Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 340 of 345
Found at i:101438467 original size:39 final size:40
Alignment explanation
Indices: 101438392--101438474 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 40
101438382 ATTTAATTAA
* *
101438392 TTTTTTAAAATTTTTAAAATTATAAATATATATTTTATAT
1 TTTTTTAAAAATTTTAAAATTATAAAAATATATTTTATAT
* *
101438432 TTTTTTAAAAATTTT-AATTTTTAAAAATAGT-TTTTATAT
1 TTTTTTAAAAATTTTAAAATTATAAAAATA-TATTTTATAT
101438471 TTTT
1 TTTT
101438475 GAATTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 23 0.61
40 15 0.39
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (40 bp):
TTTTTTAAAAATTTTAAAATTATAAAAATATATTTTATAT
Found at i:101439578 original size:37 final size:37
Alignment explanation
Indices: 101439528--101439598 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
101439518 TCATTCTCAT
*
101439528 CTCCAATCCTTCTAATGGTGGGATTGGGTGGGTACTA
1 CTCCAATCCTTCTAATGGTGGGATTGGATGGGTACTA
* *
101439565 CTCCAATCTTTCTAATGGTGGGTTTGGATGGGTA
1 CTCCAATCCTTCTAATGGTGGGATTGGATGGGTA
101439599 GTACGTTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.35
Consensus pattern (37 bp):
CTCCAATCCTTCTAATGGTGGGATTGGATGGGTACTA
Found at i:101440556 original size:26 final size:25
Alignment explanation
Indices: 101440488--101440556 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
101440478 AAAAATGAAT
* *
101440488 TTATTTTTAAAATTTTAAAGAGTTTA
1 TTATTTTT-AAATTTTAAAGAATATA
* *
101440514 TTTTTTTCATAAATTTTCAAATAATATA
1 TTATTTT--TAAATTTT-AAAGAATATA
101440542 TTATTTTTAAATTTT
1 TTATTTTTAAATTTT
101440557 TGTTTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 14 0.40
27 7 0.20
28 14 0.40
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (25 bp):
TTATTTTTAAATTTTAAAGAATATA
Found at i:101445558 original size:14 final size:13
Alignment explanation
Indices: 101445541--101445583 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
101445531 ATTGTTACTA
101445541 TTTTGTTATTATT
1 TTTTGTTATTATT
*
101445554 GTTTTATTATTAATT
1 -TTTTGTTATT-ATT
101445569 TTTTGTTATTATT
1 TTTTGTTATTATT
101445582 TT
1 TT
101445584 AGAGGCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 5 0.19
14 18 0.69
15 3 0.12
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (13 bp):
TTTTGTTATTATT
Found at i:101446068 original size:25 final size:27
Alignment explanation
Indices: 101446015--101446068 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
101446005 TTTTTTTGAG
*
101446015 TTTAGTTATTAATTTTTTTTAAAGTTAAA
1 TTTAGTTATTAA--TTTTTTAAAGATAAA
101446044 TTTAGTTATTAA-TTTTTAAA-ATAAA
1 TTTAGTTATTAATTTTTTAAAGATAAA
101446069 CTAAATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 8 0.33
29 12 0.50
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (27 bp):
TTTAGTTATTAATTTTTTAAAGATAAA
Found at i:101446272 original size:36 final size:35
Alignment explanation
Indices: 101446205--101446278 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
101446195 CCAGATTAAT
*
101446205 AAATAATTTAAAAATTATAAAAAAATCCAAAAATA
1 AAATAATTTAAAAATTATAAAAAAATCCAAAAAAA
* * *
101446240 AAATAATTATAAAAAATT-TATAAATATTCAAAAAAA
1 AAATAATT-T-AAAAATTATAAAAAAATCCAAAAAAA
101446276 AAA
1 AAA
101446279 CATGAAGTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 8 0.24
36 18 0.55
37 7 0.21
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (35 bp):
AAATAATTTAAAAATTATAAAAAAATCCAAAAAAA
Found at i:101446368 original size:17 final size:18
Alignment explanation
Indices: 101446346--101446382 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
101446336 ATATTTATAA
101446346 TTTCGT-TTTCATTTTTT
1 TTTCGTGTTTCATTTTTT
*
101446363 TTTCGTGTTTTATTTTTT
1 TTTCGTGTTTCATTTTTT
101446381 TT
1 TT
101446383 CATAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.05, C:0.08, G:0.08, T:0.78
Consensus pattern (18 bp):
TTTCGTGTTTCATTTTTT
Found at i:101454090 original size:2 final size:2
Alignment explanation
Indices: 101454083--101454129 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
101454073 TTCAAAGTAA
101454083 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
101454125 AC AC A
1 AC AC A
101454130 TGCACAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:101463468 original size:15 final size:16
Alignment explanation
Indices: 101463448--101463477 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
101463438 CATTCACCTC
101463448 TGCATAAAAT-TATAA
1 TGCATAAAATATATAA
101463463 TGCATAAAATATATA
1 TGCATAAAATATATA
101463478 TTTTTATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (16 bp):
TGCATAAAATATATAA
Found at i:101466100 original size:13 final size:13
Alignment explanation
Indices: 101466082--101466108 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
101466072 ACGATGTTAG
101466082 TAAAATGTGAAAA
1 TAAAATGTGAAAA
101466095 TAAAATGTGAAAA
1 TAAAATGTGAAAA
101466108 T
1 T
101466109 TGAATCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (13 bp):
TAAAATGTGAAAA
Found at i:101470982 original size:30 final size:30
Alignment explanation
Indices: 101470946--101471007 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
101470936 GTCTTCCAAA
*
101470946 TAAGTTCCGTGTTATATCAACTCGTGAATT
1 TAAGTTCCGTGCTATATCAACTCGTGAATT
* *
101470976 TAAGTTCTGTGCTATATCAACTGGTGAATT
1 TAAGTTCCGTGCTATATCAACTCGTGAATT
101471006 TA
1 TA
101471008 GATCATGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (30 bp):
TAAGTTCCGTGCTATATCAACTCGTGAATT
Found at i:101480868 original size:45 final size:44
Alignment explanation
Indices: 101480813--101480897 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 44
101480803 TAATAAGAAT
