Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 7 of 91
Found at i:1063271 original size:16 final size:16
Alignment explanation
Indices: 1063243--1063286 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 16
1063233 GAAGTAAAAG
1063243 AATAGTTTAATATAAT
1 AATAGTTTAATATAAT
1063259 AATA-TTT-ATAT-AT
1 AATAGTTTAATATAAT
*
1063272 AATA-TTTAAAATAAT
1 AATAGTTTAATATAAT
1063287 TTATAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 9 0.36
14 7 0.28
15 5 0.20
16 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
AATAGTTTAATATAAT
Found at i:1066502 original size:12 final size:12
Alignment explanation
Indices: 1066485--1066509 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1066475 AACTTACTGA
1066485 TTAATTGATATT
1 TTAATTGATATT
1066497 TTAATTGATATT
1 TTAATTGATATT
1066509 T
1 T
1066510 AAGAGTAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TTAATTGATATT
Found at i:1067304 original size:15 final size:16
Alignment explanation
Indices: 1067278--1067312 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
1067268 TATATTACGT
1067278 TTATATTTTATTTTTA
1 TTATATTTTATTTTTA
1067294 TTATA-TTTATTTTTA
1 TTATATTTTATTTTTA
1067309 TTAT
1 TTAT
1067313 TGTATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATATTTTATTTTTA
Found at i:1067326 original size:18 final size:18
Alignment explanation
Indices: 1067278--1067325 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
1067268 TATATTACGT
*
1067278 TTATATTT-TATTT-TTA
1 TTATATTTATTTTTATTA
1067294 TTATATTTATTTTTATTA
1 TTATATTTATTTTTATTA
*
1067312 TTGTATTATATTTT
1 TTATATT-TATTTT
1067326 AAATTGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 8 0.30
17 4 0.15
18 9 0.33
19 6 0.22
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTATATTTATTTTTATTA
Found at i:1067732 original size:11 final size:11
Alignment explanation
Indices: 1067676--1067734 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 11
1067666 AAAATATTAA
1067676 AATTTATATAT
1 AATTTATATAT
*
1067687 -CTTTA-ATAT
1 AATTTATATAT
* *
1067696 ATTTTATATAAA
1 AATTTATAT-AT
1067708 AATTATATATTAT
1 AATT-TATA-TAT
1067721 AATTTATATAT
1 AATTTATATAT
1067732 AAT
1 AAT
1067735 ACGAAAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
9 4 0.11
10 8 0.21
11 8 0.21
12 8 0.21
13 9 0.24
14 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (11 bp):
AATTTATATAT
Found at i:1067819 original size:13 final size:13
Alignment explanation
Indices: 1067801--1067825 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1067791 TTAATTTATA
1067801 TTATTTTTATATT
1 TTATTTTTATATT
1067814 TTATTTTTATAT
1 TTATTTTTATAT
1067826 CATATTTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTTATATT
Found at i:1072800 original size:13 final size:13
Alignment explanation
Indices: 1072767--1072800 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1072757 TCATTACCAA
1072767 TTTTTTTTTCTCT
1 TTTTTTTTTCTCT
*
1072780 TTCTTTTTTCT-T
1 TTTTTTTTTCTCT
1072792 TTTTTTTTT
1 TTTTTTTTT
1072801 AATTTCTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTCTCT
Found at i:1076444 original size:33 final size:33
Alignment explanation
Indices: 1076402--1076474 Score: 146
Period size: 33 Copynumber: 2.2 Consensus size: 33
1076392 TTAAGGTCTT
1076402 TGGGGAGTAAACGTGGAAGGCTAAAGAGAAAGA
1 TGGGGAGTAAACGTGGAAGGCTAAAGAGAAAGA
1076435 TGGGGAGTAAACGTGGAAGGCTAAAGAGAAAGA
1 TGGGGAGTAAACGTGGAAGGCTAAAGAGAAAGA
1076468 TGGGGAG
1 TGGGGAG
1076475 ATCTCCATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.40, C:0.05, G:0.42, T:0.12
Consensus pattern (33 bp):
TGGGGAGTAAACGTGGAAGGCTAAAGAGAAAGA
Found at i:1077048 original size:17 final size:16
Alignment explanation
Indices: 1077028--1077098 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 16
1077018 CTAAGTTTTT
*
1077028 AAAACCCCTAAAAATTC
1 AAAA-CCCTAAAAATCC
*
1077045 AAAACCCCATAAAATCC
1 AAAACCCTA-AAAATCC
* * * *
1077062 GAAACTCTTAAAATTC
1 AAAACCCTAAAAATCC
1077078 AAAACCCTCAAAAATCC
1 AAAACCCT-AAAAATCC
1077095 AAAA
1 AAAA
1077099 TTCCCAAACC
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
16 16 0.39
17 25 0.61
ACGTcount: A:0.54, C:0.28, G:0.01, T:0.17
Consensus pattern (16 bp):
AAAACCCTAAAAATCC
Found at i:1077082 original size:16 final size:16
Alignment explanation
Indices: 1077028--1077084 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
1077018 CTAAGTTTTT
*
1077028 AAAACCCCTAAAAATTC
1 AAAACCCAT-AAAATTC
*
1077045 AAAACCCCATAAAATCC
1 AAAA-CCCATAAAATTC
* * *
1077062 GAAACTCTTAAAATTC
1 AAAACCCATAAAATTC
1077078 AAAACCC
1 AAAACCC
1077085 TCAAAAATCC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
16 14 0.45
17 13 0.42
18 4 0.13
ACGTcount: A:0.51, C:0.30, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAACCCATAAAATTC
Found at i:1077137 original size:14 final size:14
Alignment explanation
Indices: 1077120--1077149 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1077110 TTAAACTCCT
1077120 AAATCCAAACCTCA
1 AAATCCAAACCTCA
1077134 AAATCCAAACCTCA
1 AAATCCAAACCTCA
1077148 AA
1 AA
1077150 CTACAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.13
Consensus pattern (14 bp):
AAATCCAAACCTCA
Found at i:1082134 original size:16 final size:16
Alignment explanation
Indices: 1082104--1082133 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1082094 TCATTACCAA
1082104 TTTTTTTTTCTTTTTC
1 TTTTTTTTTCTTTTTC
1082120 TTTTTTTTT-TTTTT
1 TTTTTTTTTCTTTTT
1082134 TTTAATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (16 bp):
TTTTTTTTTCTTTTTC
Found at i:1084838 original size:11 final size:11
Alignment explanation
Indices: 1084821--1084870 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
1084811 TAAAATTTTA
1084821 ATTTATATTAT
1 ATTTATATTAT
*
1084832 TTTTATATTAT
1 ATTTATATTAT
*
1084843 ATTTATATAAT
1 ATTTATATTAT
*
1084854 ATCAATATATTAT
1 AT--TTATATTAT
1084867 ATTT
1 ATTT
1084871 TAAATTATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:1088453 original size:20 final size:20
Alignment explanation
Indices: 1088428--1088481 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
1088418 TTTTGTTTGT
1088428 TTTGGGAAG-GTTTGATGAGG
1 TTTGGGAAGAG-TTGATGAGG
1088448 TTTGGGAAGAGTTGATGAGG
1 TTTGGGAAGAGTTGATGAGG
1088468 TTTGGGAAGAGTTG
1 TTTGGGAAGAGTTG
1088482 CGGGCTGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.33
Consensus pattern (20 bp):
TTTGGGAAGAGTTGATGAGG
Found at i:1092655 original size:75 final size:75
Alignment explanation
Indices: 1092524--1092670 Score: 179
Period size: 75 Copynumber: 2.0 Consensus size: 75
1092514 AGGTTTTATC
* * * *
1092524 TGCAGCCTCCACTTTCTCTTTGAAATCTCTAACTTTCAAGGGCACAGAAGAAGATCCTACCGGAG
1 TGCAGCCTCCACTTTCTCTTTGAAATCACGAACTTTCAAGGGCACAGAAGAAGATCCAACCAGAG
1092589 CCATTTTCTG
66 CCATTTTCTG
* * * * * *
1092599 TGCAGCTTCCATTTTTTCTTTGAAATCACGAACTTTCACA-GGCACTGAGGATGATCCAACCAGA
1 TGCAGCCTCCACTTTCTCTTTGAAATCACGAACTTTCA-AGGGCACAGAAGAAGATCCAACCAGA
*
1092663 GGCATTTT
65 GCCATTTT
1092671 GGCTCTAGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
75 59 0.98
76 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (75 bp):
TGCAGCCTCCACTTTCTCTTTGAAATCACGAACTTTCAAGGGCACAGAAGAAGATCCAACCAGAG
CCATTTTCTG
Found at i:1101233 original size:16 final size:15
Alignment explanation
Indices: 1101214--1101258 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
1101204 CTATTAAAAT
1101214 TTGATTTGAATTTAAA
1 TTGATTT-AATTTAAA
1101230 TTGATTTTAATTTTAAA
1 TTGA-TTTAA-TTTAAA
*
1101247 TCGATTTAATTT
1 TTGATTTAATTT
1101259 GAACCGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 3 0.12
16 11 0.42
17 12 0.46
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (15 bp):
TTGATTTAATTTAAA
Found at i:1101244 original size:17 final size:17
Alignment explanation
Indices: 1101214--1101258 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
1101204 CTATTAAAAT
*
1101214 TTGATTTGAA-TTTAAA
1 TTGATTTTAATTTTAAA
1101230 TTGATTTTAATTTTAAA
1 TTGATTTTAATTTTAAA
*
1101247 TCGA-TTTAATTT
1 TTGATTTTAATTT
1101259 GAACCGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 17 0.65
17 9 0.35
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (17 bp):
TTGATTTTAATTTTAAA
Found at i:1102778 original size:2 final size:2
Alignment explanation
Indices: 1102771--1102801 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1102761 ATCTATTAAG
1102771 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1102802 AAGACTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1111346 original size:16 final size:16
Alignment explanation
Indices: 1111321--1111355 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1111311 ATTTTGAATA
1111321 AATTTATATATTTT-T
1 AATTTATATATTTTAT
1111336 AATTATATATATTTTAT
1 AATT-TATATATTTTAT
1111353 AAT
