43 final size:44
Alignment explanation
Indices: 36255368--36255450 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 44
36255358 CAATCGCAGG
* * *
36255368 AATTAGTAGAATACTCTATTGAGGCTTTATTTTTT-TCCCCCAC
1 AATTAGTAGAATACTCAACTGAGCCTTTATTTTTTCTCCCCCAC
* * *
36255411 AATTTGTAGAATATTCAACTGAGCCTTTCTTTTTTCTCCC
1 AATTAGTAGAATACTCAACTGAGCCTTTATTTTTTCTCCC
36255451 AAAAATTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 29 0.88
44 4 0.12
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (44 bp):
AATTAGTAGAATACTCAACTGAGCCTTTATTTTTTCTCCCCCAC
Found at i:36257281 original size:9 final size:9
Alignment explanation
Indices: 36257267--36257295 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
36257257 CAAAATTATA
36257267 TTAAAATAT
1 TTAAAATAT
36257276 TTAAAATAT
1 TTAAAATAT
36257285 TTAAAATAT
1 TTAAAATAT
36257294 TT
1 TT
36257296 TATTTACTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTAAAATAT
Found at i:36257581 original size:23 final size:23
Alignment explanation
Indices: 36257527--36257581 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
36257517 ACACCTTCCT
* * *
36257527 TTTATTTTTAAAAATAATTAATA
1 TTTATATTAAAAAATAATTAAAA
* *
36257550 TTAATTATTAAAAAATATTTAAAA
1 TTTA-TATTAAAAAATAATTAAAA
36257574 TTTATATT
1 TTTATATT
36257582 TTATATATCA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTATATTAAAAAATAATTAAAA
Found at i:36259314 original size:20 final size:21
Alignment explanation
Indices: 36259261--36259314 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
36259251 GTAGCATAAA
*
36259261 GATTCAAAGCATCAAACAATC
1 GATTTAAAGCATCAAACAATC
*
36259282 GATTTAAA-TATCAAACAAT-
1 GATTTAAAGCATCAAACAATC
*
36259301 TATTTAAAGCATCA
1 GATTTAAAGCATCA
36259315 TTCAATCAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 7 0.25
20 14 0.50
21 7 0.25
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (21 bp):
GATTTAAAGCATCAAACAATC
Found at i:36259829 original size:41 final size:40
Alignment explanation
Indices: 36259755--36259835 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 40
36259745 ATCCCGAACC
* *
36259755 GACAAAATTCTCCTGCCCCTAATTGTGCCCCTTTTATATG
1 GACAAAATTCTCATGCCCCTAATTATGCCCCTTTTATATG
* *
36259795 GACAAAATTCTCATGCTCCCTAATTATTCTCCTTTTATATG
1 GACAAAATTCTCATGC-CCCTAATTATGCCCCTTTTATATG
36259836 CCCCTCCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 15 0.42
41 21 0.58
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (40 bp):
GACAAAATTCTCATGCCCCTAATTATGCCCCTTTTATATG
Found at i:36260467 original size:152 final size:153
Alignment explanation
Indices: 36260277--36261330 Score: 1463
Period size: 152 Copynumber: 6.9 Consensus size: 153
36260267 TTTTTTATTG
* * *
36260277 AAAGTAATAAAATCCAGTAAAAAAATACGAACAAAGGGCCGAAATAA-GTTTTTTTTTTAA-TTA
1 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTTTAAATTTA
* * *
36260340 TTTAAAAACCACACTAAATGAATACATTGCAAACATAATGTACTAAAATAATGTAAAATAATAAA
66 TTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* *
36260405 ATTATAAAATATTATATTTTTTA
131 ATTAGAAAATAATATATTTTTTA
*
36260428 AAAGTAATAAAATCCGGGGAAAAAAATACGAACAAAGGGCCGAAATAATGGTTTTTTTTAAAAAT
1 AAAGTAATAAAATCC-GGGAAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTTTTT-TAAAT
* *
36260493 TTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATATAAAATAAT
63 TTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* *
36260558 AAAATAAGAAAATAATATATTTTTATTG
