Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 291 of 333
Found at i:96003393 original size:3 final size:3
Alignment explanation
Indices: 96003385--96003409 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
96003375 ATTACTATAT
96003385 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
96003410 AGCAATCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:96008100 original size:16 final size:16
Alignment explanation
Indices: 96008079--96008110 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
96008069 TGAATTAAGG
96008079 GCAAAATTGGAATATT
1 GCAAAATTGGAATATT
96008095 GCAAAATTGGAATATT
1 GCAAAATTGGAATATT
96008111 TGGGCTCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
GCAAAATTGGAATATT
Found at i:96010489 original size:46 final size:46
Alignment explanation
Indices: 96010379--96010645 Score: 277
Period size: 46 Copynumber: 5.6 Consensus size: 46
96010369 TTTGACATGA
* * * *
96010379 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
*
96010429 TGCTATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* * *
96010475 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
** * *
96010525 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
** * * *
96010571 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
96010617 TGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
96010646 CACATTTCAT
Statistics
Matches: 193, Mismatches: 17, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
45 9 0.05
46 116 0.60
47 3 0.02
49 3 0.02
50 57 0.30
51 5 0.03
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:96010543 original size:96 final size:96
Alignment explanation
Indices: 96010379--96010659 Score: 428
Period size: 96 Copynumber: 3.0 Consensus size: 96
96010369 TTTGACATGA
*
96010379 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCTATGGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
** * *
96010444 CAACCATGGTCTTATTCTTTTCATGTCACGT
66 CAACCATGGTCTTACACATTTCATATCACGT
*
96010475 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCACGTTGCCATGGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
96010540 CAACCATGGTCTTACACATTTCATATCACGT
66 CAACCATGGTCTTACACATTTCATATCACGT
* * * *
96010571 TGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCATGTTGCCATGGTATCTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGTTGCCATGGTATCTT
96010631 TCAACCATGGTCTTACACATTTCATATCA
65 TCAACCATGGTCTTACACATTTCATATCA
96010660 GATAGCACAC
Statistics
Matches: 173, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
91 4 0.02
92 51 0.29
94 2 0.01
96 116 0.67
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (96 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
CAACCATGGTCTTACACATTTCATATCACGT
Found at i:96010646 original size:46 final size:46
Alignment explanation
Indices: 96010427--96010659 Score: 324
Period size: 46 Copynumber: 5.0 Consensus size: 46
96010417 TTTCTGTCAT
* ** * *
96010427 GTTGCTATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* * * *
96010473 GTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCAC
96010523 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
96010569 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
96010615 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
96010660 GATAGCACAC
Statistics
Matches: 169, Mismatches: 12, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
45 4 0.02
46 124 0.73
48 2 0.01
50 35 0.21
51 4 0.02
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
Found at i:96012741 original size:17 final size:16
Alignment explanation
Indices: 96012721--96012760 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
96012711 AATTTTTCCC
*
96012721 TTTTTCCTTCTTTCCTT
1 TTTTTCCTTCCTT-CTT
96012738 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
96012754 TCTTTCC
1 TTTTTCC
96012761 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:96012820 original size:16 final size:17
Alignment explanation
Indices: 96012789--96012834 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
96012779 TCATCCTTTC
*
96012789 TTTCTTTTTCTATTCTT
1 TTTCTTTTTATATTCTT
96012806 TTTCTTTTTAT-TTCTT
1 TTTCTTTTTATATTCTT
* *
96012822 TTACTTTATATAT
1 TTTCTTTTTATAT
96012835 ATATATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTATATTCTT
Found at i:96012823 original size:10 final size:10
Alignment explanation
Indices: 96012785--96012822 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
96012775 GGTTTCATCC
96012785 TTTCTTTCTT
1 TTTCTTTCTT
96012795 TTTCTATTCTT
1 TTTCT-TTCTT
96012806 TTTCTTT-TT
1 TTTCTTTCTT
96012815 ATTTCTTT
1 -TTTCTTT
96012823 TACTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:96021793 original size:19 final size:19
Alignment explanation
Indices: 96021752--96021793 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
96021742 GATTTGTTTT
*
96021752 TTTATTTTTGAATTATAGT
1 TTTATTTTTGAATTATAGA
96021771 TTTATTTTATGAATT-TAGA
1 TTTATTTT-TGAATTATAGA
96021790 TTTA
1 TTTA
96021794 AAAAAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTATTTTTGAATTATAGA
Found at i:96029341 original size:21 final size:20
Alignment explanation
Indices: 96029323--96029448 Score: 58
Period size: 20 Copynumber: 6.2 Consensus size: 20
96029313 TGCTTTCCGT
*
96029323 TTAGCTCTTATGAGCTTCCG
1 TTAGCTCTTATGAGCTTCAG
* * *
96029343 TTAACTCATATGAGTTTCAG
1 TTAGCTCTTATGAGCTTCAG
* * * * * *
96029363 TCAACCCTTTTGGGGTTTCAG
1 TTAGCTCTTAT-GAGCTTCAG
*
96029384 TTTAGCTCTGATGAGCTTCAG
1 -TTAGCTCTTATGAGCTTCAG
* * *
96029405 TTAGC-CTT-CGGGCTTCCG
1 TTAGCTCTTATGAGCTTCAG
** *
96029423 TTTAGCAGTTATGTGCTTCAG
1 -TTAGCTCTTATGAGCTTCAG
96029444 TTAGC
1 TTAGC
96029449 CTTCGGGCTT
Statistics
Matches: 77, Mismatches: 24, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
18 7 0.09
19 7 0.09
20 35 0.45
21 22 0.29
22 6 0.08
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.39
Consensus pattern (20 bp):
TTAGCTCTTATGAGCTTCAG
Found at i:96029356 original size:20 final size:21
Alignment explanation
Indices: 96029317--96029356 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
96029307 AGTGTTTGCT
* *
96029317 TTCCGTTTAGCTCTTATGAGC
1 TTCCGTTTAACTCATATGAGC
96029338 TTCCG-TTAACTCATATGAG
1 TTCCGTTTAACTCATATGAG
96029357 TTTCAGTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
TTCCGTTTAACTCATATGAGC
Found at i:96029441 original size:39 final size:39
Alignment explanation
Indices: 96029383--96029498 Score: 178
Period size: 39 Copynumber: 3.0 Consensus size: 39
96029373 TGGGGTTTCA
* * *
96029383 GTTTAGCTCTGATGAGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
*
96029422 GTTTAGCAGTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
* *
96029461 GTTTAGCACTTATGTGCTTCAGCTAGACTTCGGGCTTC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTC
96029499 AGATCACGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.14, C:0.24, G:0.25, T:0.37
Consensus pattern (39 bp):
GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
Found at i:96029480 original size:21 final size:21
Alignment explanation
Indices: 96029416--96029480 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
96029406 TAGCCTTCGG
*
96029416 GCTTCCGTTTAGCAGTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
96029437 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
96029455 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
96029476 GCTTC
1 GCTTC
96029481 AGCTAGACTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 8 0.24
21 12 0.35
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:96031202 original size:24 final size:26
Alignment explanation
Indices: 96031167--96031222 Score: 98
Period size: 24 Copynumber: 2.2 Consensus size: 26
96031157 TTTAAAATCT
96031167 TTTTCATAAATATTTCAAAAAAAA-G
1 TTTTCATAAATATTTCAAAAAAAATG
96031192 TTTTCAT-AATATTTCAAAAAAAATG
1 TTTTCATAAATATTTCAAAAAAAATG
96031217 TTTTCA
1 TTTTCA
96031223 AGTAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (26 bp):
TTTTCATAAATATTTCAAAAAAAATG
Found at i:96051096 original size:49 final size:45
Alignment explanation
Indices: 96051028--96051124 Score: 124
Period size: 49 Copynumber: 2.1 Consensus size: 45
96051018 TCTTATAGAG
* *
96051028 AACATATGGAAAGCATT-AAACACGCTATATTCTTTCTAAAAAGAATTAT
1 AACATATGGAAAACATTAAAAAACG-T-T-TT-TTT-TAAAAAGAATTAT
96051077 AACATATGGAAAACATTAAAAAACGTTTTTTTTAAAAAGAATTAT
1 AACATATGGAAAACATTAAAAAACGTTTTTTTTAAAAAGAATTAT
96051122 AAC
1 AAC
96051125 TACCATGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
45 16 0.36
46 3 0.07
47 2 0.04
48 1 0.02
49 17 0.38
50 6 0.13
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.31
Consensus pattern (45 bp):
AACATATGGAAAACATTAAAAAACGTTTTTTTTAAAAAGAATTAT
Found at i:96052633 original size:18 final size:18
Alignment explanation
Indices: 96052610--96052646 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
96052600 CGAAACCATT
96052610 CCACATTGTAGCCTATAG
1 CCACATTGTAGCCTATAG
96052628 CCACATTGTAGCCTATAG
1 CCACATTGTAGCCTATAG
96052646 C
1 C
96052647 ACGAGCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (18 bp):
CCACATTGTAGCCTATAG
Found at i:96054118 original size:23 final size:23
Alignment explanation
Indices: 96054092--96054176 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
96054082 ACAAAAAATG
96054092 AAAATATAATAATAATAATAGTA
1 AAAATATAATAATAATAATAGTA
* * * *
96054115 AAAACACAATAGTAATAATAATGA
1 AAAATATAATAATAATAATAGT-A
* *
96054139 AAAGGTATTATAAT-ATAATAGTA
1 AAA-ATATAATAATAATAATAGTA
* *
96054162 ATAATGATGATAATA
1 AAAAT-ATAATAATA
96054177 GTGGTATTAG
Statistics
Matches: 45, Mismatches: 13, Indels: 7
0.69 0.20 0.11
Matches are distributed among these distances:
22 1 0.02
23 28 0.62
24 11 0.24
25 5 0.11
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.29
Consensus pattern (23 bp):
AAAATATAATAATAATAATAGTA
Found at i:96054164 original size:33 final size:38
