Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 319 of 345
Found at i:107483946 original size:19 final size:19
Alignment explanation
Indices: 107483889--107483946 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
107483879 TAAAAATATT
* *
107483889 TTATATATTGCAGACTTTA
1 TTATATATTACAGACTATA
* * *
107483908 TT-TAT-TTA-AAAATATT
1 TTATATATTACAGACTATA
107483924 TTATATATTACAGACTATA
1 TTATATATTACAGACTATA
107483943 TTAT
1 TTAT
107483947 TGCAATAAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
16 6 0.21
17 5 0.18
18 6 0.21
19 11 0.39
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (19 bp):
TTATATATTACAGACTATA
Found at i:107487288 original size:18 final size:20
Alignment explanation
Indices: 107487252--107487291 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
107487242 TTATATAATT
*
107487252 TATTTTATTTCTTTATTTTA
1 TATTTTATATCTTTATTTTA
107487272 TATTTTATAT-TTT-TTTTA
1 TATTTTATATCTTTATTTTA
107487290 TA
1 TA
107487292 ATCACTCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 3 0.16
20 9 0.47
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (20 bp):
TATTTTATATCTTTATTTTA
Found at i:107488117 original size:21 final size:21
Alignment explanation
Indices: 107488093--107488157 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
107488083 AAGTCTAGCT
* *
107488093 GAAGCACATAAGTGTTAAACG
1 GAAGCACACAAGTGCTAAACG
*
107488114 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
107488132 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
107488153 GAAGC
1 GAAGC
107488158 CCAAAGGCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 8 0.23
19 6 0.17
20 8 0.23
21 13 0.37
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:107488134 original size:39 final size:39
Alignment explanation
Indices: 107488075--107488175 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
107488065 ATCGTGATCT
* * * * *
107488075 GAAGGCCGAAGTCTAGCTGAAGCACATAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
107488114 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
107488153 GAAGCCCAAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
107488176 TCATCAGAGC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:107490526 original size:11 final size:11
Alignment explanation
Indices: 107490487--107490553 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 11
107490477 CCTCTAATAA
107490487 TTCTCTCTAAA-
1 TTCTCTC-AAAT
*
107490498 TTCCCTCCAAA-
1 TTCTCT-CAAAT
107490509 TTCTCTCAAAT
1 TTCTCTCAAAT
*
107490520 TTCTCTCATAT
1 TTCTCTCAAAT
*
107490531 TT-TCTCAAAG
1 TTCTCTCAAAT
* *
107490541 CTCTCTTAAAT
1 TTCTCTCAAAT
107490552 TT
1 TT
107490554 TTGCAAAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
10 11 0.25
11 32 0.73
12 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.01, T:0.45
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:107490553 original size:21 final size:21
Alignment explanation
Indices: 107490505--107490554 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
107490495 AAATTCCCTC
* **
107490505 CAAATTCTCTCAAATTTCTCT
1 CAAATTTTCTCAAAGCTCTCT
*
107490526 CATATTTTCTCAAAGCTCTCT
1 CAAATTTTCTCAAAGCTCTCT
*
107490547 TAAATTTT
1 CAAATTTT
107490555 TGCAAAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.24, G:0.02, T:0.46
Consensus pattern (21 bp):
CAAATTTTCTCAAAGCTCTCT
Found at i:107492548 original size:21 final size:21
Alignment explanation
Indices: 107492524--107492563 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
107492514 ATCACCGTAT
*
107492524 GTGATTCAAACACCTTCGCCA
1 GTGATGCAAACACCTTCGCCA
107492545 GTGATGCAAACACCTTCGC
1 GTGATGCAAACACCTTCGC
107492564 ATTCATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (21 bp):
GTGATGCAAACACCTTCGCCA
Found at i:107495640 original size:20 final size:20
Alignment explanation
Indices: 107495615--107495661 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
107495605 TCAACCGAAG
107495615 CACAAAATCGATACTTAATA
1 CACAAAATCGATACTTAATA
107495635 CACAAAATCGATACTTAATA
1 CACAAAATCGATACTTAATA
*
107495655 GACAAAA
1 CACAAAA
107495662 CTTTCATTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.21
Consensus pattern (20 bp):
CACAAAATCGATACTTAATA
Found at i:107496181 original size:126 final size:126
Alignment explanation
Indices: 107495936--107496502 Score: 833
Period size: 126 Copynumber: 4.5 Consensus size: 126
107495926 TCAAATAAGA
* * * * *
107495936 ACTACCGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTACATTCT
1 ACTACTGTAGCAAAAGAGCGTCTACGTTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * * * *
107496001 GCTTGAAGCATTTTGGATACTATTTATTCAGAAACTTCTTCTCAAAATTATTTTTTCAGAT
66 ACTTGAAGCGTTTTGGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGAT
* *
107496062 ATTACTGTAACAAAAGAGCGTCTACGTTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCTACGTTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* *
107496127 ACTTGAAGCGTTTTGGACACTATTT-TTCAAAAATGTCTTCTCAAAATTATTTTTT-AAAT
66 ACTTGAAGCGTTTTGGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * *
107496186 ACTACTATAGCAAAAGAGCGT-TCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCC
1 ACTACTGTAGCAAAAGAGCGTCT-ACGTTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
*
107496250 TACTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
65 TACTTGAAGCGTTTTGGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * *
107496312 ACTACTGTAGCAAAAGAGCATCCATG-TGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
1 ACTACTGTAGCAAAAGAGCGTCTACGTTG-GAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
*
107496376 TACTTGAAGTGTTTTGGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCA-AT
65 TACTTGAAGCGTTTTGGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGAT
*
107496437 ACTACTGTAGCAAAAGAGCGT-TCACG-TGGAAGCTTTTTTCAGTAATTTTGCTAACAGTGCATC
1 ACTACTGTAGCAAAAGAGCGTCT-ACGTTGG-AGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
107496500 CTA
64 CTA
107496503 ATTTAATTAA
Statistics
Matches: 400, Mismatches: 34, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
123 1 0.00
124 87 0.22
125 117 0.29
126 195 0.49
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGCAAAAGAGCGTCTACGTTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
ACTTGAAGCGTTTTGGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGAT
Found at i:107496384 original size:250 final size:251
Alignment explanation
Indices: 107495943--107496502 Score: 917
Period size: 250 Copynumber: 2.2 Consensus size: 251
107495933 AGAACTACCG
* * * *
107495943 TAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTACATTCTGCTTGAA
1 TAGCAAAAGAGCGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTTGAA
* * *
107496008 GCATTTTGGATACTATTTATTCAGAAACTTCTTCTCAAAATTATTTTTTCAGATATTACTGTAAC
66 GCATTTTGGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAAC
* *
107496073 AAAAGAGCGTCTACGTTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTTGAAGCGT
131 AAAAGAGCATCCACGTTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTTGAAGCGT
*
107496138 TTTGGACACTATTT-TTCAAAAATGTCTTCTCAAAATTATTTTTTAAATACTACTA
196 TTTGGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTAAATACTACTA
*
107496193 TAGCAAAAGAGCGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCTACTTGAA
1 TAGCAAAAGAGCGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTTGAA
* * *
107496258 GCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGC
66 GCATTTTGGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAAC
* *
107496323 AAAAGAGCATCCATG-TGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTTGAAGTG
131 AAAAGAGCATCCACGTTG-GAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTTGAAGCG
* *
107496387 TTTTGGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAATACTACTG
195 TTTTGGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTAAATACTACTA
* *
107496444 TAGCAAAAGAGCGTTCACGTGGAAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCCTA
1 TAGCAAAAGAGCGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTA
107496503 ATTTAATTAA
Statistics
Matches: 287, Mismatches: 21, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
249 2 0.01
250 191 0.67
251 94 0.33
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (251 bp):
TAGCAAAAGAGCGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTTGAA
GCATTTTGGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAAC
AAAAGAGCATCCACGTTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTTGAAGCGT
TTTGGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTAAATACTACTA
Found at i:107496809 original size:154 final size:152
Alignment explanation
Indices: 107496499--107496789 Score: 444
Period size: 154 Copynumber: 1.9 Consensus size: 152
107496489 AACAGTGCAT
*
107496499 CCTAATTTAATTAATTAACCTAAAAACCCTAAACCTTAATTTAATTGATTTTTTTAAATTAATAG
1 CCTAATTTAATTAATTAACCTAAAAACACTAAACCTTAATTTAATTGATTTTTTTAAATTAATAG
* * *
107496564 TTAATTTAATTAATTAACCCTAAAGCCTAATTTAATTAACCCTAAAATCATAAACACGATAAAAA
66 TTAATTCAATTAATTAACCCTAAAGCCTAATTTAATTAACCCTAAAACCATAAACACAATAAAAA
107496629 CCTAAACCCGAAAACCCTAAAC
131 CCTAAACCCGAAAACCCTAAAC
* *
107496651 CCTAATTTAATTAATTAACCTTAAAAATAGTAAA-CTCTAATTTAATT-ATTTTTTTAAAAATTA
1 CCTAATTTAATTAATTAACC-TAAAAACACTAAACCT-TAATTTAATTGATTTTTTT--AAATTA
*
107496714 ATAGTTAATTCAATTAATTAACCCT-AAGTCCTAATTTAATTAACCCTAAAACCCTAAACACAAT
62 ATAGTTAATTCAATTAATTAACCCTAAAG-CCTAATTTAATTAACCCTAAAACCATAAACACAAT
*
107496778 AAAACCCTAAAC
126 AAAAACCTAAAC
107496790 TTTTAAAATC
Statistics
Matches: 126, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
152 30 0.24
153 23 0.18
154 73 0.58
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (152 bp):
CCTAATTTAATTAATTAACCTAAAAACACTAAACCTTAATTTAATTGATTTTTTTAAATTAATAG
TTAATTCAATTAATTAACCCTAAAGCCTAATTTAATTAACCCTAAAACCATAAACACAATAAAAA
CCTAAACCCGAAAACCCTAAAC
Found at i:107505821 original size:12 final size:12
Alignment explanation
Indices: 107505801--107505849 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
107505791 CGTGATAAGG
107505801 GTAAAAAATTAT
1 GTAAAAAATTAT
*
107505813 GTAACAAATATAT
1 GTAAAAAAT-TAT
