Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 21 of 207
Found at i:6263137 original size:26 final size:27
Alignment explanation
Indices: 6263108--6263162 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
6263098 TATTTTATTA
*
6263108 TTTTAT-AAAAATAAAATTTAATACTT
1 TTTTATAAAAAATAAAATTCAATACTT
6263134 TTTTATACAAAAATAAAATTCAATACTT
1 TTTTATA-AAAAATAAAATTCAATACTT
6263162 T
1 T
6263163 GTTTTTGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 6 0.23
28 20 0.77
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (27 bp):
TTTTATAAAAAATAAAATTCAATACTT
Found at i:6265185 original size:4 final size:4
Alignment explanation
Indices: 6265176--6265238 Score: 126
Period size: 4 Copynumber: 15.8 Consensus size: 4
6265166 TACTCCTCAG
6265176 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6265224 GTAT GTAT GTAT GTA
1 GTAT GTAT GTAT GTA
6265239 CAATAATCTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:6270352 original size:41 final size:43
Alignment explanation
Indices: 6270267--6270359 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
6270257 AAATGTTTTC
6270267 CATTTTTTAATCCAAGATTGTGACTTTATCCGGAATTGATAAA
1 CATTTTTTAATCCAAGATTGTGACTTTATCCGGAATTGATAAA
*
6270310 CATTTTTTAATCCAAGATTGTGAC-TT-TCCGGCATTGATAAA
1 CATTTTTTAATCCAAGATTGTGACTTTATCCGGAATTGATAAA
6270351 CATATTTTT
1 CAT-TTTTT
6270360 CTTTCTATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
41 17 0.35
42 7 0.15
43 24 0.50
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (43 bp):
CATTTTTTAATCCAAGATTGTGACTTTATCCGGAATTGATAAA
Found at i:6274886 original size:26 final size:26
Alignment explanation
Indices: 6274850--6274902 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
6274840 AAAGCAGTTC
6274850 AGTGGGTTTTAAGATACTTACAAGGT
1 AGTGGGTTTTAAGATACTTACAAGGT
*
6274876 AGTGGGTTTTAAGATACTTACGAGGT
1 AGTGGGTTTTAAGATACTTACAAGGT
6274902 A
1 A
6274903 CTACCGATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (26 bp):
AGTGGGTTTTAAGATACTTACAAGGT
Found at i:6281295 original size:22 final size:25
Alignment explanation
Indices: 6281255--6281299 Score: 69
Period size: 22 Copynumber: 1.9 Consensus size: 25
6281245 TTGTACGTTT
6281255 TTTTCTTTTTTCAGAATTTTAAGGA
1 TTTTCTTTTTTCAGAATTTTAAGGA
6281280 TTTT-TTTTTT-AG-ATTTTAAG
1 TTTTCTTTTTTCAGAATTTTAAG
6281300 AATCTACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 2 0.10
24 6 0.30
25 4 0.20
ACGTcount: A:0.22, C:0.04, G:0.11, T:0.62
Consensus pattern (25 bp):
TTTTCTTTTTTCAGAATTTTAAGGA
Found at i:6281917 original size:21 final size:21
Alignment explanation
Indices: 6281869--6281917 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6281859 TAAACTAAAT
* **
6281869 TATTAATCACCCAATTATGATT
1 TATT-ATCACCCAATAATGAAA
*
6281891 TTTTATCACCCAATAATGAAA
1 TATTATCACCCAATAATGAAA
6281912 TATTAT
1 TATTAT
6281918 AAAATGATCG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (21 bp):
TATTATCACCCAATAATGAAA
Found at i:6283163 original size:20 final size:20
Alignment explanation
Indices: 6283135--6283197 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 20
6283125 TTTTAATCTT
6283135 TTTTA-AATTGATTTTTACA
1 TTTTATAATTGATTTTTACA
* *
6283154 TTTTATAATTAATTTTTAAATA
1 TTTTATAATTGATTTTT--ACA
6283176 TTTTCATAA--GATTTTTACA
1 TTTT-ATAATTGATTTTTACA
6283195 TTT
1 TTT
6283198 CTCAAGTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
19 10 0.28
20 10 0.28
21 6 0.17
22 6 0.17
23 4 0.11
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTATAATTGATTTTTACA
Found at i:6291345 original size:19 final size:19
Alignment explanation
Indices: 6291323--6291370 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
6291313 ATTACAAAAT
*
6291323 AATTTAAAATAATTT-TCAA
1 AATTTAAAAT-ATTTATAAA
*
6291342 AATTCAAAATATTTATAAA
1 AATTTAAAATATTTATAAA
6291361 AATTTTAAAA
1 AA-TTTAAAA
6291371 GTAAAGTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 14 0.58
20 6 0.25
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTAAAATATTTATAAA
Found at i:6293380 original size:24 final size:23
Alignment explanation
Indices: 6293348--6293392 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
6293338 TTAATCTCGG
6293348 TTTTTTTATTTTTAAGAATTTAGT
1 TTTTTTTATTTTTAA-AATTTAGT
6293372 TTTTTTTATTTTTAAAATTTA
1 TTTTTTTATTTTTAAAATTTA
6293393 AAAATTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (23 bp):
TTTTTTTATTTTTAAAATTTAGT
Found at i:6300836 original size:24 final size:24
Alignment explanation
Indices: 6300771--6300836 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
6300761 CAAAAATACG
* * *
6300771 TCCCGTTATTAGCTCTCGTGAGCT
1 TCCCGTTAATAGCTCTTGCGAGCT
* * *
6300795 TTCCGTTATATGGTTCTTGCGAGCT
1 TCCCGTTA-ATAGCTCTTGCGAGCT
6300820 TCCCGTTAATAGCTCTT
1 TCCCGTTAATAGCTCTT
6300837 CGGAGCATCC
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.41
Consensus pattern (24 bp):
TCCCGTTAATAGCTCTTGCGAGCT
Found at i:6300842 original size:24 final size:25
Alignment explanation
Indices: 6300771--6300848 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 25
6300761 CAAAAATACG
* *
6300771 TCCCGTTATTAGCTC-TCGTGAGCT
1 TCCCGTTAATAGCTCTTCGCGAGCT
* * *
6300795 TTCCGTTATATGGTTCTT-GCGAGCT
1 TCCCGTTA-ATAGCTCTTCGCGAGCT
*
6300820 TCCCGTTAATAGCTCTTCG-GAGCA
1 TCCCGTTAATAGCTCTTCGCGAGCT
6300844 TCCCG
1 TCCCG
6300849 ATTGGTTGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
24 23 0.55
25 18 0.43
26 1 0.02
ACGTcount: A:0.14, C:0.28, G:0.22, T:0.36
Consensus pattern (25 bp):
TCCCGTTAATAGCTCTTCGCGAGCT
Found at i:6301051 original size:24 final size:24
Alignment explanation
Indices: 6301022--6301103 Score: 105
Period size: 24 Copynumber: 3.4 Consensus size: 24
6301012 TGGCTCATAT
6301022 GAGCTTCCCATTAATGGCTCTCTAG
1 GAGCTTCCCATTAATGGCTCTCT-G
6301047 G-GCTTCCCATTAATGGCTCTCTG
1 GAGCTTCCCATTAATGGCTCTCTG
* *
6301070 GAGCTTCCCGTTACATGGCTCACAT-
1 GAGCTTCCCATTA-ATGGCTCTC-TG
6301095 GAGCTTCCC
1 GAGCTTCCC
6301104 GTTATGTGCT
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.04
24 31 0.60
25 18 0.35
26 1 0.02
ACGTcount: A:0.17, C:0.32, G:0.21, T:0.30
Consensus pattern (24 bp):
GAGCTTCCCATTAATGGCTCTCTG
Found at i:6301107 original size:25 final size:24
Alignment explanation
Indices: 6301012--6301103 Score: 98
Period size: 24 Copynumber: 3.8 Consensus size: 24
6301002 TTCTTGATAT
6301012 TGGCTCA-TATGAGCTTCCCATTAA
1 TGGCTCACTA-GAGCTTCCCATTAA
* *
6301036 TGGCTCTCTAGGGCTTCCCATTAA
1 TGGCTCACTAGAGCTTCCCATTAA
* * *
6301060 TGGCTCTCTGGAGCTTCCCGTTACA
1 TGGCTCACTAGAGCTTCCCATTA-A
6301085 TGGCTCAC-ATGAGCTTCCC
1 TGGCTCACTA-GAGCTTCCC
6301104 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
24 39 0.67
25 19 0.33
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.32
Consensus pattern (24 bp):
TGGCTCACTAGAGCTTCCCATTAA
Found at i:6302563 original size:27 final size:27
Alignment explanation
Indices: 6302513--6302583 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
6302503 TGAAATGCTT
* *
6302513 CGAAGAGCCACAATCACCATGTTGCAC
1 CGAAGTGCCACAATCACCAAGTTGCAC
* **
6302540 TGAAGTGCCACAATCATTAAGTTGCAC
1 CGAAGTGCCACAATCACCAAGTTGCAC
* *
6302567 CAAAGTGCCACTATCAC
1 CGAAGTGCCACAATCAC
6302584 TGATTTGCAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.20
Consensus pattern (27 bp):
CGAAGTGCCACAATCACCAAGTTGCAC
Found at i:6302599 original size:27 final size:27
Alignment explanation
Indices: 6302497--6302600 Score: 77
Period size: 27 Copynumber: 3.9 Consensus size: 27
6302487 CGAAGCGCAG
** * *
6302497 AATCACTGAAATGCTTCGAAGAGCCAC
1 AATCACTGATTTGCATCGAAGTGCCAC
*
6302524 AATCAC-CATGTTGCA-CTGAAGTGCCAC
1 AATCACTGAT-TTGCATC-GAAGTGCCAC
* * * * *
6302551 AATCATTAAGTTGCACCAAAGTGCCAC
1 AATCACTGATTTGCATCGAAGTGCCAC
*
6302578 TATCACTGATTTGCATCGAAGTG
1 AATCACTGATTTGCATCGAAGTG
6302601 TTACTGTCGC
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
26 2 0.03
27 54 0.93
28 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (27 bp):
AATCACTGATTTGCATCGAAGTGCCAC
Found at i:6317170 original size:14 final size:14
Alignment explanation
Indices: 6317151--6317184 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
6317141 ATTCATCGAA
6317151 AGCGCGTCCACGTC
1 AGCGCGTCCACGTC
6317165 AGCGCGTCCACGTC
1 AGCGCGTCCACGTC
6317179 AGCGCG
1 AGCGCG
6317185 ATGTTAGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.15, C:0.41, G:0.32, T:0.12
Consensus pattern (14 bp):
AGCGCGTCCACGTC
Found at i:6317428 original size:10 final size:10
Alignment explanation
Indices: 6317413--6317455 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
6317403 CAACTAAATC
6317413 ATTTCTCTCA
1 ATTTCTCTCA
6317423 ATTTCTCTCA
1 ATTTCTCTCA
*
6317433 AATTCTTCTCAA
1 ATTTC-TCTC-A
*
6317445 ATTCCTCTCA
1 ATTTCTCTCA
6317455 A
1 A
6317456 ATTTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 16 0.57
11 8 0.29
12 4 0.14
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:6317442 original size:11 final size:10
Alignment explanation
Indices: 6317415--6317458 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 10
6317405 ACTAAATCAT
*
6317415 TTCTCTCAAT
1 TTCTCTCAAA
6317425 TTCTCTCAAA
1 TTCTCTCAAA
6317435 TTCTTCTCAAA
1 TTC-TCTCAAA
6317446 TTCCTCTCAAA
1 TT-CTCTCAAA
6317457 TT
1 TT
6317459 TTTATTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
10 12 0.39
11 18 0.58
12 1 0.03
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:6319315 original size:18 final size:18
Alignment explanation
Indices: 6319292--6319328 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6319282 GCCAGGTGCA
* *
6319292 TATCCTAGCCCTTTTATG
1 TATCCTAACCCTTATATG
6319310 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
6319328 T
1 T
6319329 TTCCATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:6319555 original size:21 final size:21
Alignment explanation
Indices: 6319531--6319571 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6319521 ATCCCCTACC
* * *