Alignment explanation
Indices: 96054122--96054203 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 38
96054112 GTAAAAACAC
96054122 AATAGTAATAATAATGA-AA-A-GGTATTA-TAAT-AT
1 AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
*
96054155 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGATAATAG-GGTATTAGTAATAAT
*
96054194 AATAATAATA
1 AATAGTAATA
96054204 GAAAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 1 0.02
37 7 0.17
38 4 0.10
39 11 0.27
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.34
Consensus pattern (38 bp):
AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
Found at i:96054212 original size:19 final size:18
Alignment explanation
Indices: 96054188--96054229 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
96054178 TGGTATTAGT
*
96054188 AATAATAATAATAATAGAA
1 AATAATAACAATAATA-AA
*
96054207 AATAATAACAATATTAAA
1 AATAATAACAATAATAAA
96054225 AATAA
1 AATAA
96054230 CACTCTTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AATAATAACAATAATAAA
Found at i:96054625 original size:13 final size:13
Alignment explanation
Indices: 96054604--96054670 Score: 60
Period size: 13 Copynumber: 5.8 Consensus size: 13
96054594 GTGGAGTGGT
*
96054604 TGGGATGGTTTAG
1 TGGGGTGGTTTAG
96054617 TGGGGTGG--T--
1 TGGGGTGGTTTAG
96054626 TGGGGTGGTTTAG
1 TGGGGTGGTTTAG
96054639 TGGGGTGG--T--
1 TGGGGTGGTTTAG
*
96054648 TGGAGTGGTTTAG
1 TGGGGTGGTTTAG
96054661 TGGGGTGGTT
1 TGGGGTGGTT
96054671 GGAGTGAAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
9 15 0.35
11 4 0.09
13 24 0.56
ACGTcount: A:0.07, C:0.00, G:0.55, T:0.37
Consensus pattern (13 bp):
TGGGGTGGTTTAG
Found at i:96054673 original size:22 final size:22
Alignment explanation
Indices: 96054593--96054676 Score: 134
Period size: 22 Copynumber: 3.8 Consensus size: 22
96054583 TTTGTAGGCA
*
96054593 AGTGGAGTGGTTGG-GATGGTTT
1 AGTGGGGTGGTTGGAG-TGGTTT
*
96054615 AGTGGGGTGGTTGGGGTGGTTT
1 AGTGGGGTGGTTGGAGTGGTTT
96054637 AGTGGGGTGGTTGGAGTGGTTT
1 AGTGGGGTGGTTGGAGTGGTTT
96054659 AGTGGGGTGGTTGGAGTG
1 AGTGGGGTGGTTGGAGTG
96054677 AAGATATTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
22 58 0.98
23 1 0.02
ACGTcount: A:0.10, C:0.00, G:0.56, T:0.35
Consensus pattern (22 bp):
AGTGGGGTGGTTGGAGTGGTTT
Found at i:96054792 original size:16 final size:15
Alignment explanation
Indices: 96054751--96054795 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
96054741 CTTTGGAGGT
** *
96054751 TGTTGGGTTTTGGGC
1 TGTTGGGTTTTTAGA
96054766 TGTTGGGTTTTTAGA
1 TGTTGGGTTTTTAGA
96054781 TGTTGGGCTTTTTAG
1 TGTTGGG-TTTTTAG
96054796 CCCGGGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.07, C:0.04, G:0.38, T:0.51
Consensus pattern (15 bp):
TGTTGGGTTTTTAGA
Found at i:96055534 original size:206 final size:206
Alignment explanation
Indices: 96055166--96056249 Score: 1891
Period size: 206 Copynumber: 5.3 Consensus size: 206
96055156 CAAATCTGCT
* * * * *
96055166 TCTTCAATTTGTTACTTGTAAGCACAAGGATGCCAAATCGTCTTGGATCTTGCTTCTGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
* * *
96055231 ATTTGAAGGCCAGATCTGCTATGTATCTGCTTTCCGTCGAAATGGAGATACCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
*
96055296 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACACGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
* *
96055361 AATTAGCTATA
196 AATCAGCTATG
* *
96055372 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATAATCTTGGATCTTGCTTCAATATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
* * *
96055437 ATTTAAAGGCCAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
96055502 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
*
96055567 AATCAGCTATA
196 AATCAGCTATG
*
96055578 TCTTCGATTTGCTCATTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
96055643 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
96055708 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
96055773 AATCAGCTATG
196 AATCAGCTATG
* *
96055784 TCTTCGATTTGCTCATTGTAAGCACAAGGATGACAAATCATCTTGGATCTTGCTTCAGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
*
96055849 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTAGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
96055914 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
96055979 AATCAGCTATG
196 AATCAGCTATG
* * *
96055990 TCTTCGATTTGCTCCTTGCAAGCATAAGGATGCCAAATCATATTGGATCTTGCTTCAGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
* * *
96056055 ATCTGAAGGCCAAATCTGCTATCTATCTGCTCTCTGTCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
96056120 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
96056185 AATCAGCTATG
196 AATCAGCTATG
* * *
96056196 TCTTCGATTTGCTCCTTGGAAGTACAAGGATGCCAAACCATCTTGGATC-TGCTT
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
96056250 TAGCCAGATC
Statistics
Matches: 842, Mismatches: 36, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
205 5 0.01
206 837 0.99
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (206 bp):
TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
AATCAGCTATG
Found at i:96065557 original size:23 final size:23
Alignment explanation
Indices: 96065529--96065613 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 23
96065519 CAAAAAAAAG
96065529 AAAATATAATAATAATAATAGTA
1 AAAATATAATAATAATAATAGTA
* * *
96065552 AAAATACAATAGTAATAATAATGA
1 AAAATATAATAATAATAATAGT-A
* *
96065576 AAAGGTATTATAAT-ATAATAGTA
1 AAA-ATATAATAATAATAATAGTA
* *
96065599 ACAATGATGATAATA
1 AAAAT-ATAATAATA
96065614 GTGGTATTAG
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
22 1 0.02
23 29 0.62
24 11 0.23
25 6 0.13
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.29
Consensus pattern (23 bp):
AAAATATAATAATAATAATAGTA
Found at i:96065924 original size:13 final size:13
Alignment explanation
Indices: 96065906--96065938 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
96065896 AAAAGAAACC
96065906 TCTTTTGCTTTAA
1 TCTTTTGCTTTAA
*
96065919 TCTTTTGCTTTGA
1 TCTTTTGCTTTAA
96065932 TCTTTTG
1 TCTTTTG
96065939 ATTAATCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.15, G:0.12, T:0.64
Consensus pattern (13 bp):
TCTTTTGCTTTAA
Found at i:96066071 original size:22 final size:22
Alignment explanation
Indices: 96066040--96066110 Score: 108
Period size: 22 Copynumber: 3.2 Consensus size: 22
96066030 TTTGTAGGCA
*
96066040 AGTGGAGTGGTTGGGATGGTTT
1 AGTGGGGTGGTTGGGATGGTTT
*
96066062 AGTGGGGTGGTTGGGGTGGTTT
1 AGTGGGGTGGTTGGGATGGTTT
96066084 AGTGGGGTGGTT-GGAGTGGTTT
1 AGTGGGGTGGTTGGGA-TGGTTT
96066106 AGTGG
1 AGTGG
96066111 AGTAGTTTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 2 0.04
22 43 0.96
ACGTcount: A:0.10, C:0.00, G:0.55, T:0.35
Consensus pattern (22 bp):
AGTGGGGTGGTTGGGATGGTTT
Found at i:96066072 original size:13 final size:13
Alignment explanation
Indices: 96066051--96066130 Score: 59
Period size: 13 Copynumber: 6.8 Consensus size: 13
96066041 GTGGAGTGGT
*
96066051 TGGGATGGTTTAG
1 TGGGGTGGTTTAG
96066064 TGGGGTGG--T--
1 TGGGGTGGTTTAG
96066073 TGGGGTGGTTTAG
1 TGGGGTGGTTTAG
96066086 TGGGGTGG--T--
1 TGGGGTGGTTTAG
*
96066095 TGGAGTGGTTTAG
1 TGGGGTGGTTTAG
* *
96066108 TGGAGTAGTTTAG
1 TGGGGTGGTTTAG
*
96066121 TAGGGTGGTT
1 TGGGGTGGTT
96066131 GGAGTGAAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
13 34 0.64
ACGTcount: A:0.11, C:0.00, G:0.51, T:0.38
Consensus pattern (13 bp):
TGGGGTGGTTTAG
Found at i:96066254 original size:16 final size:15
Alignment explanation
Indices: 96066213--96066257 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
96066203 CTTTCGAGGT
** *
96066213 TGTTGGGTTTTGGGC
1 TGTTGGGTTTTTAGA
96066228 TGTTGGGTTTTTAGA
1 TGTTGGGTTTTTAGA
96066243 TGTTGGGCTTTTTAG
1 TGTTGGG-TTTTTAG
96066258 CCCGGGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.07, C:0.04, G:0.38, T:0.51
Consensus pattern (15 bp):
TGTTGGGTTTTTAGA
Found at i:96067128 original size:29 final size:29
Alignment explanation
Indices: 96067096--96067153 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
96067086 ACACCCACAA
* *
96067096 GTAGGGTTGTAAATAAACTAAGCTTGAAT
1 GTAGGGCTATAAATAAACTAAGCTTGAAT
*
96067125 GTAGGGCTATAAATGAACTAAGCTTGAAT
1 GTAGGGCTATAAATAAACTAAGCTTGAAT
96067154 AAATAAACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (29 bp):
GTAGGGCTATAAATAAACTAAGCTTGAAT
Found at i:96077086 original size:27 final size:27
Alignment explanation
Indices: 96077056--96077124 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
96077046 AAAGAATGCC
* *
96077056 AAATTGTACATAAATAAATTTTAAAGA
1 AAATTATACATAAATAAATTTAAAAGA
* *
96077083 AAA-TATATATACAATTAATTTAAAAGA
1 AAATTATACATA-AATAAATTTAAAAGA
*
96077110 AAATATTTACATAAA
1 AAAT-TATACATAAA
96077125 ATAATTTGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
26 6 0.18
27 19 0.58
28 2 0.06
29 6 0.18
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (27 bp):
AAATTATACATAAATAAATTTAAAAGA
Found at i:96079060 original size:176 final size:176
Alignment explanation
Indices: 96078653--96079084 Score: 490
Period size: 176 Copynumber: 2.4 Consensus size: 176
96078643 CTCTACATCC
* * * * *
96078653 TCAGTCTGCTTCATTGCGACTTCAGGGAGATAAAATTTGTAATTTTGAACCTGCTCCACTGCAAC
1 TCAGTCTGCTTC-CTGCGACTTCAGGAAGATAAGACTTG-AATATTGAACCTGCTCCACTGCAAC
* * * * *
96078718 TTCAGGGAGACAAGGATGGTGGCTTAAATCTGCTCCATTGCCGATACACAGAGATAAGACTCGCC
64 CTCAGAGAGACAAGGATGGTAGCTTAAATCTGCTCCATTGCCGATACACAGAGATAAAACTCACC
** * *
96078783 GTCTTTGATCAACTCCACTTCTGCTTAGTGAGATAAGATCTATAAATT
129 GTCTACGATCAACTCCACTACTGCTTAGGGAGATAAGATCTATAAATT
* * * * * * *
96078831 TCAGTCTGCTTCCTGCAACTTCAGGAAGACAAGACTTGTATCTTCAACCTGCTCTC-TTGCTACC
1 TCAGTCTGCTTCCTGCGACTTCAGGAAGATAAGACTTGAATATTGAACCTGCTC-CACTGCAACC
* * * ** *
96078895 TCAGAGAGATAAGGTTGGTAG-TTAAAATCTGCTCCATTGTCGATACATGGAGATAAAATTCACC
65 TCAGAGAGACAAGGATGGTAGCTT-AAATCTGCTCCATTGCCGATACACAGAGATAAAACTCACC