128 AAAATTAGAAAATAATATA-TTTT-TTA
* *
36260586 AAAGTAATAAAATCC-GG-AAAAAATACGAATAAAGGGCCGAAATAAGGATTTTTTTTAAATTTA
1 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTTTAAATTTA
*
36260649 TTT-AAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
66 TTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
*
36260713 ATTAGAAAATAGTAT-TTTTTT-
131 ATTAGAAAATAATATATTTTTTA
*
36260734 AAAGTAATAAAATCCAGGGAAAAAAAT-CGAAAAAAGGGCCGAAATAAGGGTTTTTTTTTAAATT
1 AAAGTAATAAAATCC-GGGAAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTTTTTTAAATT
* *
36260798 TATTTAAAAAACATAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
64 TATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* *
36260863 AAATCAGAAAATATTAT-TTTTTTA
129 AAATTAGAAAATAATATATTTTTTA
* *
36260887 AAAGTAATAAAATTCGGGGAAAAAAATACGAACAAAGGGCCGAAATAATGGTTTTTTTTAAAAAT
1 AAAGTAATAAAA-TCCGGGAAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTTTTT-TAAAT
* * *
36260952 TTATTTAAAAAACACAGTAAATTAAAACATTTCAAATATAATGTACTAAAATAATGTAAAATAAT
63 TTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
*
36261017 AAAATAAGAAAATAATATATATTTTT-
128 AAAATTAGAAAATAATATAT-TTTTTA
* * * *
36261043 AAAGTAATAAACTCTGGAGAAAAAAATACGAACAAAGGGACGAAATAAGGGTTTTTTTTAAAAAT
1 AAAGTAATAAAATCCGG-GAAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTTTTT-TAAAT
* *
36261108 TTATTTAAAAAA-ACACTAAATTAATACATTTCAAACTTGATGTACTAAAATAATGTAAAATAAT
63 TTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* * *
36261172 AAAATTATAAAATAGTAAATTTTATTA
128 AAAATTAGAAAATAATATATTTT-TTA
* * * *
36261199 GAAAGTAATAAAATCCCGGAAAAAGATACGAACAAAGGGCCGAAATAA-ATATTTTTTT-AATTT
1 -AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTTTAAATTT
* *
36261262 ATTTAAAAAACAAACTAAATTAATACATTT-ACAATATAATGTACTAAAATAATGTAAAATAA-A
65 ATTTAAAAAACACACTAAATTAATACATTTCA-AACATAATGTACTAAAATAATGTAAAATAATA
36261325 AAATTA
129 AAATTA
36261331 TATTTTTTAA
Statistics
Matches: 817, Mismatches: 62, Indels: 47
0.88 0.07 0.05
Matches are distributed among these distances:
148 15 0.02
149 2 0.00
150 25 0.03
151 42 0.05
152 201 0.25
153 78 0.10
154 59 0.07
155 180 0.22
156 175 0.21
157 23 0.03
158 17 0.02
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (153 bp):
AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTTTAAATTTA
TTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
ATTAGAAAATAATATATTTTTTA
Found at i:36265083 original size:15 final size:17
Alignment explanation
Indices: 36265065--36265105 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
36265055 ATTAATTTAT
*
36265065 TATTTTTTAAATAT-A-
1 TATTTTTAAAATATGAG
36265080 TATTTTTAAAATATGAG
1 TATTTTTAAAATATGAG
36265097 TATTTTTAA
1 TATTTTTAA
36265106 GGTGTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.57
16 1 0.04
17 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TATTTTTAAAATATGAG
Found at i:36265784 original size:3 final size:3
Alignment explanation
Indices: 36265776--36265840 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
36265766 AATCTAAGTA
36265776 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
36265824 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
36265841 AGAATTAGTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:36266298 original size:28 final size:28
Alignment explanation
Indices: 36266256--36266315 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