*
107505826 TTATTAAAAATTAT
1 GTA--AAAAATTAT
107505840 GTAAAAAATT
1 GTAAAAAATT
107505850 TAATTGATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 15 0.50
13 5 0.17
14 5 0.17
15 5 0.17
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (12 bp):
GTAAAAAATTAT
Found at i:107507875 original size:43 final size:42
Alignment explanation
Indices: 107507773--107507878 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 42
107507763 TTTTGTTTTA
* * *
107507773 CATGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTT
1 CATGTAAGACCACGTCTGGGACATCGACATCGTATCTGATTG
* *
107507815 CGTGTAAGACC-CTGTCTGGGACAGT-GACATCG-ACGTTTGATTG
1 CATGTAAGACCAC-GTCTGGGACA-TCGACATCGTA--TCTGATTG
107507858 CATGTAAGACCACGTCTGGGA
1 CATGTAAGACCACGTCTGGGA
107507879 TGTTGACATT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.02
42 26 0.49
43 25 0.47
44 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGGGACATCGACATCGTATCTGATTG
Found at i:107507886 original size:43 final size:42
Alignment explanation
Indices: 107507731--107507887 Score: 115
Period size: 43 Copynumber: 3.7 Consensus size: 42
107507721 TATGTTTTCG
* *
107507731 TGTAAGACCACATCTGGGATGTTGGA-ATCGACTTTTGTTTTACA
1 TGTAAGACCACGTCTGGGATGTT-GACATCGAC-TTTG-ATTACA
* ** * * * * *
107507775 TGTAAGACCATGTCTGGGACATCGGCATCGTA-TCTGATTTCG
1 TGTAAGACCACGTCTGGGATGTTGACATCG-ACTTTGATTACA
* *
107507817 TGTAAGACC-CTGTCTGGGACAG-TGACATCGACGTTTGATTGCA
1 TGTAAGACCAC-GTCTGGGA-TGTTGACATCGAC-TTTGATTACA
107507860 TGTAAGACCACGTCTGGGATGTTGACAT
1 TGTAAGACCACGTCTGGGATGTTGACAT
107507888 TGTATATACT
Statistics
Matches: 86, Mismatches: 19, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
41 1 0.01
42 27 0.31
43 34 0.40
44 23 0.27
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGATGTTGACATCGACTTTGATTACA
Found at i:107509907 original size:28 final size:28
Alignment explanation
Indices: 107509867--107509945 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
107509857 GCAATCAAAT
* * *
107509867 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
107509895 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
107509923 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
107509946 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:107511530 original size:22 final size:24
Alignment explanation
Indices: 107511505--107511549 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
107511495 TGATTTGGCT
*
107511505 TGATTATGG-ATATGTT-TATGAG
1 TGATTATGGTATAAGTTATATGAG
*
107511527 TGATTGTGGTATAAGTTATATGA
1 TGATTATGGTATAAGTTATATGA
107511550 TGAAGTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (24 bp):
TGATTATGGTATAAGTTATATGAG
Found at i:107514498 original size:12 final size:12
Alignment explanation
Indices: 107514481--107514513 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
107514471 CGGCCCGCCC
107514481 ATATTAATTTTT
1 ATATTAATTTTT
107514493 ATATT-ATTTTT
1 ATATTAATTTTT
107514504 ATA-TAATTTT
1 ATATTAATTTT
107514514 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:107520637 original size:23 final size:21
Alignment explanation
Indices: 107520596--107520637 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
107520586 AAATTAATAA
*
107520596 CATATTATATGTTTGTAAGCT
1 CATATTATATATTTGTAAGCT
107520617 CATATATATATATTATGTAAG
1 CATAT-TATATATT-TGTAAG
107520638 TCCCACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (21 bp):
CATATTATATATTTGTAAGCT
Found at i:107520647 original size:24 final size:24
Alignment explanation
Indices: 107520595--107520673 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 24
107520585 TAAATTAATA
* *
107520595 ACATAT-TATATGTTTGTAAGCTC
1 ACATATATATATGTATGTAAGCCC
*
107520618 ATATATATATAT-TATGTAAGTCCC
1 ACATATATATATGTATGTAAG-CCC
* * *
107520642 ACATATATAATATATCTATAAGCCC
1 ACATATAT-ATATGTATGTAAGCCC
107520667 A-ATATAT
1 ACATATAT
107520674 TAACCACATT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
23 12 0.26
24 20 0.43
25 8 0.17
26 6 0.13
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (24 bp):
ACATATATATATGTATGTAAGCCC
Found at i:107520663 original size:26 final size:24
Alignment explanation
Indices: 107520617--107520673 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
107520607 TTTGTAAGCT
107520617 CATATATATATATTATGTAAGTCCCA
1 CATATATATATATTA-GTAAG-CCCA
107520643 CATATATAATATATCTA-TAAGCCCA
1 CATATAT-ATATAT-TAGTAAGCCCA
107520668 -ATATAT
1 CATATAT
107520674 TAACCACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 6 0.21
25 4 0.14
26 11 0.38
27 6 0.21
28 2 0.07
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (24 bp):
CATATATATATATTAGTAAGCCCA
Found at i:107524977 original size:17 final size:18
Alignment explanation
Indices: 107524955--107524991 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
107524945 TTTTAATGTG
*
107524955 TATTAAA-TTACATAATA
1 TATTAAACTAACATAATA
107524972 TATTAAACTAACATAATA
1 TATTAAACTAACATAATA
107524990 TA
1 TA
107524992 AAATATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTAAACTAACATAATA
Found at i:107525647 original size:22 final size:22
Alignment explanation
Indices: 107525585--107525658 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
107525575 AAAATGGCTG
* * * *
107525585 CTATTTTTTTACTATTTTGCCA
1 CTATTTTGTTATTATATTGCTA
* *
107525607 CTATTTT-TCATTATTTTGCTA
1 CTATTTTGTTATTATATTGCTA
107525628 -TCATTTTGTTATTATATTGCTA
1 CT-ATTTTGTTATTATATTGCTA
107525650 CTATTTTGT
1 CTATTTTGT
107525659 GACATTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.02
21 16 0.36
22 26 0.59
23 1 0.02
ACGTcount: A:0.19, C:0.14, G:0.07, T:0.61
Consensus pattern (22 bp):
CTATTTTGTTATTATATTGCTA
Found at i:107526635 original size:11 final size:11
Alignment explanation
Indices: 107526621--107526665 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
107526611 AAATAATAGT
107526621 AAAATAGTAAA
1 AAAATAGTAAA
107526632 AAAATAG--AA
1 AAAATAGTAAA
107526641 AAAA-AGTAAA
1 AAAATAGTAAA
* *
107526651 AAAACAGCAAA
1 AAAATAGTAAA
107526662 AAAA
1 AAAA
107526666 AATGCAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
8 2 0.07
9 6 0.20
10 6 0.20
11 16 0.53
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (11 bp):
AAAATAGTAAA
Found at i:107526643 original size:19 final size:19
Alignment explanation
Indices: 107526615--107526665 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
107526605 TAAGTGAAAT
* *
107526615 AATAGTAAAATAGTAAAAA
1 AATAGAAAAAAAGTAAAAA
107526634 AATAGAAAAAAAGTAAAAA
1 AATAGAAAAAAAGTAAAAA
*
107526653 AACAGCAAAAAAA
1 AATAG-AAAAAAA
107526666 AATGCAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.75, C:0.04, G:0.10, T:0.12
Consensus pattern (19 bp):
AATAGAAAAAAAGTAAAAA
Found at i:107534480 original size:22 final size:22
Alignment explanation
Indices: 107534455--107534497 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
107534445 TATCCGAACA
107534455 ATAATAGCAAAATAGTAGTAAT
1 ATAATAGCAAAATAGTAGTAAT
**
107534477 ATAATAGTGAAATAGTAGTAA
1 ATAATAGCAAAATAGTAGTAA
107534498 AACAACAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.16, T:0.28
Consensus pattern (22 bp):
ATAATAGCAAAATAGTAGTAAT
Found at i:107535486 original size:29 final size:28
Alignment explanation
Indices: 107535444--107535499 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
107535434 ATGTGAAATT
* *
107535444 TAAATTTCAATATTCCTTTTTTTTAAAAC
1 TAAATTTCAATATT-ATTTTCTTTAAAAC
* *
107535473 TAAATTTGATTATTATTTTCTTTAAAA
1 TAAATTTCAATATTATTTTCTTTAAAA
107535500 GAGTTAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.54
Consensus pattern (28 bp):
TAAATTTCAATATTATTTTCTTTAAAAC
Found at i:107548605 original size:13 final size:13
Alignment explanation
Indices: 107548589--107548630 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
107548579 GAAACAGGGG
107548589 AAAGAAAGAAGAA
1 AAAGAAAGAAGAA
107548602 AAAGAAAGAAAGAA
1 AAAGAAAG-AAGAA
*
107548616 AAATAAAG-AGAA
1 AAAGAAAGAAGAA
107548628 AAA
1 AAA
107548631 TTAGGGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 7 0.26
13 8 0.30
14 12 0.44
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:107550813 original size:13 final size:14
Alignment explanation
Indices: 107550790--107550823 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
107550780 ATCTCACCCC
*
107550790 AATAACAGATACAG
1 AATATCAGATACAG
107550804 AA-ATCAGATACAG
1 AATATCAGATACAG
107550817 AATATCA
1 AATATCA
107550824 AATTAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.56, C:0.15, G:0.12, T:0.18
Consensus pattern (14 bp):
AATATCAGATACAG
Found at i:107555373 original size:17 final size:17
Alignment explanation
Indices: 107555347--107555388 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
107555337 TTGATTGTAT
*
107555347 ATTGAAATGGAATTGAA
1 ATTGAAATGGAAATGAA
*
107555364 ATTGATATGGAAATGAA
1 ATTGAAATGGAAATGAA
107555381 ATTGAAAT
1 ATTGAAAT
107555389 AAAAAAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (17 bp):
ATTGAAATGGAAATGAA
Found at i:107555376 original size:23 final size:24
Alignment explanation
Indices: 107555340--107555388 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
107555330 TATTGAATTG
* *
107555340 ATTGTATATTGAAATGGAATTGAA
1 ATTGTATATGGAAATGAAATTGAA
107555364 ATTG-ATATGGAAATGAAATTGAA
1 ATTGTATATGGAAATGAAATTGAA
107555387 AT
1 AT
107555389 AAAAAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (24 bp):
ATTGTATATGGAAATGAAATTGAA
Found at i:107555578 original size:29 final size:29
Alignment explanation
Indices: 107555539--107555622 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 29
107555529 CACTCTGTGC
107555539 TATTCTGGTGTGTTTTA-GATGGATTATAT
1 TATTCTGGTGTGTTTTAGGA-GGATTATAT
107555568 TATTCTGGTGTG-TTTAGGAGGATTATAT
1 TATTCTGGTGTGTTTTAGGAGGATTATAT
* * * *
107555596 GATACTGGTGTATTTT-GGAAGATTATA
1 TATTCTGGTGTGTTTTAGGAGGATTATA
107555623 CTAGTGTGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.24, C:0.04, G:0.26, T:0.46
Consensus pattern (29 bp):
TATTCTGGTGTGTTTTAGGAGGATTATAT
Found at i:107565105 original size:3 final size:3
Alignment explanation
Indices: 107565097--107565263 Score: 130