6319531 GGAGGAACCAGAATCCCCGCT
1 GGAGCAACCACAACCCCCGCT
6319552 GGAGCAACCACAACCCCCGC
1 GGAGCAACCACAACCCCCGC
6319572 CAGAAGCTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.41, G:0.24, T:0.05
Consensus pattern (21 bp):
GGAGCAACCACAACCCCCGCT
Found at i:6322597 original size:125 final size:125
Alignment explanation
Indices: 6322278--6322693 Score: 661
Period size: 126 Copynumber: 3.3 Consensus size: 125
6322268 CCAAACATAC
*
6322278 GCTACTGTAGCAAAAGCGCGTTCACGTGAGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGAGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCTT
* * * **
6322343 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTATTCGAAATTATTTGTTCAAAA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTT-TTTAGGA
* *
6322404 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGAGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCTT
* * *
6322469 GCTTAAAGCATTTTTTACACTATTTGCTGAGAAACGTCTACTCAAAATTATTTTTTAGGA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTAGGA
* *
6322529 GCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGAGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCTT
* *
6322594 GCTTAAAGCATTTTTGACACTATTTGCTCAAAAACGTCTACTCGGAATTATTTTTTCAGGA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT-AGGA
* *
6322655 GCTACTGTAGTAAAAGTGCGTCCACGTGAGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGAGAGCTTCTTT
6322694 AAATTAACAA
Statistics
Matches: 267, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
125 118 0.44
126 149 0.56
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (125 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGAGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCTT
GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTAGGA
Found at i:6322907 original size:96 final size:96
Alignment explanation
Indices: 6322726--6323002 Score: 335
Period size: 96 Copynumber: 2.9 Consensus size: 96
6322716 AGTAACCCTA
* *
6322726 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCCTAAACACTAAACCCTAATCAAAT
1 AACCCTAAACCCTAATTTATTTGA-TTTTTACTTAAAAAACCTAAACACTAAACCCTAATCAAAT
*
6322791 TTTATAAAAAATTATAATTAATTTACTCAAGT
65 TTTATAAAAAATTATAATTAAATTACTCAAGT
* * * * * **
6322823 AACCCTGAACCCTAATTTATTTGATTTTTCCTTAAAAAACCTTAACTCTAAACCCTTATCTGATT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAAACCTAAACACTAAACCCTAATCAAATT
* *
6322888 TT-TAAATAATTTTTAATTAAATTACTCAAGT
66 TTATAAA-AAATTATAATTAAATTACTCAAGT
* * * * *
6322919 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAAACAATAAACACGAAA-CCTAATCCAAT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAAAC-CTAAACACTAAACCCTAATCAAAT
* *
6322983 TTT-GAAAAATTTATAATTAA
65 TTTATAAAAAATTATAATTAA
6323003 TTTAATTGAC
Statistics
Matches: 154, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
95 16 0.10
96 108 0.70
97 30 0.19
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAAACCTAAACACTAAACCCTAATCAAATT
TTATAAAAAATTATAATTAAATTACTCAAGT
Found at i:6325540 original size:106 final size:106
Alignment explanation
Indices: 6325355--6325568 Score: 365
Period size: 106 Copynumber: 2.0 Consensus size: 106
6325345 TGATTAAATC
6325355 AAAACACTTCCATGGATTTAACATATACATATACAAACATGAATAATATACAAATATTACATTCT
1 AAAACACTTCCATGGATTTAACATATACATATACAAACATGAATAATATACAAATATTACATTCT
*
6325420 ACCCATACTCTTTTTTCCTCTCTAATGTGCACAAATTCTAA
66 AACCATACTCTTTTTTCCTCTCTAATGTGCACAAATTCTAA
* * * *
6325461 AAAACACTTTCATGGATTTAGCATATACATATACAAACGTGAATAATATATAAATATTACATTCT
1 AAAACACTTCCATGGATTTAACATATACATATACAAACATGAATAATATACAAATATTACATTCT
* *
6325526 AACCGTACTCTTTTTTCCTCTCTAATGTGCACAAGTTCTAA
66 AACCATACTCTTTTTTCCTCTCTAATGTGCACAAATTCTAA
6325567 AA
1 AA
6325569 GTTCTTTAAT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 101 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.35
Consensus pattern (106 bp):
AAAACACTTCCATGGATTTAACATATACATATACAAACATGAATAATATACAAATATTACATTCT
AACCATACTCTTTTTTCCTCTCTAATGTGCACAAATTCTAA
Found at i:6328361 original size:30 final size:30
Alignment explanation
Indices: 6328325--6328382 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
6328315 TGTAGTCAGG
6328325 CCGTGTGTCTCACACGACCAAGAGACACGT
1 CCGTGTGTCTCACACGACCAAGAGACACGT
*
6328355 CCGTGTGTCTCACACGGCCAAGAGACAC
1 CCGTGTGTCTCACACGACCAAGAGACAC
6328383 CCTCGTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.34, G:0.24, T:0.16
Consensus pattern (30 bp):
CCGTGTGTCTCACACGACCAAGAGACACGT
Found at i:6328394 original size:30 final size:30
Alignment explanation
Indices: 6328325--6328398 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
6328315 TGTAGTCAGG
* *
6328325 CCGTGTGTCTCACACGACCAAGAGACACGT
1 CCGTATGTCTCACACGACCAAGAGACACCT
* *
6328355 CCGTGTGTCTCACACGGCCAAGAGACACC-
1 CCGTATGTCTCACACGACCAAGAGACACCT
6328384 CTCGTATGTCTCACA
1 C-CGTATGTCTCACA
6328399 TAGCCGTGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 1 0.03
30 39 0.98
ACGTcount: A:0.24, C:0.35, G:0.22, T:0.19
Consensus pattern (30 bp):
CCGTATGTCTCACACGACCAAGAGACACCT
Found at i:6329628 original size:25 final size:25
Alignment explanation
Indices: 6329598--6329702 Score: 97
Period size: 25 Copynumber: 4.3 Consensus size: 25
6329588 CTCTTAAGCA
6329598 ATATAACGGGAAGCTCATGTGAGCC
1 ATATAACGGGAAGCTCATGTGAGCC
* * * *
6329623 ATATAACGGGAAGCTTATCTGGGCT
1 ATATAACGGGAAGCTCATGTGAGCC
* **
6329648 GTATAACGGGAAGCTCATAAGAGCC
1 ATATAACGGGAAGCTCATGTGAGCC
* * * *
6329673 ATAT-TCAGGAAGCTCAAGCGAGCC
1 ATATAACGGGAAGCTCATGTGAGCC
6329697 A-ATAAC
1 ATATAAC
6329703 AGGTAGCTTT
Statistics
Matches: 62, Mismatches: 17, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
23 2 0.03
24 17 0.27
25 43 0.69
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
ATATAACGGGAAGCTCATGTGAGCC
Found at i:6329819 original size:26 final size:25
Alignment explanation
Indices: 6329790--6329843 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
6329780 AGCTCCGAAA
6329790 AGCCATTAATCAGGAAGCTCATGAAG
1 AGCCATTAATCAGGAAGCTCAT-AAG
* * *
6329816 AGCCTTTAATCGGGACGCTCATAAG
1 AGCCATTAATCAGGAAGCTCATAAG
6329841 AGC
1 AGC
6329844 TGCGATGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (25 bp):
AGCCATTAATCAGGAAGCTCATAAG
Found at i:6338475 original size:64 final size:64
Alignment explanation
Indices: 6338373--6338492 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 64
6338363 GCCTATATCG
* * * ** * *
6338373 GGACGCTCATAAAGAGCTGCGGTATGTCTGCAATACATGCAGGATCAATACCGATCATATAACA
1 GGACGCTCAAAAAGAGCTGCAGTATATCCACAACACATGCAGAATCAATACCGATCATATAACA
* *
6338437 GGACGCTCAAAAAGAGCTGCAGTATATCCACAACACATGCATAATCAATATCGATC
1 GGACGCTCAAAAAGAGCTGCAGTATATCCACAACACATGCAGAATCAATACCGATC
6338493 GGGATACTCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 47 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (64 bp):
GGACGCTCAAAAAGAGCTGCAGTATATCCACAACACATGCAGAATCAATACCGATCATATAACA
Found at i:6340062 original size:27 final size:27
Alignment explanation
Indices: 6340023--6340084 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
6340013 ACCCAATCAT
* *
6340023 AAAAATTACAAATAATTTAATAATTAA
1 AAAAAATAAAAATAATTTAATAATTAA
6340050 AAAAAATAAAAATAATTTAATAATTAA
1 AAAAAATAAAAATAATTTAATAATTAA
*
6340077 AAATAATA
1 AAAAAATA
6340085 TATAAATAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (27 bp):
AAAAAATAAAAATAATTTAATAATTAA
Found at i:6340232 original size:56 final size:56
Alignment explanation
Indices: 6340146--6340257 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
6340136 TTGGAGACAA
6340146 GAAATGGATACAAATGGAGAATATTAAAGACTTATATTTCAATTATGTGTTAATTT
1 GAAATGGATACAAATGGAGAATATTAAAGACTTATATTTCAATTATGTGTTAATTT
6340202 GAAATGGATACAAATGGAGAATATTAAAGACTTATATTTCAATTATGTGTTAATTT
1 GAAATGGATACAAATGGAGAATATTAAAGACTTATATTTCAATTATGTGTTAATTT
6340258 CAAGACTTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (56 bp):
GAAATGGATACAAATGGAGAATATTAAAGACTTATATTTCAATTATGTGTTAATTT
Found at i:6340284 original size:17 final size:17
Alignment explanation
Indices: 6340264--6340324 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
6340254 ATTTCAAGAC
6340264 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
6340281 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
6340300 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
6340318 TTATGTA
1 TTATGTA
6340325 GTGATTCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 16 0.48
18 4 0.12
19 4 0.12
20 9 0.27
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:6340300 original size:37 final size:37
Alignment explanation
Indices: 6340259--6340333 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
6340249 TGTTAATTTC
6340259 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
6340296 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
6340333 A
1 A
6340334 TTTGGATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.45
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:6340352 original size:9 final size:9
Alignment explanation
Indices: 6340340--6340380 Score: 66
Period size: 9 Copynumber: 4.6 Consensus size: 9
6340330 TCAATTTGGA
6340340 TAATTCGGT
1 TAATTCGGT
6340349 TAATTCAGG-
1 TAATTC-GGT
6340358 TAATTCGGT
1 TAATTCGGT
6340367 TAATTCGGT
1 TAATTCGGT
6340376 TAATT
1 TAATT
6340381 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.07
9 26 0.87
10 2 0.07
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:6341512 original size:24 final size:22
Alignment explanation
Indices: 6341463--6341505 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6341453 AATAAGAACA
* **
6341463 ATATTTTAATTTTAGGATATAT
1 ATATATTAATTTTAAAATATAT
6341485 ATATATTAATTTTAAAATATA
1 ATATATTAATTTTAAAATATA
6341506 ATTATATGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
ATATATTAATTTTAAAATATAT
Found at i:6344926 original size:3 final size:3
Alignment explanation
Indices: 6344794--6344913 Score: 96
Period size: 3 Copynumber: 40.0 Consensus size: 3