** * *
96078959 GTCTACGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT
129 GTCTACGATCAACTCCACTACTGCTTAGGGAGATAAGATCTATAAATT
* * *
96079007 TCAGTCTGCTTCCTGCGACTTCAGGAAGATAAGACTTGCATATTGAGCCTGCTCCACTGCAACTT
1 TCAGTCTGCTTCCTGCGACTTCAGGAAGATAAGACTTGAATATTGAACCTGCTCCACTGCAACCT
* *
96079072 CAGGGAGATAAGG
66 CAGAGAGACAAGG
96079085 CTTGTCACTT
Statistics
Matches: 211, Mismatches: 40, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
175 3 0.01
176 175 0.83
177 21 0.10
178 12 0.06
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (176 bp):
TCAGTCTGCTTCCTGCGACTTCAGGAAGATAAGACTTGAATATTGAACCTGCTCCACTGCAACCT
CAGAGAGACAAGGATGGTAGCTTAAATCTGCTCCATTGCCGATACACAGAGATAAAACTCACCGT
CTACGATCAACTCCACTACTGCTTAGGGAGATAAGATCTATAAATT
Found at i:96079072 original size:44 final size:43
Alignment explanation
Indices: 96079019--96079127 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 43
96079009 AGTCTGCTTC
* * * *
96079019 CTGCGACTTCAGGAAGATAAGACTTG-CATATTGAGCCTGCTCCA
1 CTGCAACTTCAGG-AGATAAGACTTGTCA-ATTCAACCTACTCCA
* *
96079063 CTGCAACTTCAGGGAGATAAGGCTTGTCACTTCAACCTACTCCA
1 CTGCAACTTCA-GGAGATAAGACTTGTCAATTCAACCTACTCCA
*
96079107 CAGCAACTTCAAGGAGATAAG
1 CTGCAACTTC-AGGAGATAAG
96079128 GTTTGCTATG
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
44 50 0.91
45 5 0.09
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (43 bp):
CTGCAACTTCAGGAGATAAGACTTGTCAATTCAACCTACTCCA
Found at i:96079384 original size:205 final size:205
Alignment explanation
Indices: 96079025--96079441 Score: 825
Period size: 205 Copynumber: 2.0 Consensus size: 205
96079015 CTTCCTGCGA
*
96079025 CTTCAGGAAGATAAGACTTGCATATTGAGCCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGT
1 CTTCAGTAAGATAAGACTTGCATATTGAGCCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGT
96079090 CACTTCAACCTACTCCACAGCAACTTCAAGGAGATAAGGTTTGCTATGATCTGCTCTACTGCCAC
66 CACTTCAACCTACTCCACAGCAACTTCAAGGAGATAAGGTTTGCTATGATCTGCTCTACTGCCAC
96079155 TTTAGAGAGATAAGATATGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAA
131 TTTAGAGAGATAAGATATGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAA
96079220 GATTCGCTAT
196 GATTCGCTAT
96079230 CTTCAGTAAGATAAGACTTGCATATTGAGCCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGT
1 CTTCAGTAAGATAAGACTTGCATATTGAGCCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGT
96079295 CACTTCAACCTACTCCACAGCAACTTCAAGGAGATAAGGTTTGCTATGATCTGCTCTACTGCCAC
66 CACTTCAACCTACTCCACAGCAACTTCAAGGAGATAAGGTTTGCTATGATCTGCTCTACTGCCAC
96079360 TTTAGAGAGATAAGATATGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAA
131 TTTAGAGAGATAAGATATGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAA
96079425 GATTCGCTAT
196 GATTCGCTAT
96079435 CTTCAGT
1 CTTCAGT
96079442 CTGCTCCTCT
Statistics
Matches: 211, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 211 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (205 bp):
CTTCAGTAAGATAAGACTTGCATATTGAGCCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGT
CACTTCAACCTACTCCACAGCAACTTCAAGGAGATAAGGTTTGCTATGATCTGCTCTACTGCCAC
TTTAGAGAGATAAGATATGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAA
GATTCGCTAT
Found at i:96079505 original size:44 final size:44
Alignment explanation
Indices: 96079259--96079514 Score: 153
Period size: 44 Copynumber: 5.7 Consensus size: 44
96079249 GCATATTGAG
* *
96079259 CCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTCACTTCAA
1 CCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATCACTTCAA
* * * * * *
96079303 CCTACTCCACAGCAACTTCAAGGAGATAAG-GTT-T-GCTAT-GA
1 CCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATCACT-TCAA
* * * * * * *
96079344 TCTGCTCTACTGCCACTTTAGAGAGATAAGATATGTTTATTTATAGCTTCAA
1 CCTGCTCCACTGCAACTTCAGGGAGATAAG--A--CTTA--T-CA-CTTCAA
* * * ** *
96079396 TCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCAG
1 CCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATC-A-CTTCAA
* * * *
96079441 TCTGCTCCTCTACAACTTCAGGGAGATAAGACTTATCACTTTAA
1 CCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATCACTTCAA
96079485 CCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CCTGCTCCACTGCAACTTCAGGGAGATAAG
96079515 GTTTGTAATA
Statistics
Matches: 158, Mismatches: 39, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
41 25 0.16
42 2 0.01
43 2 0.01
44 58 0.37
45 34 0.22
46 5 0.03
47 2 0.01
49 1 0.01
50 1 0.01
51 1 0.01
52 27 0.17
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
CCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATCACTTCAA
Found at i:96084299 original size:21 final size:21
Alignment explanation
Indices: 96084257--96084300 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
96084247 GAAATGCAAG
* *
96084257 AAAAGAATATTTGCTTAAAAT
1 AAAAGAATATTTACTCAAAAT
*
96084278 AAAAGAATATTTACTCAGAAT
1 AAAAGAATATTTACTCAAAAT
96084299 AA
1 AA
96084301 GACATAAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.30
Consensus pattern (21 bp):
AAAAGAATATTTACTCAAAAT
Found at i:96091736 original size:27 final size:27
Alignment explanation
Indices: 96091706--96091774 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
96091696 AAAGAATGCC
* *
96091706 AAATTGTACATAAATAAATTTTAAAGA
1 AAATTATACATAAATAAATTTAAAAGA
*
96091733 AAA-TATATATACAATAAATTTAAAAGA
1 AAATTATACATA-AATAAATTTAAAAGA
*
96091760 AAATATTTACATAAA
1 AAAT-TATACATAAA
96091775 ATAATTTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
26 6 0.18
27 20 0.59
28 2 0.06
29 6 0.18
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (27 bp):
AAATTATACATAAATAAATTTAAAAGA
Found at i:96098901 original size:14 final size:14
Alignment explanation
Indices: 96098882--96098911 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96098872 TTATATCGAG
*
96098882 ACCAATCTAATTCA
1 ACCAATCCAATTCA
96098896 ACCAATCCAATTCA
1 ACCAATCCAATTCA
96098910 AC
1 AC
96098912 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (14 bp):
ACCAATCCAATTCA
Found at i:96119267 original size:16 final size:18
Alignment explanation
Indices: 96119229--96119268 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
96119219 TAAATTTTTT
*
96119229 ATATTATTTTTATATAAA
1 ATATAATTTTTATATAAA
96119247 A-ATAATTTTTA-A-AAA
1 ATATAATTTTTATATAAA
96119262 ATATAAT
1 ATATAAT
96119269 ACATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 9 0.45
18 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATAATTTTTATATAAA
Found at i:96121852 original size:17 final size:16
Alignment explanation
Indices: 96121830--96121864 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
96121820 ATTTATCCAA
96121830 ATATATTCAATGATTTT
1 ATATATT-AATGATTTT
*
96121847 ATATATTTATGATTTT
1 ATATATTAATGATTTT
96121863 AT
1 AT
96121865 TTGTGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (16 bp):
ATATATTAATGATTTT
Found at i:96127612 original size:18 final size:17
Alignment explanation
Indices: 96127570--96127613 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
96127560 AAAATATTAT
*
96127570 ATTATATTTAAGAAATAA
1 ATTAT-TTTAAAAAATAA
*
96127588 ATAATTTTAAAAAATAAA
1 ATTATTTTAAAAAAT-AA
96127606 ATTATTTT
1 ATTATTTT
96127614 TATCAACCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
ATTATTTTAAAAAATAA
Found at i:96128617 original size:22 final size:21
Alignment explanation
Indices: 96128576--96128619 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
96128566 AAATAATTTA
96128576 TAATTAATTGTAAATTTAAAAT
1 TAATTAATTGTAAA-TTAAAAT
96128598 TAATTAATTTGTAACA-TAAAAT
1 TAATTAA-TTGTAA-ATTAAAAT
96128620 ATTGTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 6 0.30
24 1 0.05
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (21 bp):
TAATTAATTGTAAATTAAAAT
Found at i:96130252 original size:21 final size:21
Alignment explanation
Indices: 96130226--96130268 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
96130216 CTTAACGGGA
96130226 TAGTTGACGTGGCCAGTTAAC
1 TAGTTGACGTGGCCAGTTAAC
*
96130247 TAGTTGATGTGGCCAGTTAAC
1 TAGTTGACGTGGCCAGTTAAC
96130268 T
1 T
96130269 TGCCACATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (21 bp):
TAGTTGACGTGGCCAGTTAAC
Found at i:96130353 original size:22 final size:22
Alignment explanation
Indices: 96130328--96130378 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
96130318 GGTTGAGGTA
* *
96130328 AAAATAAGAATAGGAGAAGAAG
1 AAAAGAAGAAGAGGAGAAGAAG
96130350 AAAAGAAGAAGAGGAGAAGAAG
1 AAAAGAAGAAGAGGAGAAGAAG
*
96130372 AATAGAA
1 AAAAGAA
96130379 AATGGAGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (22 bp):
AAAAGAAGAAGAGGAGAAGAAG
Found at i:96131376 original size:20 final size:22
Alignment explanation
Indices: 96131351--96131392 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
96131341 ACGAAGCTCC
*
96131351 TTCCA-TT-TTCTCTTTTTCTT
1 TTCCATTTCTTCTCTTATTCTT
96131371 TTCCATTTCTTCTCTTATTCTT
1 TTCCATTTCTTCTCTTATTCTT
96131393 CTTTTTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (22 bp):
TTCCATTTCTTCTCTTATTCTT
Found at i:96133142 original size:43 final size:42
Alignment explanation
Indices: 96133073--96133159 Score: 97
Period size: 43 Copynumber: 2.0 Consensus size: 42
96133063 AAAACATCGC
* * *
96133073 AAAAGATCATGTTTTTAGCGGTGTTTGT-AGTAAAAGTGCCTCT
1 AAAAGATCATGTTTATAGCGGCGTTTGTGAG-AAAA-TGCCACT
*
96133116 AAAA-ATCATGTTCTATAGTGGCGTTTGTGAGAAAATGCCACT
1 AAAAGATCATGTT-TATAGCGGCGTTTGTGAGAAAATGCCACT
96133158 AA
1 AA
96133160 CATTAACAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
42 16 0.42
43 20 0.53
44 2 0.05
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (42 bp):
AAAAGATCATGTTTATAGCGGCGTTTGTGAGAAAATGCCACT
Found at i:96135649 original size:44 final size:41
Alignment explanation
Indices: 96135522--96135711 Score: 177
Period size: 41 Copynumber: 4.6 Consensus size: 41
96135512 AATATTCGTA
* * * *
96135522 GCGTTTATGGGCAAAACGCCGCTATTGCTTTACCTTTAGAG
1 GCGTTTATGGGAAAAATGCCGCTATTGTTTTACCTTTAGCG
* * * * *
96135563 GCGTATATGAGAAAAATACTGCTATTGTTTTACCTTTTGCG