Period size: 3 Copynumber: 55.7 Consensus size: 3
107565087 TGCTTTTAAA
* * *
107565097 AAT AAT AAT AAT TAT AAAT AAT AAT AAT AGT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
107565143 AAT AAT AAT AAAT AAT AGT ACT AAT AGT AAT AAT AAT GAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
107565189 AAT -AT TAT AA- AAG AAT AA- AAA AAT AAT GAT ATT AAT ACAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT
107565233 AGA- AAT AGA- AAT -AT AAT AAT AAT AAT AAT AA
1 A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
107565264 AAGTTTTAAA
Statistics
Matches: 132, Mismatches: 20, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
2 10 0.08
3 110 0.83
4 11 0.08
5 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:107565406 original size:43 final size:45
Alignment explanation
Indices: 107565359--107565476 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 45
107565349 AACATATATA
*
107565359 AGAAAAATAATAATGA-AAATAATATTAGTA-TATAAATAGAAAT
1 AGAAAAATAATAATGAGAAATAATAATAGTAGTATAAATAGAAAT
* * * *
107565402 AGAAATATAATAAAT-AGAAAT-ATAGTAATAGTATAAATATAAAT
1 AGAAAAATAAT-AATGAGAAATAATAATAGTAGTATAAATAGAAAT
*
107565446 A-AAAAATAAATAATAGATAAATAATAATAGT
1 AGAAAAAT-AATAAT-GAGAAATAATAATAGT
107565477 TTTAGAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
43 26 0.43
44 23 0.38
45 5 0.08
46 6 0.10
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (45 bp):
AGAAAAATAATAATGAGAAATAATAATAGTAGTATAAATAGAAAT
Found at i:107565418 original size:15 final size:15
Alignment explanation
Indices: 107565398--107565448 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
107565388 ATATAAATAG
107565398 AAATAGAAATATAAT
1 AAATAGAAATATAAT
*
107565413 AAATAGAAATATAGT
1 AAATAGAAATATAAT
*
107565428 AATAGTATAAATATAAAT
1 AA-A-TAGAAATAT-AAT
107565446 AAA
1 AAA
107565449 AAATAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 16 0.53
16 1 0.03
17 9 0.30
18 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:107565472 original size:29 final size:29
Alignment explanation
Indices: 107565399--107565472 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
107565389 TATAAATAGA
* *
107565399 AATAGA-AATATAATAAATAGAAATATAGT
1 AATAGATAA-ATAATAAATAAAAATATAAT
107565428 AATAGTATAAAT-ATAAATAAAAA-ATAAAT
1 AATAG-ATAAATAATAAATAAAAATAT-AAT
107565457 AATAGATAAATAATAA
1 AATAGATAAATAATAA
107565473 TAGTTTTAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 8 0.21
29 26 0.67
30 3 0.08
31 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (29 bp):
AATAGATAAATAATAAATAAAAATATAAT
Found at i:107566533 original size:44 final size:45
Alignment explanation
Indices: 107566426--107566727 Score: 140
Period size: 44 Copynumber: 6.8 Consensus size: 45
107566416 AGATTTATAG
* * *
107566426 CTTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGATCTGCTAT
1 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAT
** *
107566471 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGA-CTTG-TAT
1 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATC-TGCTAT
* * * ** * *
107566515 CTTGAACCTGCTCTACTGCAACCTCAAAGAGATAAG-GCTGGTGAT
1 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCT-AT
* * * ** * *
107566560 -TTAAATCTGCTCCATTGCCGCTACATGGAGATAAGAT-T-C-AT
1 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAT
* * * ** * * * *
107566601 CGTTTTCGATCTGCTCCACTAC-TGTTTAGGGAGATAATATCTACAAT
1 C---TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAT
* ** * *
107566648 TTTCGGTCC-GCTTCACTGCAATTTCAGGGAGATAAGA-CTTG-TAT
1 CTTC-AACCTGCTCCACTGCAACTTCAGGGAGATAAGATC-TGCTAT
* *
107566692 CTTGAACCTGCTCCACTGCAACTTCAAGGAGATAAG
1 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
107566728 GCTGGTGGCT
Statistics
Matches: 189, Mismatches: 52, Indels: 33
0.69 0.19 0.12
Matches are distributed among these distances:
41 2 0.01
43 4 0.02
44 112 0.59
45 68 0.36
46 1 0.01
47 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (45 bp):
CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAT
Found at i:107566747 original size:44 final size:44
Alignment explanation
Indices: 107566661--107566750 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
107566651 CGGTCCGCTT
* * * * *
107566661 CACTGCAATTTCAGGGAGATAAGACTTGTATCTTGAACCTGCTC
1 CACTGCAACTTCAAGGAGATAAGACTGGTAGCTTAAACCTGCTC
* * *
107566705 CACTGCAACTTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTC
1 CACTGCAACTTCAAGGAGATAAGACTGGTAGCTTAAACCTGCTC
107566749 CA
1 CA
107566751 TTGCCGCTAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (44 bp):
CACTGCAACTTCAAGGAGATAAGACTGGTAGCTTAAACCTGCTC
Found at i:107566747 original size:177 final size:177
Alignment explanation
Indices: 107566446--107566819 Score: 563
Period size: 177 Copynumber: 2.1 Consensus size: 177
107566436 CTCCGCTGCA
* * *
107566446 ACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTT
1 ACTT-AGGGAGATAAGATCTACAATCTTCAGTCCGCTCCACTGCAACTTTAGGGAGATAAGACTT
* *
107566511 GTATCTTGAACCTGCTCTACTGCAACCTCAAAGAGATAAGGCTGGTGATTTAAATCTGCTCCATT
65 GTATCTTGAACCTGCTCCACTGCAACCTCAAAGAGATAAGGCTGGTGACTTAAATCTGCTCCATT
*
107566576 GCCGCTACATGGAGATAAGATTCATCGT-TTTCGATCTGCTCCACTACT
130 GCCGCTACATGGAGATAAGATTCACCGTCTTT-GATCTGCTCCACTACT
** * * * *
107566624 GTTTAGGGAGATAATATCTACAATTTTCGGTCCGCTTCACTGCAA-TTTCAGGGAGATAAGACTT
1 ACTTAGGGAGATAAGATCTACAATCTTCAGTCCGCTCCACTGCAACTTT-AGGGAGATAAGACTT
* * *
107566688 GTATCTTGAACCTGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATT
65 GTATCTTGAACCTGCTCCACTGCAACCTCAAAGAGATAAGGCTGGTGACTTAAATCTGCTCCATT
*
107566753 GCCGCTACATGGAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACT
130 GCCGCTACATGGAGATAAGATTCACCGTCTTTGATCTGCTCCACTACT
107566801 ACTTAGGGAGATAAGATCT
1 ACTTAGGGAGATAAGATCT
107566820 GTAATTTTTA
Statistics
Matches: 175, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
176 3 0.02
177 167 0.95
178 5 0.03
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (177 bp):
ACTTAGGGAGATAAGATCTACAATCTTCAGTCCGCTCCACTGCAACTTTAGGGAGATAAGACTTG
TATCTTGAACCTGCTCCACTGCAACCTCAAAGAGATAAGGCTGGTGACTTAAATCTGCTCCATTG
CCGCTACATGGAGATAAGATTCACCGTCTTTGATCTGCTCCACTACT
Found at i:107566855 original size:132 final size:132
Alignment explanation
Indices: 107566719--107567343 Score: 935
Period size: 132 Copynumber: 4.7 Consensus size: 132
107566709 GCAACTTCAA
*
107566719 GGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGCCGTCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGCCGTCTT
* * * *
107566784 TGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTTAGCCCGTTCCACTACTGCTT
66 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGCCCGTTCCACTACTGCTT
*
107566849 AC
131 AG
* * * **
107566851 GGAGATAAGGCTAATGGCTTAAATCTGCTCCATTGTCGGTACATGGAGATAAGATTCTTCGTCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGCCGTCTT
** * * * *
107566916 TAATCTACTCCACTGCTGCTTAGGAAGATAAGATCTGTAATTTTCAGCCCGTTCCACTACTGCTT
66 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGCCCGTTCCACTACTGCTT
107566981 AG
131 AG
* * * *
107566983 GGAGATAAGGCTAGCGGCTTAAATCTGCTCTATTGCTGCTACATGGAGATAAGATTCACCGTCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGCCGTCTT
*
107567048 CGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGCCCGTTCCACTACTGCTT
66 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGCCCGTTCCACTACTGCTT
107567113 AG
131 AG
** * * *
107567115 GGAGATAAAACTAGTGGCTTAAATTTGCTCCATTGTCGTTACATGGAGATAAGATTCGCCGTCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGCCGTCTT
* * ** *
107567180 CGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGCAATCTTCAGCCTATTTCACTACTGCTT
66 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGCCCGTTCCACTACTGCTT
107567245 AG
131 AG
* * *
107567247 GGAGATAAGGCTAGTGGCTTAAATCTACTCCATTGCTGCTACATGGAGATAAGATTCGCGGTCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGCCGTCTT
107567312 CGATCTGCTCCACTACTGCTTAGGGAGATAAG
66 CGATCTGCTCCACTACTGCTTAGGGAGATAAG
107567344 GCTAGTCGAA
Statistics
Matches: 443, Mismatches: 50, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 443 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (132 bp):
GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGCCGTCTT
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGCCCGTTCCACTACTGCTT
AG
Found at i:107567075 original size:44 final size:43
Alignment explanation
Indices: 107567027--107567343 Score: 127
Period size: 44 Copynumber: 7.2 Consensus size: 43
107567017 GCTGCTACAT
107567027 GGAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAG
1 GGAGATAAGATTCA-CGTCTTCGATCTACTCCACTACTGCTTAG
* * * *
107567071 GGAGATAAGATCTGCA-ATTTTC-AGC-CCGTTCCACTACTGCTTAG
1 GGAGATAAGAT-T-CACGTCTTCGATCTAC--TCCACTACTGCTTAG
* * ** * * *
107567115 GGAGATAAAACT-A-GTGGCTTAAATTTGCTCCA-T--TGTCGTTACAT
1 GGAGATAAGATTCACGT--CTTCGATCTACTCCACTACTG-C-TT--AG
* * *
107567159 GGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGTTTAG
1 GGAGATAAGATTC-ACGTCTTCGATCTACTCCACTACTGCTTAG
* * * *
107567203 GGAGATAAGATCTGCA-ATCTTC-AGCCTATTTCACTACTGCTTAG
1 GGAGATAAGAT-T-CACGTCTTCGA-TCTACTCCACTACTGCTTAG
** ** * * * *
107567247 GGAGATAAGGCT-A-GTGGCTTAAATCTACTCCATTGCTGCTACAT
1 GGAGATAAGATTCACGT--CTTCGATCTACTCCACTACTGCT-TAG
* *
107567291 GGAGATAAGATTCGCGGTCTTCGATCTGCTCCACTACTGCTTAG
1 GGAGATAAGATTCAC-GTCTTCGATCTACTCCACTACTGCTTAG
107567335 GGAGATAAG
1 GGAGATAAG
107567344 GCTAGTCGAA
Statistics
Matches: 196, Mismatches: 49, Indels: 56
0.65 0.16 0.19
Matches are distributed among these distances:
40 2 0.01
41 5 0.03
42 4 0.02
43 26 0.13
44 114 0.58
45 33 0.17
46 6 0.03
47 4 0.02
48 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
GGAGATAAGATTCACGTCTTCGATCTACTCCACTACTGCTTAG
Found at i:107571621 original size:19 final size:19
Alignment explanation
Indices: 107571576--107571621 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
107571566 GTGAAAATCT
107571576 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
* *
107571595 AATTCAAATGCATGGAATG-
1 AATGCAAATG-ATGCAATGC
107571614 AATGCAAA
1 AATGCAAA
107571622 AGAAAAAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.22