101480813 AAAATTAATTACT-ATTTAAATAATTAATATTAAAAATTATATAA
1 AAAATTAATTA-TGATTTAAATAATTAATATTAAAAATTATATAA
* *
101480857 AAAATATAATTATGGTTTAAATAATTAATTTTAAAAATTAT
1 AAAAT-TAATTATGATTTAAATAATTAATATTAAAAATTAT
101480898 CAAGAGCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 6 0.16
45 31 0.84
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (44 bp):
AAAATTAATTATGATTTAAATAATTAATATTAAAAATTATATAA
Found at i:101487172 original size:21 final size:19
Alignment explanation
Indices: 101487138--101487178 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
101487128 TATTTTAAAT
*
101487138 AATTAAGTTTATTTTCTTTA
1 AATTAAGGTTATTTT-TTTA
101487158 AATTAAGAGTTATTTTTTTA
1 AATTAAG-GTTATTTTTTTA
101487178 A
1 A
101487179 TTCTATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (19 bp):
AATTAAGGTTATTTTTTTA
Found at i:101500136 original size:2 final size:2
Alignment explanation
Indices: 101500129--101500159 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
101500119 GTTAGAGGAT
101500129 GA GA GA GA GA GA GA GA GA GA GA GA GA TGA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA -GA GA
101500160 CGTGTTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
GA
Found at i:101500304 original size:32 final size:32
Alignment explanation
Indices: 101500263--101500326 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
101500253 CCCTACACAA
101500263 CCAGCCATGTTACTTACCCCGTGTTTTGTTGT
1 CCAGCCATGTTACTTACCCCGTGTTTTGTTGT
101500295 CCAGCCATGTTACTTACCCCGTGTTTTGTTGT
1 CCAGCCATGTTACTTACCCCGTGTTTTGTTGT
101500327 TCGACAAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.12, C:0.28, G:0.19, T:0.41
Consensus pattern (32 bp):
CCAGCCATGTTACTTACCCCGTGTTTTGTTGT
Found at i:101500572 original size:150 final size:150
Alignment explanation
Indices: 101500301--101500594 Score: 489
Period size: 150 Copynumber: 2.0 Consensus size: 150
101500291 TTGTCCAGCC
* * *
101500301 ATGTTACTTACCCCGTGTTTTGTTGTTCGACAAAGCTCACAGTATAATATGTTTAACATTGTTGA
1 ATGTTACTTACCCCATGTTTTGTTGTTCGACAAAGCTCACAGTATAATATGTCTAACACTGTTGA
* * * * *
101500366 TCCCTAGCTGTAAATACCAGTACGATGGAGATCCTCCAATAGAGGCAGGTACTTTAAGTAAATAC
66 TCCCCAACTGTAAATACCAGTACGATGGAGACCCTCCAATAGAGGAAAGTACTTTAAGTAAATAC
101500431 TATTAGACGTGTTGTCCGGT
131 TATTAGACGTGTTGTCCGGT
*
101500451 ATGTTACTTACCCCATGTTTTGTTGTTCGACAAAGCTCACAGTATAATATGTCTAACACTGTTGC
1 ATGTTACTTACCCCATGTTTTGTTGTTCGACAAAGCTCACAGTATAATATGTCTAACACTGTTGA
* *
101500516 TCCCCAACTGTAAGTACCGGTACGATGGAGACCCTCCAATAGAGGAAAGTACTTTAAGTAAATAC
66 TCCCCAACTGTAAATACCAGTACGATGGAGACCCTCCAATAGAGGAAAGTACTTTAAGTAAATAC
101500581 TATTAGACGTGTTG
131 TATTAGACGTGTTG
101500595 CCCGACATAA
Statistics
Matches: 133, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
150 133 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (150 bp):
ATGTTACTTACCCCATGTTTTGTTGTTCGACAAAGCTCACAGTATAATATGTCTAACACTGTTGA
TCCCCAACTGTAAATACCAGTACGATGGAGACCCTCCAATAGAGGAAAGTACTTTAAGTAAATAC
TATTAGACGTGTTGTCCGGT
Found at i:101503259 original size:103 final size:103
Alignment explanation
Indices: 101503080--101503267 Score: 304
Period size: 103 Copynumber: 1.8 Consensus size: 103
101503070 GATGTGCTTT
**
101503080 TCATTAATAAGTAGTTTATATTTACTCACAAGTAAAATAAACACTTGAATTCTTTAGAGATCTAG
1 TCATTAATAAGTAGTTTATATTTACTCACAAACAAAATAAACACTTGAATTCTTTAGAGATCTAG
*
101503145 AAATTACCATCGCTTACCTCTTCACCAATTTGATATGC
66 AAACTACCATCGCTTACCTCTTCACCAATTTGATATGC
* * * * *
101503183 TCATTAATAATTAGTTTTTCTTTACTTACAAACAAAATAAACACTTGAATTCTTTAGAGATTTAG
1 TCATTAATAAGTAGTTTATATTTACTCACAAACAAAATAAACACTTGAATTCTTTAGAGATCTAG
101503248 AAACTACCATCGCTTACCTC
66 AAACTACCATCGCTTACCTC
101503268 CTCGTCAATT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 77 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.37
Consensus pattern (103 bp):
TCATTAATAAGTAGTTTATATTTACTCACAAACAAAATAAACACTTGAATTCTTTAGAGATCTAG
AAACTACCATCGCTTACCTCTTCACCAATTTGATATGC
Found at i:101503277 original size:103 final size:104
Alignment explanation
Indices: 101503080--101503292 Score: 302
Period size: 103 Copynumber: 2.1 Consensus size: 104
101503070 GATGTGCTTT
**
101503080 TCATTAATAAGTAGTTTATATTTACTCACAAGTAAAATAAACACTTGAATTCTTTAGAGATCTAG
1 TCATTAATAAGTAGTTTATATTTACTCACAAACAAAATAAACACTTGAATTCTTTAGAGATCTAG
* * *
101503145 AAATTACCATCGCTTACCTCTTCACCAATTTGATATGC-
66 AAACTACCATCGCTTACCTCCTCACCAATTCGATATGCG
* * * * *
101503183 TCATTAATAATTAGTTTTTCTTTACTTACAAACAAAATAAACACTTGAATTCTTTAGAGATTTAG
1 TCATTAATAAGTAGTTTATATTTACTCACAAACAAAATAAACACTTGAATTCTTTAGAGATCTAG
** *
101503248 AAACTACCATCGCTTACCTCCTCGTCAATTCGGTATGCG
66 AAACTACCATCGCTTACCTCCTCACCAATTCGATATGCG
101503287 TCATTA
1 TCATTA
101503293 GCAAGATACA
Statistics
Matches: 96, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
103 90 0.94
104 6 0.06
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (104 bp):
TCATTAATAAGTAGTTTATATTTACTCACAAACAAAATAAACACTTGAATTCTTTAGAGATCTAG
AAACTACCATCGCTTACCTCCTCACCAATTCGATATGCG
Found at i:101504725 original size:19 final size:20
Alignment explanation
Indices: 101504701--101504741 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
101504691 AAACTTAAAT
101504701 TTCCATTAATT-GAATTTAA
1 TTCCATTAATTGGAATTTAA
*
101504720 TTCCATTAATTGGATTTTAA
1 TTCCATTAATTGGAATTTAA
101504740 TT
1 TT
101504742 AAAGTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (20 bp):
TTCCATTAATTGGAATTTAA
Found at i:101505190 original size:12 final size:13
Alignment explanation
Indices: 101505173--101505205 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
101505163 TTTCCTTGAC
101505173 AGGGAGGGAG-GG
1 AGGGAGGGAGAGG
101505185 AGGGAGGGAGAGG