1 AAT
1111356 ATTTTGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 10 0.56
17 4 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTTATATATTTTAT
Found at i:1111424 original size:27 final size:28
Alignment explanation
Indices: 1111384--1111444 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
1111374 ATTAAAAGTA
* *
1111384 TAATCAATTGATTAATTAAACTA-AATT
1 TAATTAATTAATTAATTAAACTACAATT
* *
1111411 TAATTAATTAATTAATTCAATTACAATT
1 TAATTAATTAATTAATTAAACTACAATT
1111439 TAATTA
1 TAATTA
1111445 TGAACATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (28 bp):
TAATTAATTAATTAATTAAACTACAATT
Found at i:1114036 original size:24 final size:24
Alignment explanation
Indices: 1114009--1114056 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1113999 TTTATTAAAA
*
1114009 TTTTAAATTATATTATTTTTATAT
1 TTTTAAATTATATAATTTTTATAT
* *
1114033 TTTTTATTTATATAATTTTTATAT
1 TTTTAAATTATATAATTTTTATAT
1114057 CATATTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTAAATTATATAATTTTTATAT
Found at i:1114039 original size:15 final size:15
Alignment explanation
Indices: 1114021--1114054 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1114011 TTAAATTATA
* *
1114021 TTATTTTTATATTTT
1 TTATTTATATAATTT
1114036 TTATTTATATAATTT
1 TTATTTATATAATTT
1114051 TTAT
1 TTAT
1114055 ATCATATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTTATATAATTT
Found at i:1115031 original size:486 final size:486
Alignment explanation
Indices: 1114120--1115092 Score: 1946
Period size: 486 Copynumber: 2.0 Consensus size: 486
1114110 AAAGGGACAA
1114120 ACACTTGGAATTATGGAAAAGGGAGGGGTAGGCCTTCGATAGAATGCTATCTTGAAGGCAAAGAA
1 ACACTTGGAATTATGGAAAAGGGAGGGGTAGGCCTTCGATAGAATGCTATCTTGAAGGCAAAGAA
1114185 AAAAATTGTAGAAGCATAAAAGGTCCTATAAAAAATAATGCAATATTGAATACTTTACTAGTTTG
66 AAAAATTGTAGAAGCATAAAAGGTCCTATAAAAAATAATGCAATATTGAATACTTTACTAGTTTG
1114250 CCGGACCTCACATTTTTTTTATAAAATAGGGGGTGCCCTCTGAAATTTGGGATCCACGTCCCAAC
131 CCGGACCTCACATTTTTTTTATAAAATAGGGGGTGCCCTCTGAAATTTGGGATCCACGTCCCAAC
1114315 AACACTCTCTGGTCATAGTGCATCATAAAAATGAGTTACTAACATTGAGATAGGTGGTGTGTCAG
196 AACACTCTCTGGTCATAGTGCATCATAAAAATGAGTTACTAACATTGAGATAGGTGGTGTGTCAG
1114380 AACTCAATCAAGATTAGACCTTCTGGATCCTTTTGGCTGGGCTGCTGCCTGATAGGGCAGCTGAC
261 AACTCAATCAAGATTAGACCTTCTGGATCCTTTTGGCTGGGCTGCTGCCTGATAGGGCAGCTGAC
1114445 GGGTCGGAGCCACCTAGTATAAAGCTAATTGCCGTTACAAATTGAGGTTTCGTTTACATATTTTG
326 GGGTCGGAGCCACCTAGTATAAAGCTAATTGCCGTTACAAATTGAGGTTTCGTTTACATATTTTG
1114510 TGATTAAAAATAATAATAAAATTTATTACTTGAAAAAAATTATTATAATTATAAATAAAAAAATT
391 TGATTAAAAATAATAATAAAATTTATTACTTGAAAAAAATTATTATAATTATAAATAAAAAAATT
1114575 TAATAAAAATTTTATATTGATTTGATAAATT
456 TAATAAAAATTTTATATTGATTTGATAAATT
1114606 ACACTTGGAATTATGGAAAAGGGAGGGGTAGGCCTTCGATAGAATGCTATCTTGAAGGCAAAGAA
1 ACACTTGGAATTATGGAAAAGGGAGGGGTAGGCCTTCGATAGAATGCTATCTTGAAGGCAAAGAA
1114671 AAAAATTGTAGAAGCATAAAAGGTCCTATAAAAAATAATGCAATATTGAATACTTTACTAGTTTG
66 AAAAATTGTAGAAGCATAAAAGGTCCTATAAAAAATAATGCAATATTGAATACTTTACTAGTTTG
1114736 CCGGACCTCACATTTTTTTTATAAAATAGGGGGTGCCCTCTGAAATTTGGGATCCACGTCCCAAC
131 CCGGACCTCACATTTTTTTTATAAAATAGGGGGTGCCCTCTGAAATTTGGGATCCACGTCCCAAC
1114801 AACACTCTCTGGTCATAGTGCATCATAAAAATGAGTTACTAACATTGAGATAGGTGGTGTGTCAG
196 AACACTCTCTGGTCATAGTGCATCATAAAAATGAGTTACTAACATTGAGATAGGTGGTGTGTCAG
1114866 AACTCAATCAAGATTAGACCTTCTGGATCCTTTTGGCTGGGCTGCTGCCTGATAGGGCAGCTGAC
261 AACTCAATCAAGATTAGACCTTCTGGATCCTTTTGGCTGGGCTGCTGCCTGATAGGGCAGCTGAC
1114931 GGGTCGGAGCCACCTAGTATAAAGCTAATTGCCGTTACAAATTGAGGTTTCGTTTACATATTTTG
326 GGGTCGGAGCCACCTAGTATAAAGCTAATTGCCGTTACAAATTGAGGTTTCGTTTACATATTTTG
1114996 TGATTAAAAATAATAATAAAATTTATTACTTGAAAAAAATTATTATAATTATAAATAAAAAAATT
391 TGATTAAAAATAATAATAAAATTTATTACTTGAAAAAAATTATTATAATTATAAATAAAAAAATT
1115061 TAATAAAAATTTTATATTGATTTGATAAATT
456 TAATAAAAATTTTATATTGATTTGATAAATT
1115092 A
1 A
1115093 ATATTTAAAT
Statistics
Matches: 487, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
486 487 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (486 bp):
ACACTTGGAATTATGGAAAAGGGAGGGGTAGGCCTTCGATAGAATGCTATCTTGAAGGCAAAGAA
AAAAATTGTAGAAGCATAAAAGGTCCTATAAAAAATAATGCAATATTGAATACTTTACTAGTTTG
CCGGACCTCACATTTTTTTTATAAAATAGGGGGTGCCCTCTGAAATTTGGGATCCACGTCCCAAC
AACACTCTCTGGTCATAGTGCATCATAAAAATGAGTTACTAACATTGAGATAGGTGGTGTGTCAG
AACTCAATCAAGATTAGACCTTCTGGATCCTTTTGGCTGGGCTGCTGCCTGATAGGGCAGCTGAC
GGGTCGGAGCCACCTAGTATAAAGCTAATTGCCGTTACAAATTGAGGTTTCGTTTACATATTTTG
TGATTAAAAATAATAATAAAATTTATTACTTGAAAAAAATTATTATAATTATAAATAAAAAAATT
TAATAAAAATTTTATATTGATTTGATAAATT
Found at i:1115384 original size:30 final size:29
Alignment explanation
Indices: 1115350--1115409 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
1115340 TTTTAAATCA
* * *
1115350 AAATTTGAATTAAATCAAATTATATATTTT
1 AAATTTGAATAAAATAAAATAAT-TATTTT
*
1115380 AAATTTTAATAAAATAAAATAATTATTTT
1 AAATTTGAATAAAATAAAATAATTATTTT
1115409 A
1 A
1115410 TATTAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
AAATTTGAATAAAATAAAATAATTATTTT
Found at i:1117005 original size:27 final size:27
Alignment explanation
Indices: 1116958--1117010 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1116948 ATTGAAGCTA
1116958 AACCAGAAGCTCTTTAGTTTATGATGG
1 AACCAGAAGCTCTTTAGTTTATGATGG
* **
1116985 AACCAGAAGCTTTTTCTTTTATGATG
1 AACCAGAAGCTCTTTAGTTTATGATG
1117011 AGAAAATGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (27 bp):
AACCAGAAGCTCTTTAGTTTATGATGG
Found at i:1117268 original size:11 final size:11
Alignment explanation
Indices: 1117220--1117269 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
1117210 TTTTTAATTC
*
1117220 AATTTGAATTA
1 AATTTGTATTA
*
1117231 AGATTAGTATTA
1 A-ATTTGTATTA
* *
1117243 ACTATGTATTA
1 AATTTGTATTA
1117254 AATTTGTATTA
1 AATTTGTATTA
1117265 AATTT
1 AATTT
1117270 TGAAATAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (11 bp):
AATTTGTATTA
Found at i:1120429 original size:18 final size:19
Alignment explanation
Indices: 1120380--1120430 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
1120370 TATTTGTATC
1120380 ATATAAAAATTAATATTCAT
1 ATATAAAAATT-ATATTCAT
** * *
1120400 ATATTTATATTATATT-TT
1 ATATAAAAATTATATTCAT
1120418 ATATAAAAATTAT
1 ATATAAAAATTAT
1120431 GTATCATACT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
18 11 0.46
19 5 0.21
20 8 0.33
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATAAAAATTATATTCAT
Found at i:1120523 original size:22 final size:22
Alignment explanation
Indices: 1120498--1120543 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1120488 TTTATATATA
1120498 ATTATTGT-TATATTTTAATTAT
1 ATTATT-TATATATTTTAATTAT
*
1120520 ATTATTTATATATTTTATTTAT
1 ATTATTTATATATTTTAATTAT
1120542 AT
1 AT
1120544 ATAATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
ATTATTTATATATTTTAATTAT
Found at i:1120553 original size:13 final size:12
Alignment explanation
Indices: 1120488--1120556 Score: 52
Period size: 13 Copynumber: 5.6 Consensus size: 12
1120478 TTTTATTAAA
1120488 TTTATATATAATT
1 TTTATATAT-ATT
* *
1120501 ATTGT-TATATT
1 TTTATATATATT
*
1120512 TTAAT-TATATT
1 TTTATATATATT
*
1120523 ATTTATATATTTT
1 -TTTATATATATT
1120536 ATTTATATATAATT
1 -TTTATATAT-ATT
1120550 TTTATAT
1 TTTATAT
1120557 CGTATTATTA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
11 11 0.24
12 7 0.16
13 25 0.56
14 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (12 bp):
TTTATATATATT
Found at i:1120568 original size:24 final size:25
Alignment explanation
Indices: 1120515--1120592 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 25
1120505 TTATATTTTA
* **
1120515 ATTATATTATTTATATATTTTATTT
1 ATTATATAATTTATATATCGTATTT
*
1120540 A-TATATAATTTTTATATCGTA-TT
1 ATTATATAATTTATATATCGTATTT
*
1120563 ATTATATCTTAATTTATATTATCGGATTT
1 ATTATA---TAATTTATA-TATCGTATTT
1120592 A
1 A
1120593 ATTTGAGCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
23 3 0.07
24 20 0.49
25 1 0.02
27 8 0.20
28 6 0.15
29 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (25 bp):
ATTATATAATTTATATATCGTATTT
Found at i:1121379 original size:12 final size:12
Alignment explanation
Indices: 1121347--1121388 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1121337 ATTTAATTTT
*
1121347 TAATTTTTTATA
1 TAATTTTTAATA
*
1121359 TATTATTTTAATA
1 TAAT-TTTTAATA
1121372 TAATTTTTAATA
1 TAATTTTTAATA
1121384 -AATTT
1 TAATTT
1121389 AAATAGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 5 0.19
12 11 0.42
13 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TAATTTTTAATA
Found at i:1122011 original size:17 final size:18
Alignment explanation
Indices: 1121982--1122017 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1121972 TATTAGATTA
*
1121982 ATTTATAATTAAATAATT
1 ATTTATAATTAAAAAATT
1122000 ATTTAT-ATTAAAAAATT