36266246 GTGTTCCCTG
36266256 TTTTTCAAAATTTACAATTTTGCCCATA
1 TTTTTCAAAATTTACAATTTTGCCCATA
* * *
36266284 TTTTTC-AAATGTTACAGTTTTGCGCATG
1 TTTTTCAAAAT-TTACAATTTTGCCCATA
36266312 TTTT
1 TTTT
36266316 CTAGGTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (28 bp):
TTTTTCAAAATTTACAATTTTGCCCATA
Found at i:36278530 original size:17 final size:17
Alignment explanation
Indices: 36278508--36278541 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36278498 TGTTAGTGCA
* *
36278508 CATTGTTGTTGTATTTT
1 CATTGTCGTTGCATTTT
36278525 CATTGTCGTTGCATTTT
1 CATTGTCGTTGCATTTT
36278542 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.59
Consensus pattern (17 bp):
CATTGTCGTTGCATTTT
Found at i:36296292 original size:26 final size:26
Alignment explanation
Indices: 36296252--36296305 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
36296242 CACATAGAAG
* *
36296252 AATGATCAGACAATGAATCTTTTACT
1 AATGATCAAACAATGAATCTTTCACT
*
36296278 AATGATCAAATAATGAATCTTTCACT
1 AATGATCAAACAATGAATCTTTCACT
36296304 AA
1 AA
36296306 CTCAAGGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (26 bp):
AATGATCAAACAATGAATCTTTCACT
Found at i:36310580 original size:72 final size:72
Alignment explanation
Indices: 36310461--36310601 Score: 255
Period size: 72 Copynumber: 2.0 Consensus size: 72
36310451 ATTAACCAAC
* *
36310461 AAGTAGGGAGAAAACATATGTTTCTTCTAGAACTATCAAGACTTATATTTCTATTCGATTTATTT
1 AAGTAGGGAGAAAACATATGTTTCTTCTAGAACTATCAAGACATATATTTCTATTCGATTTATAT
36310526 GTTCAAT
66 GTTCAAT
*
36310533 AAGTAGGGAGAAAACATATGTTTCTTCTAGAACTATCAAGACATATATTTCTATTCGTTTTATAT
1 AAGTAGGGAGAAAACATATGTTTCTTCTAGAACTATCAAGACATATATTTCTATTCGATTTATAT
36310598 GTTC
66 GTTC
36310602 TTGTCCTCTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (72 bp):
AAGTAGGGAGAAAACATATGTTTCTTCTAGAACTATCAAGACATATATTTCTATTCGATTTATAT
GTTCAAT
Found at i:36312567 original size:37 final size:38
Alignment explanation
Indices: 36312516--36312611 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 38
36312506 AGTTCCACAT
* ****
36312516 TGTGGTGTGTAGGGTGGATGAGCCTATTATGGTTC-TA
1 TGTGGTGTGCAGGGTGGATGAGCCTATTATAACCCTTA
** *
36312553 TGTGGTGTGCAGGGTGGACAAGCCTATTGTAACCCTTA
1 TGTGGTGTGCAGGGTGGATGAGCCTATTATAACCCTTA
36312591 TGTGGTGTGCAGGGTGGATGA
1 TGTGGTGTGCAGGGTGGATGA
36312612 AGTGGTGTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 27 0.56
38 21 0.44
ACGTcount: A:0.18, C:0.11, G:0.39, T:0.32
Consensus pattern (38 bp):
TGTGGTGTGCAGGGTGGATGAGCCTATTATAACCCTTA
Found at i:36313916 original size:22 final size:22
Alignment explanation
Indices: 36313873--36313916 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
36313863 AAAACAGGTT
*
36313873 TTTAGCGGCGTTTTTTTATGCC
1 TTTAGCGGCGTCTTTTTATGCC
36313895 TTTAGCGGCG-CTTTTTAGTGCC
1 TTTAGCGGCGTCTTTTTA-TGCC
36313917 GCTAAAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.09, C:0.20, G:0.25, T:0.45
Consensus pattern (22 bp):
TTTAGCGGCGTCTTTTTATGCC
Found at i:36314158 original size:43 final size:43
Alignment explanation
Indices: 36313974--36314319 Score: 497
Period size: 42 Copynumber: 8.2 Consensus size: 43
36313964 TGTTGCTAAT
* * *
36313974 GCCGCTACAGATCAGGACCTTTAGCGGCGC-TTCCCCACAAAC
1 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
36314016 GCCGCTATAGATCAGGACCTTTACCGGCGC--TTCCCTACAAAC
1 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCC-ACAAAC