1 GCGTTTATGGGAAAAATGCCGCTATTGTTTTACCTTTAGCG
*
96135604 GCGTTTATGGGAAAAATGCGGCTATTGTTGTTATACCTTTAGCG
1 GCGTTTATGGGAAAAATGCCGCTATTG-T-TT-TACCTTTAGCG
* * * * *
96135648 GCGTTTA-GGGAAAAACGACGCTATT-TCTTTACTTTTTGTG
1 GCGTTTATGGGAAAAATGCCGCTATTGT-TTTACCTTTAGCG
**
96135688 GTATTTATGGGAAAAATGCCGCTA
1 GCGTTTATGGGAAAAATGCCGCTA
96135712 ACGCTGCTCC
Statistics
Matches: 120, Mismatches: 25, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
40 13 0.11
41 72 0.60
42 1 0.01
43 17 0.14
44 17 0.14
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.36
Consensus pattern (41 bp):
GCGTTTATGGGAAAAATGCCGCTATTGTTTTACCTTTAGCG
Found at i:96135685 original size:84 final size:82
Alignment explanation
Indices: 96135522--96135711 Score: 206
Period size: 84 Copynumber: 2.3 Consensus size: 82
96135512 AATATTCGTA
* * *
96135522 GCGTTTATGGGCAAAACGCCGCTATTGCTTTACCTTTAGAGGCGTATATGAGAAAAATACTGCTA
1 GCGTTTATGGGAAAAATGCCGCTATTGCTTTACCTTTAGAGGCGTATATGAGAAAAAGACTGCTA
96135587 TTGTTTTACCTTTTGCG
66 TTGTTTTACCTTTTGCG
* * * * *
96135604 GCGTTTATGGGAAAAATGCGGCTATTGTTGTTATACCTTTAGCGGCGTTTA-GGGAAAAACGAC-
1 GCGTTTATGGGAAAAATGCCGCTATTG--CTT-TACCTTTAGAGGCGTATATGAGAAAAA-GACT
* *
96135667 GCTATT-TCTTTACTTTTTGTG
62 GCTATTGT-TTTACCTTTTGCG
**
96135688 GTATTTATGGGAAAAATGCCGCTA
1 GCGTTTATGGGAAAAATGCCGCTA
96135712 ACGCTGCTCC
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
82 24 0.27
83 1 0.01
84 47 0.52
85 18 0.20
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.36
Consensus pattern (82 bp):
GCGTTTATGGGAAAAATGCCGCTATTGCTTTACCTTTAGAGGCGTATATGAGAAAAAGACTGCTA
TTGTTTTACCTTTTGCG
Found at i:96136413 original size:20 final size:20
Alignment explanation
Indices: 96136369--96136411 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
96136359 GTTGAACCGA
96136369 TTTAATAATTTTTTTAATTT
1 TTTAATAATTTTTTTAATTT
96136389 TTTAA-AATTTTTTATGAATTT
1 TTTAATAATTTTTT-T-AATTT
96136410 TT
1 TT
96136412 AATTAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 6 0.29
21 7 0.33
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTAATAATTTTTTTAATTT
Found at i:96137619 original size:22 final size:22
Alignment explanation
Indices: 96137574--96137616 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
96137564 ATTAAATCTC
*
96137574 TTAAAATCTTAAAAAATTTTAA
1 TTAAAATCTTAAAAAATTTAAA
*
96137596 TTAAAATCTT-CAAAATTTAAA
1 TTAAAATCTTAAAAAATTTAAA
96137617 ATTTCTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAAATCTTAAAAAATTTAAA
Found at i:96137841 original size:21 final size:21
Alignment explanation
Indices: 96137815--96137866 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
96137805 ACGGTGGTGA
*
96137815 TGAGATTAGTTACTGTAGCGG
1 TGAGATTAGATACTGTAGCGG
* * *
96137836 TGAGATTGGATATTGTAGTGG
1 TGAGATTAGATACTGTAGCGG
96137857 TGAGATTAGA
1 TGAGATTAGA
96137867 AACAATGGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.35, T:0.35
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCGG
Found at i:96138518 original size:27 final size:28
Alignment explanation
Indices: 96138481--96138536 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
96138471 ATTTTATCAT
96138481 ATAAATTTAAAA-AATTAT-GAAAATGAC
1 ATAAATTTAAAATAATTATAG-AAATGAC
*
96138508 ATAACTTTAAAATTAATTATAGAAATGAC
1 ATAAATTTAAAA-TAATTATAGAAATGAC
96138537 CTTGTTTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 11 0.44
29 13 0.52
30 1 0.04
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.32
Consensus pattern (28 bp):
ATAAATTTAAAATAATTATAGAAATGAC
Found at i:96144123 original size:45 final size:46
Alignment explanation
Indices: 96144074--96144170 Score: 169
Period size: 46 Copynumber: 2.1 Consensus size: 46
96144064 CTGTAATTTA
96144074 AATTTTCAAGTTTGT-ATTAATTTAATTATAACAAATGTTTGACTT
1 AATTTTCAAGTTTGTAATTAATTTAATTATAACAAATGTTTGACTT
* *
96144119 AATTTTCAAGTTTGTAATTAATTTAGTTATAGCAAATGTTTGACTT
1 AATTTTCAAGTTTGTAATTAATTTAATTATAACAAATGTTTGACTT
96144165 AATTTT
1 AATTTT
96144171 ATTTGAAAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 15 0.31
46 34 0.69
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.49
Consensus pattern (46 bp):
AATTTTCAAGTTTGTAATTAATTTAATTATAACAAATGTTTGACTT
Found at i:96148663 original size:20 final size:20
Alignment explanation
Indices: 96148635--96148679 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
96148625 CTGTTTAATT
96148635 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
96148654 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
96148674 ATGGGC
1 ATGGGC
96148680 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:96148802 original size:28 final size:27
Alignment explanation
Indices: 96148708--96148814 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 27
96148698 ACTTGTAATA
* * *
96148708 GGGCTACGGCCCAGACTGATACTGATAT
1 GGGCTA-GGCCCAGATTAATATTGATAT
*
96148736 GGGCTAGGCCCAGTATGCTCTGATATTG-TAAT
1 GGGCTAGGCCCAG-A---T-TAATATTGAT-AT
96148768 AGGGCTATGGCCCAGATTAATATTGATAT
1 -GGGCTA-GGCCCAGATTAATATTGATAT
96148797 GGGCTAAGGCCCAG-TTAA
1 GGGCT-AGGCCCAGATTAA
96148815 CACTGATTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 21
0.73 0.03 0.23
Matches are distributed among these distances:
27 11 0.17
28 19 0.29
29 10 0.15
30 2 0.03
31 1 0.02
32 9 0.14
33 7 0.11
34 7 0.11
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTAATATTGATAT
Found at i:96148835 original size:62 final size:61
Alignment explanation
Indices: 96148700--96148844 Score: 170
Period size: 61 Copynumber: 2.4 Consensus size: 61
96148690 ATATCTCGAC
* * * *
96148700 TTGTAATAGGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTCTGATA
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
* *
96148761 TTGTAATAGGGCTATGGCCCAGATTAATATTGATATGGGCTAAGGCCCAGT-TAACACTGAT-
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACACTGATA
*
96148822 TTCTGAATAGGGCT-TAGGCCCAG
1 TTGT-AATAGGGCTAT-GGCCCAG
96148845 TAAGGCTTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
61 42 0.58
62 31 0.42
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (61 bp):
TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
Found at i:96151992 original size:10 final size:10
Alignment explanation
Indices: 96151977--96152015 Score: 78
Period size: 10 Copynumber: 3.9 Consensus size: 10
96151967 GACAAGTTTG
96151977 AGAAACAAGA
1 AGAAACAAGA
96151987 AGAAACAAGA
1 AGAAACAAGA
96151997 AGAAACAAGA
1 AGAAACAAGA
96152007 AGAAACAAG
1 AGAAACAAG
96152016 TTTGAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.69, C:0.10, G:0.21, T:0.00
Consensus pattern (10 bp):
AGAAACAAGA
Found at i:96160156 original size:41 final size:39
Alignment explanation
Indices: 96160093--96160296 Score: 196
Period size: 41 Copynumber: 5.0 Consensus size: 39
96160083 GTGATTGAAT
* * *
96160093 ATAATACAGACGTTACGTCTAGCAGGCTTAATGCCGGTG
1 ATAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
96160132 AAGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTG
1 -A-TAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
* *
96160173 ATACATTTCAGACTATATGTCTAGCAGGCTTAATGCCGGTG
1 ATA-A-TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
* *
96160214 ATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 ATA-A-TTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTG
* * **
96160255 TACTGAA-TCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTG
1 -A-T-AATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
96160296 A
1 A
96160297 ATCTGTTTAA
Statistics
Matches: 144, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
39 2 0.01
40 7 0.05
41 129 0.90
42 3 0.02
43 2 0.01
44 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (39 bp):
ATAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
Found at i:96160279 original size:82 final size:81
Alignment explanation
Indices: 96160111--96160296 Score: 216
Period size: 82 Copynumber: 2.3 Consensus size: 81
96160101 GACGTTACGT
*
96160111 CTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATA
1 CTAGCAGGCTTAATGCCGGTG-AGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGATA
* * *
96160176 CATTTCAGACTATATGT
65 CATATCAGACTATAAGC
* *
96160193 CTAGCAGGCTTAATGCCGGTGA-TACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGTG-T
1 CTAGCAGGCTTAATGCCGGTGAGTA-A-TTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGAT
* *
96160256 AC-TGAATCAGGCTTTAAGC
64 ACAT--ATCAGACTATAAGC
**
96160275 CTAGCAGGCAAAATGCCGGTGA
1 CTAGCAGGCTTAATGCCGGTGA
96160297 ATCTGTTTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
80 3 0.03
81 5 0.06
82 82 0.91
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (81 bp):
CTAGCAGGCTTAATGCCGGTGAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGATAC
ATATCAGACTATAAGC
Found at i:96162738 original size:23 final size:24
Alignment explanation
Indices: 96162710--96162760 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
96162700 ATTAATTGGA
* *
96162710 TAAATTCTGAATAT-TAAAAGTAT
1 TAAATTCTAAATATCTAAAAATAT
*
96162733 TAAATTTTAAATATCTAAAAATAT
1 TAAATTCTAAATATCTAAAAATAT
96162757 TAAA
1 TAAA
96162761 GATGGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (24 bp):
TAAATTCTAAATATCTAAAAATAT
Found at i:96163502 original size:21 final size:21
Alignment explanation
Indices: 96163476--96163516 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
96163466 AGTAATATTA
96163476 CAGTAAAATTAGT-TATTGTAT
1 CAGTAAAATT-GTATATTGTAT
96163497 CAGTAAAATTGTATATTGTA
1 CAGTAAAATTGTATATTGTA
96163517 GCATTGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (21 bp):
CAGTAAAATTGTATATTGTAT
Found at i:96170130 original size:17 final size:17
Alignment explanation
Indices: 96170090--96170132 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
96170080 ATATTTAATT
* *
96170090 TAAAAATTATATATTAT
1 TAAAATTTATATATTAA
*
96170107 TATAAATTTATATTTTAA
1 TA-AAATTTATATATTAA
96170125 TAAAATTT