1 ATTTATAATTAAAAAATT
1122017 A
1 A
1122018 AAAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTATAATTAAAAAATT
Found at i:1125777 original size:39 final size:39
Alignment explanation
Indices: 1125722--1125801 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
1125712 AATTCTAAGA
* *
1125722 CATTGATTACTTGATTATTCCTTTGTCCTATGCTTTAAC
1 CATTGATTACTTGATTATACCTTTGTCCTATGCTCTAAC
1125761 CATTGATTA-TTGGATTATACCTTTGTCCTATGCTCTAAC
1 CATTGATTACTT-GATTATACCTTTGTCCTATGCTCTAAC
1125800 CA
1 CA
1125802 ATGGATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 2 0.05
39 36 0.95
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (39 bp):
CATTGATTACTTGATTATACCTTTGTCCTATGCTCTAAC
Found at i:1134066 original size:37 final size:39
Alignment explanation
Indices: 1134023--1134132 Score: 111
Period size: 41 Copynumber: 2.8 Consensus size: 39
1134013 ATTCGATTTT
* *
1134023 ATATATTTAATATTTAAATTTGATTTAATTTATAT-TAAA
1 ATATATTT-ATATTTAAATTTGATTTGATTTATATATGAA
*
1134062 ATATTATTTTTATATTTAAATTTAATTTGATTTATATATGGAA
1 ATA-TA--TTTATATTTAAATTTGATTTGATTTATATAT-GAA
*
1134105 A-A-AATTATA-TTAAATTTGATTTGATTTA
1 ATATATTTATATTTAAATTTGATTTGATTTA
1134133 AAATTAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
37 18 0.30
38 5 0.08
39 3 0.05
40 3 0.05
41 24 0.39
42 5 0.08
43 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (39 bp):
ATATATTTATATTTAAATTTGATTTGATTTATATATGAA
Found at i:1134134 original size:73 final size:74
Alignment explanation
Indices: 1133993--1134136 Score: 168
Period size: 73 Copynumber: 2.0 Consensus size: 74
1133983 GTCGGGTTGA
** * * **
1133993 ATTTTTATAGTTTAAATTTAATTCGATTTTATATATTTAATATTTAAATTTGATTTAATTTATAT
1 ATTTTTATAGTTTAAATTTAATTCGATTTTATATATGAAAAAATTAAATTAAATTTAATTTATAT
1134058 TAAAATATT
66 TAAAATATT
* * *
1134067 ATTTTTATA-TTTAAATTTAATTTGA-TTTATATATGGAAAAAATTATATTAAATTTGATTTGAT
1 ATTTTTATAGTTTAAATTTAATTCGATTTTATATAT-GAAAAAATTAAATTAAATTTAATTT-AT
1134130 -TTAAAAT
64 ATTAAAAT
1134137 TAATAAAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
72 9 0.15
73 39 0.66
74 11 0.19
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.54
Consensus pattern (74 bp):
ATTTTTATAGTTTAAATTTAATTCGATTTTATATATGAAAAAATTAAATTAAATTTAATTTATAT
TAAAATATT
Found at i:1134150 original size:38 final size:38
Alignment explanation
Indices: 1134071--1134158 Score: 99
Period size: 37 Copynumber: 2.3 Consensus size: 38
1134061 AATATTATTT
* *
1134071 TTATATTTAAATTTAATTTGATTTATATATGGAAAAAA
1 TTATATTTAAATTTAATTTGATTTATAAATGAAAAAAA
* *
1134109 TTATA-TTAAATTTGATTTGATTTA-AAATTAATAAAATA
1 TTATATTTAAATTTAATTTGATTTATAAATGAA-AAAA-A
*
1134147 TTATTTTTAAAT
1 TTATATTTAAAT
1134159 ATAAATATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
36 4 0.10
37 22 0.52
38 10 0.24
39 6 0.14
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (38 bp):
TTATATTTAAATTTAATTTGATTTATAAATGAAAAAAA
Found at i:1134165 original size:6 final size:6
Alignment explanation
Indices: 1134154--1134197 Score: 51
Period size: 5 Copynumber: 8.0 Consensus size: 6
1134144 ATATTATTTT
*
1134154 TAAATA TAAATA TAAA-A TTAA-A TAAATA TAAAT- TAAAT- TAAATA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
1134198 ATATAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 18 0.53
6 16 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TAAATA
Found at i:1134173 original size:24 final size:23
Alignment explanation
Indices: 1134129--1134173 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
1134119 TTTGATTTGA
*
1134129 TTTAAAATTAATAAAATATTATT
1 TTTAAAATAAATAAAATATTATT
1134152 TTTAAATATAAATATAAA-ATTA
1 TTTAAA-ATAAATA-AAATATTA
1134174 AATAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 10 0.53
25 3 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTAAAATAAATAAAATATTATT
Found at i:1134180 original size:16 final size:15
Alignment explanation
Indices: 1134159--1134197 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
1134149 ATTTTTAAAT
1134159 ATAAATATAAAATTAA
1 ATAAATAT-AAATTAA
1134175 ATAAATATAAATTAA
1 ATAAATATAAATTAA
1134190 ATTAAATA
1 A-TAAATA
1134198 ATATAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAATATAAATTAA
Found at i:1134761 original size:31 final size:29
Alignment explanation
Indices: 1134696--1134780 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 29
1134686 TTATCTTGAT
*
1134696 TTTGATCTAATTTTATAAATTTAATATTTAA
1 TTTGATTTAA-TTTA-AAATTTAATATTTAA
*
1134727 TTTGATTTAATATTAAAATATT-ATTTTTATA
1 TTTGATTTAAT-TTAAAAT-TTAATATTTA-A
*
1134758 TTTGAATTAATTTAAAA-TTAATA
1 TTTGATTTAATTTAAAATTTAATA
1134781 AAATTTTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
28 2 0.04
29 2 0.04
30 17 0.37
31 25 0.54
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (29 bp):
TTTGATTTAATTTAAAATTTAATATTTAA
Found at i:1141148 original size:35 final size:35
Alignment explanation
Indices: 1141093--1141164 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
1141083 GACATATTAT
* * *
1141093 ATATCAAATCAGGATCAATTTTTTGATTTGTTGGG
1 ATATCAAATCAAGATCAATTTCTTGATTAGTTGGG
* *
1141128 ATATCCAATCAAGATTAATTTCTTGATTAGTTGGG
1 ATATCAAATCAAGATCAATTTCTTGATTAGTTGGG
1141163 AT
1 AT
1141165 TTATATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.42
Consensus pattern (35 bp):
ATATCAAATCAAGATCAATTTCTTGATTAGTTGGG
Found at i:1143140 original size:26 final size:23
Alignment explanation
Indices: 1143087--1143155 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 23
1143077 TTTAAATAAT
*
1143087 AATATTAAAT-TTAAATAAATTTA
1 AATA-TAAATATTAAATAAATTCA
*
1143110 AATATTACAAATATTAAATAAATTCG
1 AATA-T--AAATATTAAATAAATTCA
* *
1143136 TATATAAATATTAAAAAAAT
1 AATATAAATATTAAATAAAT
1143156 GACGAATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 20 0.51
25 5 0.13
26 14 0.36
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (23 bp):
AATATAAATATTAAATAAATTCA
Found at i:1144414 original size:12 final size:12
Alignment explanation
Indices: 1144397--1144421 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1144387 GGAATATAAG
1144397 GCTTAGTTTGTT
1 GCTTAGTTTGTT
1144409 GCTTAGTTTGTT
1 GCTTAGTTTGTT
1144421 G
1 G
1144422 TTATTGTAGT
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:0.08, C:0.08, G:0.28, T:0.56
Consensus pattern (12 bp):
GCTTAGTTTGTT
Found at i:1146636 original size:1 final size:1
Alignment explanation
Indices: 1146630--1146656 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
1146620 ACGCCTGGAT
1146630 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1146657 CGATGATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:1149688 original size:124 final size:124
Alignment explanation
Indices: 1149485--1149736 Score: 504
Period size: 124 Copynumber: 2.0 Consensus size: 124
1149475 TAGGATGTTC
1149485 ACATTCAGTAATTCAATTAAGTTAAATGAACTCGTTCACAAACATTAAATCGCAAATATTAAACA
1 ACATTCAGTAATTCAATTAAGTTAAATGAACTCGTTCACAAACATTAAATCGCAAATATTAAACA
1149550 AACATATTTATGTTCATAAACAATAAACAAATCATAACCAAATAAATTTAAACGAACAA
66 AACATATTTATGTTCATAAACAATAAACAAATCATAACCAAATAAATTTAAACGAACAA
1149609 ACATTCAGTAATTCAATTAAGTTAAATGAACTCGTTCACAAACATTAAATCGCAAATATTAAACA
1 ACATTCAGTAATTCAATTAAGTTAAATGAACTCGTTCACAAACATTAAATCGCAAATATTAAACA
1149674 AACATATTTATGTTCATAAACAATAAACAAATCATAACCAAATAAATTTAAACGAACAA
66 AACATATTTATGTTCATAAACAATAAACAAATCATAACCAAATAAATTTAAACGAACAA
1149733 ACAT
1 ACAT
1149737 AAACGAACCC
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 128 1.00
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (124 bp):
ACATTCAGTAATTCAATTAAGTTAAATGAACTCGTTCACAAACATTAAATCGCAAATATTAAACA
AACATATTTATGTTCATAAACAATAAACAAATCATAACCAAATAAATTTAAACGAACAA
Found at i:1150232 original size:6 final size:6
Alignment explanation
Indices: 1150211--1150259 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
1150201 CGTCATCTGC
* * * * *
1150211 TGCTGC TGCTGC TGTTGT TGTTGT TGTTGT TGCTGT TGCTGT TGCTGT
1 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT
1150259 T
1 T
1150260 TCCTCATCGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.00, C:0.14, G:0.33, T:0.53
Consensus pattern (6 bp):
TGCTGT
Found at i:1150238 original size:12 final size:12
Alignment explanation
Indices: 1150217--1150259 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
1150207 CTGCTGCTGC
*
1150217 TGCTGCTGTTGT
1 TGCTGTTGTTGT
*
1150229 TGTTGTTGTTGT
1 TGCTGTTGTTGT
*
1150241 TGCTGTTGCTGT
1 TGCTGTTGTTGT
1150253 TGCTGTT
1 TGCTGTT
1150260 TCCTCATCGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.33, T:0.56
Consensus pattern (12 bp):
TGCTGTTGTTGT
Found at i:1152183 original size:17 final size:17
Alignment explanation
Indices: 1152160--1152200 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
1152150 TTAAATAGAA