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:107573189 original size:25 final size:25
Alignment explanation
Indices: 107573161--107573213 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
107573151 AATTTTGAGC
107573161 AAAGGAGATAGTAAATGAAATAACA
1 AAAGGAGATAGTAAATGAAATAACA
107573186 AAAGGAGATAGTAAATGAAATAACA
1 AAAGGAGATAGTAAATGAAATAACA
107573211 AAA
1 AAA
107573214 AATACTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.62, C:0.04, G:0.19, T:0.15
Consensus pattern (25 bp):
AAAGGAGATAGTAAATGAAATAACA
Found at i:107573304 original size:3 final size:3
Alignment explanation
Indices: 107573288--107573386 Score: 69
Period size: 3 Copynumber: 33.3 Consensus size: 3
107573278 GTTTAAAAAA
* * * * *
107573288 AAT AAT TAT AAAT AAT AAT AAT AAAT AAT AAT AGT ACT AAT AGT ACT
1 AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
107573335 AAT AAT GAT AAT AAT AAT AAT -AT AA- AAG AAT AA- AAA AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
107573380 ATT AAT A
1 AAT AAT A
107573387 CGTAAATATA
Statistics
Matches: 75, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
2 6 0.08
3 64 0.85
4 5 0.07
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:107573304 original size:13 final size:13
Alignment explanation
Indices: 107573288--107573376 Score: 67
Period size: 13 Copynumber: 6.7 Consensus size: 13
107573278 GTTTAAAAAA
*
107573288 AATAATTATAAAT
1 AATAATAATAAAT
107573301 AATAATAATAAAT
1 AATAATAATAAAT
*
107573314 AATAATAGTACTAAT
1 AATAATAATA--AAT
* *
107573329 AGTACTAATAATGAT
1 AATAATAATAA--AT
107573344 AATAATAATAATAT
1 AATAATAATAA-AT
*
107573358 AA-AAGAATAAA-
1 AATAATAATAAAT
107573369 AA-AATAAT
1 AATAATAAT
107573377 GATATTAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.11
12 1 0.02
13 29 0.47
14 4 0.06
15 21 0.34
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:107574736 original size:33 final size:33
Alignment explanation
Indices: 107574694--107574759 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
107574684 AGTTCGATAG
107574694 GTACACTTGCCTTCATCGTGATAATAGTTAGTT
1 GTACACTTGCCTTCATCGTGATAATAGTTAGTT
107574727 GTACACTTGCCTTCATCGTGATAATAGTTAGTT
1 GTACACTTGCCTTCATCGTGATAATAGTTAGTT
107574760 TCAAGAACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (33 bp):
GTACACTTGCCTTCATCGTGATAATAGTTAGTT
Found at i:107582200 original size:15 final size:15
Alignment explanation
Indices: 107582180--107582209 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
107582170 AAAGCCTATT
107582180 TAAATATCTGAGGAG
1 TAAATATCTGAGGAG
107582195 TAAATATCTGAGGAG
1 TAAATATCTGAGGAG
107582210 GCATTTAGAA
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:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
TAAATATCTGAGGAG
Found at i:107582515 original size:12 final size:13
Alignment explanation
Indices: 107582479--107582516 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
107582469 AAATATTTGA
107582479 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
107582492 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
107582506 CTTG-TCTTAAT
1 CTTGTTCTTAAT
107582517 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:107583330 original size:15 final size:15
Alignment explanation
Indices: 107583310--107583428 Score: 83
Period size: 15 Copynumber: 8.1 Consensus size: 15
107583300 ATATAAATAG
107583310 AAATAGAAATATAAT
1 AAATAGAAATATAAT
107583325 AAATAGAAATATAAT
1 AAATAGAAATATAAT
107583340 -AATAGTATAA-AT-AT
1 AAATAG-A-AATATAAT
107583354 AAATAGATAA-ATAAT
1 AAATAGA-AATATAAT
*
107583369 AATTAGATAA-ATAAT
1 AAATAGA-AATATAAT
* * *
107583384 -AATAGTATTAGAAT
1 AAATAGAAATATAAT
*
107583398 AAA-A-AAATAAATAT
1 AAATAGAAATATA-AT
*
107583412 AAATAGAAACATAAT
1 AAATAGAAATATAAT
107583427 AA
1 AA
107583429 TAATAGCAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
13 5 0.06
14 27 0.32
15 46 0.54
16 7 0.08
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:107583343 original size:29 final size:29
Alignment explanation
Indices: 107583311--107583430 Score: 106
Period size: 29 Copynumber: 4.1 Consensus size: 29
107583301 TATAAATAGA
107583311 AATAGA-AATATAATAAATAGAAATATAAT
1 AATAGATAA-ATAATAAATAGAAATATAAT
107583340 AATAGTATAAAT-ATAAATAGATAA-ATAAT
1 AATAG-ATAAATAATAAATAGA-AATATAAT
* * *
107583369 AATTAGATAAATAAT-AATAGTATTAGAAT
1 AA-TAGATAAATAATAAATAGAAATATAAT
* * *
107583398 AAAAAAATAAAT-ATAAATAGAAACATAAT
1 -AATAGATAAATAATAAATAGAAATATAAT
107583427 AATA
1 AATA
107583431 ATAGCAATAA
Statistics
Matches: 73, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
28 6 0.08
29 53 0.73
30 12 0.16
31 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (29 bp):
AATAGATAAATAATAAATAGAAATATAAT
Found at i:107583349 original size:23 final size:23
Alignment explanation
Indices: 107583310--107583387 Score: 62
Period size: 23 Copynumber: 3.5 Consensus size: 23
107583300 ATATAAATAG
107583310 AAATAGA-AATATAATAAATAGA-
1 AAATAGATAATATAAT-AATAGAT
*
107583332 AATATA-ATAATAGT-ATAA-ATAT
1 AA-ATAGATAATA-TAATAATAGAT
107583354 AAATAGATAA-ATAATAATTAGAT
1 AAATAGATAATATAATAA-TAGAT
107583377 AAATA-ATAATA
1 AAATAGATAATA
107583388 GTATTAGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
20 1 0.02
21 10 0.22
22 15 0.33
23 18 0.40
24 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.29
Consensus pattern (23 bp):
AAATAGATAATATAATAATAGAT
Found at i:107583351 original size:44 final size:42
Alignment explanation
Indices: 107583271--107583430 Score: 143
Period size: 44 Copynumber: 3.7 Consensus size: 42
107583261 AACATATATA
* *
107583271 AGAAAAATAAT-AAT-GAAAATAATATTAGTATATAAATAGAAAT
1 AGAAATATAATAAATAGAAAATAATAATAG--TATAAATA-AAAT
107583314 AGAAATATAATAAATAGAAATATAATAATAGTATAAATATAAAT
1 AGAAATATAATAAATAGAAA-ATAATAATAGTATAAATA-AAAT
*
107583358 AGATAA-ATAATAATTAGATAAATAATAATAGTATTAGAAT-AAA-
1 AGA-AATATAATAAATAGA-AAATAATAATAGTA-TA-AATAAAAT
*
107583401 A-AAATAAATATAAATAGAAACATAATAATA
1 AGAAATATA-ATAAATAGAAA-ATAATAATA
107583431 ATAGCAATAA
Statistics
Matches: 101, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 28 0.28
44 44 0.44
45 10 0.10
46 12 0.12
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (42 bp):
AGAAATATAATAAATAGAAAATAATAATAGTATAAATAAAAT
Found at i:107587553 original size:24 final size:24
Alignment explanation
Indices: 107587521--107587605 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
107587511 TTAATTATTT
**
107587521 GCACACATAGTGCCACGTTTTCTC
1 GCACACATAGTGCCACGTAATCTC
*
107587545 GCACACATAGTGCCATGTAATCTC
1 GCACACATAGTGCCACGTAATCTC
* * ** *
107587569 GCACACATAGTGCCGCATAGCCTT
1 GCACACATAGTGCCACGTAATCTC
107587593 GCACACATAGTGC
1 GCACACATAGTGC
107587606 TGTATTTTCT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (24 bp):
GCACACATAGTGCCACGTAATCTC
Found at i:107588334 original size:15 final size:15
Alignment explanation
Indices: 107588314--107588361 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
107588304 GATCACTCAA
107588314 ATAAATTTCCAATAC
1 ATAAATTTCCAATAC
*
107588329 ATAAA-TT--AAGA-
1 ATAAATTTCCAATAC
107588340 ATAAATTTCCAATAC
1 ATAAATTTCCAATAC
107588355 ATAAATT
1 ATAAATT
107588362 AAGTCACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
14 5 0.19
15 12 0.44
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.33
Consensus pattern (15 bp):
ATAAATTTCCAATAC
Found at i:107588349 original size:26 final size:26
Alignment explanation
Indices: 107588313--107588364 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
107588303 TGATCACTCA
107588313 AATAAATTTCCAATACATAAATTAAG
1 AATAAATTTCCAATACATAAATTAAG
107588339 AATAAATTTCCAATACATAAATTAAG
1 AATAAATTTCCAATACATAAATTAAG
107588365 TCACTCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (26 bp):
AATAAATTTCCAATACATAAATTAAG
Found at i:107589977 original size:25 final size:24
Alignment explanation
Indices: 107589944--107590052 Score: 82
Period size: 25 Copynumber: 4.6 Consensus size: 24
107589934 ATAAAAGTTT
* *
107589944 TAAAATAAATACTATAAAAGCAATC
1 TAAAATAAATAATACAAAA-CAATC
* *
107589969 TAAAGTAAATAATACAAAACAATT
1 TAAAATAAATAATACAAAACAATC
* * **
107589993 TAAAATCATTAAT--AAAA-TGTC
1 TAAAATAAATAATACAAAACAATC
*
107590014 TAAAATAAATAATACGTAAAAAAAT-
1 TAAAATAAATAATAC--AAAACAATC
107590039 TAAAATAAATAATA
1 TAAAATAAATAATA
107590053 TACATAAAAT
Statistics
Matches: 65, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
21 12 0.18
22 4 0.06
24 14 0.22
25 34 0.52
26 1 0.02
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (24 bp):
TAAAATAAATAATACAAAACAATC
Found at i:107590457 original size:74 final size:72
Alignment explanation
Indices: 107590379--107590549 Score: 172
Period size: 74 Copynumber: 2.3 Consensus size: 72
107590369 ATAACACACA
*
107590379 AAAATATATTTAAAATAAACAATACAAAACAGTTTAAAATA-ACTAATA-TAAAAGGTTTAAAAT
1 AAAATA-ATTTAAAATAAATAATACAAAA-A-TTTAAAATATA-TAATAGTAAAA-GTTTAAAAT
107590442 AAATAA-TATAT
61 AAATAAGTATAT
* * * * *
107590453 AAAATAGTTTAAACTACATAATGTATATAAATTTAAAATATATAATATGTAAAAGTTTAAAATAA
1 AAAATAATTTAAAATAAATAA--TACAAAAATTTAAAATATATAATA-GTAAAAGTTTAAAATAA
107590518 ATAATGTATAT
63 ATAA-GTATAT
107590529 AAAA-AA-TTAAAATAAATAATA
1 AAAATAATTTAAAATAAATAATA
107590550 TGTAAAATAA
Statistics
Matches: 81, Mismatches: 9, Indels: 16
0.76 0.08 0.15
Matches are distributed among these distances:
72 2 0.02
73 25 0.31
74 34 0.42
75 11 0.14
76 9 0.11
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (72 bp):
AAAATAATTTAAAATAAATAATACAAAAATTTAAAATATATAATAGTAAAAGTTTAAAATAAATA
AGTATAT
Found at i:107590473 original size:26 final size:25
Alignment explanation
Indices: 107590306--107590568 Score: 188
Period size: 24 Copynumber: 10.6 Consensus size: 25
107590296 CATGTATTAG
*
107590306 AAAACAGTTTAAAATAAATATTATAT
1 AAAA-AGTTTAAAATAAATAATATAT
* *
107590332 AAAAA-TTTAAAGTAAGTAATATAT
1 AAAAAGTTTAAAATAAATAATATAT
* *
107590356 AAAATAGTTAAAAATAACACACA-A-A-
1 AAAA-AGTTTAAAATAA-ATA-ATATAT
* * *
107590381 AATATA-TTTAAAATAAACAATACA-
1 AA-AAAGTTTAAAATAAATAATATAT
* *
107590405 AAACAGTTTAAAATAACT-A-ATAT
1 AAAAAGTTTAAAATAAATAATATAT
*
107590428 AAAAGGTTTAAAATAAATAATATAT