1 AGGGAGGGAGAGG
*
101505198 GGGGAGGG
1 AGGGAGGG
101505206 GGAGAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.24, C:0.00, G:0.76, T:0.00
Consensus pattern (13 bp):
AGGGAGGGAGAGG
Found at i:101505212 original size:2 final size:2
Alignment explanation
Indices: 101505207--101505231 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
101505197 GGGGGAGGGG
101505207 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
101505232 GAGGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:101505212 original size:17 final size:18
Alignment explanation
Indices: 101505176--101505232 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
101505166 CCTTGACAGG
101505176 GAGGGAGGGAGGGAGGGA
1 GAGGGAGGGAGGGAGGGA
101505194 GAGGG-GGGAGGG-GGAGA
1 GAGGGAGGGAGGGAGG-GA
* * * *
101505211 GAGAGAGAGAGAGAGAGA
1 GAGGGAGGGAGGGAGGGA
101505229 GAGG
1 GAGG
101505233 AGGAAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 2 0.06
17 13 0.42
18 15 0.48
19 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (18 bp):
GAGGGAGGGAGGGAGGGA
Found at i:101505216 original size:21 final size:22
Alignment explanation
Indices: 101505173--101505217 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
101505163 TTTCCTTGAC
*
101505173 AGGGAGGGAGGGAGGGAGGGAG
1 AGGGAGGGAGGGAGGGAGAGAG
101505195 AGGG-GGGAGGG-GGAGAGAGAG
1 AGGGAGGGAGGGAGG-GAGAGAG
101505216 AG
1 AG
101505218 AGAGAGAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 15 0.71
22 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (22 bp):
AGGGAGGGAGGGAGGGAGAGAG
Found at i:101505220 original size:25 final size:25
Alignment explanation
Indices: 101505174--101505221 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
101505164 TTCCTTGACA
* *
101505174 GGGAGGGAGGGAGGGAGGGAGAGGG
1 GGGAGGGAGGGAGAGAGAGAGAGGG
101505199 GGGAGGG-GGAGAGAGAGAGAGAG
1 GGGAGGGAGG-GAGAGAGAGAGAG
101505222 AGAGAGAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (25 bp):
GGGAGGGAGGGAGAGAGAGAGAGGG
Found at i:101516206 original size:51 final size:51
Alignment explanation
Indices: 101516128--101516236 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
101516118 GGCTGGCTCG
* **
101516128 GCTCCAAACTTCTCCCAGCTATTCCAACTTCTCTTCTAGATTCGGCAGCCT
1 GCTCCAAACTTCTCCCAGATATTCCAACTTCTCTTCTAGATTCAACAGCCT
* * * *
101516179 GTTCCAAACTTCTCCCCGATATTCCAACTTCTTTTCTTGATTCAACAGCCT
1 GCTCCAAACTTCTCCCAGATATTCCAACTTCTCTTCTAGATTCAACAGCCT
101516230 GCTCCAA
1 GCTCCAA
101516237 CCTCATATCA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.21, C:0.36, G:0.10, T:0.33
Consensus pattern (51 bp):
GCTCCAAACTTCTCCCAGATATTCCAACTTCTCTTCTAGATTCAACAGCCT
Found at i:101524617 original size:37 final size:36
Alignment explanation
Indices: 101524576--101524654 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
101524566 CAGTAAAATG
* *
101524576 AAGGTAACCCTCGGATATAAGAACTTCAATTCTATTT
1 AAGGTAACCCT-AGATATAAGAACTTCAAATCTATTT
* *
101524613 AAGGTAACTCTAGATATAAGAAGTTCAAATCTATTT
1 AAGGTAACCCTAGATATAAGAACTTCAAATCTATTT
101524649 AAGGTA
1 AAGGTA
101524655 TAGGAACTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
36 28 0.74
37 10 0.26
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (36 bp):
AAGGTAACCCTAGATATAAGAACTTCAAATCTATTT
Found at i:101540791 original size:63 final size:63
Alignment explanation
Indices: 101540692--101540820 Score: 222
Period size: 63 Copynumber: 2.0 Consensus size: 63
101540682 TGTCTTCTTG
* * *
101540692 ATAACTGTGTATGTGCACACAACTTCATTAGCGTTACAGCGGTTACATAATAGTTAACGGAAC
1 ATAACTGTGTATGTGCACACAACTTAATTAGCGTTACAGCAGTTACATAATAGTTAACAGAAC
*
101540755 ATAACTGTGTATGTGCACGCAACTTAATTAGCGTTACAGCAGTTACATAATAGTTAACAGAAC
1 ATAACTGTGTATGTGCACACAACTTAATTAGCGTTACAGCAGTTACATAATAGTTAACAGAAC
101540818 ATA
1 ATA
101540821 CTCAGTTGGA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (63 bp):
ATAACTGTGTATGTGCACACAACTTAATTAGCGTTACAGCAGTTACATAATAGTTAACAGAAC
Found at i:101550960 original size:9 final size:10
Alignment explanation
Indices: 101550926--101550963 Score: 51
Period size: 9 Copynumber: 3.7 Consensus size: 10
101550916 AAATTATATC
101550926 TTTAAAATTA
1 TTTAAAATTA
101550936 TTTAAAGAATTA
1 TTT-AA-AATTA
101550948 TTTAAAA-TA
1 TTTAAAATTA
101550957 TTTAAAA
1 TTTAAAA
101550964 ATAATATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.35
10 5 0.19
11 4 0.15
12 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (10 bp):
TTTAAAATTA
Found at i:101554283 original size:3 final size:3
Alignment explanation
Indices: 101554275--101554300 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
101554265 TTCAAAGCAA
101554275 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
101554301 CTTTAATTTG
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:101554404 original size:9 final size:10
Alignment explanation
Indices: 101554372--101554411 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
101554362 AGAAAATGAT
101554372 TAATTTTTTA
1 TAATTTTTTA
101554382 -AATTTCTTTA
1 TAATTT-TTTA
101554392 TATATTTTTTA
1 TA-ATTTTTTA
101554403 TAATTTTTT
1 TAATTTTTT
101554412 CTAAATTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 5 0.19
10 11 0.41
11 7 0.26
12 4 0.15
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:101554419 original size:21 final size:21
Alignment explanation
Indices: 101554373--101554419 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
101554363 GAAAATGATT
101554373 AATTTTTTAAATTTCTTTATA
1 AATTTTTTAAATTTCTTTATA
* *
101554394 TATTTTTTATAATTT-TTTCTA
1 AATTTTTTA-AATTTCTTTATA
101554415 AATTT
1 AATTT
101554420 GAAATCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (21 bp):