1152160 TTATATATTTTTAATAATT
1 TTATATA-TTTTAA-AATT
*
1152179 TTATATATTTTAAATTT
1 TTATATATTTTAAAATT
1152196 TTATA
1 TTATA
1152201 AAATAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 6 0.29
19 7 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATATATTTTAAAATT
Found at i:1152271 original size:22 final size:20
Alignment explanation
Indices: 1152224--1152271 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
1152214 ATTTTATACC
* *
1152224 TAAATCTATTTAAATATATT
1 TAAATCTATTAAAATATATA
1152244 TAAAATCATATTAAAATAATATA
1 T-AAATC-TATTAAAAT-ATATA
1152267 TAAAT
1 TAAAT
1152272 AAATTTAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 5 0.22
22 12 0.52
23 5 0.22
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATCTATTAAAATATATA
Found at i:1161223 original size:19 final size:20
Alignment explanation
Indices: 1161199--1161237 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1161189 GTATTTATTT
1161199 TGCA-TTTTCTTTCTTTTTG
1 TGCATTTTTCTTTCTTTTTG
*
1161218 TGCATTTTTTTTTCTTTTTG
1 TGCATTTTTCTTTCTTTTTG
1161238 AGTTTAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.05, C:0.13, G:0.10, T:0.72
Consensus pattern (20 bp):
TGCATTTTTCTTTCTTTTTG
Found at i:1161532 original size:2 final size:2
Alignment explanation
Indices: 1161525--1161564 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1161515 TAAGAGGAGA
1161525 AT AT AT AT AT 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 AT AT AT AT AT
1161565 TTATGTCACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1173364 original size:16 final size:16
Alignment explanation
Indices: 1173343--1173375 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1173333 AACGATTTGA
1173343 ATGATAATGATGATTT
1 ATGATAATGATGATTT
1173359 ATGATAATGATGATTT
1 ATGATAATGATGATTT
1173375 A
1 A
1173376 CGACGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (16 bp):
ATGATAATGATGATTT
Found at i:1177173 original size:25 final size:25
Alignment explanation
Indices: 1177135--1177185 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
1177125 CATACTTAGT
*
1177135 TGCTTCAACTACTAACACACTAACA
1 TGCTTCAACCACTAACACACTAACA
1177160 TGCTTCAACCACTAACACACTAACA
1 TGCTTCAACCACTAACACACTAACA
1177185 T
1 T
1177186 TGGTCCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.33, G:0.04, T:0.24
Consensus pattern (25 bp):
TGCTTCAACCACTAACACACTAACA
Found at i:1184377 original size:48 final size:48
Alignment explanation
Indices: 1184306--1184402 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
1184296 ATTCCATCAC
* *
1184306 TTAGTTTTTTCTCTTAAAATAATTAATGACCTATTCAAGATAATTTCA
1 TTAGTTTTTTCTCCTAAAATAATTAACGACCTATTCAAGATAATTTCA
1184354 TTAGTTTTTTCTCCTAAAATAATTAACGACCTATTCAAGATAATTTCA
1 TTAGTTTTTTCTCCTAAAATAATTAACGACCTATTCAAGATAATTTCA
1184402 T
1 T
1184403 CATAACAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.44
Consensus pattern (48 bp):
TTAGTTTTTTCTCCTAAAATAATTAACGACCTATTCAAGATAATTTCA
Found at i:1191847 original size:12 final size:12
Alignment explanation
Indices: 1191830--1191856 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1191820 ACTACCGGGA
1191830 AACTTGAACTTT
1 AACTTGAACTTT
1191842 AACTTGAACTTT
1 AACTTGAACTTT
1191854 AAC
1 AAC
1191857 AAATAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (12 bp):
AACTTGAACTTT
Found at i:1199759 original size:24 final size:25
Alignment explanation
Indices: 1199723--1199782 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 25
1199713 TAACCAAATT
1199723 ATAATTATAATATAATATAAT-ATA
1 ATAATTATAATATAATATAATAATA
* * **
1199747 ATAATTTTGATATTTTATAATAATA
1 ATAATTATAATATAATATAATAATA
*
1199772 A-AATTAAAATA
1 ATAATTATAATA
1199783 ATTATCATCA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
ATAATTATAATATAATATAATAATA
Found at i:1199983 original size:20 final size:18
Alignment explanation
Indices: 1199954--1199993 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
1199944 ATCATCTTCA
*
1199954 TTCTTTTTTTTTATATATTT
1 TTCTTCTTTTTT-TAT-TTT
1199974 TTCTTCTTTTTTTATTTT
1 TTCTTCTTTTTTTATTTT
1199992 TT
1 TT
1199994 TTGACTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 3 0.16
20 11 0.58
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (18 bp):
TTCTTCTTTTTTTATTTT
Found at i:1201939 original size:66 final size:66
Alignment explanation
Indices: 1201859--1202017 Score: 164
Period size: 66 Copynumber: 2.4 Consensus size: 66
1201849 TTATTATTAT
* * * *
1201859 GTTATC-AGTGATTTATTATTAAATTATTAACT-ATTTACTATTAAGTTATGAA-TGATTTACTA
1 GTTATCGA-TGATTTAATACTAAATTATTAA-TAATTTACTATAAAGTTAT-AACTAATTTACTA
1201921 CT-AA
63 -TGAA
* * * *
1201925 GTTATTGATGATTTAATACTAAGTTATTAATAATTTATTATAAAGTTATAACTAATTTATTATGA
1 GTTATCGATGATTTAATACTAAATTATTAATAATTTACTATAAAGTTATAACTAATTTACTATGA
1201990 A
66 A
* *
1201991 GTTATCGATGATTTACTACAAAATTAT
1 GTTATCGATGATTTAATACTAAATTAT
1202018 CATTGATATA
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
65 4 0.05
66 72 0.94
67 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.46
Consensus pattern (66 bp):
GTTATCGATGATTTAATACTAAATTATTAATAATTTACTATAAAGTTATAACTAATTTACTATGA
A
Found at i:1202004 original size:22 final size:22
Alignment explanation
Indices: 1201832--1202005 Score: 145
Period size: 22 Copynumber: 7.9 Consensus size: 22
1201822 TCGATTGACA
* *
1201832 ATTAAGTTATTACTGTTTTATT
1 ATTAAGTTATTAATGATTTATT
* * *
1201854 ATTATGTTATCAGTGATTTATT
1 ATTAAGTTATTAATGATTTATT
* *
1201876 ATTAAATTATTAACT-ATTTACT
1 ATTAAGTTATTAA-TGATTTATT
* *
1201898 ATTAAGTTATGAATGATTTACT
1 ATTAAGTTATTAATGATTTATT
* * *
1201920 ACTAAGTTATTGATGATTTAAT
1 ATTAAGTTATTAATGATTTATT
* *
1201942 ACTAAGTTATTAATAATTTATT
1 ATTAAGTTATTAATGATTTATT
* *
1201964 ATAAAGTTA-TAACTAATTTATT
1 ATTAAGTTATTAA-TGATTTATT
* **
1201986 ATGAAGTTATCGATGATTTA
1 ATTAAGTTATTAATGATTTA
1202006 CTACAAAATT
Statistics
Matches: 124, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
21 4 0.03
22 118 0.95
23 2 0.02
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (22 bp):
ATTAAGTTATTAATGATTTATT
Found at i:1202461 original size:22 final size:21
Alignment explanation
Indices: 1202436--1202548 Score: 102
Period size: 22 Copynumber: 5.2 Consensus size: 21
1202426 TACTATTACC
* *
1202436 TTATCACTTATTTACTACTAAA
1 TTATCA-TGATTTACTACTAAG
1202458 TTATCATGATTTA-TCACTAAG
1 TTATCATGATTTACT-ACTAAG
*
1202479 TTATAAATGATTTACTACTAAG
1 TTAT-CATGATTTACTACTAAG
* *
1202501 TTATAAATGATTTATTACTAAG
1 TTAT-CATGATTTACTACTAAG
* * *
1202523 TTATTAATAATTTACTATTAAG
1 TTA-TCATGATTTACTACTAAG
1202545 TTAT
1 TTAT
1202549 TAATAATTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
20 1 0.01
21 16 0.20
22 61 0.76
23 2 0.03
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (21 bp):
TTATCATGATTTACTACTAAG
Found at i:1202521 original size:44 final size:43
Alignment explanation
Indices: 1202445--1202592 Score: 165
Period size: 44 Copynumber: 3.4 Consensus size: 43
1202435 CTTATCACTT
* * * *
1202445 ATTTACTACTAAATTATCATGATTTATCACTAAGTTATAAATG
1 ATTTACTACTAAGTTATAATGATTTATTACTAAGTTATTAATG
*
1202488 ATTTACTACTAAGTTATAAATGATTTATTACTAAGTTATTAATA
1 ATTTACTACTAAGTTAT-AATGATTTATTACTAAGTTATTAATG
* * * *
1202532 ATTTACTATTAAGTTATTAATAATTTATT-GTAATGTTATTATTG
1 ATTTACTACTAAGTTA-TAATGATTTATTACTAA-GTTATTAATG
1202576 ATTTACTA-TAAAGTTAT
1 ATTTACTACT-AAGTTAT
1202593 TAATAATTAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
43 21 0.23
44 69 0.76
45 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (43 bp):
ATTTACTACTAAGTTATAATGATTTATTACTAAGTTATTAATG
Found at i:1202526 original size:11 final size:11
Alignment explanation
Indices: 1202497--1202560 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 11
1202487 GATTTACTAC
*
1202497 TAAGTTATAAA
1 TAAGTTATTAA
* * *
1202508 TGATTTATTAC
1 TAAGTTATTAA
1202519 TAAGTTATTAA
1 TAAGTTATTAA
* * *
1202530 TAATTTACTAT
1 TAAGTTATTAA
1202541 TAAGTTATTAA
1 TAAGTTATTAA
*
1202552 TAATTTATT
1 TAAGTTATT
1202561 GTAATGTTAT
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (11 bp):
TAAGTTATTAA
Found at i:1202549 original size:22 final size:22
Alignment explanation
Indices: 1202475--1202605 Score: 131
Period size: 22 Copynumber: 6.0 Consensus size: 22
1202465 GATTTATCAC
* * *
1202475 TAAGTTATAAATGATTTACTAC
1 TAAGTTATTAATAATTTACTAT
* * * *
1202497 TAAGTTATAAATGATTTATTAC
1 TAAGTTATTAATAATTTACTAT
1202519 TAAGTTATTAATAATTTACTAT
1 TAAGTTATTAATAATTTACTAT
1202541 TAAGTTATTAATAATTTA-T-T
1 TAAGTTATTAATAATTTACTAT
* *
1202561 GTAATGTTATTATTGATTTACTAT
1 -TAA-GTTATTAATAATTTACTAT
* *
1202585 AAAGTTATTAATAATTAACTA
1 TAAGTTATTAATAATTTACTA
1202606 ATTTATAACT
Statistics
Matches: 94, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.01
21 4 0.04
22 85 0.90
23 3 0.03
24 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (22 bp):