6344784 TCAGCAACAA
* * * * *
6344794 CAG CAG CAG CAA CAA CAA CAA CAG CAG CAA CAG CAG CAG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * * * * * * *
6344842 CAG CAG CAA CAA CAG CAG CAG CAG CAA CAA CAA CAA CAA CAG CAA CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * *
6344890 CAA CAA CAG CAG CCG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG
6344914 TCTCCCCAGC
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 103 1.00
ACGTcount: A:0.45, C:0.34, G:0.21, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:6345705 original size:13 final size:14
Alignment explanation
Indices: 6345672--6345718 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
6345662 GGTAGGTTTG
6345672 TTTGATCTCTTTCA
1 TTTGATCTCTTTCA
6345686 TTTGATCTC-TT-A
1 TTTGATCTCTTTCA
6345698 TATTGATCTCTTTCA
1 T-TTGATCTCTTTCA
6345713 TTTGAT
1 TTTGAT
6345719 GCTTCTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.07
13 10 0.33
14 16 0.53
15 2 0.07
ACGTcount: A:0.17, C:0.17, G:0.09, T:0.57
Consensus pattern (14 bp):
TTTGATCTCTTTCA
Found at i:6346682 original size:6 final size:6
Alignment explanation
Indices: 6346671--6346712 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
6346661 TGGCTCAGTT
* * *
6346671 GCAACA GCAACA GCAGCA ACAGCA GCAACA GCAACA G-AACA G
1 GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA G
6346713 TAGCTCACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.48, C:0.31, G:0.21, T:0.00
Consensus pattern (6 bp):
GCAACA
Found at i:6346689 original size:9 final size:9
Alignment explanation
Indices: 6346675--6346703 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
6346665 TCAGTTGCAA
6346675 CAGCAACAG
1 CAGCAACAG
6346684 CAGCAACAG
1 CAGCAACAG
6346693 CAGCAACAG
1 CAGCAACAG
6346702 CA
1 CA
6346704 ACAGAACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.34, G:0.21, T:0.00
Consensus pattern (9 bp):
CAGCAACAG
Found at i:6346689 original size:15 final size:15
Alignment explanation
Indices: 6346671--6346712 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
6346661 TGGCTCAGTT
6346671 GCAACAGCAACAGCA
1 GCAACAGCAACAGCA
* *
6346686 GCAACAGCAGCAACA
1 GCAACAGCAACAGCA
6346701 GCAACAG-AACAG
1 GCAACAGCAACAG
6346713 TAGCTCACAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.48, C:0.31, G:0.21, T:0.00
Consensus pattern (15 bp):
GCAACAGCAACAGCA
Found at i:6368160 original size:3 final size:3
Alignment explanation
Indices: 6368154--6368267 Score: 73
Period size: 3 Copynumber: 38.0 Consensus size: 3
6368144 TAGATTCGAG
*
6368154 AGA AGA AG- AGA A-A A-A AAA AGAA AGA ACGAA AGA AGGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AG-A AGA A-G-A AGA A-GA AGA AGA AGA
*
6368200 AGA AGA AG- AGA A-A A-A AAA AGAA AGA ACGAA AGA AGGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AG-A AGA A-G-A AGA A-GA AGA AGA AGA
*
6368246 AGA AGA AGA A-A A-A AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA
6368268 GAAAAAAAAA
Statistics
Matches: 94, Mismatches: 4, Indels: 26
0.76 0.03 0.21
Matches are distributed among these distances:
2 16 0.17
3 58 0.62
4 16 0.17
5 4 0.04
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6368185 original size:12 final size:11
Alignment explanation
Indices: 6368154--6368288 Score: 83
Period size: 11 Copynumber: 12.7 Consensus size: 11
6368144 TAGATTCGAG
6368154 AGAAGAAGAGAA
1 AGAAGAA-AGAA
*
6368166 A-AAAAAAGAA
1 AGAAGAAAGAA
6368176 AGAACGAAAGAA
1 AGAA-GAAAGAA
*
6368188 GGAAG-AAG-A
1 AGAAGAAAGAA
6368197 AGAAG-AAGAA
1 AGAAGAAAGAA
*
6368207 GAGAA-AAAAAA
1 -AGAAGAAAGAA
*
6368218 AGAAAGAACGAA
1 AG-AAGAAAGAA
*
6368230 AGAAGGAAG-A
1 AGAAGAAAGAA
6368240 AGAAG-AAG-A
1 AGAAGAAAGAA
6368249 AGAAGAAA-AA
1 AGAAGAAAGAA
6368259 AGAA-AAAGAGA
1 AGAAGAAAGA-A
* *
6368270 AAAAAAAAGAA
1 AGAAGAAAGAA
*
6368281 AAAAGAAA
1 AGAAGAAA
6368289 AATAATAAAG
Statistics
Matches: 100, Mismatches: 11, Indels: 25
0.74 0.08 0.18
Matches are distributed among these distances:
9 20 0.20
10 25 0.25
11 34 0.34
12 21 0.21
ACGTcount: A:0.73, C:0.01, G:0.25, T:0.00
Consensus pattern (11 bp):
AGAAGAAAGAA
Found at i:6368218 original size:46 final size:46
Alignment explanation
Indices: 6368154--6368267 Score: 210
Period size: 46 Copynumber: 2.5 Consensus size: 46
6368144 TAGATTCGAG
6368154 AGAAGAAGAGAAAAAAAAAGAAAGAACGAAAGAAGGAAGAAGAAGA
1 AGAAGAAGAGAAAAAAAAAGAAAGAACGAAAGAAGGAAGAAGAAGA
6368200 AGAAGAAGAGAAAAAAAAAGAAAGAACGAAAGAAGGAAGAAGAAGA
1 AGAAGAAGAGAAAAAAAAAGAAAGAACGAAAGAAGGAAGAAGAAGA
*
6368246 AGAAGAAGAAAAAAGAAAAAGA
1 AGAAGAAGAGAAAA-AAAAAGA
6368268 GAAAAAAAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
46 59 0.89
47 7 0.11
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (46 bp):
AGAAGAAGAGAAAAAAAAAGAAAGAACGAAAGAAGGAAGAAGAAGA
Found at i:6368271 original size:8 final size:7
Alignment explanation
Indices: 6368167--6368290 Score: 58
Period size: 7 Copynumber: 16.7 Consensus size: 7
6368157 AGAAGAGAAA
6368167 AAAAAAG
1 AAAAAAG
*
6368174 AAAGAACG
1 AAA-AAAG
*
6368182 AAAGAAG
1 AAAAAAG
* *
6368189 GAAGAAG
1 AAAAAAG
6368196 AAGAAGAAG
1 AA-AA-AAG
6368205 AAGAGAAA-
1 AA-A-AAAG
6368213 AAAAAAG
1 AAAAAAG
*
6368220 AAAGAACG
1 AAA-AAAG
*
6368228 AAAGAAGG
1 AAA-AAAG
6368236 AAGAAGAAG
1 AA-AA-AAG
6368245 AAGAAGAAG
1 AA-AA-AAG
6368254 AAAAAAG
1 AAAAAAG
6368261 -AAAAAG
1 AAAAAAG
*
6368267 -AGAAA-
1 AAAAAAG
6368272 AAAAAAG
1 AAAAAAG
6368279 AAAAAAG
1 AAAAAAG
6368286 AAAAA
1 AAAAA
6368291 TAATAAAGCA
Statistics
Matches: 96, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
6 17 0.18
7 31 0.32
8 24 0.25
9 23 0.24
10 1 0.01
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:6380204 original size:21 final size:21
Alignment explanation
Indices: 6380178--6380232 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
6380168 TATTATGCCT
*
6380178 AAAAAAA-ACAAAAACAAGAA
1 AAAAAAATAAAAAAACAAGAA
*
6380198 AAAAAAATAAAAAAACAGGAA
1 AAAAAAATAAAAAAACAAGAA
* *
6380219 AAGAAAAGAAAAAA
1 AAAAAAATAAAAAA
6380233 GAAAAATCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (21 bp):
AAAAAAATAAAAAAACAAGAA
Found at i:6381529 original size:74 final size:75
Alignment explanation
Indices: 6381200--6382246 Score: 1251
Period size: 77 Copynumber: 13.9 Consensus size: 75
6381190 TTTTCAAAAA
* * * *
6381200 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTTATGCCGAGGTATTTCTTTTAAAT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AAT
* **
6381265 TTCTG--TTCTTCA
62 TTCTGTCTTTTTTT
* * * *
6381277 AAAATCAACTCATAGTACGAAATGTGAGTTGAGCCTCGGGTCACTCTGAGGTATTTTTAATTTCT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCT
**
6381342 GTCTTTTTAAAA
66 GTCTTTTT--TT
* * *
6381354 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGATCACGCTGAGG------T-ATTTCG
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCT
6381412 GTC-TTTTTT
66 GTCTTTTTTT
** *
6381421 AAAATCAACTCATAATAC-AGAGGTGAGTCAAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCG
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCT
6381485 GTCTTTTTTT
66 GTCTTTTTTT
* *
6381495 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGAGTCACGCTGAGGTATTTTTAATTTAT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCT
6381559 GTCTTTTTTT
66 GTCTTTTTTT
*
6381569 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCG
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCT
6381633 GTCTTTTTTTTT
66 GTC--TTTTTTT
*
6381645 AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTA
1 -AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTC
6381709 TGTCTTTTTTT
65 TGTCTTTTTTT
6381720 AAAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAAT
1 ----AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAAT
*
6381784 TTATGTCTTTTTTTT
62 TTCTGTC-TTTTTTT
* *
6381799 TAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTAT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCT
6381863 GTC-TTTTTT
66 GTCTTTTTTT
* *
6381872 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCT
6381937 GT-TTTTTTT
66 GTCTTTTTTT
*
6381946 CAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTTTTAATTT
1 --AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTT
*
6382011 ATGTC-TTTTTT
64 CTGTCTTTTTTT
6382022 -AAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAAT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AAT
6382086 TTCTGT-TTTTTTT
62 TTCTGTCTTTTTTT
* * * * * *
6382099 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCATC-GGACTATGCTGAGGTATTTCTTT
1 ----AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC-ACGCTGAGGTA--T-TTT
**
6382163 TAAATTTCTG--TTTTTCA
58 T-AATTTCTGTCTTTTTTT
* * * * * *
6382180 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG--TCACGCTGAGGTATTTTTAATTT
6382245 CT
64 CT
6382247 ATTTTTCAAA
Statistics
Matches: 876, Mismatches: 56, Indels: 78
0.87 0.06 0.08
Matches are distributed among these distances:
66 28 0.03
67 18 0.02
69 4 0.00
70 8 0.01
71 1 0.00
72 1 0.00
73 91 0.10
74 195 0.22
75 86 0.10
76 84 0.10
77 205 0.23
78 70 0.08
79 16 0.02
80 2 0.00
81 8 0.01
82 59 0.07
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (75 bp):
AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCT
GTCTTTTTTT
Found at i:6381877 original size:303 final size:302
Alignment explanation
Indices: 6381200--6382245 Score: 1310
Period size: 303 Copynumber: 3.5 Consensus size: 302
6381190 TTTTCAAAAA
* * * *
6381200 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTTATGCCGAGGTATTTCTTTTAAAT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTCTTTTAAAT
* * * * * *
6381265 TTCTGTTCTTCAAAAATCAACTCATAGTACGAAATGTGAGTTGAGCCTCGGGTCACTCTGAGGTA
65 TTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
** * *
6381330 TTTTTAATTTCTGTC-TTTTTAAAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGA
130 TTTTTAATTTC-GTCTTTTTTTTAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