1 AAAAAGTTTAAAATAAATAATATAT
* * *
107590453 AAAATAGTTTAAACTACATAATGTAT
1 AAAA-AGTTTAAAATAAATAATATAT
* * *
107590479 ATAAA-TTTAAAATATATAATATGT
1 AAAAAGTTTAAAATAAATAATATAT
107590503 -AAAAGTTTAAAATAAATAATGTATAT
1 AAAAAGTTTAAAATAAATAA--TATAT
* *
107590529 AAAAA-ATTAAAATAAATAATATGT
1 AAAAAGTTTAAAATAAATAATATAT
*
107590553 AAAATAATTTAAAATA
1 AAAA-AGTTTAAAATA
107590569 GTATATAATG
Statistics
Matches: 188, Mismatches: 31, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
22 3 0.02
23 25 0.13
24 79 0.42
25 15 0.08
26 59 0.31
27 6 0.03
28 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (25 bp):
AAAAAGTTTAAAATAAATAATATAT
Found at i:107590491 original size:50 final size:51
Alignment explanation
Indices: 107590306--107590568 Score: 210
Period size: 50 Copynumber: 5.3 Consensus size: 51
107590296 CATGTATTAG
* * * *
107590306 AAAACAGTTTAAAATAAAT-AT-TATATAAAAATTTAAAGTAAGTAATATAT
1 AAAATAGTTTAAAATAAATAATGTATAT-AAAATTTAAAATAAATAATATGT
* * * * * * *
107590356 AAAATAGTTAAAAATAACACACA--AAAAT-ATATTTAAAATAAACAATA--C
1 AAAATAGTTTAAAATAA-ATA-ATGTATATAAAATTTAAAATAAATAATATGT
* * * *
107590404 AAAACAGTTTAAAATAACTAA--TATA-AAAGGTTTAAAATAAATAATATAT
1 AAAATAGTTTAAAATAAATAATGTATATAAA-ATTTAAAATAAATAATATGT
* * *
107590453 AAAATAGTTTAAACTACATAATGTATAT-AAATTTAAAATATATAATATGT
1 AAAATAGTTTAAAATAAATAATGTATATAAAATTTAAAATAAATAATATGT
*
107590503 -AAA-AGTTTAAAATAAATAATGTATATAAAAAATTAAAATAAATAATATGT
1 AAAATAGTTTAAAATAAATAATGTATAT-AAAATTTAAAATAAATAATATGT
*
107590553 AAAATAATTTAAAATA
1 AAAATAGTTTAAAATA
107590569 GTATATAATG
Statistics
Matches: 167, Mismatches: 32, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
46 4 0.02
47 16 0.10
48 36 0.22
49 20 0.12
50 67 0.40
51 10 0.06
52 13 0.08
53 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (51 bp):
AAAATAGTTTAAAATAAATAATGTATATAAAATTTAAAATAAATAATATGT
Found at i:107599921 original size:139 final size:139
Alignment explanation
Indices: 107599671--107600089 Score: 748
Period size: 139 Copynumber: 3.0 Consensus size: 139
107599661 AAAATTATAT
*
107599671 TCATAAAATTACTTATAAGTCACAATCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
1 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
* *
107599736 TAAAAAACGGTTGTCAACAAAGAACCAAATTAGTCAATAATATATCATATTATCAGTACGAGGAT
66 TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCAGTACGAGGAT
**
107599801 ATCGTAATA
131 ATCACAATA
107599810 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
1 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
* *
107599875 TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAACATATCATATTATCAGTACAAGGAT
66 TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCAGTACGAGGAT
107599940 ATCACAATA
131 ATCACAATA
*
107599949 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTAAATGA
1 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
* *
107600014 TAAGAAACCGTTGTCAACAAAGAATCAAATAAGTCAATAATATATCATATTATCAGTACGAGGAT
66 TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCAGTACGAGGAT
107600079 ATCACAATA
131 ATCACAATA
107600088 TC
1 TC
107600090 TTTAAGTAGA
Statistics
Matches: 268, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 268 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (139 bp):
TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCAGTACGAGGAT
ATCACAATA
Found at i:107603736 original size:36 final size:34
Alignment explanation
Indices: 107603686--107603764 Score: 88
Period size: 36 Copynumber: 2.3 Consensus size: 34
107603676 AATGGTAATA
* * *
107603686 ATATTTCTTATTATATTTTAATGTTGTATAATTTT-T
1 ATATTTTTTATTATATTTGAAT-TT-AAT-ATTTTGT
*
107603722 ATATTTTTTGTTATATTTGAATTTAATATTTTGT
1 ATATTTTTTATTATATTTGAATTTAATATTTTGT
107603756 ATATTTTTT
1 ATATTTTTT
107603765 CCTTAAATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 5 0.13
34 12 0.32
35 2 0.05
36 19 0.50
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (34 bp):
ATATTTTTTATTATATTTGAATTTAATATTTTGT
Found at i:107608432 original size:16 final size:15
Alignment explanation
Indices: 107608410--107608456 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
107608400 AAAAAAAATA
107608410 TTTTTTTTACTATTT
1 TTTTTTTTACTATTT
*
107608425 TCTTTTTTT-CTTATTG
1 T-TTTTTTTAC-TATTT
*
107608441 TTTTTTTCACTATTT
1 TTTTTTTTACTATTT
107608456 T
1 T
107608457 GTTATCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTTTTTACTATTT
Found at i:107616188 original size:16 final size:16
Alignment explanation
Indices: 107616169--107616202 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
107616159 ATAAAAGAGT
107616169 TAATTTTGAATTCATA
1 TAATTTTGAATTCATA
107616185 TAATTTTGAATTCATA
1 TAATTTTGAATTCATA
107616201 TA
1 TA
107616203 GATCAAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (16 bp):
TAATTTTGAATTCATA
Found at i:107616589 original size:43 final size:42
Alignment explanation
Indices: 107616475--107616595 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 42
107616465 TATCGAGATG
*
107616475 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATT
1 TGATTACATGTAAGACCATGTCTGGGATA-TGGCATCGTTATT
*** * *
107616518 TGATTTTGTGTAGGACCCTGTCTGGGATAGTGGCATCAG-TATT
1 TGATTACATGTAAGACCATGTCTGGGATA-TGGCATC-GTTATT
* * *
107616561 TGATAACATGTAAGACCATATCTAGGATATGGCAT
1 TGATTACATGTAAGACCATGTCTGGGATATGGCAT
107616596 TGTACGAGCT
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 6 0.10
43 55 0.89
44 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGATATGGCATCGTTATT
Found at i:107618518 original size:221 final size:221
Alignment explanation
Indices: 107618130--107618580 Score: 733
Period size: 221 Copynumber: 2.0 Consensus size: 221
107618120 CACTTTGTTA
* * *
107618130 AGCATAACAACCTATGTATTCATCAACTATTCAAACATGGTTATTCATTCACATTTAATATTCTA
1 AGCATAACAACCTATGTATTCATAAACTATTCAAACATGGTTATTCATTCACATTTAACATTCCA
* * *
107618195 ATCTCAATCAAAACATATTTAAAATATTCCATTCAATTGCTTCAAACATATCTTACCACAATGCC
66 AACTCAATCAAAACATATTTAAAACATACCATTCAATTGCTTCAAACATATCTTACCACAATGCC
*
107618260 ATTAATGCACATACAAGCTCATCACATAGGACTATCAAAATACAAGCATTATCAAAAGATCAAAG
131 ATTAATGCACATACAAGCTCACCACATAGGACTATCAAAATACAAGCATTATCAAAAGATCAAAG
107618325 CTACCACATCCAAGTAATCATATATG
196 CTACCACATCCAAGTAATCATATATG
* * *
107618351 AGCATAACAACCTATGTATTCATAAACTATTCAAATATGGTTCTTTATTCACATTTAACATTCCA
1 AGCATAACAACCTATGTATTCATAAACTATTCAAACATGGTTATTCATTCACATTTAACATTCCA
* * *
107618416 AACTCAATCAAAACATATTTAAAACATACCATTCAATTGTTTCAAACATATTTTACCACAATTCC
66 AACTCAATCAAAACATATTTAAAACATACCATTCAATTGCTTCAAACATATCTTACCACAATGCC
* * *
107618481 ATTAATGCACATACAAGCTCACCACATCAGG-CTATCAAAATACAAGCATTATCCAAATATCGAA
131 ATTAATGCACATACAAGCTCACCACAT-AGGACTATCAAAATACAAGCATTATCAAAAGATCAAA
*
107618545 GCTACCATATCCAAGTAATCATATATG
195 GCTACCACATCCAAGTAATCATATATG
107618572 AGCATAACA
1 AGCATAACA
107618581 TTGCCTATTT
Statistics
Matches: 212, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
221 209 0.99
222 3 0.01
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (221 bp):
AGCATAACAACCTATGTATTCATAAACTATTCAAACATGGTTATTCATTCACATTTAACATTCCA
AACTCAATCAAAACATATTTAAAACATACCATTCAATTGCTTCAAACATATCTTACCACAATGCC
ATTAATGCACATACAAGCTCACCACATAGGACTATCAAAATACAAGCATTATCAAAAGATCAAAG
CTACCACATCCAAGTAATCATATATG
Found at i:107619087 original size:21 final size:20
Alignment explanation
Indices: 107619060--107619105 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
107619050 TGGGAATGAG
107619060 AGTGCAAACCAAGGGCA-CGA
1 AGTGC-AACCAAGGGCACCGA
*
107619080 ATGTGCAATCAAGGGCACCGA
1 A-GTGCAACCAAGGGCACCGA
107619101 AGTGC
1 AGTGC
107619106 TATCAGGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.35, C:0.24, G:0.30, T:0.11
Consensus pattern (20 bp):
AGTGCAACCAAGGGCACCGA
Found at i:107619094 original size:20 final size:20
Alignment explanation
Indices: 107619069--107619110 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
107619059 GAGTGCAAAC
107619069 CAAGGGCA-CGAATGTGCAAT
1 CAAGGGCACCGAA-GTGCAAT
*
107619089 CAAGGGCACCGAAGTGCTAT
1 CAAGGGCACCGAAGTGCAAT
107619109 CA
1 CA
107619111 GGTAAACATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.33, C:0.24, G:0.29, T:0.14
Consensus pattern (20 bp):
CAAGGGCACCGAAGTGCAAT
Found at i:107625110 original size:14 final size:15
Alignment explanation
Indices: 107625063--107625107 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
107625053 ATTGGGTTGA
107625063 TAAAATT-ATTTAAT
1 TAAAATTAATTTAAT
107625077 TGGAAAATTAA-TTAAT
1 T--AAAATTAATTTAAT
107625093 TAAAATTAATTTAAT
1 TAAAATTAATTTAAT
107625108 AAATAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 9 0.33
15 5 0.19
16 12 0.44
17 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (15 bp):
TAAAATTAATTTAAT
Found at i:107633621 original size:9 final size:9
Alignment explanation
Indices: 107633593--107633630 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
107633583 AATCCTTTTT
107633593 AAAATT-TA
1 AAAATTATA
107633601 AAAATTATTA
1 AAAATTA-TA
*
107633611 AAAATCATA
1 AAAATTATA
107633620 AAAATTATA
1 AAAATTATA
107633629 AA
1 AA
107633631 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 6 0.23
9 12 0.46
10 8 0.31
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:107634439 original size:9 final size:9
Alignment explanation
Indices: 107634407--107634448 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
107634397 TAAAAATATC
107634407 TTAT-AAAA
1 TTATAAAAA
107634415 TT-TAAAAA
1 TTATAAAAA
107634423 TTATTAAAAA
1 TTA-TAAAAA
*
107634433 TCATAAAAA
1 TTATAAAAA
107634442 TTATAAA
1 TTATAAA
107634449 TAAAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 1 0.03
8 8 0.28
9 12 0.41
10 8 0.28
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (9 bp):
TTATAAAAA
Found at i:107635271 original size:29 final size:30
Alignment explanation
Indices: 107635215--107635293 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
107635205 AATTCAAAAT
* * *
107635215 TATACATTAATTTTAATTTAATGTGTAATTC
1 TATACATAAAATTTAATTTAA-GTGTAATTA
*
107635246 TATACATGAAATTTAATTTAA-TGTAATTA
1 TATACATAAAATTTAATTTAAGTGTAATTA
*
107635275 TATACGTAAAATTTTAATT
1 TATACATAAAA-TTTAATT