TAAGTTATTAATAATTTACTAT
Found at i:1202558 original size:66 final size:65
Alignment explanation
Indices: 1202436--1202745 Score: 198
Period size: 66 Copynumber: 4.6 Consensus size: 65
1202426 TACTATTACC
* * * * * * *
1202436 TTATCACTTATTTACTACTAAATTA-TCATGATTTA-TCACTAAGTTATAAATGATTTACTACTA
1 TTATCAATGATTTACTACTAAATTATTAATAATTTACT-ATTAAGTTATTAATAATTTA-TACTA
1202499 AG
64 AG
* * * **
1202501 TTATAAATGATTTATTACTAAGTTATTAATAATTTACTATTAAGTTATTAATAATTTATTGTAAT
1 TTATCAATGATTTACTACTAAATTATTAATAATTTACTATTAAGTTATTAATAATTTATACTAA-
1202566 G
65 G
* * * * *
1202567 TTATTATTGATTTACTA-TAAAGTTATTAATAATTAACTAATTTATAACTAAATTATTATTAATT
1 TTATCAATGATTTACTACTAAA-TTATTAATAATT---T-A-CTAT---TAAGTTATTAATAATT
* *
1202631 TATAAATAAA
57 TAT-ACTAAG
* * * * *
1202641 TTATCAATGATTTA-TAATTAAATTATCAATATTTTACTATTACA-TTATTAGTGATTTACTACT
1 TTATCAATGATTTACT-ACTAAATTATTAATAATTTACTATTA-AGTTATTAATAATTTA-TACT
1202704 AAG
63 AAG
* * *
1202707 TTATCGATAATTTACTACTAAATTATTAATGATTTACTA
1 TTATCAATGATTTACTACTAAATTATTAATAATTTACTA
1202746 CTATAGTGTT
Statistics
Matches: 190, Mismatches: 37, Indels: 35
0.73 0.14 0.13
Matches are distributed among these distances:
65 27 0.14
66 101 0.53
67 4 0.02
69 4 0.02
70 2 0.01
71 4 0.02
73 1 0.01
74 40 0.21
75 7 0.04
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (65 bp):
TTATCAATGATTTACTACTAAATTATTAATAATTTACTATTAAGTTATTAATAATTTATACTAAG
Found at i:1202630 original size:22 final size:22
Alignment explanation
Indices: 1202604--1202676 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
1202594 AATAATTAAC
* * *
1202604 TAATTTATAACTAAATTATTAT
1 TAATTTATAAATAAATTATCAA
1202626 TAATTTATAAATAAATTATCAA
1 TAATTTATAAATAAATTATCAA
* *
1202648 TGATTTATAATTAAATTATCAA
1 TAATTTATAAATAAATTATCAA
*
1202670 TATTTTA
1 TAATTTA
1202677 CTATTACATT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (22 bp):
TAATTTATAAATAAATTATCAA
Found at i:1202682 original size:22 final size:22
Alignment explanation
Indices: 1202637--1202748 Score: 111
Period size: 22 Copynumber: 5.1 Consensus size: 22
1202627 AATTTATAAA
*
1202637 TAAATTATCAATGATTTA-TAAT
1 TAAATTATCAATGATTTACT-AC
*
1202659 TAAATTATCAAT-ATTTTACTAT
1 TAAATTATCAATGA-TTTACTAC
* * *
1202681 TACATTATTAGTGATTTACTAC
1 TAAATTATCAATGATTTACTAC
* * *
1202703 TAAGTTATCGATAATTTACTAC
1 TAAATTATCAATGATTTACTAC
*
1202725 TAAATTATTAATGATTTACTAC
1 TAAATTATCAATGATTTACTAC
1202747 TA
1 TA
1202749 TAGTGTTATG
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
21 1 0.01
22 70 0.96
23 2 0.03
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (22 bp):
TAAATTATCAATGATTTACTAC
Found at i:1202688 original size:44 final size:44
Alignment explanation
Indices: 1202613--1202748 Score: 141
Period size: 44 Copynumber: 3.1 Consensus size: 44
1202603 CTAATTTATA
* * * *
1202613 ACTAAATTATTATTAATTTA-TAAATAAATTATCAATGATTTA-T
1 ACTAAATTATCAATAATTTACT-ACTAAATTATTAATGATTTACT
* * * * *
1202656 AATTAAATTATCAATATTTTACTATTACATTATTAGTGATTTACT
1 -ACTAAATTATCAATAATTTACTACTAAATTATTAATGATTTACT
* *
1202701 ACTAAGTTATCGATAATTTACTACTAAATTATTAATGATTTACT
1 ACTAAATTATCAATAATTTACTACTAAATTATTAATGATTTACT
1202745 ACTA
1 ACTA
1202749 TAGTGTTATG
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 73 0.97
45 2 0.03
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (44 bp):
ACTAAATTATCAATAATTTACTACTAAATTATTAATGATTTACT
Found at i:1202943 original size:22 final size:22
Alignment explanation
Indices: 1202917--1202974 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
1202907 TCACTAATTT
* *
1202917 ACTACTAAATTTTCATTGATTA
1 ACTACTAAATTATCAATGATTA
1202939 ACTACTAAATTATCAATGATTA
1 ACTACTAAATTATCAATGATTA
* *
1202961 ACTATTAAGTTATC
1 ACTACTAAATTATC
1202975 TTTTTTTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
ACTACTAAATTATCAATGATTA
Found at i:1203614 original size:11 final size:11
Alignment explanation
Indices: 1203595--1203677 Score: 53
Period size: 11 Copynumber: 7.5 Consensus size: 11
1203585 TGAATCTTAT
*
1203595 TTATTATTAAG
1 TTATCATTAAG
*
1203606 TTATCATTAAT
1 TTATCATTAAG
1203617 TTA-CTATTAAG
1 TTATC-ATTAAG
* *
1203628 TTATCATTGAT
1 TTATCATTAAG
* *
1203639 TTATTACTAAG
1 TTATCATTAAG
*
1203650 TTATCAATAA-
1 TTATCATTAAG
* *
1203660 TTAACTACTAAG
1 TTATC-ATTAAG
1203672 TTATCA
1 TTATCA
1203678 CTTATTTTTT
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
10 5 0.09
11 44 0.81
12 5 0.09
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (11 bp):
TTATCATTAAG
Found at i:1203645 original size:25 final size:22
Alignment explanation
Indices: 1203593--1203938 Score: 145
Period size: 22 Copynumber: 16.2 Consensus size: 22
1203583 ACTGAATCTT
*
1203593 ATTTATTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTA
*
1203615 ATTTACTATTAAGTTATCATTG
1 ATTTACTATTAAGTTATCATTA
* * *
1203637 ATTTATTACTAAGTTATCAATA
1 ATTTACTATTAAGTTATCATTA
* *
1203659 ATTAACTACTAAGTTATCACTT-
1 ATTTACTATTAAGTTATCA-TTA
**
1203681 ATTTTTTATTAAGTTATTC-TTA
1 ATTTACTATTAAGTTA-TCATTA
* *
1203703 ATTTACTAATATGTGT-T-A-TA
1 ATTTACTATTAAGT-TATCATTA
* * * * *
1203723 CATTTACAATTATG-TATAAATG
1 -ATTTACTATTAAGTTATCATTA
* * *
1203745 ATTTACTGTTAAGTTAT-TTGTT
1 ATTTACTATTAAGTTATCAT-TA
* * * *
1203767 ATTTCCTACTATGTTATTATGT-
1 ATTTACTATTAAGTTATCAT-TA
* *
1203789 ATTTATTATTATGTTATCA-T-
1 ATTTACTATTAAGTTATCATTA
*
1203809 A--CACTATT---TTATCAATT-
1 ATTTACTATTAAGTTATC-ATTA
* * * *
1203826 ATTTATTATTAAATTATTATTT
1 ATTTACTATTAAGTTATCATTA
*
1203848 ATTTACTATTAAGTTATTATTA
1 ATTTACTATTAAGTTATCATTA
*
1203870 TTTTACTATTAAGTTAT--TTA
1 ATTTACTATTAAGTTATCATTA
*
1203890 TAATTACTA-TATAGTTATCATTA
1 -ATTTACTATTA-AGTTATCATTA
* * * *
1203913 ATTTAGTATAAAGTTATTATTG
1 ATTTACTATTAAGTTATCATTA
1203935 ATTT
1 ATTT
1203939 TGTCTAAATT
Statistics
Matches: 248, Mismatches: 51, Indels: 50
0.71 0.15 0.14
Matches are distributed among these distances:
15 5 0.02
16 1 0.00
17 2 0.01
18 5 0.02
19 6 0.02
20 10 0.04
21 40 0.16
22 168 0.68
23 11 0.04
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.53
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTA
Found at i:1203661 original size:44 final size:44
Alignment explanation
Indices: 1203590--1203710 Score: 165
Period size: 44 Copynumber: 2.8 Consensus size: 44
1203580 TAAACTGAAT
*
1203590 CTTATTTATTATTAAGTTATCATTAATTTACTATTAAGTTATCA
1 CTTATTTATTATTAAGTTATCATTAATTTACTACTAAGTTATCA
* * *
1203634 -TTGATTTATTACTAAGTTATCAATAATTAACTACTAAGTTATCA
1 CTT-ATTTATTATTAAGTTATCATTAATTTACTACTAAGTTATCA
*
1203678 CTTATTTTTTATTAAGTTATTC-TTAATTTACTA
1 CTTATTTATTATTAAGTTA-TCATTAATTTACTA
1203711 ATATGTGTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.03
44 60 0.91
45 4 0.06
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (44 bp):
CTTATTTATTATTAAGTTATCATTAATTTACTACTAAGTTATCA
Found at i:1203805 original size:11 final size:11
Alignment explanation
Indices: 1203776--1203887 Score: 50
Period size: 11 Copynumber: 9.8 Consensus size: 11
1203766 TATTTCCTAC
1203776 TATGTTATTAT
1 TATGTTATTAT
1203787 GTAT-TTATTAT
1 -TATGTTATTAT
*
1203798 TATGTTATCATACAC
1 TATGTTAT--T--AT
* *
1203813 TATTTTATCAAT
1 TATGTTAT-TAT
1203825 TAT-TTATTAT
1 TATGTTATTAT
**
1203835 TAAATTATTATT
1 TATGTTATTA-T
*
1203847 TAT-TTACTAT
1 TATGTTATTAT
*
1203857 TAAGTTATTAT
1 TATGTTATTAT
* *
1203868 TATTTTACTAT
1 TATGTTATTAT
*
1203879 TAAGTTATT
1 TATGTTATT
1203888 TATAATTACT
Statistics
Matches: 75, Mismatches: 17, Indels: 17
0.69 0.16 0.16
Matches are distributed among these distances:
10 10 0.13
11 46 0.61
12 10 0.13
13 1 0.01
15 8 0.11
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (11 bp):
TATGTTATTAT
Found at i:1203897 original size:43 final size:43
Alignment explanation
Indices: 1203817--1203932 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
1203807 ATACACTATT
* * * *
1203817 TTATCAATTATTTATTATTAAATTATTATTTATTTACTAT-TAAG
1 TTATC-ATTATTTACTATTAAGTTATTATATAATTACTATAT-AG
*
1203861 TTATTATTATTTTACTATTAAGTTATT-TATAATTACTATATAG
1 TTATCATTA-TTTACTATTAAGTTATTATATAATTACTATATAG
* *
1203904 TTATCATTAATTTAGTATAAAGTTATTAT
1 TTATCATT-ATTTACTATTAAGTTATTAT
1203933 TGATTTTGTC
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
43 38 0.63
44 22 0.37
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (43 bp):
TTATCATTATTTACTATTAAGTTATTATATAATTACTATATAG
Found at i:1203946 original size:22 final size:22
Alignment explanation
Indices: 1203817--1203981 Score: 81
Period size: 22 Copynumber: 7.6 Consensus size: 22
1203807 ATACACTATT
*
1203817 TTATCAATT-ATTTATTATTAAA-
1 TTATC-ATTAATTTAGTA-TAAAG
* * * *
1203839 TTATTATTTATTTACTATTAAG
1 TTATCATTAATTTAGTATAAAG
* * * *
1203861 TTATTATTATTTTACTATTAAG
1 TTATCATTAATTTAGTATAAAG
* * *
1203883 TTAT--TTATAATTACTATATAG