** **
6381394 TCACGCTGAGG------T-ATTTCGGTCTTTTTTAAAATCAACTCATAATACAGAGGTGAGTCAA
194 TCACGCTGAGGTATTTTTAATTTATGTCTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGA
*
6381452 GCCTCGGGTCACGCTGAGGTATTTTTAATTTCGGTC-TTTTTTT
259 GCCTCGGGTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTTT
*
6381495 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGAGTCACGCTGAGGTA-T-TTTT-AATT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTCTTTTAAATT
**
6381556 TATGTCTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGT
66 TATG--TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGT
*
6381620 ATTTTTAATTTCGGTCTTTTTTTTTAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
129 ATTTTTAATTTC-GTCTTTTTTTTAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
6381684 GTCACGCTGAGGTATTTTTAATTTATGTCTTTTTTTAAAAAAAATCAACTCATAATACAGAGGTG
193 GTCACGCTGAGGTATTTTTAATTTATGTC-TTTTTT----AAAATCAACTCATAATACAGAGGTG
*
6381749 AGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTCTTTTTTTT
253 AGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTTT
*
6381799 TAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-T-TTTT-AATT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTCTTTTAAATT
** *
6381860 TATGTCTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGTTGAGGTA
66 TATGT-TTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
* * *
6381925 TTTTTAATTT-TTGTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT
130 TTTTTAATTTCGTCTTTTTTTTAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT
*
6381989 CACACTGAGGTATTTTTAATTTATGTCTTTTTT-AAATCAACTCATAATACGAGAGGTGAGTTGA
195 CACGCTGAGGTATTTTTAATTTATGTCTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGA
*
6382053 GCCTCGGGTCACGCTGAGGTATTTCTTTTAAATTTCTGT-TTTTTTTCAAA
259 GCCTCGGGTCACGCTGAGGTA--T-TTTT-AATTTCTGTCTTTTTTT---T
* * * * * *
6382103 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCATC-GGACTATGCTGAGGTATTTCTTTTAAA
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC-ACGCTGAGGTA-TTCTTTTAAA
* * * * * *
6382167 TTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCCACACGCCGAG
64 TTTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG--TCACGCTGAG
*
6382232 GTATTTTCAATTTC
127 GTATTTTTAATTTC
6382246 TATTTTTCAA
Statistics
Matches: 664, Mismatches: 51, Indels: 56
0.86 0.07 0.07
Matches are distributed among these distances:
290 7 0.01
291 79 0.12
292 46 0.07
294 30 0.05
295 17 0.03
297 18 0.03
298 41 0.06
299 6 0.01
300 1 0.00
301 11 0.02
302 43 0.06
303 135 0.20
304 131 0.20
305 26 0.04
307 1 0.00
308 45 0.07
309 8 0.01
310 19 0.03
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (302 bp):
AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTCTTTTAAATT
TATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTAT
TTTTAATTTCGTCTTTTTTTTAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
ACGCTGAGGTATTTTTAATTTATGTCTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGC
CTCGGGTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTTT
Found at i:6382454 original size:30 final size:28
Alignment explanation
Indices: 6382420--6382565 Score: 148
Period size: 30 Copynumber: 5.0 Consensus size: 28
6382410 CAAAAATAAA
*
6382420 AAATTACATTTTGACCCCTAAATTTTCCTA
1 AAATTACATTTTGACCCCTAAATTTT--TG
* * *
6382450 AAATTATATTTTAAGCCCTAAACTTTTTG
1 AAATTACATTTTGACCCCTAAA-TTTTTG
* *
6382479 AAATTACATTTTGACCCATTAACTTTTTG
1 AAATTACATTTTGACCC-CTAAATTTTTG
6382508 AAATTACATTTTGACCCCTAAATTTTCTTG
1 AAATTACATTTTGACCCCTAAA-TTT-TTG
** * *
6382538 AAATTATGTTTTGACCCCAAAAGTTTTG
1 AAATTACATTTTGACCCCTAAATTTTTG
6382566 CTGCGTTTGC
Statistics
Matches: 97, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
28 6 0.06
29 43 0.44
30 44 0.45
31 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (28 bp):
AAATTACATTTTGACCCCTAAATTTTTG
Found at i:6382486 original size:59 final size:58
Alignment explanation
Indices: 6382420--6382564 Score: 157
Period size: 59 Copynumber: 2.5 Consensus size: 58
6382410 CAAAAATAAA
* *
6382420 AAATTACATTTTGACCCCTAAATTTTCCTAAAATTATATTTTAAGCCCTAAACTTT-TTG
1 AAATTACATTTTGACCCCTAAATTTT--TAAAATTACATTTTAACCCCTAAACTTTCTTG
* * * * *
6382479 AAATTACATTTTGACCCATTAACTTTTTGAAATTACATTTTGACCCCTAAATTTTCTTG
1 AAATTACATTTTGACCC-CTAAATTTTTAAAATTACATTTTAACCCCTAAACTTTCTTG
** * *
6382538 AAATTATGTTTTGACCCCAAAAGTTTT
1 AAATTACATTTTGACCCCTAAATTTTT
6382565 GCTGCGTTTG
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
58 29 0.41
59 35 0.49
60 7 0.10
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (58 bp):
AAATTACATTTTGACCCCTAAATTTTTAAAATTACATTTTAACCCCTAAACTTTCTTG
Found at i:6382492 original size:13 final size:13
Alignment explanation
Indices: 6382474--6382521 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
6382464 GCCCTAAACT
6382474 TTTTGAAATTACA
1 TTTTGAAATTACA
* *
6382487 TTTTGACCCATTAACT
1 TTTTGA--AATT-ACA
6382503 TTTTGAAATTACA
1 TTTTGAAATTACA
6382516 TTTTGA
1 TTTTGA
6382522 CCCCTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 14 0.50
14 3 0.11
15 3 0.11
16 8 0.29
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTTGAAATTACA
Found at i:6382502 original size:29 final size:28
Alignment explanation
Indices: 6382420--6382554 Score: 137
Period size: 29 Copynumber: 4.6 Consensus size: 28
6382410 CAAAAATAAA
*
6382420 AAATTACATTTTGACCCCTAAA-TTTTCCTA
1 AAATTACATTTTGA-CCCTAAACTTTT--TG
* *
6382450 AAATTATATTTTAAGCCCTAAACTTTTTG
1 AAATTACATTTTGA-CCCTAAACTTTTTG
*
6382479 AAATTACATTTTGACCCATTAACTTTTTG
1 AAATTACATTTTGACCC-TAAACTTTTTG
*
6382508 AAATTACATTTTGACCCCTAAATTTTCTTG
1 AAATTACATTTTGA-CCCTAAACTTT-TTG
**
6382538 AAATTATGTTTTGACCC
1 AAATTACATTTTGACCC
6382555 CAAAAGTTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.03
29 46 0.51
30 37 0.41
31 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.43
Consensus pattern (28 bp):
AAATTACATTTTGACCCTAAACTTTTTG
Found at i:6382931 original size:15 final size:13
Alignment explanation
Indices: 6382895--6383001 Score: 76
Period size: 13 Copynumber: 7.9 Consensus size: 13
6382885 GATCCGAGAG
6382895 AAGAAGAGAAAAAA
1 AAGAA-AGAAAAAA
6382909 AAGAAAGAAAGAAA
1 AAGAAAGAAA-AAA
* * *
6382923 GAAGGAAGAAGAAG
1 -AAGAAAGAAAAAA
*
6382937 AAG-AATAAAAAA
1 AAGAAAGAAAAAA
6382949 AAGAAAGAAAAAGA
1 AAGAAAGAAAAA-A
6382963 GAA-AAAGAGAAAAA
1 -AAGAAAGA-AAAAA
*
6382977 AAAAAAGAAAAAGA
1 AAGAAAGAAAAA-A
*
6382991 AA-AAGGAAAAA
1 AAGAAAGAAAAA
6383002 TAAAAATAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
12 9 0.12
13 29 0.38
14 25 0.32
15 14 0.18
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (13 bp):
AAGAAAGAAAAAA
Found at i:6382952 original size:36 final size:32
Alignment explanation
Indices: 6382891--6382995 Score: 129
Period size: 36 Copynumber: 3.1 Consensus size: 32
6382881 GCTAGATCCG
6382891 AGAGAAGAAGAGAAAAAAAAGAAAGAAAGAAAGA
1 AGAGAAGAAGAGAAAAAAAA-AAAGAAAGAAA-A
*
6382925 AGGAAGAAGAAGAAGAATAAAAAAAAGAAAGAAAA
1 A-G-AGAAGAAG-AGAAAAAAAAAAAGAAAGAAAA
*
6382960 AGAGAAAAAGAGAAAAAAAAAAAGAAAAAGAAAA
1 AGAGAAGAAGAGAAAAAAAAAAAG--AAAGAAAA
6382994 AG
1 AG
6382996 GAAAAATAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
32 13 0.21
33 7 0.11
34 12 0.19
35 3 0.05
36 19 0.30
37 9 0.14
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (32 bp):
AGAGAAGAAGAGAAAAAAAAAAAGAAAGAAAA
Found at i:6382973 original size:20 final size:20
Alignment explanation
Indices: 6382904--6383001 Score: 76
Period size: 20 Copynumber: 4.8 Consensus size: 20
6382894 GAAGAAGAGA
* *
6382904 AAAAAAAGAAAGAAAGAAAG
1 AAAAAGAGAAAGAAAAAAAG
* *
6382924 AAGGAAGA-AGAAGAAGAATAA-
1 AA-AAAGAGA-AAGAA-AAAAAG
*
6382945 AAAAA-AGAAAGAAAAAGAG
1 AAAAAGAGAAAGAAAAAAAG
*
6382964 AAAAAGAGAAAAAAAAAAAG
1 AAAAAGAGAAAGAAAAAAAG
*
6382984 AAAAAGAAAAAGGAAAAA
1 AAAAAGAGAAA-GAAAAA
6383002 TAAAAATAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.05
19 11 0.18
20 28 0.47
21 15 0.25
22 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (20 bp):
AAAAAGAGAAAGAAAAAAAG
Found at i:6383010 original size:6 final size:6
Alignment explanation
Indices: 6382893--6383007 Score: 65
Period size: 6 Copynumber: 18.2 Consensus size: 6
6382883 TAGATCCGAG
* * * *
6382893 AGAAGA AGAGAA A-AAAA AGAAAGAA AGAAAGA AGGAAGA AGAAGA AGAATAA
1 AGAAAA AGAAAA AGAAAA AG-AA-AA AGAAA-A A-GAAAA AGAAAA AGAA-AA
* *
6382945 A-AAAA AGAAAGA A-AAAG AGAAAAA GAGAAAA AAAAAA AGAAAA AGAAAA
1 AGAAAA AGAAA-A AGAAAA AG-AAAA -AGAAAA AGAAAA AGAAAA AGAAAA
*
6382994 AGGAAAA ATAAAA A
1 A-GAAAA AGAAAA A
6383008 TAATAAAATA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
5 8 0.09
6 45 0.52
7 25 0.29
8 9 0.10
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:6383300 original size:21 final size:22
Alignment explanation
Indices: 6383274--6383321 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
6383264 GTCCAGCAAA
* *
6383274 AAAAAAAAAG-AGAAAGAAAGG
1 AAAAAAAAAGAAAAAAAAAAGG
6383295 AAAAAAAAAGAAAAAAAAAAGG
1 AAAAAAAAAGAAAAAAAAAAGG
6383317 AAAAA
1 AAAAA
6383322 GGGTTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAGAAAAAAAAAAGG
Found at i:6383301 original size:22 final size:23
Alignment explanation
Indices: 6383273--6383321 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
6383263 AGTCCAGCAA
* *
6383273 AAAAAAAAAAG-AGAAAGAAAGG
1 AAAAAAAAAAGAAAAAAAAAAGG
6383295 -AAAAAAAAAGAAAAAAAAAAGG
1 AAAAAAAAAAGAAAAAAAAAAGG
6383317 AAAAA
1 AAAAA
6383322 GGGTTCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 10 0.43
22 9 0.39
23 4 0.17
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAGAAAAAAAAAAGG
Found at i:6383309 original size:11 final size:11
Alignment explanation
Indices: 6383273--6383321 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
6383263 AGTCCAGCAA
6383273 AAAAAAAAAAG
1 AAAAAAAAAAG
* *
6383284 -AGAAAGAAAG
1 AAAAAAAAAAG
*
6383294 GAAAAAAAAAG
1 AAAAAAAAAAG
6383305 AAAAAAAAAAG
1 AAAAAAAAAAG