AATTTTTTAAATTTCTTTATA
Found at i:101555282 original size:37 final size:37
Alignment explanation
Indices: 101555232--101555306 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
101555222 AATATATGGG
101555232 TTGCTATAAGCATCTAGTAAATTCGGCTAGGCCTGGT
1 TTGCTATAAGCATCTAGTAAATTCGGCTAGGCCTGGT
101555269 TTGCTATAAGCATCTAGTAAATTCGGCTAGGCCTGGT
1 TTGCTATAAGCATCTAGTAAATTCGGCTAGGCCTGGT
101555306 T
1 T
101555307 ATAAGGGAAA
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:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (37 bp):
TTGCTATAAGCATCTAGTAAATTCGGCTAGGCCTGGT
Found at i:101558687 original size:50 final size:50
Alignment explanation
Indices: 101558612--101558788 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
101558602 CCATGGAAAC
101558612 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
101558662 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
101558712 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
101558762 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
101558789 CTGATCAGTG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:101558804 original size:31 final size:31
Alignment explanation
Indices: 101558766--101558986 Score: 361
Period size: 31 Copynumber: 7.1 Consensus size: 31
101558756 AAATGACAAC
101558766 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
101558797 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
101558828 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
101558859 TGAAAAGTGGTAGCTTCGGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
101558890 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
101558921 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
101558952 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
101558983 TGAA
1 TGAA
101558987 TTGTGATAGC
Statistics
Matches: 181, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 181 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:101559016 original size:7 final size:7
Alignment explanation
Indices: 101559004--101559029 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
101558994 AGCTTTGGCT
101559004 ACAAGTG
1 ACAAGTG
101559011 ACAAGTG
1 ACAAGTG
101559018 ACAAGTG
1 ACAAGTG
101559025 ACAAG
1 ACAAG
101559030 CGATTTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.27, T:0.12
Consensus pattern (7 bp):
ACAAGTG
Found at i:101563380 original size:34 final size:34
Alignment explanation
Indices: 101563337--101563406 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
101563327 AATGTGAAAA
101563337 GTATTTTTTAACTGTTACATTGTGCAGGGAATCT
1 GTATTTTTTAACTGTTACATTGTGCAGGGAATCT
101563371 GTATTTTTTAACTGTTACATTGTGCAGGGAATCT
1 GTATTTTTTAACTGTTACATTGTGCAGGGAATCT
101563405 GT
1 GT
101563407 GCTCATGTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.44
Consensus pattern (34 bp):
GTATTTTTTAACTGTTACATTGTGCAGGGAATCT
Found at i:101572716 original size:18 final size:18
Alignment explanation
Indices: 101572665--101572840 Score: 64
Period size: 18 Copynumber: 9.4 Consensus size: 18
101572655 GAAAATGATA
* *
101572665 AAAATTTATTAAAATCAATA
1 AAAATTTATAAAAAT--ATT
*
101572685 AAAATTT-TAAAAATGTT
1 AAAATTTATAAAAATATT
101572702 CAAAATTTAT-AAAATATT
1 -AAAATTTATAAAAATATT
* * *
101572720 TAAATTTATGAAAATATAG
1 AAAATTTATAAAAATAT-T
*
101572739 AAAACTATT-TAAAATTCATT
1 AAAA-T-TTATAAAAAT-ATT
*
101572759 ATAAACTTGT-TTAAAATATT
1 A-AAA-TT-TATAAAAATATT
*
101572779 CAAA-TTATTAAAAATA-T
1 AAAATTTA-TAAAAATATT
*
101572796 AAAAATTATAAAAAGTTTATT
1 AAAATTTATAAAAA---TATT
101572817 AAAA--TATAAAAAT-TAT
1 AAAATTTATAAAAATAT-T
101572833 AAAATTTA
1 AAAATTTA
101572841 ATCTCCACCA
Statistics
Matches: 122, Mismatches: 15, Indels: 40
0.69 0.08 0.23
Matches are distributed among these distances:
15 1 0.01
16 7 0.06
17 20 0.16
18 33 0.27
19 21 0.17
20 20 0.16
21 20 0.16
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
AAAATTTATAAAAATATT
Found at i:101572838 original size:8 final size:9
Alignment explanation
Indices: 101572780--101572836 Score: 64
Period size: 9 Copynumber: 6.2 Consensus size: 9
101572770 TAAAATATTC
101572780 AAATTATTAA
1 AAATTA-TAA
101572790 AAA-TATAA
1 AAATTATAA
101572798 AAATTATAA
1 AAATTATAA
*
101572807 AAAGTTTATTA
1 AAA--TTATAA
101572818 AAA-TATAA
1 AAATTATAA
101572826 AAATTATAA
1 AAATTATAA
101572835 AA
1 AA
101572837 TTTAATCTCC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 13 0.32
9 17 0.41
10 3 0.07
11 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
AAATTATAA
Found at i:101572964 original size:30 final size:28
Alignment explanation
Indices: 101572928--101572998 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
101572918 AATATAAAAG
*
101572928 AAAATATTAAACTTTTATATAAAATATAGA
1 AAAATATTAAA-ATTTAT-TAAAATATAGA
* * *
101572958 AAAATATTTAAAATTTATTAAAATTTTGG
1 AAAATA-TTAAAATTTATTAAAATATAGA
101572987 AAAATATTAAAA
1 AAAATATTAAAA
101572999 ACCTAATAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 11 0.31
31 5 0.14
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (28 bp):
AAAATATTAAAATTTATTAAAATATAGA
Found at i:101573085 original size:7 final size:7
Alignment explanation
Indices: 101573075--101573113 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
101573065 ATTTAAAACA
101573075 AAAAAAT
1 AAAAAAT
101573082 AAAAAAT
1 AAAAAAT
101573089 AAAAAAT
1 AAAAAAT
101573096 AAAAAAT
1 AAAAAAT
101573103 AAAAAAT
1 AAAAAAT
101573110 AAAA
1 AAAA
101573114 GAAAGGTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:101573353 original size:9 final size:9
Alignment explanation