107635294 GTATTTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.38
30 7 0.17
31 19 0.45
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (30 bp):
TATACATAAAATTTAATTTAAGTGTAATTA
Found at i:107640407 original size:6 final size:6
Alignment explanation
Indices: 107640396--107640427 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
107640386 GCTACGATGT
107640396 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AA
1 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AA
107640428 GGTTACGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:107646498 original size:26 final size:27
Alignment explanation
Indices: 107646469--107646538 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
107646459 CTGAGAGCTA
107646469 TTAATCAGGAAGCTCACAAAGAGCC-T
1 TTAATCAGGAAGCTCACAAAGAGCCAT
*
107646495 TTAAT-AGGGAAGCTCACGAAGAGCCAT
1 TTAATCA-GGAAGCTCACAAAGAGCCAT
* *
107646522 ATATATCAGGATGCTCA
1 TTA-ATCAGGAAGCTCA
107646539 TAAGAGCTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 1 0.03
26 22 0.59
27 3 0.08
28 10 0.27
29 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (27 bp):
TTAATCAGGAAGCTCACAAAGAGCCAT
Found at i:107649781 original size:32 final size:34
Alignment explanation
Indices: 107649745--107649809 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
107649735 TAACAGTGGT
*
107649745 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
107649777 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
107649810 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:107650146 original size:26 final size:26
Alignment explanation
Indices: 107650117--107650169 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
107650107 TCAAACATGC
107650117 ATTTAAGTCAATTTAACT-CTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
107650143 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
107650169 A
1 A
107650170 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:107651687 original size:26 final size:26
Alignment explanation
Indices: 107651656--107651737 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
107651646 TGAAATGCCC
107651656 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
107651682 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
107651708 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
107651734 ATCA
1 ATCA
107651738 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:107654621 original size:17 final size:18
Alignment explanation
Indices: 107654588--107654621 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
107654578 GGCACCAAAG
107654588 CAAAGAGAAAGTAAGCTT
1 CAAAGAGAAAGTAAGCTT
107654606 CAAAGAGAAA-TAAGCT
1 CAAAGAGAAAGTAAGCT
107654622 ACTAACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.53, C:0.12, G:0.21, T:0.15
Consensus pattern (18 bp):
CAAAGAGAAAGTAAGCTT
Found at i:107658214 original size:281 final size:279
Alignment explanation
Indices: 107657662--107658498 Score: 1166
Period size: 281 Copynumber: 3.0 Consensus size: 279
107657652 ATGTTACTAT
* ** * *
107657662 AAATCGATACGAGGAACAGATTGAACGAGACTCAATTTCAAACTCAGGATCAAATTAAAATTTCC
1 AAATCGATACGAGGAACAGATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
* * * *
107657727 AACAACAGAAGATGAAGATTTTTATGAAAAGAAAATAAGGGAATAACAAAAAAAGATGTATTTAA
66 AGCAAAAGAAGATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAAAAAAAGATGTATTTAA
* *
107657792 ATAAGAGAAAAGAGAAATTTTAATTAGGGTTGAAAAGAAGTAAAAATCCACATGTAATTAGGAAA
131 AGAAGAGAAAAGAGAAATTCTAATTAGGGTTGAAAAGAAGTAAAAATCCACATGTAATTAGGAAA
* * * *
107657857 ATGGATTAAATAGTTAGGGTTTCAGAAATTTAAGGGCTTGATTGGTAAAA-TACTCATTTTTGTC
196 ATGGATTAAATAGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATTACTCATTTTGGTC
107657921 GACATTAAAAAAAAAAGAG
261 GACATTAAAAAAAAAAGAG
* *
107657940 AAATTGATACGAGGAACAAATTGAACGGGACGT-GGTTTCAAACTCGGGATCAAATTAAAATTTT
1 AAATCGATACGAGGAACAGATTGAACGGGAC-TCGGTTTCAAACTCGGGATCAAATTAAAATTTT
107658004 CAGCAAAAGAAGATGAAGATTTTTTTTATGAAAAGGAAATGAGGGAATAACAAAAAAAGATGTAT
65 CAGCAAAAGAAGATGAAGA---TTTTTATGAAAAGGAAATGAGGGAATAACAAAAAAAGATGTAT
*
107658069 TTAAAGAAGAGAAAAGAGAAATTCTAATTTGGGTTGAAAAGAAGTAAAAATCCACATGTAATTAG
127 TTAAAGAAGAGAAAAGAGAAATTCTAATTAGGGTTGAAAAGAAGTAAAAATCCACATGTAATTAG
*
107658134 GAAAATGGATTAAATA-TTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATTAC-CCTTTT
192 GAAAATGGATTAAATAGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATTACTCATTTT
* * *
107658197 GGTTGAGATTGAAAAAAATAAGAG
257 GGTCGACATT-AAAAAAAAAAGAG
* * * * *
107658221 AAATCAATAGGAGAAACGGAGTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
1 AAATCGATACGAGGAACAGATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTT-
* * * * *
107658286 CAGCAAAAGAAGATGAAAATTTTTATGAAAA-GAAATGAGTGAATAATAGAAAAAGATAT-TTTA
65 CAGCAAAAGAAGATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAAAAAAAGATGTATTTA
* * *
107658349 AAGAAGAGAAAAGAGAAATTCTAATTAAGGTTAAAAAGAAGTAAAAATGCACATGTAATTAGGAA
130 AAGAAGAGAAAAGAGAAATTCTAATTAGGGTTGAAAAGAAGTAAAAATCCACATGTAATTAGGAA
* * * * *
107658414 AATGGATTAAATAGTTAGGGTTTAAAAAAAATTTAAGGAGCTAAATGGTAAAA-TACTCATTTTT
195 AATGGATTAAATAGTTAGGGTTT--AAGAAATTTAAGGGGTTGAATGGTAAAATTACTCATTTTG
*
107658478 GCCGACATTGAAAAATAAAAA
258 GTCGACATT-AAAAA-AAAAA
107658499 ATGGGGGAGT
Statistics
Matches: 498, Mismatches: 48, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
277 78 0.16
278 105 0.21
279 16 0.03
280 88 0.18
281 193 0.39
282 18 0.04
ACGTcount: A:0.47, C:0.08, G:0.20, T:0.26
Consensus pattern (279 bp):
AAATCGATACGAGGAACAGATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
AGCAAAAGAAGATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAAAAAAAGATGTATTTAA
AGAAGAGAAAAGAGAAATTCTAATTAGGGTTGAAAAGAAGTAAAAATCCACATGTAATTAGGAAA
ATGGATTAAATAGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATTACTCATTTTGGTC
GACATTAAAAAAAAAAGAG
Found at i:107658659 original size:14 final size:15
Alignment explanation
Indices: 107658640--107658668 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
107658630 CATAGTTGCT
107658640 GAAAAAT-AAAAGAG
1 GAAAAATGAAAAGAG
107658654 GAAAAATGAAAAGAG
1 GAAAAATGAAAAGAG
107658669 TAGGTCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (15 bp):
GAAAAATGAAAAGAG
Found at i:107666289 original size:172 final size:172
Alignment explanation
Indices: 107665997--107666341 Score: 460
Period size: 172 Copynumber: 2.0 Consensus size: 172
107665987 AATCACGAAA
* * * * * *
107665997 TCTTGTCCATTTAAGGTGACTGCTAAAACTTGTGAACTTTAAGGTGGCTGCGGATCGAGGGTTGT
1 TCTTGTCCATTTAAGGTGACTGCTAAAACTCGTGAAATTTAAGGTGCCTGCGAAACAAGGGTTGT
* * * * **
107666062 TACAAATGTGGTATAACACATTTGAATCCAGCAACCGAGTCGGATTTGGGGTGTTACACAATATT
66 TACAAATGTGGTATAACACATTCGAATCAAACAACCGAGTCAGATTTAAGGTGTTACACAATATT
*
107666127 TCCCATTTTTTT-TCTTTTAACATTATAATACAAGTTTTAAGC
131 TCCC-TTTTTTTCCCTTTTAACATTATAATACAAGTTTTAAGC
* **
107666169 TCTTGTCCATTTAAGTTGGTTGCTAAAACTCGTGAAATTTAAGGTGCCTGCGAAACAAGGGTTGT
1 TCTTGTCCATTTAAGGTGACTGCTAAAACTCGTGAAATTTAAGGTGCCTGCGAAACAAGGGTTGT
* * * * *
107666234 TACAAATGTGGTATCACATATTCCG-ATCAAACAATCGGGTTAGATTTAAGGTGTTACACAATAT
66 TACAAATGTGGTATAACACATT-CGAATCAAACAACCGAGTCAGATTTAAGGTGTTACACAATAT
*
107666298 TTCCCTTTTTTTCCCTTTTAACATTGTAATACAAGTTTTAAGC
130 TTCCCTTTTTTTCCCTTTTAACATTATAATACAAGTTTTAAGC
107666341 T
1 T
107666342 TAAAAAAAAT
Statistics
Matches: 149, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
171 7 0.05
172 141 0.95
173 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (172 bp):
TCTTGTCCATTTAAGGTGACTGCTAAAACTCGTGAAATTTAAGGTGCCTGCGAAACAAGGGTTGT
TACAAATGTGGTATAACACATTCGAATCAAACAACCGAGTCAGATTTAAGGTGTTACACAATATT
TCCCTTTTTTTCCCTTTTAACATTATAATACAAGTTTTAAGC
Found at i:107670139 original size:43 final size:42
Alignment explanation
Indices: 107670039--107670161 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
107670029 AGCATTGTAT
* * * *
107670039 TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTTA
1 TGTGA-TACGTGTAAGACCATATCTGGGATATTGGCATCGATA
* * *
107670082 TATGAGTTCGTGTAAGACCATTTCTGGGATATTGGCATCGATA
1 TGTGA-TACGTGTAAGACCATATCTGGGATATTGGCATCGATA
* *
107670125 TGTGATAACATGTAAGACCATATCTGAGATA-TGGCAT
1 TGTGAT-ACGTGTAAGACCATATCTGGGATATTGGCAT
107670162 TGTATGAGCT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
42 7 0.10
43 60 0.90
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTGATACGTGTAAGACCATATCTGGGATATTGGCATCGATA
Found at i:107677582 original size:43 final size:44
Alignment explanation
Indices: 107677528--107677681 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 44
107677518 CCGAGAAGTA
* *
107677528 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGTG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGTG
* * *
107677571 ATTATGTGTAAGACCATGTCTAGGACATTGGCATCGT-TATATG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGTG
* *
107677614 AGTT-CGTGTAAGACCATGTTTGGGATATTGGCATCG-ATATGTG
1 A-TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGTG
* * *
107677657 ATAACATGTAAGACCATATCTGGGA
1 ATTACGTGTAAGACCATGTCTGGGA
107677682 TATGGCCTTG
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.02
43 89 0.96
44 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (44 bp):
ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGTG
Found at i:107679246 original size:30 final size:31
Alignment explanation
Indices: 107679206--107679265 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 31
107679196 AAATAGTGTG
107679206 AATGATATTAAAGTATTAATTATACTAATTA
1 AATGATATTAAAGTATTAATTATACTAATTA
107679237 AATGA-ATTAAAGTATTAATTATACTAATT
1 AATGATATTAAAGTATTAATTATACTAATT
107679266 CATGTTTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (31 bp):
AATGATATTAAAGTATTAATTATACTAATTA
Found at i:107690275 original size:5 final size:4
Alignment explanation
Indices: 107690232--107690271 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
107690222 TTCTCTTTTC
107690232 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTTTA TTTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA TTT
107690272 TATTAAGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.09
4 22 0.65