*
6383316 GAAAAA
1 AAAAAA
6383322 GGGTTCAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
10 8 0.26
11 23 0.74
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:6383321 original size:10 final size:10
Alignment explanation
Indices: 6383274--6383313 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
6383264 GTCCAGCAAA
6383274 AAAAAAAAAG
1 AAAAAAAAAG
* *
6383284 AGAAAGAAAGG
1 A-AAAAAAAAG
6383295 AAAAAAAAAG
1 AAAAAAAAAG
6383305 AAAAAAAAA
1 AAAAAAAAA
6383314 AGGAAAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:6383836 original size:22 final size:22
Alignment explanation
Indices: 6383810--6383853 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6383800 ATCGGGTTTC
*
6383810 AAAAATTT-TCGTCTTTTCAAAA
1 AAAAATTTCTCGT-GTTTCAAAA
6383832 AAAAATTTCTCGTGTTTCAAAA
1 AAAAATTTCTCGTGTTTCAAAA
6383854 TTTTCGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (22 bp):
AAAAATTTCTCGTGTTTCAAAA
Found at i:6383876 original size:31 final size:32
Alignment explanation
Indices: 6383841--6383903 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
6383831 AAAAAATTTC
*
6383841 TCGTGTTTC-AAAATT-TTCGTTTTTTTTAAAA
1 TCGTGTTTCTAAAATTCTT-GTATTTTTTAAAA
6383872 TCGTGTTTCTAAAATTCTTGTATTTTTTAAAA
1 TCGTGTTTCTAAAATTCTTGTATTTTTTAAAA
6383904 AAAATTCGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 9 0.31
32 18 0.62
33 2 0.07
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.54
Consensus pattern (32 bp):
TCGTGTTTCTAAAATTCTTGTATTTTTTAAAA
Found at i:6388658 original size:11 final size:13
Alignment explanation
Indices: 6388642--6388675 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
6388632 AATTTTGTGG
6388642 AAAAATTTCG-T-
1 AAAAATTTCGTTC
6388653 AAAAATTTCGTTC
1 AAAAATTTCGTTC
6388666 AAAAATTTCG
1 AAAAATTTCG
6388676 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:6389809 original size:33 final size:33
Alignment explanation
Indices: 6389740--6390050 Score: 186
Period size: 33 Copynumber: 8.7 Consensus size: 33
6389730 ATATAAAGGG
*
6389740 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
6389767 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
** *
6389800 GGTTGCTAAGTGCTGATTCCACCGTATTTAAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A---ATCAT-T---GGT
*
6389842 GGTTGCTAAGTGCTGATTCCCCGAATCATTAGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
6389875 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--AT-CAT-T---GGT
6389917 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
6389950 GGTTTCTAAGTGTTGATTCCACC-ATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGA-ATC-----AT-TG---GT
*
6389993 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
6390026 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
6390051 TAACGGTTGA
Statistics
Matches: 224, Mismatches: 23, Indels: 67
0.71 0.07 0.21
Matches are distributed among these distances:
27 22 0.10
31 2 0.01
32 2 0.01
33 82 0.37
34 15 0.07
35 2 0.01
36 4 0.02
37 7 0.03
38 6 0.03
39 4 0.02
40 4 0.02
41 6 0.03
42 48 0.21
43 20 0.09
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:6389854 original size:75 final size:75
Alignment explanation
Indices: 6389765--6390049 Score: 480
Period size: 75 Copynumber: 3.8 Consensus size: 75
6389755 ATTCCCCCAA
*
6389765 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTA
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
6389830 AAATGTGAAG
66 AAATGTGAAG
*
6389840 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
6389905 AAATGTGAAG
66 AAATGTGAAG
* * *
6389915 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTTCTAAGTGTTGATTCCACCATATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT-TT
* *
6389980 TGAATGTGAAA
65 TAAATGTGAAG
* *
6389991 GGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
6390050 ATAACGGTTG
Statistics
Matches: 196, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
75 131 0.67
76 65 0.33
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (75 bp):
GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
AAATGTGAAG
Found at i:6389859 original size:42 final size:42
Alignment explanation
Indices: 6389800--6389936 Score: 175
Period size: 42 Copynumber: 3.5 Consensus size: 42
6389790 AATCATTGGT
6389800 GGTTGCTAAGTGCTGATTCCACCGTATTTAAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTAAAATGTGAAGGG
** *
6389842 GGTTGCTAAGTGCTGATTCC-CCG-A---ATCAT-T--A-GT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTAAAATGTGAAGGG
*
6389875 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTAAAATGTGAAGGG
6389917 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
6389937 CCGAATCATT
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 21 0.27
34 4 0.05
35 1 0.01
36 1 0.01
37 3 0.04
38 2 0.03
39 1 0.01
40 1 0.01
41 4 0.05
42 41 0.52
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTAAAATGTGAAGGG
Found at i:6393221 original size:363 final size:363
Alignment explanation
Indices: 6392556--6393264 Score: 1168
Period size: 363 Copynumber: 2.0 Consensus size: 363
6392546 TCACATATAT
** * * *
6392556 GCATATTTTACCAAATATGTTATCTAGATCCATTTATCCATGTACTTATCATCATTTGACCATTT
1 GCATATTTTACCAAATATCCTATCTAGATCCATTCATCCATGTACTTACCATCACTTGACCATTT
* *
6392621 CAAACACACATCAAGTATATTAAGACTATTTACACATCAAAACGTACCAAACATAGCCCTTTAAA
66 CAAACACACATCAAGTATATTAAAACTATTTACACATCAAAACATACCAAACATAGCCCTTTAAA
* * *
6392686 TGGCTATTTACAGCCAAAATATGTATATGTCATCAATGACCAAGTTAACCTATACATGCCATTAT
131 TGGCTATTTACAACCAAAAAATGTATATGCCATCAATGACCAAGTTAACCTATACATGCCATTAT
* * *
6392751 AACCAAAATTAGTTTCATGCTTGTACCGAAAATGGGTCGGTGGATAGTGTGAGTGATCTCTACCA
196 AACCAAAATTAGTTTCATACTTGTACCAAAAATGGGCCGGTGGATAGTGTGAGTGATCTCTACCA
*
6392816 AGCTTCCAACCCGATGAGCCTCCGAGAATTATAAAACAGAGGAAATACAACTGAATAAACACTTA
261 AGCTTCCAACCCAATGAGCCTCCGAGAATTATAAAACAGAGGAAATACAACTGAATAAACACTTA
* **
6392881 GTGCTTAGTAAGTTCGTATAAAACAGAGGATCAAGATA
326 GTACTTAGTAAGCCCGTATAAAACAGAGGATCAAGATA
*
6392919 GCATATTTTACCAAATATCCTATCTTGATCCATTCATCCATGTACTTACCATCACTTGACCATTT
1 GCATATTTTACCAAATATCCTATCTAGATCCATTCATCCATGTACTTACCATCACTTGACCATTT
6392984 CAAACACACATCAAGTATATTAAAACTATTTACACATCAAAACATACCAAACATAGCCCTTTAAA
66 CAAACACACATCAAGTATATTAAAACTATTTACACATCAAAACATACCAAACATAGCCCTTTAAA
* *
6393049 TGGCTATTTACAACCAAAAAATGTATATGCCATCAATGGCTAAGTTAACCTATACATGCCATTAT
131 TGGCTATTTACAACCAAAAAATGTATATGCCATCAATGACCAAGTTAACCTATACATGCCATTAT
* * * *
6393114 AACCAAAATTAGTTTCATATTTGTATCAAAAATGGGCCGGTGGATCGTGTGAGTGATCT-TCGCC
196 AACCAAAATTAGTTTCATACTTGTACCAAAAATGGGCCGGTGGATAGTGTGAGTGATCTCT-ACC
* *
6393178 AAGCTTCCAACCCAATGAGCCTCCGAGAATTATAAAACAGAGGACATACAACTGAATAAGCACTT
260 AAGCTTCCAACCCAATGAGCCTCCGAGAATTATAAAACAGAGGAAATACAACTGAATAAACACTT
6393243 AGTACTTAGTAAGCCCGTATAA
325 AGTACTTAGTAAGCCCGTATAA
6393265 TGGAAAATTT
Statistics
Matches: 319, Mismatches: 26, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
362 1 0.00
363 318 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (363 bp):
GCATATTTTACCAAATATCCTATCTAGATCCATTCATCCATGTACTTACCATCACTTGACCATTT
CAAACACACATCAAGTATATTAAAACTATTTACACATCAAAACATACCAAACATAGCCCTTTAAA
TGGCTATTTACAACCAAAAAATGTATATGCCATCAATGACCAAGTTAACCTATACATGCCATTAT
AACCAAAATTAGTTTCATACTTGTACCAAAAATGGGCCGGTGGATAGTGTGAGTGATCTCTACCA
AGCTTCCAACCCAATGAGCCTCCGAGAATTATAAAACAGAGGAAATACAACTGAATAAACACTTA
GTACTTAGTAAGCCCGTATAAAACAGAGGATCAAGATA
Found at i:6393748 original size:24 final size:24
Alignment explanation
Indices: 6393728--6393802 Score: 107
Period size: 24 Copynumber: 3.1 Consensus size: 24
6393718 TGCGAGCATA
6393728 TAACGGGTAGCTCTGAAGAGCACT
1 TAACGGGTAGCTCTGAAGAGCACT
* *
6393752 TAACGAGTAGCTCCG-AGTAGCACT
1 TAACGGGTAGCTCTGAAG-AGCACT
*
6393776 TAACGGGTAACTCTGAAGAGCACT
1 TAACGGGTAGCTCTGAAGAGCACT
6393800 TAA
1 TAA
6393803 TTAGGAAGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
23 2 0.05
24 40 0.91
25 2 0.05
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.21
Consensus pattern (24 bp):
TAACGGGTAGCTCTGAAGAGCACT
Found at i:6393889 original size:26 final size:25
Alignment explanation
Indices: 6393848--6393896 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
6393838 CAAGCAAGCA
*
6393848 ATAACGGGAAGCTCACAAAGAGCCT
1 ATAACGGAAAGCTCACAAAGAGCCT
6393873 ATAATCGGAAAGCTCACAAAGAGC
1 ATAA-CGGAAAGCTCACAAAGAGC
6393897 AATATATGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (25 bp):
ATAACGGAAAGCTCACAAAGAGCCT
Found at i:6396441 original size:11 final size:11
Alignment explanation
Indices: 6396427--6396451 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6396417 GTTCACTTGC
6396427 TTGAAACTCAT
1 TTGAAACTCAT
6396438 TTGAAACTCAT
1 TTGAAACTCAT
6396449 TTG
1 TTG
6396452 CACACTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (11 bp):
TTGAAACTCAT
Found at i:6398549 original size:32 final size:30
Alignment explanation
Indices: 6398501--6398577 Score: 88
Period size: 32 Copynumber: 2.6 Consensus size: 30
6398491 AGTTATTCAT
6398501 AAAATTAAT-T-AT-ATAAAAAATATTTTA
1 AAAATTAATATAATGATAAAAAATATTTTA
* **
6398528 AAAACTTAAATATGATGATAAATTATATTTTA
1 AAAA-TT-AATATAATGATAAAAAATATTTTA
6398560 AAAATTAATATAATGATA
1 AAAATTAATATAATGATA
6398578 CATGATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 4 0.10
28 2 0.05
29 3 0.07
30 12 0.29
31 4 0.10
32 17 0.40
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (30 bp):
AAAATTAATATAATGATAAAAAATATTTTA
Found at i:6398576 original size:30 final size:30
Alignment explanation
Indices: 6398520--6398600 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 30
6398510 TATATAAAAA
* *
6398520 ATATTTTAAAAACTTAAATATGATGATAAATT
1 ATATTTTAAAAA-TT-AATATAATGATAAATG
*
6398552 ATATTTTAAAAATTAATATAATGATACATG
1 ATATTTTAAAAATTAATATAATGATAAATG
6398582 ATA-TTTAAATAATCTAATA
1 ATATTTTAAA-AAT-TAATA
6398601 AATTAGTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 6 0.14
30 19 0.43
31 7 0.16
32 12 0.27