Indices: 101573340--101573403 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
101573330 AAATTTCTAT
*
101573340 ATATTTTTT
1 ATATTTTTA
101573349 ATATTTTTA
1 ATATTTTTA
*
101573358 ATAAATTTGT-
1 AT--ATTTTTA
101573368 ATATTTTTA
1 ATATTTTTA
101573377 ATAATTTTATA
1 AT-ATTTT-TA
*
101573388 ATATTTTAA
1 ATATTTTTA
101573397 ATATTTT
1 ATATTTT
101573404 CATTTTTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 5 0.11
9 20 0.43
10 12 0.26
11 9 0.20
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
ATATTTTTA
Found at i:101573370 original size:19 final size:19
Alignment explanation
Indices: 101573348--101573399 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
101573338 ATATATTTTT
*
101573348 TATATTTTTAATAAATTTG
1 TATATTTTTAATAAATTTA
*
101573367 TATATTTTTAATAATTTTA
1 TATATTTTTAATAAATTTA
*
101573386 TAATATTTTAAATA
1 T-ATATTTTTAATA
101573400 TTTTCATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TATATTTTTAATAAATTTA
Found at i:101573651 original size:2 final size:2
Alignment explanation
Indices: 101573644--101573683 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
101573634 CACCTAATAC
* * *
101573644 AT AT AT AT AT AT AT AT AT CT AT CT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101573684 GAAGAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:101578865 original size:50 final size:50
Alignment explanation
Indices: 101578790--101579065 Score: 446
Period size: 50 Copynumber: 5.5 Consensus size: 50
101578780 CCATGGCAAC
* *
101578790 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
101578840 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
101578890 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
101578940 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
101578990 AAGTGATAAGTGATAGC-TCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
101579040 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
101579066 CTGATCAATG
Statistics
Matches: 210, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
49 29 0.14
50 174 0.83
51 7 0.03
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:101579083 original size:31 final size:31
Alignment explanation
Indices: 101579045--101579103 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
101579035 ATGGCAAGTA
101579045 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
101579076 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
101579104 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:101579111 original size:46 final size:46
Alignment explanation
Indices: 101579058--101579149 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
101579048 AGTGGTAGCT
* *
101579058 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
* * *
101579104 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
101579150 GTGAATAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
Found at i:101579153 original size:31 final size:31
Alignment explanation
Indices: 101579105--101579173 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
101579095 ACCTGATCAT
* * *
101579105 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* * *
101579136 CGGCTACCTGATCAGTGAATAGTGATAGCTT
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
101579167 CGGCTAC
1 CGGCTAC
101579174 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:101583307 original size:18 final size:20
Alignment explanation
Indices: 101583280--101583324 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
101583270 TCAAATTAAG
*
101583280 TTTTTATAATA-TTTAGTTA
1 TTTTTATAATACTTTAGTAA
*
101583299 TTTTT-TAATACTTTTGTAA
1 TTTTTATAATACTTTAGTAA
101583318 TTTTTAT
1 TTTTTAT
101583325 TTTTCTATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 16 0.73
20 1 0.05
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTATAATACTTTAGTAA
Found at i:101586216 original size:19 final size:19
Alignment explanation
Indices: 101586180--101586218 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
101586170 TTTGCAAAAG
**
101586180 ATTAACCCAAATTTATTTT
1 ATTAACCCAAATCCATTTT
*
101586199 ATTAACTCAAATCCATTTT
1 ATTAACCCAAATCCATTTT
101586218 A
1 A
101586219 GGTCCGCTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAACCCAAATCCATTTT
Found at i:101586943 original size:24 final size:24
Alignment explanation
Indices: 101586916--101586974 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
101586906 TTATTAATTA
101586916 ATTTTTTAATTTATT-AAATA-AT
1 ATTTTTTAATTTATTAAAATATAT
*
101586938 ATATTTTTAATTTTTTTAAAATATAT
1 AT-TTTTTAA-TTTATTAAAATATAT
*
101586964 ATTTATTAATT
1 ATTTTTTAATT
101586975 AAATGATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 2 0.06
23 7 0.23
24 7 0.23
25 11 0.35
26 4 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTTTTTAATTTATTAAAATATAT
Found at i:101586960 original size:22 final size:23
Alignment explanation
Indices: 101586918--101586978 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
101586908 ATTAATTAAT
101586918 TTTTTAATTTATTAAATAATATA
1 TTTTTAATTTATTAAATAATATA
* *
101586941 TTTTTAATTTTTTTAA-AATATA
1 TTTTTAATTTATTAAATAATATA
* *
101586963 TATTT-ATTAATTAAAT
1 TTTTTAATTTATTAAAT
101586979 GATAATTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 7 0.23
22 10 0.32
23 14 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTAATTTATTAAATAATATA
Found at i:101587299 original size:27 final size:27
Alignment explanation
Indices: 101587269--101587322 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
101587259 AAACTATCAA
101587269 ACATCAAATAATAAAGAAAATCATACT
1 ACATCAAATAATAAAGAAAATCATACT
*
101587296 ACATCAAATAATAATGAAAATCATACT
1 ACATCAAATAATAAAGAAAATCATACT