5 9 0.26
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:107703942 original size:27 final size:27
Alignment explanation
Indices: 107703911--107703975 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
107703901 AGAAACAACC
*
107703911 ATAAAAATAAAAAATATAGT-TCAA-AAT
1 ATAAAAATAAAAAATA-AGTCT-AAGAAA
107703938 ATAAAAA-AACAAAATAAGTCTAAGAAA
1 ATAAAAATAA-AAAATAAGTCTAAGAAA
107703965 ATAAAAATAAA
1 ATAAAAATAAA
107703976 CATAAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 7 0.21
27 24 0.73
28 2 0.06
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.20
Consensus pattern (27 bp):
ATAAAAATAAAAAATAAGTCTAAGAAA
Found at i:107703971 original size:6 final size:6
Alignment explanation
Indices: 107703962--107704005 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
107703952 TAAGTCTAAG
*
107703962 AAAATA AAAATA AACAT- AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
107704006 CAAATGGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:107703984 original size:17 final size:18
Alignment explanation
Indices: 107703962--107704005 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
107703952 TAAGTCTAAG
*
107703962 AAAATAAAAATAAACAT-
1 AAAATAAAAATAAAAATA
107703979 AAAATAAAAATAAAAATA
1 AAAATAAAAATAAAAATA
107703997 AAAATAAAA
1 AAAATAAAA
107704006 CAAATGGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAATAAAAATAAAAATA
Found at i:107703992 original size:23 final size:23
Alignment explanation
Indices: 107703962--107704005 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
107703952 TAAGTCTAAG
*
107703962 AAAATAAAAATAAACATAAAATA
1 AAAATAAAAATAAAAATAAAATA
107703985 AAAATAAAAATAAAAATAAAA
1 AAAATAAAAATAAAAATAAAA
107704006 CAAATGGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (23 bp):
AAAATAAAAATAAAAATAAAATA
Found at i:107705719 original size:8 final size:8
Alignment explanation
Indices: 107705706--107705733 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
107705696 AAAATAAACG
107705706 ATAATCAA
1 ATAATCAA
107705714 ATAATCAA
1 ATAATCAA
107705722 ATAATCAA
1 ATAATCAA
107705730 ATAA
1 ATAA
107705734 ATAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (8 bp):
ATAATCAA
Found at i:107720655 original size:12 final size:11
Alignment explanation
Indices: 107720631--107720665 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
107720621 TTTCAACAAG
107720631 TTTTCC-TTCA
1 TTTTCCTTTCA
107720641 TTTTCCTTGTCA
1 TTTTCCTT-TCA
107720653 TTTTCCTTTCA
1 TTTTCCTTTCA
107720664 TT
1 TT
107720666 GTCTGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 6 0.26
12 11 0.48
ACGTcount: A:0.09, C:0.26, G:0.03, T:0.63
Consensus pattern (11 bp):
TTTTCCTTTCA
Found at i:107723749 original size:5 final size:5
Alignment explanation
Indices: 107723739--107723767 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
107723729 CTCAGAGACA
107723739 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
107723768 CCAAAACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:107728525 original size:20 final size:21
Alignment explanation
Indices: 107728500--107728541 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
107728490 AAGTTCTAGA
*
107728500 GCAAAATTG-CCTTTGATGTC
1 GCAAAATCGACCTTTGATGTC
*
107728520 GCAAAATCGACCTTTGTTGTC
1 GCAAAATCGACCTTTGATGTC
107728541 G
1 G
107728542 TGACATCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (21 bp):
GCAAAATCGACCTTTGATGTC
Found at i:107729226 original size:42 final size:42
Alignment explanation
Indices: 107729179--107729262 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
107729169 GAAGACCTTA
*
107729179 ACCTCGAACCGATCTGGACTGTGAAGTCAGAAGATATGTAAT
1 ACCTCGAACCGATCTGGACTGTGAAGTCAGAAGATAAGTAAT
* * * *
107729221 ACCTCGGACCGATTTGGACTGTGAGGTCGGAAGATAAGTAAT
1 ACCTCGAACCGATCTGGACTGTGAAGTCAGAAGATAAGTAAT
107729263 TCTTGCTGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (42 bp):
ACCTCGAACCGATCTGGACTGTGAAGTCAGAAGATAAGTAAT
Found at i:107739994 original size:20 final size:21
Alignment explanation
Indices: 107739953--107739995 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
107739943 AAAAAATTAA
*
107739953 ATATTATAAAATAATTAAATT
1 ATATTATAAAATAATGAAATT
107739974 ATATTA-AAAAT-ATGAACATT
1 ATATTATAAAATAATGAA-ATT
107739994 AT
1 AT
107739996 GAATTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATTATAAAATAATGAAATT
Found at i:107747772 original size:21 final size:21
Alignment explanation
Indices: 107747743--107747785 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
107747733 TGATAAACTT
107747743 TAATATATA-ATTATATTATTA
1 TAATATATATATTA-ATTATTA
* *
107747764 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTATTA
107747785 T
1 T
107747786 CAACTTAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TAATATATATATTAATTATTA
Found at i:107753504 original size:22 final size:22
Alignment explanation
Indices: 107753471--107753540 Score: 115
Period size: 22 Copynumber: 3.2 Consensus size: 22
107753461 TAACATGTGT
107753471 CACATATA-TCATGAGCTCAGAC
1 CACATA-ACTCATGAGCTCAGAC
107753493 CACATAACTCATGAGCTCAGAC
1 CACATAACTCATGAGCTCAGAC
*
107753515 CACATAACTCATGAGCTCAGAT
1 CACATAACTCATGAGCTCAGAC
107753537 CACA
1 CACA
107753541 CAGTCCTTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 1 0.02
22 45 0.98
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.20
Consensus pattern (22 bp):
CACATAACTCATGAGCTCAGAC
Found at i:107757143 original size:79 final size:82
Alignment explanation
Indices: 107757034--107757216 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 82
107757024 CTCCTCGTTC
* *
107757034 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
107757097 ATTTAGTAAC-TCGCACA
65 ATATAGTAACTTAGCACA
* * **
107757114 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGTACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
107757177 TATGGTCACTTAGCACA
66 TATAGTAACTTAGCACA
107757194 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
107757217 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.61
80 32 0.36
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCACA
Found at i:107757216 original size:40 final size:40
Alignment explanation
Indices: 107757034--107757216 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
107757024 CTCCTCGTTC
* *
107757034 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
107757074 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
107757114 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGTACA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
* * * *
107757153 AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCACA
107757194 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
107757217 CATCATTCAA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 78 0.64
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:107784728 original size:30 final size:30
Alignment explanation
Indices: 107784694--107784803 Score: 139
Period size: 30 Copynumber: 3.6 Consensus size: 30
107784684 AACGACCATT
* *
107784694 GAACTATGAAAAGGGATGGCTTTGACTGTC
1 GAACTATGAAAAGGGATGGCTTTGGCTATC
*
107784724 GAACTATGAAAATGGATGGCTTTGGCTATC
1 GAACTATGAAAAGGGATGGCTTTGGCTATC
* * *
107784754 GAACTATGACAAAAGGATAGCTTCGGCTATC
1 GAACTATGA-AAAGGGATGGCTTTGGCTATC
* *
107784785 AAATTATGAAAAGGGATGG
1 GAACTATGAAAAGGGATGG
107784804 TGACAACCAT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
30 44 0.64
31 25 0.36
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (30 bp):
GAACTATGAAAAGGGATGGCTTTGGCTATC
Found at i:107784817 original size:30 final size:30
Alignment explanation
Indices: 107784782--107784857 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
107784772 AGCTTCGGCT
107784782 ATCAAATTATGAAAAGGGATGGTGACA-ACC
1 ATCAAATTATGAAAAGGGATGGTGA-AGACC
** * *
107784812 ATCAAACAATAAAAAGGGATGGTGAAGGCC
1 ATCAAATTATGAAAAGGGATGGTGAAGACC
*
107784842 ATCAATTTATGAAAAG
1 ATCAAATTATGAAAAG
107784858 CGATAGTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGATGGTGAAGACC
Found at i:107794757 original size:29 final size:28
Alignment explanation
Indices: 107794695--107794760 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
107794685 AATTTTACCC
* * *
107794695 TGTTTTCACACGACCGTGTTTCCGTTCG
1 TGTTTTCACACGACCGTATTGCCGGTCG
*
107794723 TGGTTTTCACACGGCCGTATTGCACGGTCG
1 T-GTTTTCACACGACCGTATTGC-CGGTCG
107794753 TGTTTTCA
1 TGTTTTCA
107794761 TCTGTGGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 1 0.03
29 25 0.78
30 6 0.19
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (28 bp):
TGTTTTCACACGACCGTATTGCCGGTCG
Found at i:107796014 original size:30 final size:28
Alignment explanation
Indices: 107795978--107796038 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 28
107795968 CAATAAACGG
107795978 TAAGTTAATATGTAATTTTTTTTAAGAGAT
1 TAAGTTAATATGTAA-TTTTTTTAAGAG-T
107796008 TAAGTTAATATGTAATTTTTTTAAGAGT
1 TAAGTTAATATGTAATTTTTTTAAGAGT
107796036 TAA
1 TAA
107796039 AGGAATTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 4 0.13
29 12 0.39
30 15 0.48
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (28 bp):
TAAGTTAATATGTAATTTTTTTAAGAGT
Found at i:107811745 original size:47 final size:48
Alignment explanation
Indices: 107811676--107811850 Score: 162
Period size: 49 Copynumber: 3.6 Consensus size: 48
107811666 TGATGCCTAT
* * * *
107811676 GCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAAGTC-GAC
1 GCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAATCAAGGCTAAC
* *
107811723 GCCATGTCTCAGACATGGTCTTACACTGACTATCGAAATCGAGGCTAAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATC-AAATCAAGGCTAAC
* * * *
107811772 GCCATGTCCCAGACATGGTCTTACACT-AGCTTTCACATATC-TGTGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTATCA-A-ATCAAG-GCTAAC
*
107811822 GCCATGTCCCAGACATTG-CTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
107811851 ACCCCTATAC
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
46 3 0.03
47 29 0.27
48 8 0.07
49 43 0.40
50 25 0.23
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCAAGGCTAAC
Found at i:107811977 original size:46 final size:48