36314058 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-CCACAAAC
1 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
36314100 GCCGCTATAGCTCAAGATCTTTAGCGGCGCTTTCCCCACAAAC
1 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
36314143 GCCACTATAGATCAAGACCTTTAGCGGCACTTTTCCCACAAAC
1 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
36314186 GCCGCTATAGAGC-ATACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
36314228 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCACACAAAC
1 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
36314271 GCCGCTATAGAAC-AGACCTTTAGCGGCGCTTTTCACACAAAC
1 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
36314313 GCCGCTA
1 GCCGCTA
36314320 AAAACATATC
Statistics
Matches: 276, Mismatches: 23, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
41 4 0.01
42 173 0.63
43 97 0.35
44 2 0.01
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (43 bp):
GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:36314176 original size:85 final size:84
Alignment explanation
Indices: 36313974--36314319 Score: 496
Period size: 85 Copynumber: 4.1 Consensus size: 84
36313964 TGTTGCTAAT
* * **
36313974 GCCGCTACAGATCAGGACCTTTAGCGGCGCTTCCCCACAAACGCCGCTATAGATCAGGACCTTTA
1 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGATCA-GACCTTTA
* *
36314039 CCGGCGC-TTCCCTACAAAC
65 GCGGCGCTTTCCCCACAAAC
* *
36314058 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGCTCAAGATCTTTA
1 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGATC-AGACCTTTA
36314123 GCGGCGCTTTCCCCACAAAC
65 GCGGCGCTTTCCCCACAAAC
* * * *
36314143 GCCACTATAGATCAAGACCTTTAGCGGCACTTTTCCCACAAACGCCGCTATAGAGCATACCTTTA
1 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTATAGATCAGACCTTTA
*
36314208 GCGGCGCTTTTCCCACAAAC
65 GCGGCGCTTTCCCCACAAAC
* *
36314228 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAACAGACCTTTA
1 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTC-CACAAACGCCGCTATAGATCAGACCTTTA
* *
36314293 GCGGCGCTTTTCACACAAAC
65 GCGGCGCTTTCCCCACAAAC
36314313 GCCGCTA
1 GCCGCTA
36314320 AAAACATATC
Statistics
Matches: 237, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
84 64 0.27
85 154 0.65
86 19 0.08
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (84 bp):
GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGATCAGACCTTTAG
CGGCGCTTTCCCCACAAAC
Found at i:36314391 original size:24 final size:23
Alignment explanation
Indices: 36314350--36314403 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
36314340 ATAATTTTTT
*
36314350 TAAATAATATTTATTTTT-ATGA
1 TAAATAATATTTATTTTTAAGGA
*
36314372 TAAATATTATATTATGTTTTAAGGA
1 TAAATAATAT-TTAT-TTTTAAGGA
36314397 TAAATAA
1 TAAATAA
36314404 AAAATATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 9 0.35
23 4 0.15
24 4 0.15
25 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (23 bp):
TAAATAATATTTATTTTTAAGGA
Found at i:36314477 original size:35 final size:35
Alignment explanation
Indices: 36314438--36314504 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
36314428 CTACGAAAAT
*
36314438 TTTAATTTTA-AAACTAAATATAAAAAATTAATGAA
1 TTTAAATTTAGAAACTAAA-ATAAAAAATTAATGAA
** *
36314473 TTTAAATTTAGAATTTAAAATAATAAATTAAT
1 TTTAAATTTAGAAACTAAAATAAAAAATTAAT
36314505 AATACAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 21 0.78
36 6 0.22
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.40