101587323 TTTTTGTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.15, G:0.04, T:0.24
Consensus pattern (27 bp):
ACATCAAATAATAAAGAAAATCATACT
Found at i:101587860 original size:9 final size:9
Alignment explanation
Indices: 101587846--101587913 Score: 91
Period size: 9 Copynumber: 7.6 Consensus size: 9
101587836 ATAAGTATAA
101587846 AATTAACCG
1 AATTAACCG
*
101587855 AATTAATCG
1 AATTAACCG
101587864 AATTAACCG
1 AATTAACCG
*
101587873 AATTACCCG
1 AATTAACCG
* **
101587882 AATTATCTA
1 AATTAACCG
101587891 AATTAACCG
1 AATTAACCG
101587900 AATTAACCG
1 AATTAACCG
101587909 AATTA
1 AATTA
101587914 TTTGTATAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:101587914 original size:27 final size:26
Alignment explanation
Indices: 101587846--101587914 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 26
101587836 ATAAGTATAA
*
101587846 AATTAACCGAATTAATCGAATTAACCG
1 AATTAACCGAATT-ATCAAATTAACCG
*
101587873 AATTACCCGAATTATCTAAATTAACCG
1 AATTAACCGAATTATC-AAATTAACCG
101587900 AATTAACCGAATTAT
1 AATTAACCGAATTAT
101587915 TTGTATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 3 0.08
27 35 0.92
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (26 bp):
AATTAACCGAATTATCAAATTAACCG
Found at i:101587944 original size:6 final size:6
Alignment explanation
Indices: 101587933--101587972 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
101587923 AATTGTATTC
* *
101587933 TTTTTA TTTTTA TTTTTA GTTTTA GATTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTT
101587973 ATTAAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:101588849 original size:30 final size:30
Alignment explanation
Indices: 101588788--101588851 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
101588778 TAATTTATAG
*
101588788 TTTTATAATTTTTAAATGAATTAAATTTAAT
1 TTTTATAATTTTTAAA-GAATTAAATATAAT
101588819 TTTTATAA-TTTTAAA-AAGTTAAAATATAAT
1 TTTTATAATTTTTAAAGAA-TT-AAATATAAT
101588849 TTT
1 TTT
101588852 ACCTTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.07
29 2 0.07
30 18 0.60
31 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (30 bp):
TTTTATAATTTTTAAAGAATTAAATATAAT
Found at i:101594361 original size:12 final size:13
Alignment explanation
Indices: 101594344--101594382 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
101594334 ATTCTGTACG
101594344 TCTGATT-TGTTA
1 TCTGATTCTGTTA
*
101594356 TCTGATTCTGATA
1 TCTGATTCTGTTA
*
101594369 TCTGTTTCTGTTA
1 TCTGATTCTGTTA
101594382 T
1 T
101594383 GGACTTAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (13 bp):
TCTGATTCTGTTA
Found at i:101594575 original size:3 final size:3
Alignment explanation
Indices: 101594567--101594620 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
101594557 GAGAGTTTTC
*
101594567 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
101594615 ATT ATT
1 ATT ATT
101594621 TAATGGTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:101596239 original size:20 final size:19
Alignment explanation
Indices: 101596209--101596249 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
101596199 TTCATAATAT
*
101596209 ATCAATTCAATCCATTTCA
1 ATCAATTCAATCCAATTCA
*
101596228 ATCAACTTCAATTCAATTCA
1 ATCAA-TTCAATCCAATTCA
101596248 AT
1 AT
101596250 ATCAAAGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (19 bp):
ATCAATTCAATCCAATTCA
Found at i:101599314 original size:21 final size:20
Alignment explanation
Indices: 101599282--101599321 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
101599272 TACAAAGGAT
101599282 GACAACCATGTCGCGACACA
1 GACAACCATGTCGCGACACA
*
101599302 GACATCCAGTGTCGCGACAC
1 GACAACCA-TGTCGCGACAC
101599322 CAAAGGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.30, C:0.35, G:0.23, T:0.12
Consensus pattern (20 bp):
GACAACCATGTCGCGACACA
Found at i:101600796 original size:42 final size:42
Alignment explanation
Indices: 101600724--101600803 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
101600714 AGGAAAATCT
*
101600724 AAGATTTTTATGTTTAATATATTATTATATTATTATATAATA
1 AAGATTTTTATGTTTAATATATTAATATATTATTATATAATA
101600766 AAGATATTTTATGTTTTAAT-TA-TAATATATTATTATAT
1 AAGAT-TTTTATG-TTTAATATATTAATATATTATTATAT
101600804 TACATATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
42 20 0.57
43 9 0.26
44 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (42 bp):
AAGATTTTTATGTTTAATATATTAATATATTATTATATAATA
Found at i:101601483 original size:3 final size:3
Alignment explanation
Indices: 101601475--101601508 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
101601465 TTTAAATTGT
101601475 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
101601509 ATGTGTATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:101604790 original size:8 final size:8
Alignment explanation
Indices: 101604777--101604808 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
101604767 TTTTTATGCT
101604777 TATTATTA
1 TATTATTA
101604785 TATTATTA
1 TATTATTA
101604793 TATTATTA
1 TATTATTA
*
101604801 TATCATTA
1 TATTATTA
101604809 ATTTCATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATTA
Found at i:101605112 original size:3 final size:3
Alignment explanation
Indices: 101605104--101605130 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
101605094 CTTTTATATT
101605104 CTA CTA CTA CTA CTA CTA CTA CTA CTA
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA
101605131 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CTA
Found at i:101605135 original size:3 final size:3
Alignment explanation
Indices: 101605129--101605219 Score: 164
Period size: 3 Copynumber: 30.0 Consensus size: 3