Alignment explanation
Indices: 107811674--107812082 Score: 278
Period size: 47 Copynumber: 8.7 Consensus size: 48
107811664 TATGATGCCT
* *
107811674 ATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATCAAGTC-G
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACAT--ATCGAGGCTG
* * * * *
107811721 ACGCCATGTCTCAGACATGGTCTTACACTGAC-TATCGAAATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATATCGAGGCTG
* * *
107811770 ACGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCTG-TGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC-TT-ACATATC-GAGGCTG
* * *** * * *
107811820 ATGCCATGTCCCAGACATTG-CTTACACTGACACCCCTATACG-TGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAT-CGAGGCTG
* * * *
107811867 ATGCCATGTCCCAGACATGGTCTTACTCTGAC--ACATCTCGTA-GCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATCG-AGGCTG
* *
107811913 AT-ACATGTCCCAGTCAT-GTCTTACACTGGCTTACATATCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATCGAGGCTG
* * * * * **
107811959 ATG-CATATCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATATCGAGGCTG
** *
107812005 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAAGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATATCGAGGCTG
*
107812053 ATG-CATGTCTCAGACAT-GTCTTACACTGGC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC
107812083 ACACAAATAA
Statistics
Matches: 289, Mismatches: 54, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
44 11 0.04
45 16 0.06
46 68 0.24
47 85 0.29
48 40 0.14
49 39 0.13
50 26 0.09
51 3 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATCGAGGCTG
Found at i:107812014 original size:138 final size:142
Alignment explanation
Indices: 107811774--107812030 Score: 341
Period size: 138 Copynumber: 1.8 Consensus size: 142
107811764 AGGCTAACGC
* *
107811774 CATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCTGTGCTGATGCCATGTCCCAGACATT
1 CATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCTGGGCTGATGCCATATCCCAGACATT
*
107811839 GCTTACACTGACACCCCTATACGTGCCGATGCCATGTCCCAGACATGGTCTTACTCTGACACATC
66 GCTTACACTGACACCCCTATACGTGCCAATGCCATGTCCCAGACATGGTCTTACTCTGACACATC
107811904 TCGTAGCTAATA
131 TCGTAGCTAATA
* *
107811916 CATGTCCCAGTCAT-GTCTTACACTGGC-TT-ACATATC-GAGGCTGATG-CATATCCCAGACA-
1 CATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCTG-GGCTGATGCCATATCCCAGACAT
* * * *
107811975 TGTCTTACACT-AGCTCTCGTCT-CGATGCCAATGCCATGTCCCAGACATGGTCTTAC
65 TG-CTTACACTGA-CACCCCTATACG-TGCCAATGCCATGTCCCAGACATGGTCTTAC
107812031 ACTGGCTCTC
Statistics
Matches: 102, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
137 5 0.05
138 56 0.55
139 14 0.14
140 2 0.02
141 12 0.12
142 13 0.13
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (142 bp):
CATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCTGGGCTGATGCCATATCCCAGACATT
GCTTACACTGACACCCCTATACGTGCCAATGCCATGTCCCAGACATGGTCTTACTCTGACACATC
TCGTAGCTAATA
Found at i:107815097 original size:40 final size:40
Alignment explanation
Indices: 107815019--107815097 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
107815009 GTACATAATC
* * *
107815019 GAAGATATCTCAAATTGCACACTAATTGCCATATATAGCT
1 GAAGATATCTCAAATTGCACACTAAGTGCCACAAATAGCT
* *
107815059 GAAGCTATCTCAAATTGCACACTAAGTGCTACAAATAGC
1 GAAGATATCTCAAATTGCACACTAAGTGCCACAAATAGC
107815098 CGATTTGTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (40 bp):
GAAGATATCTCAAATTGCACACTAAGTGCCACAAATAGCT
Found at i:107818221 original size:3 final size:3
Alignment explanation
Indices: 107818215--107818280 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
107818205 TCTATTATAT
* *
107818215 TTA TTA TTA TTTA TTA TTA TT- TCA -TA TTA TTA -TA CCTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* *
107818259 TCA TTA TTG TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
107818281 TATTTAGTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
2 6 0.12
3 39 0.78
4 5 0.10
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:107819801 original size:17 final size:17
Alignment explanation
Indices: 107819759--107819801 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
107819749 TAGTTTTCTA
* *
107819759 TTTTATT-TATTTTTGT
1 TTTTATTGTACTTTTAT
107819775 TTTTAGTTGTACTTTTAT
1 TTTTA-TTGTACTTTTAT
107819793 TTTTATTGT
1 TTTTATTGT
107819802 TAGTTGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.22
17 6 0.26
18 12 0.52
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.74
Consensus pattern (17 bp):
TTTTATTGTACTTTTAT
Found at i:107819820 original size:21 final size:23
Alignment explanation
Indices: 107819764--107819817 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
107819754 TTCTATTTTA
* *
107819764 TTTATTTTTGTTTTTAGTTGTACT
1 TTTATTTTTATTGTTAGTTGTA-T
107819788 TTTATTTTTATTGTTAGTTGT-T
1 TTTATTTTTATTGTTAGTTGTAT
107819810 TTTATTTT
1 TTTATTTT
107819818 ATTTGTGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 9 0.32
24 19 0.68
ACGTcount: A:0.13, C:0.02, G:0.11, T:0.74
Consensus pattern (23 bp):
TTTATTTTTATTGTTAGTTGTAT
Found at i:107827808 original size:5 final size:6
Alignment explanation
Indices: 107827783--107827815 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
107827773 CTACCATCTC
*
107827783 TTTCTT TTTCTT TTTATT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
107827816 GCCACAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:107828127 original size:15 final size:15
Alignment explanation
Indices: 107828109--107828137 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
107828099 GACTCCATTT
107828109 TATTAAGATAATTAA
1 TATTAAGATAATTAA
107828124 TATTAAGATAATTA
1 TATTAAGATAATTA
107828138 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (15 bp):
TATTAAGATAATTAA
Found at i:107828181 original size:10 final size:10
Alignment explanation
Indices: 107828162--107828193 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
107828152 TTTTAGGATT
107828162 TTAT-TTTAA
1 TTATCTTTAA
107828171 TTATCTTTAA
1 TTATCTTTAA
107828181 TTATCTTTAA
1 TTATCTTTAA
107828191 TTA
1 TTA
107828194 ATTGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:107831793 original size:10 final size:10
Alignment explanation
Indices: 107831778--107831809 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
107831768 TAAATACATT
107831778 TAATTAAAGA
1 TAATTAAAGA
107831788 TAATTAAAGA
1 TAATTAAAGA
107831798 TAATTAAA-A
1 TAATTAAAGA
107831807 TAA
1 TAA
107831810 AATCCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:107831854 original size:15 final size:15
Alignment explanation
Indices: 107831834--107831863 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
107831824 ATAATCCTAA
*
107831834 TAATTATCTTAATAT
1 TAATTATCCTAATAT
107831849 TAATTATCCTAATAT
1 TAATTATCCTAATAT
107831864 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:107832457 original size:6 final size:6
Alignment explanation
Indices: 107832435--107832473 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
107832425 TTTACATATG
*
107832435 TTTTCT CTTTT-T TTTTCT TTTTCT TTTACT TTTTCT TTT
1 TTTTCT -TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
107832474 ATTTTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 4 0.14
6 21 0.72
7 4 0.14
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:107832474 original size:12 final size:12
Alignment explanation
Indices: 107832441--107832478 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
107832431 TATGTTTTCT
107832441 CTTTTT-TTTT-
1 CTTTTTCTTTTA
107832451 CTTTTTCTTTTA
1 CTTTTTCTTTTA
107832463 CTTTTTCTTTTA
1 CTTTTTCTTTTA
107832475 -TTTT
1 CTTTT
107832479 ATTTATGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 6 0.23
11 8 0.31
12 12 0.46
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (12 bp):
CTTTTTCTTTTA
Found at i:107833414 original size:8 final size:8
Alignment explanation
Indices: 107833403--107833461 Score: 56
Period size: 8 Copynumber: 8.0 Consensus size: 8
107833393 ATTAATATCT
107833403 TAAAATAA
1 TAAAATAA
107833411 T-AAATAA
1 TAAAATAA
107833418 TAAAATAA
1 TAAAATAA
*
107833426 TAAGATAA
1 TAAAATAA
*
107833434 -AATA-AA
1 TAAAATAA
107833440 TAAAAT-A
1 TAAAATAA
107833447 -AAAATAA
1 TAAAATAA
*
107833454 AAAAATAA
1 TAAAATAA
107833462 AAATTGGGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
6 7 0.16
7 15 0.35
8 21 0.49
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (8 bp):
TAAAATAA
Found at i:107833465 original size:14 final size:13
Alignment explanation
Indices: 107833403--107833463 Score: 68
Period size: 15 Copynumber: 4.4 Consensus size: 13
107833393 ATTAATATCT
107833403 TAAAATAATAAATAA
1 TAAAATAA-AAA-AA
* *
107833418 TAAAATAATAAGA
1 TAAAATAAAAAAA
107833431 TAAAATAAATAAAA
1 TAAAATAAA-AAAA
107833445 TAAAAATAAAAAAA
1 T-AAAATAAAAAAA
107833459 TAAAA
1 TAAAA
107833464 ATTGGGTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
13 13 0.32
14 11 0.28
15 16 0.40
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (13 bp):
TAAAATAAAAAAA
Found at i:107837190 original size:20 final size:20
Alignment explanation
Indices: 107837152--107837199 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
107837142 TAAATTCTAA
* **
107837152 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
107837172 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
107837192 AAA-ATAAA
1 AAAGATAAA
107837200 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:107837243 original size:15 final size:15
Alignment explanation
Indices: 107837223--107837252 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
107837213 ATAATCATAA
*
107837223 TAATTATCTTAATAT
1 TAATTATCCTAATAT
107837238 TAATTATCCTAATAT
1 TAATTATCCTAATAT
107837253 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:107841801 original size:13 final size:13
Alignment explanation
Indices: 107841783--107841807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107841773 AAGCTGATGA
107841783 CATGCGTGCATGG
1 CATGCGTGCATGG
107841796 CATGCGTGCATG
1 CATGCGTGCATG
107841808 AACGAATTTG
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (13 bp):
CATGCGTGCATGG
Done.