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.41
Consensus pattern (30 bp):
ATATTTTAAAAATTAATATAATGATAAATG
Found at i:6398611 original size:31 final size:31
Alignment explanation
Indices: 6398556--6398631 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
6398546 TAAATTATAT
*
6398556 TTTAAA-AAT-TAATATAATGATACATGATA
1 TTTAAATAATCTAATATAATGATACATGAAA
* *
6398585 TTTAAATAATCTAATA-AATTAGTACATTAAA
1 TTTAAATAATCTAATATAATGA-TACATGAAA
*
6398616 TATAAATTAATCTAAT
1 TTTAAA-TAATCTAAT
6398632 TTTTTATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 6 0.15
30 7 0.18
31 17 0.44
32 9 0.23
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.39
Consensus pattern (31 bp):
TTTAAATAATCTAATATAATGATACATGAAA
Found at i:6400834 original size:31 final size:31
Alignment explanation
Indices: 6400799--6400877 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
6400789 TTAATATACT
*
6400799 ATTTGGTATCTTAATTTGG-TTTCAAAGTTCA
1 ATTTGGTATCTAAATTTGGATTT-AAAGTTCA
*
6400830 ATTTGGTATCTAAATTTGGATTTAAGGTTCA
1 ATTTGGTATCTAAATTTGGATTTAAAGTTCA
* *
6400861 CTTTGGTACCTAAATTT
1 ATTTGGTATCTAAATTT
6400878 TTTTAATTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 40 0.93
32 3 0.07
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (31 bp):
ATTTGGTATCTAAATTTGGATTTAAAGTTCA
Found at i:6406472 original size:6 final size:6
Alignment explanation
Indices: 6406463--6406497 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
6406453 TTTTTTCTTT
*
6406463 TAAAAA TAAAAA TAAGAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
6406498 CCTTGGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:6411957 original size:105 final size:105
Alignment explanation
Indices: 6411772--6411965 Score: 262
Period size: 105 Copynumber: 1.8 Consensus size: 105
6411762 GATACGAGGT
* * *
6411772 TCCCGATTGACTGTGATCCTGCATGTGTTGCGGACACACCATAGCTCTTACGAGCGTCCCGATAT
1 TCCCGATTGACTGTGATCCTGCATATGTTGCGGACACACCACAACTCTTACGAGCGTCCCGATAT
* * *
6411837 TTGGCTCTCATGAGCTTCCTGTTAATAGCTCTTCGAAGCA
66 ATGGCTCTCAGGAGCTTCCCGTTAATAGCTCTTCGAAGCA
** * * * * *
6411877 TCCCGATTGGTTGTGATCTTGCATATGTTGTGGACACACCACAACTCTTATGAGTGTCTCGATAT
1 TCCCGATTGACTGTGATCCTGCATATGTTGCGGACACACCACAACTCTTACGAGCGTCCCGATAT
*
6411942 ATGGCTCTCCGGAGCTTCCCGTTA
66 ATGGCTCTCAGGAGCTTCCCGTTA
6411966 TATGGTTTTT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
105 75 1.00
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (105 bp):
TCCCGATTGACTGTGATCCTGCATATGTTGCGGACACACCACAACTCTTACGAGCGTCCCGATAT
ATGGCTCTCAGGAGCTTCCCGTTAATAGCTCTTCGAAGCA
Found at i:6411967 original size:25 final size:25
Alignment explanation
Indices: 6411939--6412121 Score: 112
Period size: 25 Copynumber: 7.4 Consensus size: 25
6411929 AGTGTCTCGA
*
6411939 TATATGGCTCTCCGGAGCTTCCCGT
1 TATATGGCTCTCCAGAGCTTCCCGT
* ** * *
6411964 TATATGG-TTTTTACGAGCTTCTCGA
1 TATATGGCTCTCCA-GAGCTTCCCGT
* * * *
6411989 TA-ACTAGCTCT-TATGAGTTTCCTGAT
1 TATA-TGGCTCTCCA-GAGCTTCCCG-T
*
6412015 TA-ATGGCTCTCCAGAGCTTCCCGA
1 TATATGGCTCTCCAGAGCTTCCCGT
*
6412039 TAT-TGGCTCGT--ATGAGCTTCCTGT
1 TATATGGCTC-TCCA-GAGCTTCCCGT
*
6412063 TA-ATGGCTCTCCAGAGCTTCCTGT
1 TATATGGCTCTCCAGAGCTTCCCGT
* * *
6412087 TACATGGCTCACAAGAGCTTCCCGT
1 TATATGGCTCTCCAGAGCTTCCCGT
6412112 TATATGGCTC
1 TATATGGCTC
6412122 GAAAGAACTT
Statistics
Matches: 122, Mismatches: 24, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
23 2 0.02
24 41 0.34
25 73 0.60
26 6 0.05
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (25 bp):
TATATGGCTCTCCAGAGCTTCCCGT
Found at i:6412069 original size:24 final size:24
Alignment explanation
Indices: 6411995--6412154 Score: 87
Period size: 25 Copynumber: 6.5 Consensus size: 24
6411985 TCGATAACTA
* *
6411995 GCTCTTATGAGTTTCCTGATTAATG
1 GCTCGTATGAGCTTCCTG-TTAATG
* * *
6412020 GCTC-TCCA-GAGCTTCCCGATATTG
1 GCTCGT--ATGAGCTTCCTGTTAATG
6412044 GCTCGTATGAGCTTCCTGTTAATG
1 GCTCGTATGAGCTTCCTGTTAATG
6412068 GCTC-TCCA-GAGCTTCCTGTTACATG
1 GCTCGT--ATGAGCTTCCTGTTA-ATG
** * *
6412093 GCTCACAAGAGCTTCCCGTTATATG
1 GCTCGTATGAGCTTCCTGTTA-ATG
* * * *
6412118 GCTCGAAAGAACTTTCC-GTTTATG
1 GCTCGTATGAGC-TTCCTGTTAATG
6412142 TGCTCGTATGAGC
1 -GCTCGTATGAGC
6412155 ATTGCCGAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
23 2 0.02
24 43 0.40
25 57 0.53
26 5 0.05
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (24 bp):
GCTCGTATGAGCTTCCTGTTAATG
Found at i:6412127 original size:25 final size:25
Alignment explanation
Indices: 6412027--6412147 Score: 97
Period size: 25 Copynumber: 4.9 Consensus size: 25
6412017 ATGGCTCTCC
* *
6412027 AGAGCTTCCCGATAT-TGGCTCGTA
1 AGAGCTTCCCGTTATATGGCTCGAA
* * ***
6412051 TGAGCTTCCTGTTA-ATGGCTCTCC
1 AGAGCTTCCCGTTATATGGCTCGAA
* *
6412075 AGAGCTTCCTGTTACATGGCTC-ACA
1 AGAGCTTCCCGTTATATGGCTCGA-A
6412100 AGAGCTTCCCGTTATATGGCTCGAA
1 AGAGCTTCCCGTTATATGGCTCGAA
* *
6412125 AGAACTTTCCGTT-TATGTGCTCG
1 AGAGCTTCCCGTTATATG-GCTCG
6412148 TATGAGCATT
Statistics
Matches: 79, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
24 34 0.43
25 44 0.56
26 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (25 bp):
AGAGCTTCCCGTTATATGGCTCGAA
Found at i:6417272 original size:6 final size:6
Alignment explanation
Indices: 6417261--6417286 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6417251 CTATCCCTCA
6417261 CCTCTC CCTCTC CCTCTC CCTCTC CC
1 CCTCTC CCTCTC CCTCTC CCTCTC CC
6417287 ATTCTCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCTCTC
Found at i:6421597 original size:103 final size:102
Alignment explanation
Indices: 6421420--6421774 Score: 525
Period size: 103 Copynumber: 3.5 Consensus size: 102
6421410 AACCGTTGTT
* * * ** *
6421420 GGTGGATTCCGCACTTAGC-ACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGG
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGGG
* * *
6421484 AATCAGCACTTAGCAACCCCCTTCACATTTCAGATGC
66 AATCAGCACTTAGCAACCCCCTTCACATTTAAAATAC
** *
6421521 GGTGGAATCAGCACTTAGCAACCACCAAATGGGTCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 GGTGGAATCAGCACTTAGCAACCACC-AATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
6421586 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAC
65 GAATCAGCACTTAGCAACCCCC-TTCACATTTAAAATAC
* *
6421625 GGTGGAATCAACACTTAGCAACCACCAAT-AGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 GGTGGAATCAGCACTTAGCAACCACCAATGA-ATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
6421689 GAATCAGCACTTAGCAACCCCCTTCCACATTTAAAATAC
65 GAATCAGCACTTAGCAACCCCCTT-CACATTTAAAATAC
*
6421728 GGTGGAATCAGCACTTAGCAACCATCAATGAATAGGGGAATCAGCAC
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCAC
6421775 ACAACAACCC
Statistics
Matches: 232, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
101 17 0.07
102 8 0.03
103 168 0.72
104 39 0.17
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (102 bp):
GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACTTAGCAACCCCCTTCACATTTAAAATAC
Found at i:6422154 original size:30 final size:30
Alignment explanation
Indices: 6422120--6422177 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
6422110 CCACCCAACT
*
6422120 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAACTACAATTTTGCCCCCAAAC
* * * *
6422150 TTTTGCATAACTACACTTTTGTCCCCAA
1 TTTTGAAAAACTACAATTTTGCCCCCAA
6422178 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (30 bp):
TTTTGAAAAACTACAATTTTGCCCCCAAAC
Found at i:6431982 original size:16 final size:17
Alignment explanation
Indices: 6431955--6431989 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6431945 TAACATAAAG
*
6431955 ACCAATTTTTTTATTTA
1 ACCAATTTTTTTATCTA
6431972 ACCAA-TTTTTTATCTA
1 ACCAATTTTTTTATCTA
6431988 AC
1 AC
6431990 ATGTAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.51
Consensus pattern (17 bp):
ACCAATTTTTTTATCTA
Found at i:6432411 original size:79 final size:79
Alignment explanation
Indices: 6432280--6432438 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
6432270 CTACACTAAT
* *
6432280 ATGTAAAGTTTATTTTAATCTTTTTTATTAAAAATTGCTTTAATTTAATTTTTATACACTACAAA
1 ATGTAAAGTTTATTTTAATCTTTTTTATTAAAAATTGCTTTAAATTAATTTTTATACACTAAAAA
6432345 TATAATTTATCCTG
66 TATAATTTATCCTG
6432359 ATGTAAAGTTTATTTTAATCTTTTTTATTAAAAATTGCTTTAAATTAATTTTTATACACTAAAAA
1 ATGTAAAGTTTATTTTAATCTTTTTTATTAAAAATTGCTTTAAATTAATTTTTATACACTAAAAA
6432424 TATAATTTATCCTG
66 TATAATTTATCCTG
6432438 A
1 A
6432439 CTTGACTCGT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (79 bp):
ATGTAAAGTTTATTTTAATCTTTTTTATTAAAAATTGCTTTAAATTAATTTTTATACACTAAAAA
TATAATTTATCCTG
Found at i:6436747 original size:15 final size:16
Alignment explanation
Indices: 6436713--6436754 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
6436703 TTATGGTGCC
*
6436713 AAAATAATTTTTTATT
1 AAAATAATTATTTATT
*
6436729 AAAATAA-TATTTCTT
1 AAAATAATTATTTATT
*
6436744 AAAAAAATTAT
1 AAAATAATTAT
6436755 ATCAACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATAATTATTTATT
Found at i:6439800 original size:80 final size:79
Alignment explanation
Indices: 6439663--6439819 Score: 287
Period size: 80 Copynumber: 2.0 Consensus size: 79
6439653 GTGGTAATGT
*
6439663 GGCTAAACATGGACATGACACGTGGGCAAACAAGGGAATGACATGTATCCTAGCTTCAATTATTC
1 GGCTAAACATGGACATGACACGTGGGCAAACAAGGGAATGACATGTATCCTAACTTCAATTATTC
6439728 TAAAAAAATTTTACC
66 T-AAAAAATTTTACC
*
6439743 GGCTAAACATGGACATGACACGTGGGCAAACAAGGGAATGACATGTATCTTAACTTCAATTATTC
1 GGCTAAACATGGACATGACACGTGGGCAAACAAGGGAATGACATGTATCCTAACTTCAATTATTC
6439808 TAAAAAATTTTA
66 TAAAAAATTTTA
6439820 AAAAGTTGAA
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
79 11 0.15
80 64 0.85
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (79 bp):
GGCTAAACATGGACATGACACGTGGGCAAACAAGGGAATGACATGTATCCTAACTTCAATTATTC
TAAAAAATTTTACC
Found at i:6439910 original size:26 final size:26
Alignment explanation
Indices: 6439881--6439946 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
6439871 AAAAAATCTA