101605119 CTACTACTAC
*
101605129 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CTAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
101605175 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
101605220 ATCTGACTTC
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
3 83 0.98
4 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:101610664 original size:42 final size:42
Alignment explanation
Indices: 101610591--101610671 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
101610581 AGGAAAATCT
** *
101610591 AAGATTTTTATGTTTAATATATTATTATATTATTTTATAATA
1 AAGATTTTTATGTTTAATATATTAAAATATTATATTATAATA
101610633 AAGATATTTTATGTTTTAAT-TA-TAAAATATTATATTATA
1 AAGAT-TTTTATG-TTTAATATATTAAAATATTATATTATA
101610672 TTATATTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 19 0.56
43 9 0.26
44 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (42 bp):
AAGATTTTTATGTTTAATATATTAAAATATTATATTATAATA
Found at i:101610669 original size:5 final size:5
Alignment explanation
Indices: 101610659--101610694 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
101610649 TAATTATAAA
101610659 ATATT ATATT ATATT ATA-T -TATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
101610695 AAACTAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
3 2 0.07
4 6 0.21
5 20 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:101610683 original size:13 final size:13
Alignment explanation
Indices: 101610665--101610690 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101610655 TAAAATATTA
101610665 TATTATATTATAT
1 TATTATATTATAT
101610678 TATTATATTATAT
1 TATTATATTATAT
101610691 ATATAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:101610683 original size:18 final size:17
Alignment explanation
Indices: 101610660--101610694 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
101610650 AATTATAAAA
101610660 TATTATATTATATTATAT
1 TATTATATTATA-TATAT
101610678 TATTATATTATATATAT
1 TATTATATTATATATAT
101610695 AAACTAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTATATTATATATAT
Found at i:101611368 original size:3 final size:3
Alignment explanation
Indices: 101611362--101611409 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
101611352 TAATTTGTTG
101611362 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
101611410 GTGTATGGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:101611934 original size:18 final size:18
Alignment explanation
Indices: 101611881--101611936 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
101611871 TACTGGACTA
101611881 AATAACTGATTGTTATTG
1 AATAACTGATTGTTATTG
* * *
101611899 -AT---TGTTTGATACTG
1 AATAACTGATTGTTATTG
101611913 AATAACTGATTGTTATTG
1 AATAACTGATTGTTATTG
101611931 AATAAC
1 AATAAC
101611937 AATAAACAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 9 0.32
15 2 0.07
17 2 0.07
18 15 0.54
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (18 bp):
AATAACTGATTGTTATTG
Found at i:101616566 original size:42 final size:43
Alignment explanation
Indices: 101616423--101616567 Score: 147
Period size: 42 Copynumber: 3.4 Consensus size: 43
101616413 CCATATTTTG
* * *
101616423 GATATGGTCTTACATGTAA-A-CTTATATCGATGCCAATAGCCCA
1 GATATGGTCTTACACGTAATATCATA-ATCGATGCC-ATATCCCA
* * * * *
101616466 -ACTATGGTCTTACACGAAATTTCGT-ATCGATGCCATGTCTCA
1 GA-TATGGTCTTACACGTAATATCATAATCGATGCCATATCCCA
*
101616508 GACATGGTCTTACACGTAATATCATAAT-GATGCCATATCCCA
1 GATATGGTCTTACACGTAATATCATAATCGATGCCATATCCCA
101616550 GATATGGTCTTACACGTA
1 GATATGGTCTTACACGTA
101616568 TTCTCATTTC
Statistics
Matches: 83, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
42 54 0.65
43 27 0.33
45 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (43 bp):
GATATGGTCTTACACGTAATATCATAATCGATGCCATATCCCA
Found at i:101619150 original size:26 final size:26
Alignment explanation
Indices: 101619121--101619228 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
101619111 TGATACAAAT
101619121 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
101619147 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
101619173 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
101619199 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
101619225 TGAT
1 TGAT
101619229 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:101624898 original size:26 final size:26
Alignment explanation
Indices: 101624869--101624976 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
101624859 TGGTACAAAT
101624869 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
101624895 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
101624921 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
101624947 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
101624973 TGAT
1 TGAT
101624977 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:101626479 original size:26 final size:26
Alignment explanation
Indices: 101626450--101626502 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
101626440 TTTACAGTTT
101626450 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
101626476 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
101626502 T
1 T
101626503 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:101626719 original size:21 final size:19
Alignment explanation
Indices: 101626693--101626744 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 19
101626683 ATTCCCCACA
101626693 TGGAGTGTATGGCTGGTACGG
1 TGGAGTGTATGG-TGGTAC-G
101626714 TGGAGTGTA--GTGGTACG
1 TGGAGTGTATGGTGGTACG
101626731 TGGAGTGTAGTGGT
1 TGGAGTGTA-TGGT
101626745 TGGTGGATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 10 0.36