1 TAAAATTT
96170133 GAAACCGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAAATTTATATATTAA
Found at i:96174867 original size:19 final size:19
Alignment explanation
Indices: 96174843--96174879 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
96174833 CGTTCATGTG
*
96174843 TTTTAACAATACTAGTGGT
1 TTTTAACAATACAAGTGGT
96174862 TTTTAACAATACAAGTGG
1 TTTTAACAATACAAGTGG
96174880 AAACATGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (19 bp):
TTTTAACAATACAAGTGGT
Found at i:96184724 original size:108 final size:108
Alignment explanation
Indices: 96184535--96184760 Score: 434
Period size: 108 Copynumber: 2.1 Consensus size: 108
96184525 ACTTAGCGTG
*
96184535 TTAACAGTTACGTGTTTAAGGGTGTTTGAATAGAACCATTGTGTTTGAATTGCGTTAACAGACAT
1 TTAACATTTACGTGTTTAAGGGTGTTTGAATAGAACCATTGTGTTTGAATTGCGTTAACAGACAT
*
96184600 TGTGTGTTTCTCTCATTACTTTACTCCTTATTCTACTTTGAAT
66 TGTGTGTTTCTCTCATTACTTTACTCCTTACTCTACTTTGAAT
96184643 TTAACATTTACGTGTTTAAGGGTGTTTGAATAGAACCATTGTGTTTGAATTGCGTTAACAGACAT
1 TTAACATTTACGTGTTTAAGGGTGTTTGAATAGAACCATTGTGTTTGAATTGCGTTAACAGACAT
96184708 TGTGTGTTTCTCTCATTACTTTACTCCTTACTCTACTTTGAAT
66 TGTGTGTTTCTCTCATTACTTTACTCCTTACTCTACTTTGAAT
96184751 TTAACATTTA
1 TTAACATTTA
96184761 TGTTTGTTCC
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 116 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (108 bp):
TTAACATTTACGTGTTTAAGGGTGTTTGAATAGAACCATTGTGTTTGAATTGCGTTAACAGACAT
TGTGTGTTTCTCTCATTACTTTACTCCTTACTCTACTTTGAAT
Found at i:96189620 original size:69 final size:69
Alignment explanation
Indices: 96189505--96189643 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
96189495 TACACAATTA
*
96189505 TCATATGTGGGTGTCTAATTTCATAATGTATGATACTGTCAGTAGCTCTAATTTTATGGGTGAAT
1 TCATATGTGGGTGTCTAATTTCATAATGTATGATACTGTCAATAGCTCTAATTTTATGGGTGAAT
96189570 TTTT
66 TTTT
*
96189574 TCATATGTGGGTGTCTAATTTCATAATGTATGATATTGTCAATAGCTCTAATTTTATGGGTGAAT
1 TCATATGTGGGTGTCTAATTTCATAATGTATGATACTGTCAATAGCTCTAATTTTATGGGTGAAT
96189639 TTTT
66 TTTT
96189643 T
1 T
96189644 TCCGGTTTAC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.46
Consensus pattern (69 bp):
TCATATGTGGGTGTCTAATTTCATAATGTATGATACTGTCAATAGCTCTAATTTTATGGGTGAAT
TTTT
Found at i:96190286 original size:17 final size:17
Alignment explanation
Indices: 96190225--96190286 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
96190215 ACTTTAAAAT
*
96190225 AAAAAATATTTTTGAGA
1 AAAAAATATTTTTGAAA
* *
96190242 TAAAAATATTCTT--AA
1 AAAAAATATTTTTGAAA
* **
96190257 ACAAAATGCTTTTGAAA
1 AAAAAATATTTTTGAAA
96190274 AAAAAATATTTTT
1 AAAAAATATTTTT
96190287 CAAACACCAA
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
15 9 0.28
17 23 0.72
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (17 bp):
AAAAAATATTTTTGAAA
Found at i:96190849 original size:16 final size:16
Alignment explanation
Indices: 96190815--96190857 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
96190805 AGCAGTATAG
*
96190815 ATATATAAAATCAATA
1 ATATATAAAATCAAAA
96190831 ATATATAAAAT-ATAAA
1 ATATATAAAATCA-AAA
96190847 ATATAGTAAAA
1 ATATA-TAAAA
96190858 AGATACGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 1 0.04
16 18 0.75
17 5 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
ATATATAAAATCAAAA
Found at i:96198831 original size:12 final size:12
Alignment explanation
Indices: 96198816--96198851 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
96198806 AAGAAAGGAG
96198816 AAGAGAAGAAAA
1 AAGAGAAGAAAA
*
96198828 AAGAGAAGGAAA
1 AAGAGAAGAAAA
*
96198840 AAGAAAAGAAAA
1 AAGAGAAGAAAA
96198852 GAGAAGGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (12 bp):
AAGAGAAGAAAA
Found at i:96198857 original size:22 final size:23
Alignment explanation
Indices: 96198805--96198858 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
96198795 AAATAAAGGG
*
96198805 AAAGA-AAGGAGAAGAGAAGAAA
1 AAAGAGAAGGAGAAAAGAAGAAA
96198827 AAAGAGAAGGA-AAAAGAA-AAGA
1 AAAGAGAAGGAGAAAAGAAGAA-A
96198849 AAAGAGAAGG
1 AAAGAGAAGG
96198859 TATAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 2 0.07
22 22 0.76
23 5 0.17
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (23 bp):
AAAGAGAAGGAGAAAAGAAGAAA
Found at i:96199226 original size:21 final size:21
Alignment explanation
Indices: 96199202--96199242 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
96199192 AAAAAATAAA
96199202 ATACCAAAATAGGTTGTTTGG
1 ATACCAAAATAGGTTGTTTGG
96199223 ATACCAAAATAGGTTGTTTG
1 ATACCAAAATAGGTTGTTTG
96199243 AAAGATTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (21 bp):
ATACCAAAATAGGTTGTTTGG
Found at i:96202061 original size:139 final size:140
Alignment explanation
Indices: 96201891--96202228 Score: 572
Period size: 140 Copynumber: 2.4 Consensus size: 140
96201881 TATTTCTAAA
* * * *
96201891 ATTTTTAAAATTTTCAGATTCTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTTATCT
1 ATTTCTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTTATCT
96201956 TA-TTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCC
66 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCC
* *
96202020 CTTTTTTTGT
131 ATTTGTTTGT
*
96202030 ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTTATCT
1 ATTTCTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTTATCT
*
96202095 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCT
66 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCC
96202160 ATTTGTTTGT
131 ATTTGTTTGT
*
96202170 A-TTCTTAAAATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTT
1 ATTTC-TAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTT
96202229 ATACTATTTT
Statistics
Matches: 187, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
139 65 0.35
140 122 0.65
ACGTcount: A:0.27, C:0.08, G:0.07, T:0.58
Consensus pattern (140 bp):
ATTTCTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTTATCT
TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCC
ATTTGTTTGT
Found at i:96202225 original size:13 final size:13
Alignment explanation
Indices: 96202207--96202249 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
96202197 TTAAAATATA
96202207 TTATTTTCGTATT
1 TTATTTTCGTATT
* *
96202220 TTATTTT-TTATA
1 TTATTTTCGTATT
*
96202232 CTATTTTCGTATT
1 TTATTTTCGTATT
96202245 TTATT
1 TTATT
96202250 GTATTTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (13 bp):
TTATTTTCGTATT
Found at i:96202267 original size:46 final size:48
Alignment explanation
Indices: 96202187--96202334 Score: 135
Period size: 46 Copynumber: 3.1 Consensus size: 48
96202177 AAATTTTCGG
* * * * *
96202187 ATTTTAT-TTTTTAAAATATATTATTTTCGTATTTTATTTTTTATACT
1 ATTTTATATTTTCATAAGATATTTTTTTCATATTTTATTTTTTATACT
* * *
96202234 ATTTTCGTATTTT-AT-TG-TATTTTTTTCATATTTTATTTCTTT-TCCT
1 ATTTT-ATATTTTCATAAGATATTTTTTTCATATTTTATTT-TTTATACT
* *
96202280 ATTTTATTTTTTCATGAAGATATTTTTTTCATATTTTCTTTTTTTATACT
1 ATTTTATATTTTCAT-AAGATATTTTTTTCATATTTT-ATTTTTTATACT
96202330 ATTTT
1 ATTTT
96202335 TGTAAAATAG
Statistics
Matches: 80, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
45 5 0.06
46 29 0.36
47 8 0.10
48 3 0.04
49 24 0.30
50 11 0.14
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (48 bp):
ATTTTATATTTTCATAAGATATTTTTTTCATATTTTATTTTTTATACT
Found at i:96202282 original size:17 final size:16
Alignment explanation
Indices: 96202246--96202324 Score: 79
Period size: 16 Copynumber: 4.9 Consensus size: 16
96202236 TTTCGTATTT
*
96202246 TATTGTATTTTTTTCA
1 TATTTTATTTTTTTCA
*
96202262 TATTTTATTTCTTTTCC
1 TATTTTATTT-TTTTCA
96202279 TATTTTA-TTTTTTCA
1 TATTTTATTTTTTTCA
***
96202294 TGAAGATATTTTTTTCA
1 T-ATTTTATTTTTTTCA
*
96202311 TATTTTCTTTTTTT
1 TATTTTATTTTTTT
96202325 ATACTATTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
15 6 0.12
16 23 0.46
17 21 0.42
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.70
Consensus pattern (16 bp):
TATTTTATTTTTTTCA
Found at i:96202650 original size:11 final size:11
Alignment explanation
Indices: 96202634--96202667 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
96202624 ATAAATTTAT
96202634 AAATTAAATCA
1 AAATTAAATCA
96202645 AAATTAAATCA
1 AAATTAAATCA
*
96202656 AAATCAAATCA
1 AAATTAAATCA
96202667 A
1 A
96202668 CAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATTAAATCA
Found at i:96203003 original size:27 final size:26
Alignment explanation
Indices: 96202940--96203005 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
96202930 GTCAAGTTGC
*
96202940 CGCCGGTGGCAGTGGCAACATCGGTG
1 CGCCTGTGGCAGTGGCAACATCGGTG
* * * *
96202966 CTACCTCTGGCATTGGCACCATCGGTG
1 C-GCCTGTGGCAGTGGCAACATCGGTG
96202993 TCGCCTGTGGCAG
1 -CGCCTGTGGCAG
96203006 GCCCACCACC
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
26 1 0.03
27 28 0.93
28 1 0.03
ACGTcount: A:0.14, C:0.30, G:0.35, T:0.21
Consensus pattern (26 bp):
CGCCTGTGGCAGTGGCAACATCGGTG
Found at i:96209900 original size:56 final size:56
Alignment explanation
Indices: 96209814--96209933 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
96209804 ACAAGGGATG
96209814 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
96209870 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
96209926 ATGGGCAA
1 ATGGGCAA
96209934 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:96211159 original size:39 final size:40
Alignment explanation
Indices: 96211059--96211243 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
96211049 TCGAATGATG
* * * *
96211059 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTACTAAT
* * * *
96211098 ATCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
96211139 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT-AAT
* *
96211179 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
* *
96211217 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGGCTAAGACCCGAAGGCATTTG
96211244 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 80 0.66