6439881 TAAAAAATTAAAAAATA-AGA-AACTT
1 TAAAAAATTAAAAAATATAGACAA-TT
* *
6439906 TTAAAAATTGAAAAATATAGACAATT
1 TAAAAAATTAAAAAATATAGACAATT
*
6439932 CAAAAAA-TAAAAAAT
1 TAAAAAATTAAAAAAT
6439947 TTATAATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 22 0.65
26 10 0.29
27 2 0.06
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (26 bp):
TAAAAAATTAAAAAATATAGACAATT
Found at i:6440158 original size:36 final size:34
Alignment explanation
Indices: 6440082--6440158 Score: 79
Period size: 36 Copynumber: 2.2 Consensus size: 34
6440072 GCTGATCCAT
*
6440082 TATTATTTATTTTTGAATTTCTAAATATTTTTTGA
1 TATT-TTTATTTTTGAATTTCTAAATATTTATTGA
6440117 T-TTTTTATATTTTGTAATTTTCTAAAT-TTTAATT-A
1 TATTTTTAT-TTTTG-AA-TTTCTAAATATTT-ATTGA
6440152 TATTTTT
1 TATTTTT
6440159 TTAATTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
33 5 0.14
34 7 0.19
35 8 0.22
36 16 0.44
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (34 bp):
TATTTTTATTTTTGAATTTCTAAATATTTATTGA
Found at i:6442904 original size:3 final size:3
Alignment explanation
Indices: 6442896--6442921 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6442886 GAGATTTTGA
6442896 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6442922 ATTCACTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6444024 original size:46 final size:47
Alignment explanation
Indices: 6443932--6444024 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
6443922 AGATCTAAGA
* *
6443932 TTTTAGGAACCAGTTAACAAAATATTTTATGCGCACGACTTATCTGC
1 TTTTAGGAACCAGTTAACAAAACATTTTATGCGCACAACTTATCTGC
*
6443979 TTTTAGGAACCAGTTAACAAAACA-TTTATGCGCATAACTTATCTGC
1 TTTTAGGAACCAGTTAACAAAACATTTTATGCGCACAACTTATCTGC
6444025 CAATATTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
46 20 0.47
47 23 0.53
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (47 bp):
TTTTAGGAACCAGTTAACAAAACATTTTATGCGCACAACTTATCTGC
Found at i:6444491 original size:2 final size:2
Alignment explanation
Indices: 6444484--6444515 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6444474 TGGACTAAGG
6444484 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6444516 ACACACACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6454448 original size:15 final size:17
Alignment explanation
Indices: 6454428--6454464 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
6454418 TTGATCTATT
*
6454428 ATTATTTCT-TTTTG-A
1 ATTATTTATATTTTGTA
6454443 ATTATTTATATTTTGTA
1 ATTATTTATATTTTGTA
6454460 ATTAT
1 ATTAT
6454465 CTAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (17 bp):
ATTATTTATATTTTGTA
Found at i:6460828 original size:43 final size:44
Alignment explanation
Indices: 6460767--6460859 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
6460757 TCCTAATTGG
6460767 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
6460810 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
6460854 -AAAATA
1 GAAAATA
6460860 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:6463614 original size:2 final size:2
Alignment explanation
Indices: 6463607--6463642 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6463597 TGGACTAAGG
6463607 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6463643 ACACACACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6487009 original size:18 final size:19
Alignment explanation
Indices: 6486960--6487055 Score: 106
Period size: 19 Copynumber: 5.2 Consensus size: 19
6486950 CTTAATTTTT
6486960 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
6486979 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
*
6486997 CTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
** * *
6487016 TTAAACGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
6487034 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
6487053 TTA
1 TTA
6487056 TTTAATTAGA
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
18 28 0.47
19 31 0.53
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.36
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:6487011 original size:37 final size:37
Alignment explanation
Indices: 6486961--6487055 Score: 172
Period size: 37 Copynumber: 2.6 Consensus size: 37
6486951 TTAATTTTTT
*
6486961 TAAATTAAAATAGAGTTATTAAATGAGAATAGTTTAC
1 TAAATTAAAATAGAGTTATTAAACGAGAATAGTTTAC
*
6486998 TAAATTAAAATAGAGTTATTAAACGAGAATAGTTTAT
1 TAAATTAAAATAGAGTTATTAAACGAGAATAGTTTAC
6487035 TAAATTAAAATAGAGTTATTA
1 TAAATTAAAATAGAGTTATTA
6487056 TTTAATTAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (37 bp):
TAAATTAAAATAGAGTTATTAAACGAGAATAGTTTAC
Found at i:6487194 original size:18 final size:19
Alignment explanation
Indices: 6487131--6487189 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
6487121 CTTAATTTTT
*
6487131 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGATTTA
* *
6487150 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGATTTA
6487168 TTAAATTAAAATAGATTTA
1 TTAAATTAAAATAGATTTA
6487187 TTA
1 TTA
6487190 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (19 bp):
TTAAATTAAAATAGATTTA
Found at i:6487465 original size:20 final size:20
Alignment explanation
Indices: 6487442--6487479 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6487432 TTATACGCTT
6487442 TTAAATAGT-TTTACTTTAGG
1 TTAAATA-TATTTACTTTAGG
6487462 TTAAATATATTTACTTTA
1 TTAAATATATTTACTTTA
6487480 ATAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (20 bp):
TTAAATATATTTACTTTAGG
Found at i:6487842 original size:26 final size:28
Alignment explanation
Indices: 6487813--6487876 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
6487803 TTTTTTTTGT
6487813 ATATTTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
6487839 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
6487867 ATATTTTGGT
1 ATATTTTGGT
6487877 TATTTATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 14 0.39
27 7 0.19
28 15 0.42
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:6489422 original size:29 final size:31
Alignment explanation
Indices: 6489384--6489448 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
6489374 AGTCTTGAAA
*
6489384 TTATATAT-AAATTTTGATTTTATGTAATT-
1 TTATATATAAAATTTTGATTTAATGTAATTC
*
6489413 TTATATATAAAATTTTGATTTAATTTAATTC
1 TTATATATAAAATTTTGATTTAATGTAATTC
6489444 TTATA
1 TTATA
6489449 AATTAACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 8 0.25
30 19 0.59
31 5 0.16
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (31 bp):
TTATATATAAAATTTTGATTTAATGTAATTC
Found at i:6490468 original size:3 final size:3
Alignment explanation
Indices: 6490460--6490485 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6490450 CGGATTGTAA
6490460 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
6490486 AGAAATATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6490684 original size:20 final size:19
Alignment explanation
Indices: 6490659--6490701 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
6490649 ATTAGTTAAT
* *
6490659 TATTTACTATTTTGATTTTC
1 TATTTAATATATTG-TTTTC
6490679 TATTTAATATATTGTTTTC
1 TATTTAATATATTGTTTTC
6490698 TATT
1 TATT
6490702 GTTTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (19 bp):
TATTTAATATATTGTTTTC
Found at i:6496250 original size:30 final size:30
Alignment explanation
Indices: 6496214--6496274 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
6496204 GAATTAGGGA
6496214 AAAAATACAGGGAAACGAACGTAGATCCTT
1 AAAAATACAGGGAAACGAACGTAGATCCTT
*
6496244 AAAAATACAGGGAAACGAACGTAGATTCTT
1 AAAAATACAGGGAAACGAACGTAGATCCTT
6496274 A
1 A
6496275 CTTCAAATCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.18
Consensus pattern (30 bp):
AAAAATACAGGGAAACGAACGTAGATCCTT
Found at i:6500123 original size:25 final size:24
Alignment explanation
Indices: 6500051--6500132 Score: 101
Period size: 25 Copynumber: 3.3 Consensus size: 24
6500041 ATTTAATCAA
* *
6500051 CAGCTCGCATGAGCTTTCTGATACT
1 CAGCTCGCATGAGC-TTCTGTTATT
*
6500076 CAGCTCGCATGAGCTTCCCGTTATT
1 CAGCTCGCATGAGCTT-CTGTTATT
*
6500101 TAGCTCGCATGAGCTTCTAGTTATT
1 CAGCTCGCATGAGCTTCT-GTTATT
6500126 CAGCTCG
1 CAGCTCG
6500133 AAAGAACTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.06
25 46 0.94
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (24 bp):
CAGCTCGCATGAGCTTCTGTTATT
Found at i:6500974 original size:13 final size:13
Alignment explanation
Indices: 6500953--6500986 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
6500943 TATCCAACCA
*
6500953 AACCCAATTACCC
1 AACCTAATTACCC
6500966 AACCTAATTACCC
1 AACCTAATTACCC
6500979 AACCTAAT
1 AACCTAAT
6500987 AAAACTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (13 bp):
AACCTAATTACCC
Found at i:6501021 original size:39 final size:39
Alignment explanation
Indices: 6500967--6501083 Score: 200
Period size: 39 Copynumber: 3.0 Consensus size: 39
6500957 CAATTACCCA
*
6500967 ACCTAATTACCCAACCTAATAAAACTAAAACTAAAGTCT
1 ACCTAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
6501006 ACCTAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCTAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
* *
6501045 ACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCT
1 ACCTAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
6501083 A
1 A
6501084 ACTCTTAAGT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 29 0.39
39 46 0.61
ACGTcount: A:0.50, C:0.26, G:0.03, T:0.21
Consensus pattern (39 bp):
ACCTAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
Found at i:6501266 original size:37 final size:37
Alignment explanation
Indices: 6501216--6501290 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
6501206 TGCTAATTTC
* *
6501216 AAGAATTACGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTACGTAATATTTTTAATTATGTAATGATTCA
* *
6501253 AAGACTTATGTAATATTTTTAATTATGTAATGATTCA
1 AAGAATTACGTAATATTTTTAATTATGTAATGATTCA
6501290 A
1 A
6501291 TTCGGGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.44