Consensus pattern (35 bp):
TTTAAATTTAGAAACTAAAATAAAAAATTAATGAA
Found at i:36317978 original size:29 final size:29
Alignment explanation
Indices: 36317930--36317988 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
36317920 TTATAAAAAT
*
36317930 AAAAGTTTAAAATCTTTTTAAAATTTCTAA
1 AAAAATTTAAAATCTTTTTAAAATTT-TAA
36317960 AAAAATTTAAAATC-TTTTAAAATTTTAA
1 AAAAATTTAAAATCTTTTTAAAATTTTAA
36317988 A
1 A
36317989 TCACGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 4 0.14
29 11 0.39
30 13 0.46
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (29 bp):
AAAAATTTAAAATCTTTTTAAAATTTTAA
Found at i:36318733 original size:7 final size:7
Alignment explanation
Indices: 36318721--36318788 Score: 82
Period size: 7 Copynumber: 9.6 Consensus size: 7
36318711 TCCCAACCTT
36318721 TAAACCA
1 TAAACCA
36318728 TAAACCA
1 TAAACCA
36318735 TAAACCA
1 TAAACCA
36318742 TAAACCA
1 TAAACCA
*
36318749 TAACCCA
1 TAAACCA
* *
36318756 TAATCCC
1 TAAACCA
36318763 TAAACCCA
1 TAAA-CCA
*
36318771 TAATCCA
1 TAAACCA
*
36318778 TAAACCT
1 TAAACCA
36318785 TAAA
1 TAAA
36318789 ATGGCAACAC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
7 47 0.90
8 5 0.10
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCA
Found at i:36319019 original size:66 final size:67
Alignment explanation
Indices: 36318913--36319047 Score: 254
Period size: 66 Copynumber: 2.0 Consensus size: 67
36318903 CCCTAAACTA
*
36318913 TAGTGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAG-AAATTA
1 TAGTGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAGAAAATTA
36318977 TT
66 TT
36318979 TAGTGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAGAAAATTA
1 TAGTGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAGAAAATTA
36319044 TT
66 TT
36319046 TA
1 TA
36319048 ATATATAAAT
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
66 57 0.85
67 10 0.15
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (67 bp):
TAGTGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAGAAAATTA
TT
Found at i:36319223 original size:41 final size:41
Alignment explanation
Indices: 36319168--36319323 Score: 251
Period size: 41 Copynumber: 3.8 Consensus size: 41
36319158 CCTGAGCATT
36319168 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGC
*
36319209 ATTAGCGGCGCTTTCACAAAAACGCCGCTAAAGGCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGC
* *
36319250 ATTAGCGGCAC-TTCCACAAAAATGCCGCTAAAGGCCTGGGGC
1 ATTAGCGGCGCTTTCC-CAAAAACGCCGCTAAAGGCCT-GGGC
*
36319292 ATTGGCGGCGCTTTCCCAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAA
36319324 TCCCCGAAAG
Statistics
Matches: 105, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
40 3 0.03
41 70 0.67
42 28 0.27
43 4 0.04
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.17
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGC
Found at i:36319321 original size:83 final size:82
Alignment explanation
Indices: 36319168--36319323 Score: 251
Period size: 83 Copynumber: 1.9 Consensus size: 82
36319158 CCTGAGCATT
*
36319168 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGCATTAGCGGCGCTTTCACAAAAACG
1 ATTAGCGGCACTTTCCCAAAAACGCCGCTAAAGGCCTGGGCATTAGCGGCGCTTTCACAAAAACG
36319233 CCGCTAAAGGCCTGGGC
66 CCGCTAAAGGCCTGGGC
* * *
36319250 ATTAGCGGCAC-TTCCACAAAAATGCCGCTAAAGGCCTGGGGCATTGGCGGCGCTTTCCCAAAAA
1 ATTAGCGGCACTTTCC-CAAAAACGCCGCTAAAGGCCT-GGGCATTAGCGGCGCTTTCACAAAAA