1 TTATCATTA-ATTTAGTATAAAG
1203904 TTATCATTAATTTAGTATAAAG
1 TTATCATTAATTTAGTATAAAG
* * * *
1203926 TTATTATTGATTTTGTCTAAA-
1 TTATCATTAATTTAGTATAAAG
* *
1203947 TTATCACTAATTTA-TAATAAAA
1 TTATCATTAATTTAGT-ATAAAG
*
1203969 TTATCAATAATTT
1 TTATCATTAATTT
1203982 GCTACTATAT
Statistics
Matches: 114, Mismatches: 22, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
20 4 0.04
21 33 0.29
22 74 0.65
23 3 0.03
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (22 bp):
TTATCATTAATTTAGTATAAAG
Found at i:1205514 original size:17 final size:17
Alignment explanation
Indices: 1205492--1205533 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
1205482 ACTATGGTTT
*
1205492 TATAAAAATATCTTAAG
1 TATAAAAATATCTTAAA
*
1205509 TAT-AAAATATTTTAAA
1 TATAAAAATATCTTAAA
1205525 T-TAAAAATA
1 TATAAAAATA
1205534 AAAAAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 1 0.05
16 18 0.82
17 3 0.14
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
TATAAAAATATCTTAAA
Found at i:1209300 original size:25 final size:25
Alignment explanation
Indices: 1209272--1209322 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
1209262 GAGATTGACT
1209272 CAACCTTGTTCATTAAGTCATCATC
1 CAACCTTGTTCATTAAGTCATCATC
*
1209297 CAACCTTGTTCGTTAAGTCATCATC
1 CAACCTTGTTCATTAAGTCATCATC
1209322 C
1 C
1209323 TCAGAGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.29, G:0.10, T:0.35
Consensus pattern (25 bp):
CAACCTTGTTCATTAAGTCATCATC
Found at i:1212776 original size:15 final size:15
Alignment explanation
Indices: 1212756--1212786 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1212746 AAGTTTAGAG
1212756 ACAATTCCTCCAGAC
1 ACAATTCCTCCAGAC
1212771 ACAATTCCTCCAGAC
1 ACAATTCCTCCAGAC
1212786 A
1 A
1212787 TCTGTAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.39, G:0.06, T:0.19
Consensus pattern (15 bp):
ACAATTCCTCCAGAC
Found at i:1225857 original size:18 final size:18
Alignment explanation
Indices: 1225834--1225873 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1225824 TAGTTACCGT
*
1225834 TGTTTTCAAGACAGATGA
1 TGTTTTCAAGACAGATAA
*
1225852 TGTTTTCAAGAGAGATAA
1 TGTTTTCAAGACAGATAA
1225870 TGTT
1 TGTT
1225874 ATAAAGCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.38
Consensus pattern (18 bp):
TGTTTTCAAGACAGATAA
Found at i:1228225 original size:16 final size:16
Alignment explanation
Indices: 1228200--1228255 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
1228190 AACAAACTGC
1228200 AAAAGAAGGAA-AAAA
1 AAAAGAAGGAAGAAAA
*
1228215 AAAAGAGAGGAAGGAAA
1 AAAAGA-AGGAAGAAAA
*
1228232 AAAAGAAGGAAGAAGA
1 AAAAGAAGGAAGAAAA
*
1228248 AGAAGAAG
1 AAAAGAAG
1228256 AAAAGAACCA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 6 0.17
16 20 0.57
17 9 0.26
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AAAAGAAGGAAGAAAA
Found at i:1229189 original size:18 final size:18
Alignment explanation
Indices: 1229155--1229201 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 18
1229145 AAATTAAAAA
1229155 AATAAATTTGAAATTTAT-T
1 AATAAATTT--AATTTATAT
1229174 AATTAAATTTAATTTATAT
1 AA-TAAATTTAATTTATAT
1229193 AATAAATTT
1 AATAAATTT
1229202 TTTTAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 14 0.54
19 5 0.19
20 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AATAAATTTAATTTATAT
Found at i:1230041 original size:21 final size:22
Alignment explanation
Indices: 1230002--1230042 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1229992 GATTTAAAAT
* *
1230002 TTTAATAAAAATTATAAATAAA
1 TTTAATAAAAATAAAAAATAAA
1230024 TTTAAT-AAAATAAAAAATA
1 TTTAATAAAAATAAAAAATA
1230043 TATATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
TTTAATAAAAATAAAAAATAAA
Found at i:1230566 original size:12 final size:12
Alignment explanation
Indices: 1230519--1230566 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
1230509 AAAATATTAT
*
1230519 ATTTATATTATA
1 ATTTATATTAAA
* *
1230531 TTTTATATAAAA
1 ATTTATATTAAA
*
1230543 ATTATGTATTAAA
1 ATT-TATATTAAA
1230556 ATTTATATTAA
1 ATTTATATTAA
1230567 TATAAAAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
ATTTATATTAAA
Found at i:1230654 original size:24 final size:24
Alignment explanation
Indices: 1230627--1230677 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1230617 TTTATTAAAA
* *
1230627 TTTTAAATTGTATTATTTTTTTAT
1 TTTTAAATTATATTATTTTTATAT
* *
1230651 TTTTTATTTATATTATTTTTATAT
1 TTTTAAATTATATTATTTTTATAT
1230675 TTT
1 TTT
1230678 ATTATCGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTTAAATTATATTATTTTTATAT
Found at i:1230668 original size:16 final size:16
Alignment explanation
Indices: 1230640--1230682 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
1230630 TAAATTGTAT
*
1230640 TATTTTTTTATTTTT-
1 TATTTTATTATTTTTA
1230655 TATTTATATTATTTTTA
1 TATTT-TATTATTTTTA
1230672 TATTTTATTAT
1 TATTTTATTAT
1230683 CGTATCGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 5 0.20
16 15 0.60
17 5 0.20
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTATTATTTTTA
Found at i:1230672 original size:22 final size:21
Alignment explanation
Indices: 1230640--1230680 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1230630 TAAATTGTAT
*
1230640 TATTTTTTTATTTTTTATTTA
1 TATTTTTTTATATTTTATTTA
1230661 TATTATTTTTATATTTTATT
1 TATT-TTTTTATATTTTATT
1230681 ATCGTATCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (21 bp):
TATTTTTTTATATTTTATTTA
Found at i:1240354 original size:2 final size:2
Alignment explanation
Indices: 1240347--1240372 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1240337 CAAAAAGCAA
1240347 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
1240373 GATTACAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1240681 original size:18 final size:18
Alignment explanation
Indices: 1240660--1240694 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1240650 ACAACAAACA
*
1240660 AAAATGGAAATTAAAATT
1 AAAATGGAAATGAAAATT
*
1240678 AAAATGTAAATGAAAAT
1 AAAATGGAAATGAAAAT
1240695 GGATTTAAAC
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:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (18 bp):
AAAATGGAAATGAAAATT
Found at i:1241723 original size:7 final size:7
Alignment explanation
Indices: 1241711--1241736 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1241701 TATTCATATT
1241711 CTTTTCG
1 CTTTTCG
1241718 CTTTTCG
1 CTTTTCG
1241725 CTTTTCG
1 CTTTTCG
1241732 CTTTT
1 CTTTT
1241737 TATTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.12, T:0.62
Consensus pattern (7 bp):
CTTTTCG
Found at i:1242784 original size:6 final size:6
Alignment explanation
Indices: 1242775--1242807 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
1242765 TAATCGATTT
1242775 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
1242808 TTATATGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:1242928 original size:11 final size:11
Alignment explanation
Indices: 1242906--1242960 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
1242896 TTTATTATCC
1242906 AATTTAAAATTT
1 AATTT-AAATTT
1242918 AATTTAAATTT
1 AATTTAAATTT
*
1242929 AA--TATATTT
1 AATTTAAATTT
1242938 AATATTCAAATTT
1 AAT-TT-AAATTT
*
1242951 AATTAAAATT
1 AATTTAAATT
1242961 AAATAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.22
11 13 0.36
12 7 0.19
13 8 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:1243504 original size:22 final size:21
Alignment explanation
Indices: 1243463--1243504 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
1243453 CGAATAGAGT
*
1243463 TTAAATATTTAAATATTTAAC
1 TTAAATATTTAAATAATTAAC
1243484 TTAAATAATTTATAA-AATTAA
1 TTAAAT-ATTTA-AATAATTAA
1243505 TAAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 10 0.56
23 2 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAATATTTAAATAATTAAC
Found at i:1243600 original size:26 final size:24
Alignment explanation
Indices: 1243571--1243639 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 24
1243561 TATTATTATT
*
1243571 TATAAAAATTTAAATTTAAGTTCAAA
1 TATAAAAA-TTAAATTTAAATT-AAA
* *
1243597 TATAAACGATCAAATTTAAAATTAAA
1 TATAAA-AATTAAATTT-AAATTAAA
1243623 TATAAAAATTAAATTTA
1 TATAAAAATTAAATTTA
1243640 TTTTTTATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
24 1 0.03
25 8 0.22
26 22 0.61
27 5 0.14
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (24 bp):
TATAAAAATTAAATTTAAATTAAA
Found at i:1250195 original size:27 final size:27
Alignment explanation
Indices: 1250148--1250200 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
1250138 ATTTAGAAGT
* *
1250148 AAATTTAATAATTTATGTATTTATATA
1 AAATTTAATAATTTATATATTCATATA
*
1250175 AAATATTAA-AATTTGTATATTCATAT
1 AAAT-TTAATAATTTATATATTCATAT
1250201 TATATTTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (27 bp):