Consensus pattern (37 bp):
AAGAATTACGTAATATTTTTAATTATGTAATGATTCA
Found at i:6501303 original size:9 final size:9
Alignment explanation
Indices: 6501289--6501355 Score: 71
Period size: 9 Copynumber: 7.4 Consensus size: 9
6501279 GTAATGATTC
6501289 AATTCGGGT
1 AATTCGGGT
6501298 AATTCGGGT
1 AATTCGGGT
*
6501307 AATTCAGGT
1 AATTCGGGT
**
6501316 AATTTAGGT
1 AATTCGGGT
*
6501325 AATTCGGTT
1 AATTCGGGT
* *
6501334 AATTTGGTT
1 AATTCGGGT
*
6501343 AATTCGGTT
1 AATTCGGGT
6501352 AATT
1 AATT
6501356 AGGTTAGTTC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:6501316 original size:18 final size:18
Alignment explanation
Indices: 6501289--6501373 Score: 93
Period size: 18 Copynumber: 4.7 Consensus size: 18
6501279 GTAATGATTC
* * *
6501289 AATTCGGGTAATTCGGGT
1 AATTCGGTTAATTAGGTT
6501307 AATTCAGG-TAATTTAGG-T
1 AATTC-GGTTAA-TTAGGTT
*
6501325 AATTCGGTTAATTTGGTT
1 AATTCGGTTAATTAGGTT
6501343 AATTCGGTTAATTAGGTT
1 AATTCGGTTAATTAGGTT
*
6501361 AGTTCGGTTAATT
1 AATTCGGTTAATT
6501374 TTTAACCAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
17 6 0.10
18 47 0.80
19 6 0.10
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (18 bp):
AATTCGGTTAATTAGGTT
Found at i:6501345 original size:27 final size:27
Alignment explanation
Indices: 6501295--6501374 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
6501285 ATTCAATTCG
*
6501295 GGTAATTCGGGTAATTCAGG-TAATTTA
1 GGTAATTCGGTTAATT-AGGTTAATTTA
* *
6501322 GGTAATTCGGTTAATTTGGTTAA-TTC
1 GGTAATTCGGTTAATTAGGTTAATTTA
* * *
6501348 GGTTAATTAGGTTAGTTCGGTTAATTT
1 GG-TAATTCGGTTAATTAGGTTAATTT
6501375 TTAACCAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.14
27 36 0.82
28 2 0.05
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (27 bp):
GGTAATTCGGTTAATTAGGTTAATTTA
Found at i:6501360 original size:9 final size:9
Alignment explanation
Indices: 6501306--6501373 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 9
6501296 GTAATTCGGG
6501306 TAATTCAGG-
1 TAATT-AGGT
6501315 TAATTTAGG-
1 TAA-TTAGGT
*
6501324 TAATTCGGT
1 TAATTAGGT
*
6501333 TAATTTGGT
1 TAATTAGGT
*
6501342 TAATTCGGT
1 TAATTAGGT
6501351 TAATTAGGT
1 TAATTAGGT
* *
6501360 TAGTTCGGT
1 TAATTAGGT
6501369 TAATT
1 TAATT
6501374 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 4 0.08
9 44 0.88
10 2 0.04
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.46
Consensus pattern (9 bp):
TAATTAGGT
Found at i:6503679 original size:104 final size:104
Alignment explanation
Indices: 6503499--6503869 Score: 584
Period size: 104 Copynumber: 3.6 Consensus size: 104
6503489 TAACCGTTAT
** * **
6503499 CGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCAAGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
6503564 AATCAGCACATAACAACCCCCTTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATA
*
6503603 CGGTGGATATCGCACTTAGCATCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
6503668 AATCAGCACATAGCAACCCCC-TTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATA
*
6503706 CGGTGGATATCGCACTTAGCACCACCAATGAAATCGAGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
**
6503771 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATA
* * **
6503811 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 CGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
6503870 TTTATATACA
Statistics
Matches: 248, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
103 46 0.19
104 160 0.65
105 41 0.17
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.19
Consensus pattern (104 bp):
CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATA
Found at i:6504232 original size:30 final size:29
Alignment explanation
Indices: 6504198--6504262 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
6504188 TAATCCACCA
6504198 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
6504228 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
6504258 CCCAA
1 CCCAA
6504263 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:6504236 original size:31 final size:30
Alignment explanation
Indices: 6504205--6504262 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6504195 CCACCCAACT
6504205 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
6504235 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
6504263 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:6506534 original size:24 final size:24
Alignment explanation
Indices: 6506476--6506555 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
6506466 GCTTATCCGG
* *
6506476 GCAATATAACAGGAAGCTCACAAAGA
1 GCAAT-TAATAGGTAGCTC-CAAAGA
* * *
6506502 GC-CTATAATGGGTAGCTCTAAAGA
1 GCAAT-TAATAGGTAGCTCCAAAGA
*
6506526 GCAATTAATAGGTAGCTCCGAAGA
1 GCAATTAATAGGTAGCTCCAAAGA
6506550 GCAATT
1 GCAATT
6506556 TAACGGGAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
24 29 0.66
25 13 0.30
26 2 0.05
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (24 bp):
GCAATTAATAGGTAGCTCCAAAGA
Found at i:6508739 original size:21 final size:20
Alignment explanation
Indices: 6508688--6508739 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
6508678 ACGTTTTTGT
*
6508688 AAAATATATTAAAAAATAAAA
1 AAAAT-TATAAAAAAATAAAA
*
6508709 AAAATTATAAAAAAATGAAA
1 AAAATTATAAAAAAATAAAA
*
6508729 TAAATTGATAA
1 AAAATT-ATAA
6508740 TTTTTAACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (20 bp):
AAAATTATAAAAAAATAAAA
Found at i:6518135 original size:22 final size:22
Alignment explanation
Indices: 6518103--6518194 Score: 98
Period size: 22 Copynumber: 4.2 Consensus size: 22
6518093 AAATTCAATA
* *
6518103 TCAATTTCTTTTAAAAATTCTC
1 TCAATTCCTTTCAAAAATTCTC
*
6518125 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCTTTCAAAAATTCTC
* *
6518147 TCAATTCCCTTCAAAATTTC-C
1 TCAATTCCTTTCAAAAATTCTC
*
6518168 ATCAATTTCC-TTCCAAAATTCTC
1 -TCAA-TTCCTTTCAAAAATTCTC
6518191 TCAA
1 TCAA
6518195 ACTCTCAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.02
22 55 0.90
23 5 0.08
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCTTTCAAAAATTCTC
Found at i:6518210 original size:52 final size:51
Alignment explanation
Indices: 6518144--6518246 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
6518134 TTCAAAATTT
* *
6518144 CTCTCAATTCCCTT-CAAAATTTCC-ATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA--TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
6518196 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
6518247 TCCATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
51 7 0.16
52 29 0.64
53 9 0.20
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:6518235 original size:21 final size:22
Alignment explanation
Indices: 6518196--6518237 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6518186 TTCTCTCAAA
6518196 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
6518218 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
6518238 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:6518342 original size:29 final size:29
Alignment explanation
Indices: 6518281--6518342 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
6518271 TAAATTTCAT
* *
6518281 TTTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTTAAGAAAATTTTAAAATTTTTAATA
6518310 TTTTTAA-AATAATTTTAAAATTTTTAATA
1 TTTTTAAGAA-AATTTTAAAATTTTTAATA
6518339 TTTT
1 TTTT
6518343 CAACAATGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTTAAGAAAATTTTAAAATTTTTAATA
Found at i:6523783 original size:47 final size:47
Alignment explanation
Indices: 6523729--6524276 Score: 891
Period size: 47 Copynumber: 11.6 Consensus size: 47
6523719 TATTTGAATA
6523729 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
6523776 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
6523823 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
6523872 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
6523919 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
6523966 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
6524013 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
6524062 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
6524109 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
6524156 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-AGTGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA-TGTGATG
* * * * * *
6524203 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTTATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
6524250 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
6524277 TCCCGAAGGG
Statistics
Matches: 475, Mismatches: 20, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 383 0.81
48 1 0.00
49 90 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:6523888 original size:143 final size:141
Alignment explanation
Indices: 6523729--6524276 Score: 927
Period size: 143 Copynumber: 3.9 Consensus size: 141
6523719 TATTTGAATA
6523729 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
6523794 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
6523859 GGCCGATGTGATG
129 GGCCGATGTGATG
6523872 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
6523937 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
*
6524002 CCAATGTGATG
131 CCGATGTGATG
6524013 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
6524078 TATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
6524143 GACCGATGTGATG
129 GGCCGATGTGATG
*
6524156 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-AGTGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA-TGTGATGAATGTGAAAGTGTATAT
* * * * * *
6524220 ATGTGATAGGGCCGAGTGGCCAACGTTATGGATGTGAAAGTGTATAAATGTGATAAG
65 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
6524277 TCCCGAAGGG
Statistics
Matches: 384, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
140 1 0.00
141 142 0.37
143 241 0.63
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATG
Done.