36319314 CGCCGCTAAA
64 CGCCGCTAAA
36319324 TCCCCGAAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 4 0.06
82 30 0.44
83 34 0.50
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.17
Consensus pattern (82 bp):
ATTAGCGGCACTTTCCCAAAAACGCCGCTAAAGGCCTGGGCATTAGCGGCGCTTTCACAAAAACG
CCGCTAAAGGCCTGGGC
Found at i:36319429 original size:39 final size:40
Alignment explanation
Indices: 36319382--36319514 Score: 155
Period size: 40 Copynumber: 3.3 Consensus size: 40
36319372 CGCTTTATTG
* * *
36319382 AAAACGCCGCTAATGCT-TATTTTTTGCGGCGTTTTCCAT
1 AAAACGCCGCTAATGCTCGATCTTTAGCGGCGTTTTCCAT
*
36319421 AAAGCGCCGCTAAAT-CTCGATCTTTAGCGGCGTTTTCCA-
1 AAAACGCCGCT-AATGCTCGATCTTTAGCGGCGTTTTCCAT
**
36319460 AAAATCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTTTAT
1 AAAA-CGCCGCTAATGCTCGATCTTTAGCGGCGTTTTCCAT
*
36319501 CCAAACGCCGCTAA
1 -AAAACGCCGCTAA
36319515 AAATGCCGCT
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
39 18 0.22
40 50 0.62
41 9 0.11
42 3 0.04
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (40 bp):
AAAACGCCGCTAATGCTCGATCTTTAGCGGCGTTTTCCAT
Found at i:36320346 original size:19 final size:19
Alignment explanation
Indices: 36320316--36320371 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
36320306 AAAGAATTGC
*
36320316 CAAAAATGGTAATATGAAGT
1 CAAAATTGGTAATATGAA-T
* *
36320336 -AAATTTGGTAATAAGAAT
1 CAAAATTGGTAATATGAAT
*
36320354 CAAAATTGATAATATGAA
1 CAAAATTGGTAATATGAA
36320372 AACATATAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 1 0.03
19 28 0.97
ACGTcount: A:0.52, C:0.04, G:0.16, T:0.29
Consensus pattern (19 bp):
CAAAATTGGTAATATGAAT
Found at i:36322647 original size:20 final size:21
Alignment explanation
Indices: 36322624--36322743 Score: 75
Period size: 20 Copynumber: 5.4 Consensus size: 21
36322614 TTTTATTATG
36322624 GCCTTTGTGGC-ATTATGTTA
1 GCCTTTGTGGCGATTATGTTA
36322644 GCCTTTGTGGCGTAATCTGA-GTTA
1 GCCTTTGTGGCG--AT-T-ATGTTA
** * *
36322668 GCCGCTATGGCGTATTCTGTTA
1 GCCTTTGTGGCG-ATTATGTTA
* *
36322690 GCCTTTGTGGC-ATTCTGCTA
1 GCCTTTGTGGCGATTATGTTA
*
36322710 GCCTTTGTGGTGTATTATGTATGTA
1 GCCTTTGTGGCG-ATTATG--T-TA
36322735 GCCTTTGTG
1 GCCTTTGTG
36322744 TCGTATTCTG
Statistics
Matches: 77, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
20 29 0.38
22 18 0.23
23 4 0.05
24 14 0.18
25 12 0.16
ACGTcount: A:0.13, C:0.17, G:0.28, T:0.42
Consensus pattern (21 bp):
GCCTTTGTGGCGATTATGTTA
Found at i:36323988 original size:29 final size:29
Alignment explanation
Indices: 36323943--36324017 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
36323933 TTTGTGGAAG
36323943 GTCCGTCAGGACTATCTGAAATGTATAAA
1 GTCCGTCAGGACTATCTGAAATGTATAAA
*
36323972 GTTCGTCAGGACTATCTGAAATGTATAAA
1 GTCCGTCAGGACTATCTGAAATGTATAAA
* *
36324001 GTCCGTTAGAACTATCT
1 GTCCGTCAGGACTATCT
36324018 TTTGTGGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (29 bp):
GTCCGTCAGGACTATCTGAAATGTATAAA
Found at i:36327724 original size:12 final size:12
Alignment explanation
Indices: 36327707--36327736 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36327697 CCCCACACCC
36327707 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
36327719 CCGTGTGCTAGG
1 CCGTGTGCCAGG
36327731 CCGTGT
1 CCGTGT
36327737 AACTACCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:36329322 original size:50 final size:51
Alignment explanation
Indices: 36329235--36329367 Score: 153