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:96211265 original size:79 final size:79
Alignment explanation
Indices: 96211112--96211276 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
96211102 GGACTAAGAT
* **
96211112 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
96211177 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* *
96211191 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
96211254 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
96211270 CCGAAGG
1 CCGAAGG
96211277 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 50 0.68
80 22 0.30
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATTCCGGTTAAATC
Found at i:96218340 original size:39 final size:40
Alignment explanation
Indices: 96218240--96218424 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
96218230 TCGAATGATG
* * * *
96218240 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTACTAAT
* * * *
96218279 ATCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
*
96218320 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
* *
96218359 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
* *
96218398 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGGCTAAGACCCGAAGGCATTTG
96218425 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 36 0.30
40 77 0.63
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:96218380 original size:79 final size:81
Alignment explanation
Indices: 96218240--96218424 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
96218230 TCGAATGATG
* * *
96218240 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
96218304 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
96218319 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
96218381 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
96218399 ACCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
96218425 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:96218446 original size:79 final size:79
Alignment explanation
Indices: 96218293--96218457 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
96218283 GGACTAAGAT
* **
96218293 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
96218358 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
96218372 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
96218435 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
96218451 CCGAAGG
1 CCGAAGG
96218458 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:96225000 original size:42 final size:42
Alignment explanation
Indices: 96224953--96225035 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
96224943 AGATAGACAG
* * * ** *
96224953 TTTCTAGGCTTCTCATTTGGGAACTTGGTTGCAGAATGGGCC
1 TTTCTAGACTTCTCACTTGGAAACTTGACTGAAGAATGGGCC
96224995 TTTCTAGACTTCTCACTTGGAAACTTGACTGAAGAATGGGC
1 TTTCTAGACTTCTCACTTGGAAACTTGACTGAAGAATGGGC
96225036 AGGACAAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (42 bp):
TTTCTAGACTTCTCACTTGGAAACTTGACTGAAGAATGGGCC
Found at i:96227541 original size:54 final size:54
Alignment explanation
Indices: 96227437--96227541 Score: 178
Period size: 54 Copynumber: 2.0 Consensus size: 54
96227427 GATAGTTACC
*
96227437 TATCCATATCAATGATCTGTTACTTTTATTTATTTATTTATCAATGTTTTTTTT
1 TATCCATATCAATGATCTGTTACTTTTATTCATTTATTTATCAATGTTTTTTTT
*
96227491 TATCCATATCACTGATCTGTTACTTTT-TTCATTTATTTATCAAT-TTTTTTT
1 TATCCATATCAATGATCTGTTACTTTTATTCATTTATTTATCAATGTTTTTTT
96227542 AAATCTAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 7 0.14
53 16 0.33
54 26 0.53
ACGTcount: A:0.23, C:0.13, G:0.05, T:0.59
Consensus pattern (54 bp):
TATCCATATCAATGATCTGTTACTTTTATTCATTTATTTATCAATGTTTTTTTT
Found at i:96227819 original size:8 final size:7
Alignment explanation
Indices: 96227801--96227940 Score: 63
Period size: 7 Copynumber: 19.6 Consensus size: 7
96227791 ACTAATTAAT
96227801 CTAAACC
1 CTAAACC
96227808 CTAAATCC
1 CTAAA-CC
*
96227816 CTAACCC
1 CTAAACC
96227823 CT-AACC
1 CTAAACC
96227829 CATAAACC
1 C-TAAACC
*
96227837 TTAAACC
1 CTAAACC
* *
96227844 ATAAAAC
1 CTAAACC
*
96227851 ATAAACC
1 CTAAACC
* *
96227858 CTTAATC
1 CTAAACC
*
96227865 CTTAACC
1 CTAAACC
*
96227872 ATTAAA-C
1 -CTAAACC
96227879 CTCAAA-C
1 CT-AAACC
*
96227886 CTCAACCC
1 CT-AAACC
*
96227894 CTTAAAAC
1 C-TAAACC
*
96227902 TTAAACC
1 CTAAACC
96227909 CT-AACC
1 CTAAACC
*
96227915 CTTAACC
1 CTAAACC
96227922 CATAAACC
1 C-TAAACC
*
96227930 ATAAACC
1 CTAAACC
96227937 CTAA
1 CTAA
96227941 TCCATAAACT
Statistics
Matches: 102, Mismatches: 22, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
6 11 0.11
7 67 0.66
8 23 0.23
9 1 0.01
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:96227841 original size:7 final size:7
Alignment explanation
Indices: 96227831--96227968 Score: 62
Period size: 7 Copynumber: 19.3 Consensus size: 7
96227821 CCCTAACCCA
96227831 TAAACCT
1 TAAACCT
*
96227838 TAAACCA
1 TAAACCT
* *
96227845 TAAAACA
1 TAAACCT
96227852 TAAACCCT
1 TAAA-CCT
*
96227860 TAATCCT
1 TAAACCT
96227867 T-AACCAT
1 TAAACC-T
96227874 TAAACCT
1 TAAACCT
*
96227881 CAAACCT
1 TAAACCT
* *
96227888 CAACCCCT
1 TAA-ACCT
*
96227896 TAAAACT
1 TAAACCT
*
96227903 TAAACCC
1 TAAACCT
*
96227910 TAACCCT
1 TAAACCT
* *
96227917 TAACCCA
1 TAAACCT
*
96227924 TAAACCA
1 TAAACCT
*
96227931 TAAACCC
1 TAAACCT
* *
96227938 TAATCCA
1 TAAACCT
*
96227945 TAAACTCA
1 TAAAC-CT
* *
96227953 TAATCCA
1 TAAACCT
96227960 TAAACCT
1 TAAACCT
96227967 TA
1 TA
96227969 TAATAGTAAC
Statistics
Matches: 102, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
6 3 0.03
7 80 0.78
8 19 0.19
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCT
Found at i:96227843 original size:22 final size:22
Alignment explanation
Indices: 96227818--96228017 Score: 58
Period size: 21 Copynumber: 9.3 Consensus size: 22
96227808 CTAAATCCCT
96227818 AACCCCTAACCCATAAACCTTA
1 AACCCCTAACCCATAAACCTTA
* **
96227840 AA-CCATAAAACATAAACCCTT-
1 AACCCCTAACCCATAAA-CCTTA
* * *
96227861 AATCCTTAA-CCATTAAACCTCA
1 AACCCCTAACCCA-TAAACCTTA
* * *
96227883 AACCTC-AACCCCTTAAAACTTA
1 AACCCCTAA-CCCATAAACCTTA
* * *
96227905 AA-CCCTAACCCTTAACCCATA
1 AACCCCTAACCCATAAACCTTA
* * *
96227926 AA-CCATAAACCC-TAATCCATA
1 AACCCCT-AACCCATAAACCTTA
* * *
96227947 AACTCATAATCCATAAACCTTA
1 AACCCCTAACCCATAAACCTTA
*** * *
96227969 TAA-TAGTAACTCATAAACATTA
1 -AACCCCTAACCCATAAACCTTA
* * *
96227991 AACCCTTAA-CCATATACCATA
1 AACCCCTAACCCATAAACCTTA
96228012 AACCCC
1 AACCCC
96228018 AAACTATAAT
Statistics
Matches: 131, Mismatches: 35, Indels: 25
0.69 0.18 0.13
Matches are distributed among these distances:
21 66 0.50
22 61 0.47
23 4 0.03
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.23
Consensus pattern (22 bp):
AACCCCTAACCCATAAACCTTA
Found at i:96227847 original size:14 final size:14
Alignment explanation
Indices: 96227828--96227968 Score: 70
Period size: 14 Copynumber: 9.9 Consensus size: 14
96227818 AACCCCTAAC
96227828 CCATAAACCTTAAA
1 CCATAAACCTTAAA
* *
96227842 CCATAAAACATAAA
1 CCATAAACCTTAAA
* *
96227856 CCCTTAATCCTT-AA
1 -CCATAAACCTTAAA
*
96227870 CCATTAAACCTCAAA
1 CCA-TAAACCTTAAA
*
96227885 CC-TCAACCCCTTAAA
1 CCAT-AA-ACCTTAAA
* * * *
96227900 ACTTAAACCCTAAC
1 CCATAAACCTTAAA
* * *
96227914 CCTTAACCCATAAA
1 CCATAAACCTTAAA
* *
96227928 CCATAAACCCTAAT
1 CCATAAACCTTAAA
* *
96227942 CCATAAACTCATAAT
1 CCATAAAC-CTTAAA
96227957 CCATAAACCTTA
1 CCATAAACCTTA
96227969 TAATAGTAAC
Statistics
Matches: 95, Mismatches: 25, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
13 3 0.03
14 58 0.61
15 33 0.35
16 1 0.01
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (14 bp):
CCATAAACCTTAAA
Found at i:96228462 original size:40 final size:38
Alignment explanation
Indices: 96228376--96228477 Score: 91
Period size: 40 Copynumber: 2.6 Consensus size: 38
96228366 TTATTTTGCG
* *
96228376 GCGTTTTTTAAAAACATCGCTAAAGATCAAGCATTAGCG
1 GCGTTTTTTAAAAAC-GCGCTAAAGATCAAGCATTAGCA
* *
96228415 GCATTTTTTAAAAAGCGCCGCTAAAGGT-ATA-CATATAGCA
1 GCGTTTTTTAAAAA-CG-CGCTAAAGATCA-AGCAT-TAGCA
*
96228455 GCGTTTTTAAAAAAACGCGCTAA
1 GCGTTTTT-TAAAAACGCGCTAA
96228478 TACTCGATCT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
39 23 0.44
40 24 0.46
41 5 0.10
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (38 bp):
GCGTTTTTTAAAAACGCGCTAAAGATCAAGCATTAGCA
Found at i:96229033 original size:38 final size:39
Alignment explanation
Indices: 96228967--96229057 Score: 121
Period size: 38 Copynumber: 2.3 Consensus size: 39
96228957 GGTGTACATA
*
96228967 TAGCGACGTTTTTAAAAAAGCGCCGCTAATACTCAATCTT
1 TAGCGGCGTTTTT-AAAAAGCGCCGCTAATACTCAATCTT
* **
96229007 TAGCGGCGTTTTT-AAAAGCGCCGCTAATGCTCGTTCTT
1 TAGCGGCGTTTTTAAAAAGCGCCGCTAATACTCAATCTT
*
96229045 TAGTGGCGTTTTT
1 TAGCGGCGTTTTT
96229058 CATTCAAACG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 34 0.74
40 12 0.26
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (39 bp):
TAGCGGCGTTTTTAAAAAGCGCCGCTAATACTCAATCTT
Found at i:96232417 original size:19 final size:19
Alignment explanation
Indices: 96232365--96232409 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
96232355 TGCCTCTTTT
*
96232365 TGCATT-CATTTCATTCATC
1 TGCATTACATTTCA-TCATA
96232384 TGCATTACATTTCATCATA
1 TGCATTACATTTCATCATA
96232403 TGCATTA
1 TGCATTA
96232410 AGTTTCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (19 bp):
TGCATTACATTTCATCATA
Found at i:96238465 original size:30 final size:31
Alignment explanation
Indices: 96238395--96238539 Score: 156
Period size: 30 Copynumber: 4.8 Consensus size: 31
96238385 TAGGTACAAG
*
96238395 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGGTGTGGCTAGTGGAGT
* ** *
96238425 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGAGCAAGGTGTGGCTAGTGGAGT
* *
96238455 TGGGGGTGGAG-AAGGTGTGGCTAGTAGAGT
1 TGGTGGTGGAGCAAGGTGTGGCTAGTGGAGT
* *
96238485 TGGTGGTGGA-AAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGGTGTGGCTAGTGGAGT
* *