AAATTTAATAATTTATATATTCATATA
Found at i:1250718 original size:18 final size:18
Alignment explanation
Indices: 1250695--1250751 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 18
1250685 TTTGTCTTAC
1250695 TTTTATATAC-CAAACAAA
1 TTTTATA-ACACAAACAAA
1250713 TTTTATAACTACAAACAAA
1 TTTTATAAC-ACAAACAAA
1250732 -TTTATAACTACAAACAAA
1 TTTTATAAC-ACAAACAAA
1250750 TT
1 TT
1250752 ATTGACACGT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.06
18 25 0.69
19 9 0.25
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (18 bp):
TTTTATAACACAAACAAA
Found at i:1250729 original size:19 final size:19
Alignment explanation
Indices: 1250705--1250751 Score: 87
Period size: 18 Copynumber: 2.5 Consensus size: 19
1250695 TTTTATATAC
1250705 CAAACAAATTTTATAACTA
1 CAAACAAATTTTATAACTA
1250724 CAAACAAA-TTTATAACTA
1 CAAACAAATTTTATAACTA
1250742 CAAACAAATT
1 CAAACAAATT
1250752 ATTGACACGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (19 bp):
CAAACAAATTTTATAACTA
Found at i:1251069 original size:22 final size:24
Alignment explanation
Indices: 1251025--1251070 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1251015 AGACGTTATT
*
1251025 AATAAATAAATATAAATCTTTTAA
1 AATAAATAAATATAAATCATTTAA
*
1251049 AATAAATATATA-AAAT-ATTTAA
1 AATAAATAAATATAAATCATTTAA
1251071 TTTTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 4 0.20
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AATAAATAAATATAAATCATTTAA
Found at i:1252228 original size:16 final size:17
Alignment explanation
Indices: 1252207--1252240 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1252197 TTATTAAATC
*
1252207 AAATATT-TTTATAAAA
1 AAATATTATTTAGAAAA
1252223 AAATATTATTTAGAAAA
1 AAATATTATTTAGAAAA
1252240 A
1 A
1252241 TTAATTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATATTATTTAGAAAA
Found at i:1253405 original size:16 final size:15
Alignment explanation
Indices: 1253343--1253404 Score: 67
Period size: 16 Copynumber: 4.1 Consensus size: 15
1253333 GTTGTATAAA
*
1253343 ATTTTAAATTATATT
1 ATTTTATATTATATT
1253358 ATTTT-TATGT-T-TT
1 ATTTTATAT-TATATT
1253371 ATTTTCATATTATATT
1 ATTTT-ATATTATATT
1253387 ATATTTATATTATATT
1 AT-TTTATATTATATT
1253403 AT
1 AT
1253405 AATATCATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
13 7 0.17
14 4 0.10
15 10 0.25
16 16 0.40
17 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
ATTTTATATTATATT
Found at i:1253409 original size:29 final size:29
Alignment explanation
Indices: 1253350--1253415 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
1253340 AAAATTTTAA
* * * * *
1253350 ATTATATTATTTTTATGTTTTATTTTCAT
1 ATTATATTATATTTATATTATATTATAAT
1253379 ATTATATTATATTTATATTATATTATAAT
1 ATTATATTATATTTATATTATATTATAAT
*
1253408 ATCATATT
1 ATTATATT
1253416 TTAAAATATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (29 bp):
ATTATATTATATTTATATTATATTATAAT
Found at i:1253838 original size:15 final size:15
Alignment explanation
Indices: 1253818--1253849 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1253808 AATGTAATAT
1253818 AAAAATATAATTTAA
1 AAAAATATAATTTAA
1253833 AAAAATATAATTTAA
1 AAAAATATAATTTAA
1253848 AA
1 AA
1253850 TTTTAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAATATAATTTAA
Found at i:1256379 original size:31 final size:29
Alignment explanation
Indices: 1256342--1256401 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
1256332 TTTAAAAATA
* *
1256342 AAAATAATTTTTATAATAAATATTAATTAAT
1 AAAATAATCTTTAAAATAAAT-TT-ATTAAT
1256373 AAAATAATCTTTAAAATAAATTTATTAAT
1 AAAATAATCTTTAAAATAAATTTATTAAT
1256402 TTAATTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 6 0.22
30 2 0.07
31 19 0.70
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
AAAATAATCTTTAAAATAAATTTATTAAT
Found at i:1256480 original size:13 final size:13
Alignment explanation
Indices: 1256458--1256500 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
1256448 AATGTGAAAA
*
1256458 TATATTATTTAAT
1 TATATAATTTAAT
**
1256471 TATATAATTTTTT
1 TATATAATTTAAT
*
1256484 TATATAATATAAT
1 TATATAATTTAAT
1256497 TATA
1 TATA
1256501 AATATAAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TATATAATTTAAT
Found at i:1259659 original size:25 final size:25
Alignment explanation
Indices: 1259583--1259659 Score: 60
Period size: 25 Copynumber: 3.3 Consensus size: 25
1259573 TTATTTATGT
*
1259583 AAAATATTAAAATTTATAT-AT-T-
1 AAAATATTATAATTTATATCATATA
*
1259605 TAAATA--ATAATTTATATCA-A-A
1 AAAATATTATAATTTATATCATATA
*
1259626 ATTATATATTATAATTTATATCATATA
1 A--AAATATTATAATTTATATCATATA
1259653 AAAATAT
1 AAAATAT
1259660 AAATTTTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 15
0.67 0.08 0.25
Matches are distributed among these distances:
20 10 0.24
21 1 0.02
22 5 0.12
23 4 0.10
25 18 0.44
26 1 0.02
27 2 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (25 bp):
AAAATATTATAATTTATATCATATA
Found at i:1260850 original size:6 final size:6
Alignment explanation
Indices: 1260841--1260872 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
1260831 TGGTCCGTTT
*
1260841 GGCGGA GGCGGA GGCGGA GGCGGA GGTGGA GG
1 GGCGGA GGCGGA GGCGGA GGCGGA GGCGGA GG
1260873 GGCCAATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.12, G:0.69, T:0.03
Consensus pattern (6 bp):
GGCGGA
Found at i:1261878 original size:35 final size:35
Alignment explanation
Indices: 1261835--1261909 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
1261825 CCTCGGGGTT
* * *
1261835 ACTT-AGTTTTTGTGATTTTAGGTTTGTAGAATCA
1 ACTTAAGTTTCTGTGATATTAAGTTTGTAGAATCA
*
1261869 GCTTAAGTTTCTGTGATATTAAGTTTGTAGAATCA
1 ACTTAAGTTTCTGTGATATTAAGTTTGTAGAATCA
1261904 ACTTAA
1 ACTTAA
1261910 CTTGCAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 3 0.09
35 32 0.91
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (35 bp):
ACTTAAGTTTCTGTGATATTAAGTTTGTAGAATCA
Found at i:1263214 original size:556 final size:556
Alignment explanation
Indices: 1262162--1263829 Score: 3273
Period size: 556 Copynumber: 3.0 Consensus size: 556
1262152 ATAGCTCAAG
*
1262162 GACTCCCATGTGTCAAATTTGTCACACTGAAGCTCAGAAGGCATAAAGGGATTGCATTTTTTCAA
1 GACTCCCATGTGTCAAATTTATCACACTGAAGCTCAGAAGGCATAAAGGGATTGCATTTTTTCAA
1262227 TTAAGTTTGACGGTTTGCCTGGTACATGACACCATGCATTGAATTTTCAAGATGAATAAGGCATT
66 TTAAGTTTGACGGTTTGCCTGGTACATGACACCATGCATTGAATTTTCAAGATGAATAAGGCATT
1262292 CATCGTCTCCTTATCCTCTTGAGTGGTCTCAATATTTAGATTTTAGTAGTACTGTGATTAAGATA
131 CATCGTCTCCTTATCCTCTTGAGTGGTCTCAATATTTAGATTTTAGTAGTACTGTGATTAAGATA
1262357 GGTCAGCTTCAAATTGTAAGAAATGATACACCCATCTAAGAAATATACATAGCAGTCAGCCAGCA
196 GGTCAGCTTCAAATTGTAAGAAATGATACACCCATCTAAGAAATATACATAGCAGTCAGCCAGCA
1262422 GGTTGGATACCTTGATATTGCGTTGCACTTAATTCTGTTTCATGACATGGAAATCGTCATGATCA
261 GGTTGGATACCTTGATATTGCGTTGCACTTAATTCTGTTTCATGACATGGAAATCGTCATGATCA
1262487 ATCTGTGCTAATTCCTTGATCAAGTAGCAAATGTAAATGGGGTCCCGCATAATGCCGAATTGAAC
326 ATCTGTGCTAATTCCTTGATCAAGTAGCAAATGTAAATGGGGTCCCGCATAATGCCGAATTGAAC
1262552 CTTGCTATGTGCACATCAACACTTTCCTATGACCTATAAGGGGAAATTTCGTCTCAAGTGTGCAC
391 CTTGCTATGTGCACATCAACACTTTCCTATGACCTATAAGGGGAAATTTCGTCTCAAGTGTGCAC
1262617 ATTTCCTAAAGTTGGTCCTATGATTATAACTTTAACAACTGATTTATCTGTGGCACTTTTGATTG
456 ATTTCCTAAAGTTGGTCCTATGATTATAACTTTAACAACTGATTTATCTGTGGCACTTTTGATTG
1262682 ATCATGTCTGCCATGTTGTTGAGTCTCTTTTTCAGA
521 ATCATGTCTGCCATGTTGTTGAGTCTCTTTTTCAGA
1262718 GACTCCCATGTGTCAAATTTATCACACTGAAGCTCAGAAGGCATAAAGGGATTGCATTTTTTCAA
1 GACTCCCATGTGTCAAATTTATCACACTGAAGCTCAGAAGGCATAAAGGGATTGCATTTTTTCAA
1262783 TTAAGTTTGACGGTTTGCCTGGTACATGACACCATGCATTGAATTTTCAAGATGAATAAGGCATT
66 TTAAGTTTGACGGTTTGCCTGGTACATGACACCATGCATTGAATTTTCAAGATGAATAAGGCATT
1262848 CATCGTCTCCTTATCCTCTTGAGTGGTCTCAATATTTAGATTTTAGTAGTACTGTGATTAAGATA
131 CATCGTCTCCTTATCCTCTTGAGTGGTCTCAATATTTAGATTTTAGTAGTACTGTGATTAAGATA
1262913 GGTCAGCTTCAAATTGTAAGAAATGATACACCCATCTAAGAAATATACATAGCAGTCAGCCAGCA
196 GGTCAGCTTCAAATTGTAAGAAATGATACACCCATCTAAGAAATATACATAGCAGTCAGCCAGCA
1262978 GGTTGGATACCTTGATATTGCGTTGCACTTAATTCTGTTTCATGACATGGAAATCGTCATGATCA
261 GGTTGGATACCTTGATATTGCGTTGCACTTAATTCTGTTTCATGACATGGAAATCGTCATGATCA
1263043 ATCTGTGCTAATTCCTTGATCAAGTAGCAAATGTAAATGGGGTCCCGCATAATGCCGAATTGAAC
326 ATCTGTGCTAATTCCTTGATCAAGTAGCAAATGTAAATGGGGTCCCGCATAATGCCGAATTGAAC
1263108 CTTGCTATGTGCACATCAACACTTTCCTATGACCTATAAGGGGAAATTTCGTCTCAAGTGTGCAC
391 CTTGCTATGTGCACATCAACACTTTCCTATGACCTATAAGGGGAAATTTCGTCTCAAGTGTGCAC
1263173 ATTTCCTAAAGTTGGTCCTATGATTATAACTTTAACAACTGATTTATCTGTGGCACTTTTGATTG
456 ATTTCCTAAAGTTGGTCCTATGATTATAACTTTAACAACTGATTTATCTGTGGCACTTTTGATTG
1263238 ATCATGTCTGCCATGTTGTTGAGTCTCTTTTTCAGA
521 ATCATGTCTGCCATGTTGTTGAGTCTCTTTTTCAGA
1263274 GACTCCCATGTGTCAAATTTATCACACTGAAGCTCAGAAGGCATAAAGGGATTGCATTTTTTCAA