Period size: 50 Copynumber: 2.6 Consensus size: 51
36329225 AAAGTGATGG
* ** *
36329235 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAT-G-ATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATATGTACC-GAATAGCATAGA
* * * *
36329285 TCGCATGTGTAGTACTATGTGCAGGCTACTATATGTACCGGATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATATGTACCGAATAGCATAGA
* *
36329336 TCACGTGTGTAGTACTATGTGAAGGCTACTAT
1 TCACATGTGTAGTACTATGTGCAGGCTACTAT
36329368 GTGAACCGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 3 0.04
50 36 0.51
51 31 0.44
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATATGTACCGAATAGCATAGA
Found at i:36329365 original size:51 final size:50
Alignment explanation
Indices: 36329235--36329376 Score: 169
Period size: 51 Copynumber: 2.8 Consensus size: 50
36329225 AAAGTGATGG
* * *
36329235 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGA
* * * * *
36329285 TCGCATGTGTAGTACTATGTGCAGGCTACTATATGTACCGG-ATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAT-G-ATAGA
* *
36329336 TCACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGG
36329377 TATCATTAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 2 0.03
50 37 0.48
51 38 0.49
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGA
Found at i:36329615 original size:16 final size:16
Alignment explanation
Indices: 36329594--36329625 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36329584 TTATTGAAAG
*
36329594 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
36329610 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
36329626 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:36340407 original size:103 final size:103
Alignment explanation
Indices: 36340255--36340461 Score: 387
Period size: 103 Copynumber: 2.0 Consensus size: 103
36340245 CTGTTATTTT
*
36340255 TTATCCTAGCCTTATCCCTATTAGGTGGGCTTATGTTATATTTTTAGTGAACTCATATCAGAATG
1 TTATCCTAGCCTTATCCCTATTAGGTGGGCTTATGTTATATTTTCAGTGAACTCATATCAGAATG
36340320 AGCCTGCTAGTTTAGGTGGTAAGGTGTTAGCTTGCTTC
66 AGCCTGCTAGTTTAGGTGGTAAGGTGTTAGCTTGCTTC
36340358 TTATCCTAGCCTTATCCCTATTAGGTGGGCTTATGTTATATTTTCAGTGAACTCATATCAGAATG
1 TTATCCTAGCCTTATCCCTATTAGGTGGGCTTATGTTATATTTTCAGTGAACTCATATCAGAATG
* *
36340423 AGCCTGCTGGTTTAGGTTGTAAGGTGTTAGCTTGCTTC
66 AGCCTGCTAGTTTAGGTGGTAAGGTGTTAGCTTGCTTC
36340461 T
1 T
36340462 GTGAGTGTGA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (103 bp):
TTATCCTAGCCTTATCCCTATTAGGTGGGCTTATGTTATATTTTCAGTGAACTCATATCAGAATG
AGCCTGCTAGTTTAGGTGGTAAGGTGTTAGCTTGCTTC
Found at i:36344643 original size:25 final size:25
Alignment explanation
Indices: 36344613--36344663 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
36344603 ACGGATGTGG
36344613 AAAGGTAATGAAATAGTAAGTTCAT
1 AAAGGTAATGAAATAGTAAGTTCAT
36344638 AAAGGTAATGAAATAGTAAGTTCAT
1 AAAGGTAATGAAATAGTAAGTTCAT
36344663 A
1 A
36344664 CTTGAAGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.20, T:0.27
Consensus pattern (25 bp):
AAAGGTAATGAAATAGTAAGTTCAT
Found at i:36344757 original size:20 final size:19
Alignment explanation
Indices: 36344734--36344775 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
36344724 TAAAGAAAGT
36344734 AAATAT-AATGGAAAGTAATG
1 AAATATAAAT-GAAAGTAA-G
*
36344754 AAATGTAAATGAAAGTAAG
1 AAATATAAATGAAAGTAAG
36344773 AAA
1 AAA
36344776 ATTTGAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AAATATAAATGAAAGTAAG
Done.