96238515 TGGTGGTGGA-AAAGGTGTGACTAGT
1 TGGTGGTGGAGCAAGGTGTGGCTAGT
96238540 TGAGAAAAGT
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
29 2 0.02
30 95 0.98
ACGTcount: A:0.22, C:0.04, G:0.48, T:0.26
Consensus pattern (31 bp):
TGGTGGTGGAGCAAGGTGTGGCTAGTGGAGT
Found at i:96239306 original size:14 final size:14
Alignment explanation
Indices: 96239287--96239349 Score: 74
Period size: 14 Copynumber: 4.5 Consensus size: 14
96239277 GAGTTGATTT
* *
96239287 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
96239301 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
96239316 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
*
96239330 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
96239343 TTGAAAA
1 TTGAAAA
96239350 GACCTCAGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.26
14 19 0.45
15 12 0.29
ACGTcount: A:0.62, C:0.05, G:0.13, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:96239322 original size:13 final size:13
Alignment explanation
Indices: 96239306--96239349 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
96239296 ATAAATTGAA
96239306 AAAACAGAAATTG
1 AAAACAGAAATTG
*
96239319 AAAAGCAGAAATTA
1 AAAA-CAGAAATTG
*
96239333 AAAACAGAATTTG
1 AAAACAGAAATTG
96239346 AAAA
1 AAAA
96239350 GACCTCAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.16
Consensus pattern (13 bp):
AAAACAGAAATTG
Found at i:96239525 original size:77 final size:77
Alignment explanation
Indices: 96239372--96239627 Score: 392
Period size: 77 Copynumber: 3.4 Consensus size: 77
96239362 TGGCCCGAGA
* *
96239372 CTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGAAAAGCAGAAATTGAAAA-CGCCTCAGC
1 CTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAG-CTCAGC
** * * **
96239434 GTGTAACCCGAGG
65 ACGTGAGCAAAGG
96239447 CTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCAGCA
1 CTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCAGCA
96239512 CGTGAGCAAAGG
66 CGTGAGCAAAGG
96239524 CTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCAGCA
1 CTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCAGCA
96239589 CGTGAGCAAAGG
66 CGTGAGCAAAGG
* *
96239601 CTCAACTCACTTCTCGCAATATGAGTT
1 CTCAACTCACCTCTCACAATATGAGTT
96239628 AATTTTAAAA
Statistics
Matches: 168, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
75 28 0.17
76 1 0.01
77 138 0.82
78 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (77 bp):
CTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCAGCA
CGTGAGCAAAGG
Found at i:96239825 original size:16 final size:17
Alignment explanation
Indices: 96239792--96239826 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
96239782 TGATATTTTG
*
96239792 AAAAGCAGAAATTGGAA
1 AAAAACAGAAATTGGAA
96239809 AAAAACAGAAATT-GAA
1 AAAAACAGAAATTGGAA
96239825 AA
1 AA
96239827 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.66, C:0.06, G:0.17, T:0.11
Consensus pattern (17 bp):
AAAAACAGAAATTGGAA
Found at i:96240005 original size:73 final size:73
Alignment explanation
Indices: 96239910--96240210 Score: 347
Period size: 73 Copynumber: 4.0 Consensus size: 73
96239900 AAAAATCGAC
* * *
96239910 AATT-CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACA
1 AATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
96239974 GAAATTGA
66 GAAATTGA
* * *
96239982 AATTACCTCAGCATGTCCTGAGGCTTAACGCACCTCTCGCAATATGAGTTGA-TTTTGACAAACA
1 AATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG----A-A
96240046 GAAACAGAAATTGA
61 -AAACAGAAATTGA
* ** * * * *
96240060 AAATACCTCAGCACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGAATTGATTTTTTTG-AC
1 AATTACCTCAGCA--TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA
* *
96240124 AATAGAAATTGC
62 AACAGAAATTGA
96240136 AATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
1 AATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
*
96240201 TAAATTGA
66 GAAATTGA
96240209 AA
1 AA
96240211 CACAAAAATT
Statistics
Matches: 188, Mismatches: 28, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
72 15 0.08
73 53 0.28
74 34 0.18
76 23 0.12
77 2 0.01
78 25 0.13
80 31 0.16
83 5 0.03
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (73 bp):
AATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
GAAATTGA
Found at i:96240275 original size:87 final size:86
Alignment explanation
Indices: 96240129--96240292 Score: 267
Period size: 87 Copynumber: 1.9 Consensus size: 86
96240119 TTGACAATAG
* *
96240129 AAATTGCAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGCAATTACCTCAGCATGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTG
*
96240194 AAAAACATAAATTGAAACACAA
66 -AAAACAGAAATTGAAACACAA
*
96240216 AAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTT
1 AAATTG-CAATTACCTCAGCATGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTT
96240280 GAAAACAGAAATT
65 GAAAACAGAAATT
96240293 TAAAAATACC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
86 11 0.15
87 58 0.81
88 3 0.04
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.26
Consensus pattern (86 bp):
AAATTGCAATTACCTCAGCATGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTG
AAAACAGAAATTGAAACACAA
Found at i:96240379 original size:14 final size:14
Alignment explanation
Indices: 96240360--96240388 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
96240350 TTTTTTTACG
96240360 AACAGAAATTGAAA
1 AACAGAAATTGAAA
96240374 AACAGAAATTGAAA
1 AACAGAAATTGAAA
96240388 A
1 A
96240389 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:96240470 original size:165 final size:163
Alignment explanation
Indices: 96240047--96240514 Score: 617
Period size: 163 Copynumber: 2.9 Consensus size: 163
96240037 TGACAAACAG
* * *
96240047 AAACAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGAATT
1 AAACAGAAATTGAAAATACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * *
96240112 GATTTTTTTGAC-AATAGAAATTGCAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGC
65 -A-ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT-CCGAGGCTCAACTCACCTCTCGC
*
96240176 AATATGAGTTGA---TTTTTGAAAAACATAAATTGAA
127 AATATGAGTTGATTTTTTTTGAAAAACAGAAATTGAA
* * * ** * *
96240210 ACACAAAAATTGACAATACCTCAGC-GTGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTTG
1 AAACAGAAATTGAAAATACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
* * *
96240274 ATTTTTGA-AAACAGAAATTTAAAAATACCTCAGCGTCTCCTGAGGCTCAACTCACCTCTCGCAA
66 ATTTTTGACAAACAGAAA-TTGAAATTACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAA
* **
96240338 TATGAGTTGATTTTTTTTTACGAACAGAAATTGAA
129 TATGAGTTGATTTTTTTTGAAAAACAGAAATTGAA
* *
96240373 AAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTTACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
96240438 AATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCT-TCGCAAT
65 AATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAAT
96240502 ATGAGTTGATTTT
130 ATGAGTTGATTTT
96240515 GACAAACAGA
Statistics
Matches: 263, Mismatches: 33, Indels: 18
0.84 0.11 0.06
Matches are distributed among these distances:
159 16 0.06
160 48 0.18
161 32 0.12
163 81 0.31
164 16 0.06
165 61 0.23
166 9 0.03
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (163 bp):
AAACAGAAATTGAAAATACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTTGAAAAACAGAAATTGAA
Found at i:96240572 original size:71 final size:72
Alignment explanation
Indices: 96240368--96240657 Score: 347
Period size: 72 Copynumber: 4.0 Consensus size: 72
96240358 CGAACAGAAA
* ** * * *
96240368 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTTACCTCTCGCAATA
1 TTGACAAACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTAGCAATA
*
96240432 TGAGTTAATTT
63 TGAGTTGA-TT
*
96240443 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCC-GAGGCTCAACTCACCT-TCGCAATATGA
1 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
96240506 GTTGATT
66 GTTGATT
* *
96240513 TTGACAAACAGAAA-TGAAATTACCTCAGCGTGTCCTGAGGCTTAAGTCACCTCTAGCAATATGA
1 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
96240577 GTTGATT
66 GTTGATT
* * * * * * *
96240584 TTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCA-CAATATG
1 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT-AGCAATATG
96240648 AGTTGATT
65 AGTTGATT
96240656 TT
1 TT
96240658 CCTTGAAAAG
Statistics
Matches: 193, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
69 21 0.11
70 30 0.16
71 44 0.23
72 67 0.35
73 4 0.02
75 27 0.14
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (72 bp):
TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
GTTGATT
Found at i:96248982 original size:12 final size:12
Alignment explanation
Indices: 96248962--96248997 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
96248952 TGGGATATGC
*
96248962 AATGTATGAATG
1 AATGCATGAATG
96248974 AATGCATGAATG
1 AATGCATGAATG
96248986 AATGCATGAATG
1 AATGCATGAATG
96248998 TCAAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:96250595 original size:16 final size:15
Alignment explanation
Indices: 96250574--96250621 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
96250564 GATGTGAATA
96250574 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
96250590 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
96250605 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
96250621 A
1 A
96250622 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:96250597 original size:24 final size:24
Alignment explanation
Indices: 96250570--96250625 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
96250560 TAATGATGTG
*
96250570 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
96250594 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
96250618 AATAATAA
1 AATAATAA
96250626 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:96250604 original size:8 final size:8
Alignment explanation
Indices: 96250570--96250621 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