1 GACTCCCATGTGTCAAATTTATCACACTGAAGCTCAGAAGGCATAAAGGGATTGCATTTTTTCAA
1263339 TTAAGTTTGACGGTTTGCCTGGTACATGACACCATGCATTGAATTTTCAAGATGAATAAGGCATT
66 TTAAGTTTGACGGTTTGCCTGGTACATGACACCATGCATTGAATTTTCAAGATGAATAAGGCATT
1263404 CATCGTCTCCTTATCCTCTTGAGTGGTCTCAATATTTAGATTTTAGTAGTACTGTGATTAAGATA
131 CATCGTCTCCTTATCCTCTTGAGTGGTCTCAATATTTAGATTTTAGTAGTACTGTGATTAAGATA
1263469 GGTCAGCTTCAAATTGTAAGAAATGATACACCCATCTAAGAAATATACATAGCAGTCAGCCAGCA
196 GGTCAGCTTCAAATTGTAAGAAATGATACACCCATCTAAGAAATATACATAGCAGTCAGCCAGCA
* *
1263534 GGTTGGATACCTAGATATTGTGTTGCACTTAATTCTGTTTCATGACATGGAAATCGTCATGATCA
261 GGTTGGATACCTTGATATTGCGTTGCACTTAATTCTGTTTCATGACATGGAAATCGTCATGATCA
*
1263599 ATCTGTGCTGATTCCTTGATCAAGTAGCAAATGTAAATGGGGTCCCGCATAATGCCGAATTGAAC
326 ATCTGTGCTAATTCCTTGATCAAGTAGCAAATGTAAATGGGGTCCCGCATAATGCCGAATTGAAC
1263664 CTTGCTATGTGCACATCAACACTTTCCTATGACCTATAAGGGGAAATTTCGTCTCAAGTGTGCAC
391 CTTGCTATGTGCACATCAACACTTTCCTATGACCTATAAGGGGAAATTTCGTCTCAAGTGTGCAC
* * *
1263729 ATTTCCTAAAGTTGGCCCTATGATTATAACGTTAACCACTGATTTATCTGTGGCACTTTTGATTG
456 ATTTCCTAAAGTTGGTCCTATGATTATAACTTTAACAACTGATTTATCTGTGGCACTTTTGATTG
1263794 ATCATGTCTGCCATGTTGTTGAGTCTCTTTTTCAGA
521 ATCATGTCTGCCATGTTGTTGAGTCTCTTTTTCAGA
1263830 CTTGAAACTC
Statistics
Matches: 1105, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
556 1105 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (556 bp):
GACTCCCATGTGTCAAATTTATCACACTGAAGCTCAGAAGGCATAAAGGGATTGCATTTTTTCAA
TTAAGTTTGACGGTTTGCCTGGTACATGACACCATGCATTGAATTTTCAAGATGAATAAGGCATT
CATCGTCTCCTTATCCTCTTGAGTGGTCTCAATATTTAGATTTTAGTAGTACTGTGATTAAGATA
GGTCAGCTTCAAATTGTAAGAAATGATACACCCATCTAAGAAATATACATAGCAGTCAGCCAGCA
GGTTGGATACCTTGATATTGCGTTGCACTTAATTCTGTTTCATGACATGGAAATCGTCATGATCA
ATCTGTGCTAATTCCTTGATCAAGTAGCAAATGTAAATGGGGTCCCGCATAATGCCGAATTGAAC
CTTGCTATGTGCACATCAACACTTTCCTATGACCTATAAGGGGAAATTTCGTCTCAAGTGTGCAC
ATTTCCTAAAGTTGGTCCTATGATTATAACTTTAACAACTGATTTATCTGTGGCACTTTTGATTG
ATCATGTCTGCCATGTTGTTGAGTCTCTTTTTCAGA
Found at i:1267952 original size:6 final size:6
Alignment explanation
Indices: 1267941--1267965 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1267931 GTAGAGATTT
1267941 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
1267966 ATCCATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:1268154 original size:27 final size:29
Alignment explanation
Indices: 1268098--1268154 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
1268088 TTTAATTTAT
**
1268098 AATTTTATCTAATATATTTGTTTTTTATA
1 AATTTTATCTAATATATTTGTTTTAAATA
1268127 AATTTATAT-TAATATA-TT-TTTTAAATA
1 AATTT-TATCTAATATATTTGTTTTAAATA
1268154 A
1 A
1268155 TATATTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 8 0.32
28 2 0.08
29 12 0.48
30 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (29 bp):
AATTTTATCTAATATATTTGTTTTAAATA
Found at i:1268220 original size:19 final size:20
Alignment explanation
Indices: 1268177--1268220 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1268167 ATTTACTCTA
* *
1268177 AAATAATAATTTTTATTATT
1 AAATAAAAATTTATATTATT
*
1268197 TAATAAAAATTTAT-TTATT
1 AAATAAAAATTTATATTATT
1268216 AAATA
1 AAATA
1268221 TATAAAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATAAAAATTTATATTATT
Found at i:1270280 original size:18 final size:18
Alignment explanation
Indices: 1270257--1270299 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
1270247 AAATAGAATG
1270257 CTGCTTCACTTTCTTCCC
1 CTGCTTCACTTTCTTCCC
1270275 CTGCTTCACTTTCTTCCC
1 CTGCTTCACTTTCTTCCC
1270293 CTGCTTC
1 CTGCTTC
1270300 CCAGTAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.05, C:0.44, G:0.07, T:0.44
Consensus pattern (18 bp):
CTGCTTCACTTTCTTCCC
Found at i:1274507 original size:15 final size:15
Alignment explanation
Indices: 1274487--1274516 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1274477 ACTGATGATC
1274487 ACTCTGATATTATTT
1 ACTCTGATATTATTT
1274502 ACTCTGATATTATTT
1 ACTCTGATATTATTT
1274517 GTAAAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
ACTCTGATATTATTT
Found at i:1276421 original size:13 final size:13
Alignment explanation
Indices: 1276403--1276427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1276393 CCTATCATAA
1276403 TAAATCATAAATC
1 TAAATCATAAATC
1276416 TAAATCATAAAT
1 TAAATCATAAAT
1276428 GTCAGGTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAATCATAAATC
Found at i:1278008 original size:15 final size:15
Alignment explanation
Indices: 1277984--1278020 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1277974 CTTAAACTGT
*
1277984 TGGAACATGAAATTA
1 TGGAAGATGAAATTA
1277999 TGGAAGATGAAATTA
1 TGGAAGATGAAATTA
1278014 TGCGAAG
1 TG-GAAG
1278021 CAGACTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.24
Consensus pattern (15 bp):
TGGAAGATGAAATTA
Found at i:1278378 original size:21 final size:22
Alignment explanation
Indices: 1278349--1278389 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1278339 ACCATAGTTC
1278349 TGCTGCATCAT-TGCTGCTAAT
1 TGCTGCATCATCTGCTGCTAAT
* *
1278370 TGCTTCATCCTCTGCTGCTA
1 TGCTGCATCATCTGCTGCTA
1278390 TATGAGCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.15, C:0.29, G:0.17, T:0.39
Consensus pattern (22 bp):
TGCTGCATCATCTGCTGCTAAT
Found at i:1279316 original size:22 final size:24
Alignment explanation
Indices: 1279269--1279323 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 24
1279259 GTCCAACTTG
1279269 ATTTTAATAACATAAATATAATTAA
1 ATTTT-ATAACATAAATATAATTAA
1279294 ATTTTATAA-AT-AATAT-ATGTAA
1 ATTTTATAACATAAATATAAT-TAA
1279316 ATTATTAT
1 ATT-TTAT
1279324 TTTGATACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 2 0.07
22 11 0.39
23 6 0.21
24 4 0.14
25 5 0.18
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTTTATAACATAAATATAATTAA
Found at i:1280294 original size:15 final size:16
Alignment explanation
Indices: 1280274--1280306 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
1280264 GGTTTCAATC
1280274 ATTTGAATTA-TTTAA
1 ATTTGAATTATTTTAA
1280289 ATTTGAATTATTTTAA
1 ATTTGAATTATTTTAA
1280305 AT
1 AT
1280307 CTAAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
ATTTGAATTATTTTAA
Found at i:1280404 original size:137 final size:137
Alignment explanation
Indices: 1280250--1280525 Score: 419
Period size: 137 Copynumber: 2.0 Consensus size: 137
1280240 AAATCATTTT
*
1280250 AAATTGAAGTTTCGGGTTTCAATCATTTGAA-TTATTTAAATTTGAATTATTTTAAATCTAAATA
1 AAATTGAAGTTTCGGGTTTCAATCATTT-AAGTTATTTAAATTTGAATCATTTTAAATCTAAATA
* *
1280314 ATTATATTTTAAAATTAAATTAATCTAAATTCAAATTCATCAAGTTTTTTGAATTAAAACTAATT
65 ATTATATTCTAAAATTAAATTAATCTAAATTCAAATTCATCAAGTTTTTAGAATTAAAACTAATT
1280379 CGTAGTTA
130 CGTAGTTA
* * * *
1280387 AAATTGAAGTTTTGGGTTTGAATCATTTAAGTTATTTAAATTTGAATCATTTTGAATCTAAATGA
1 AAATTGAAGTTTCGGGTTTCAATCATTTAAGTTATTTAAATTTGAATCATTTTAAATCTAAATAA
* * * * *
1280452 TTATGTTCTAAAATTAAATTAATTTAAATTCAAATTCGTCAAGTTTTTAGGATTAAAACTAATTT
66 TTATATTCTAAAATTAAATTAATCTAAATTCAAATTCATCAAGTTTTTAGAATTAAAACTAATTC
*
1280517 GTATTTA
131 GTAGTTA
1280524 AA
1 AA
1280526 TCATTTCAAC
Statistics
Matches: 125, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
136 2 0.02
137 123 0.98
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.45
Consensus pattern (137 bp):
AAATTGAAGTTTCGGGTTTCAATCATTTAAGTTATTTAAATTTGAATCATTTTAAATCTAAATAA
TTATATTCTAAAATTAAATTAATCTAAATTCAAATTCATCAAGTTTTTAGAATTAAAACTAATTC
GTAGTTA
Found at i:1282473 original size:7 final size:7
Alignment explanation
Indices: 1282461--1282485 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1282451 ATATATATAT
1282461 AAATAAA
1 AAATAAA
1282468 AAATAAA
1 AAATAAA
1282475 AAATAAA
1 AAATAAA
1282482 AAAT
1 AAAT
1282486 GTGTAGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:1283944 original size:34 final size:34
Alignment explanation
Indices: 1283906--1283976 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
1283896 ATTTTACTAT
*
1283906 AAATGCAATT-TCAAAAAGTATTATAATTATTCAA
1 AAATGCAATTCT-AAAAAGCATTATAATTATTCAA
* *
1283940 AAATGTAATTCTAAAAAGCATTGTAATTATTCAA
1 AAATGCAATTCTAAAAAGCATTATAATTATTCAA
1283974 AAA
1 AAA
1283977 ATATATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (34 bp):
AAATGCAATTCTAAAAAGCATTATAATTATTCAA
Found at i:1283990 original size:35 final size:34
Alignment explanation
Indices: 1283918--1283991 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
1283908 ATGCAATTTC
* *
1283918 AAAAAGTATTATAATTATTCAAAAATGTAATTCT
1 AAAAAGCATTATAATTATTCAAAAATATAATTCT
* * *
1283952 AAAAAGCATTGTAATTATTCAAAAAATATATTTTT
1 AAAAAGCATTATAATTATTC-AAAAATATAATTCT
1283987 AAAAA
1 AAAAA
1283992 TAATTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 18 0.53
35 16 0.47
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (34 bp):
AAAAAGCATTATAATTATTCAAAAATATAATTCT
Done.