96250560 TAATGATGTG
*
96250570 AATAATAA
1 AATATTAA
96250578 AATATATAA
1 AATAT-TAA
96250587 AATA-TAA
1 AATATTAA
96250594 AATATTAA
1 AATATTAA
*
96250602 AATATCAA
1 AATATTAA
*
96250610 AATATTAG
1 AATATTAA
96250618 AATA
1 AATA
96250622 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:96250886 original size:23 final size:23
Alignment explanation
Indices: 96250860--96250987 Score: 61
Period size: 23 Copynumber: 5.5 Consensus size: 23
96250850 AAAAAAATAT
96250860 ATATAAATAATATAATATTAAAG
1 ATATAAATAATATAATATTAAAG
* * *
96250883 ATATATACATAAAATAGTA-TAATAT
1 ATATA-A-ATAATATAATATTAA-AG
**
96250908 ATATACGTAATATAGA-ATTTAAA-
1 ATATAAATAATATA-ATA-TTAAAG
** *
96250931 ATATACCTAATAT-AT-TAAAAG
1 ATATAAATAATATAATATTAAAG
*
96250952 AATATATATAATATAATATT-AAG
1 -ATATAAATAATATAATATTAAAG
*
96250975 AAATATAATAATA
1 ATATA-AATAATA
96250988 ACAAAAAAGG
Statistics
Matches: 79, Mismatches: 14, Indels: 24
0.68 0.12 0.21
Matches are distributed among these distances:
20 4 0.05
21 1 0.01
22 15 0.19
23 35 0.44
24 6 0.08
25 18 0.23
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (23 bp):
ATATAAATAATATAATATTAAAG
Found at i:96250894 original size:25 final size:25
Alignment explanation
Indices: 96250768--96250987 Score: 97
Period size: 25 Copynumber: 9.0 Consensus size: 25
96250758 TAAATACGTG
* *
96250768 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
96250793 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
96250818 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
** * *
96250840 ATAACATGCAAAAAAAATATATATAAATAAT
1 AT-A-AT----ATTAAAGATATATACATAAT
*
96250871 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * *
96250896 ATAGTA-T-AATATATATACGTAAT
1 ATAATATTAAAGATATATACATAAT
* *
96250919 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
96250942 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
96250964 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
96250987 A
1 A
96250988 ACAAAAAAGG
Statistics
Matches: 148, Mismatches: 30, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
21 4 0.03
22 27 0.18
23 44 0.30
24 9 0.06
25 46 0.31
29 2 0.01
30 1 0.01
31 15 0.10
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:96251543 original size:30 final size:31
Alignment explanation
Indices: 96251473--96251617 Score: 156
Period size: 30 Copynumber: 4.8 Consensus size: 31
96251463 TAGGTACAAG
*
96251473 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGGTGTGGCTAGTGGAGT
* ** *
96251503 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGAGCAAGGTGTGGCTAGTGGAGT
* *
96251533 TGGGGGTGGAG-AAGGTGTGGCTAGTAGAGT
1 TGGTGGTGGAGCAAGGTGTGGCTAGTGGAGT
* *
96251563 TGGTGGTGGA-AAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGGTGTGGCTAGTGGAGT
* *
96251593 TGGTGGTGGA-AAAGGTGTGACTAGT
1 TGGTGGTGGAGCAAGGTGTGGCTAGT
96251618 TGAGAAAAGT
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
29 2 0.02
30 95 0.98
ACGTcount: A:0.22, C:0.04, G:0.48, T:0.26
Consensus pattern (31 bp):
TGGTGGTGGAGCAAGGTGTGGCTAGTGGAGT
Found at i:96258226 original size:27 final size:29
Alignment explanation
Indices: 96258176--96258234 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 29
96258166 GTCTTTTTTT
* *
96258176 TTTTCTTTATCATTTACTTCCTACTTAAA
1 TTTTCTTTATCATTTAATTACTACTTAAA
96258205 TTTTCTTT-T-ATTTAATTACTACTTAAA
1 TTTTCTTTATCATTTAATTACTACTTAAA
96258232 TTT
1 TTT
96258235 AAAATTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 19 0.68
28 1 0.04
29 8 0.29
ACGTcount: A:0.25, C:0.15, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTCTTTATCATTTAATTACTACTTAAA
Found at i:96259792 original size:37 final size:36
Alignment explanation
Indices: 96259749--96259871 Score: 106
Period size: 37 Copynumber: 3.4 Consensus size: 36
96259739 TCACTTTTAG
*
96259749 TTTAATTTGGTAAACTAATATAAAGTAGTATCTAAAA
1 TTTAATTTGGTAAACTAATATAAAGTAATATCT-AAA
* ** * * * *
96259786 TTTAATTTGATTAAA--AATATTTAGTAACATTTTTAG
1 TTTAATTTG-GTAAACTAATATAAAGTAATA-TCTAAA
* *
96259822 TTTAATTTGGTAAACTAATACAAAGTAATTTCTAAA
1 TTTAATTTGGTAAACTAATATAAAGTAATATCTAAA
96259858 TATTAATTTGGTAA
1 T-TTAATTTGGTAA
96259872 GAAAATAATG
Statistics
Matches: 64, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
35 4 0.06
36 24 0.38
37 32 0.50
38 4 0.06
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (36 bp):
TTTAATTTGGTAAACTAATATAAAGTAATATCTAAA
Found at i:96259809 original size:73 final size:73
Alignment explanation
Indices: 96259731--96259867 Score: 213
Period size: 73 Copynumber: 1.9 Consensus size: 73
96259721 TTCATATTAA
* * *
96259731 ATTTAGTATCACTTTTAGTTTAATTTGGTAAACTAATATAAAGTAGTATCTAAA-ATTTAATTTG
1 ATTTAGTAACACTTTTAGTTTAATTTGGTAAACTAATACAAAGTAATATCTAAATA-TTAATTTG
96259795 ATTAAAAAT
65 ATTAAAAAT
* *
96259804 ATTTAGTAACATTTTTAGTTTAATTTGGTAAACTAATACAAAGTAATTTCTAAATATTAATTTG
1 ATTTAGTAACACTTTTAGTTTAATTTGGTAAACTAATACAAAGTAATATCTAAATATTAATTTG
96259868 GTAAGAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
73 57 0.98
74 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (73 bp):
ATTTAGTAACACTTTTAGTTTAATTTGGTAAACTAATACAAAGTAATATCTAAATATTAATTTGA
TTAAAAAT
Found at i:96264062 original size:31 final size:30
Alignment explanation
Indices: 96263996--96264062 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
96263986 TTAATGATAC
* *
96263996 ATAAACTAATTTAAAAACTTAAATATAATT
1 ATAAATTAATTTAAAAACTTAAATATAATG
* *
96264026 TTAAATTATATTTAAATAA-TTTAATATAATG
1 ATAAATTA-ATTTAAA-AACTTAAATATAATG
96264057 ATAAAT
1 ATAAAT
96264063 GTGTTGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 6 0.20
31 22 0.73
32 2 0.07
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (30 bp):
ATAAATTAATTTAAAAACTTAAATATAATG
Found at i:96272226 original size:21 final size:21
Alignment explanation
Indices: 96272200--96272240 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96272190 AGACGAGCAA
* *
96272200 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
96272221 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
96272241 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:96279328 original size:12 final size:12
Alignment explanation
Indices: 96279311--96279337 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
96279301 GTAATTAGGT
96279311 CTGGGATTTGGG
1 CTGGGATTTGGG
96279323 CTGGGATTTGGG
1 CTGGGATTTGGG
96279335 CTG
1 CTG
96279338 TTTGTTAATT
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:0.07, C:0.11, G:0.48, T:0.33
Consensus pattern (12 bp):
CTGGGATTTGGG
Found at i:96296191 original size:43 final size:43
Alignment explanation
Indices: 96296130--96296225 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
96296120 TGATATGGTT
* *
96296130 TTTAGCGGAGTTTATGGGGAAAGCGCTGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTATGGGGAAAGCGCCGCTAAAGATCATGTTC
* * *
96296173 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTATGGGGAAAGCGCCGCTAAAGATCATGTTC
*
96296216 TTTAGTGGCG
1 TTTAGCGGCG
96296226 CTTTCTCCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTATGGGGAAAGCGCCGCTAAAGATCATGTTC
Found at i:96307657 original size:30 final size:30
Alignment explanation
Indices: 96307623--96307696 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
96307613 ACAATTCAAC
*
96307623 AAAATTGCTACAAGC-CTTTAACAAAACACA
1 AAAATTGCTACAA-CACTATAACAAAACACA
* * *
96307653 AAAATTACTACAACACTATAATAAAACATA
1 AAAATTGCTACAACACTATAACAAAACACA
*
96307683 CAAATTGCTACAAC
1 AAAATTGCTACAAC
96307697 TGTTCAACTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.53, C:0.22, G:0.04, T:0.22
Consensus pattern (30 bp):
AAAATTGCTACAACACTATAACAAAACACA
Found at i:96309220 original size:17 final size:17
Alignment explanation
Indices: 96309198--96309232 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
96309188 AACAATTAAA
96309198 TAAATTGGAAATAAAAT
1 TAAATTGGAAATAAAAT
* *
96309215 TAAATTGGGAATTAAAT
1 TAAATTGGAAATAAAAT
96309232 T
1 T
96309233 CAGATTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (17 bp):
TAAATTGGAAATAAAAT
Found at i:96320465 original size:36 final size:36
Alignment explanation
Indices: 96320418--96320489 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
96320408 GATTAATTTC
96320418 CTAACTATGCATAACAAAAGATTAACTAAGGAAATA
1 CTAACTATGCATAACAAAAGATTAACTAAGGAAATA
96320454 CTAACTATGCATAACAAAAGATTAACTAAGGAAATA
1 CTAACTATGCATAACAAAAGATTAACTAAGGAAATA
96320490 ATAAAGGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.53, C:0.14, G:0.11, T:0.22
Consensus pattern (36 bp):
CTAACTATGCATAACAAAAGATTAACTAAGGAAATA
Found at i:96320783 original size:21 final size:21
Alignment explanation
Indices: 96320759--96320805 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
96320749 GATATGTGAA
*
96320759 AAAATTATTAAA-AAATATTTT
1 AAAATTATAAAAGAAATA-TTT
*
96320780 AAAAGTATAAAAGAAATATTT
1 AAAATTATAAAAGAAATATTT
96320801 AAAAT
1 AAAAT
96320806 GAAAATAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (21 bp):
AAAATTATAAAAGAAATATTT
Found at i:96320783 original size:22 final size:22
Alignment explanation
Indices: 96320758--96320804 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
96320748 TGATATGTGA
* *
96320758 AAAAATTATTAAA-AAATATTT
1 AAAAAGTATAAAAGAAATATTT
*
96320779 TAAAAGTATAAAAGAAATATTT
1 AAAAAGTATAAAAGAAATATTT
96320801 AAAA
1 AAAA
96320805 TGAAAATAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (22 bp):
AAAAAGTATAAAAGAAATATTT
Found at i:96320869 original size:17 final size:19
Alignment explanation
Indices: 96320847--96320885 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
96320837 ATATGAACAT
*
96320847 AAATA-TAAATTATT-TAA
1 AAATATTAAAGTATTGTAA
96320864 AAATATTAAAGTATTGTAA
1 AAATATTAAAGTATTGTAA
96320883 AAA
1 AAA
96320886 AAATCTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 8 0.42
19 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
AAATATTAAAGTATTGTAA
Done.