18 6 0.21
19 1 0.04
20 2 0.07
21 9 0.32
ACGTcount: A:0.15, C:0.06, G:0.48, T:0.31
Consensus pattern (19 bp):
TGGAGTGTATGGTGGTACG
Found at i:101626735 original size:17 final size:18
Alignment explanation
Indices: 101626706--101626744 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
101626696 AGTGTATGGC
101626706 TGGTACGGTGGAGTGTAG
1 TGGTACGGTGGAGTGTAG
101626724 TGGTAC-GTGGAGTGTAG
1 TGGTACGGTGGAGTGTAG
101626741 TGGT
1 TGGT
101626745 TGGTGGATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.15, C:0.05, G:0.49, T:0.31
Consensus pattern (18 bp):
TGGTACGGTGGAGTGTAG
Found at i:101626750 original size:17 final size:17
Alignment explanation
Indices: 101626706--101626751 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
101626696 AGTGTATGGC
101626706 TGGTACGGTGGAGTGTAG
1 TGGTA-GGTGGAGTGTAG
*
101626724 TGGTACGTGGAGTGTAG
1 TGGTAGGTGGAGTGTAG
*
101626741 TGGTTGGTGGA
1 TGGTAGGTGGA
101626752 TTGAGTAGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.15, C:0.04, G:0.50, T:0.30
Consensus pattern (17 bp):
TGGTAGGTGGAGTGTAG
Found at i:101628096 original size:20 final size:20
Alignment explanation
Indices: 101628068--101628106 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
101628058 ACATTTTACT
*
101628068 TTCAATCGTATAAATAGTAA
1 TTCAATCGTATAAACAGTAA
*
101628088 TTCATTCGTATAAACAGTA
1 TTCAATCGTATAAACAGTA
101628107 CTTTACCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (20 bp):
TTCAATCGTATAAACAGTAA
Found at i:101628303 original size:23 final size:22
Alignment explanation
Indices: 101628264--101628368 Score: 95
Period size: 23 Copynumber: 4.4 Consensus size: 22
101628254 GTTGATGGAT
*
101628264 AGTAAGCTCTATTGAGCTGAAAC
1 AGTAAGCTCTA-CGAGCTGAAAC
* *
101628287 GGTAAGCTCTGACGAGCT-AAATT
1 AGTAAGCTCT-ACGAGCTGAAA-C
101628310 AGTAAGCTCATACGAGCTGAGAAC
1 AGTAAGCTC-TACGAGCTGA-AAC
101628334 AGTAAGCTCTTACGAGCTGATATATC
1 AGTAAGCTC-TACGAGCTGA-A-A-C
101628360 AGTAAGCTC
1 AGTAAGCTC
101628369 ATATGAGCCG
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
22 3 0.04
23 29 0.43
24 23 0.34
25 3 0.04
26 10 0.15
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (22 bp):
AGTAAGCTCTACGAGCTGAAAC
Found at i:101631643 original size:35 final size:31
Alignment explanation
Indices: 101631582--101631673 Score: 94
Period size: 35 Copynumber: 2.8 Consensus size: 31
101631572 TATTAATATG
* * *
101631582 TGTACATAATATATATACATATAATAAAATACA
1 TGTA-ATAATATATATATA-AGAATAAAATAAA
101631615 TGTATTGATAATATATATGATAAGAATAAAATAAA
1 TGTA---ATAATATATAT-ATAAGAATAAAATAAA
*
101631650 TGTAATAATATACATATAAGAATA
1 TGTAATAATATATATATAAGAATA
101631674 TAAAATCTAG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
31 9 0.18
32 10 0.20
33 4 0.08
35 26 0.51
36 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (31 bp):
TGTAATAATATATATATAAGAATAAAATAAA
Found at i:101632024 original size:14 final size:15
Alignment explanation
Indices: 101631999--101632039 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
101631989 GGTGTTCAAA
101631999 ATATATACATAACAT
1 ATATATACATAACAT
*
101632014 A-ATATATATAA-AT
1 ATATATACATAACAT
101632027 ATATATACATAAC
1 ATATATACATAAC
101632040 GTAGTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.14
14 18 0.82
15 1 0.05
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATATACATAACAT
Found at i:101634609 original size:88 final size:88
Alignment explanation
Indices: 101634447--101634614 Score: 212
Period size: 88 Copynumber: 1.9 Consensus size: 88
101634437 ATTAAAAACA
* * * * * * * *
101634447 GAATTTGAATAACGGAATTTGAAAATACCTCGACATGTGTCCCGAGGCTCAACTCATCTCTTGCA
1 GAATTTGAAAAACAGAAATTGAAAATACCTCGACACGTGACCCAAGGCTCAACTCACCTCTCGCA
*
101634512 ATATGAGTTGATTTTGACGAATG
66 ATATAAGTTGATTTTGACGAATG
* *
101634535 GAATTTGAAAAACAGAAATTGAAAATAGCTC-AGCACGTGAGCCAAGGCTCAACTCACCTCTCGC
1 GAATTTGAAAAACAGAAATTGAAAATACCTCGA-CACGTGACCCAAGGCTCAACTCACCTCTCGC
*
101634599 CATATAAGTTGATTTT
65 AATATAAGTTGATTTT
101634615 TGAAAAACAG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
87 1 0.01
88 66 0.99
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (88 bp):
GAATTTGAAAAACAGAAATTGAAAATACCTCGACACGTGACCCAAGGCTCAACTCACCTCTCGCA
ATATAAGTTGATTTTGACGAATG
Found at i:101634782 original size:70 final size:71
Alignment explanation
Indices: 101634633--101634984 Score: 366
Period size: 74 Copynumber: 4.9 Consensus size: 71
101634623 AGAAATTAAA
* * * * ** *
101634633 AGGCTTAACTCATCTTTCGCAAGATGAGTCAATTTTCT-AAACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAACATAAATTAAAAATACCTCAGCG
* *
101634697 TGCCCCG
65 TGACCTG
* * * * *
101634704 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGGAACATAAATTGAAATTACCTTAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTAAAAATACCTCAGCGT
* *
101634768 GTCTTG
66 GACCTG
* *
101634774 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACAACAGGAATTAAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAC-ATA--AATTAAAAATACCTCAG
101634839 CGTGACCTG
63 CGTGACCTG
** ** * *
101634848 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTTTAAACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAACATAAATTAAAAATACCTCAGCG
101634913 TATGACCTG
65 --TGACCTG
** * *
101634922 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAGATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAACATAAATTAAAAATACCTCAG
101634985 AGTACCCAAA
Statistics
Matches: 230, Mismatches: 42, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
69 1 0.00
70 58 0.25
71 34 0.15
72 20 0.09
73 5 0.02
74 103 0.45
75 9 0.04
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTAAAAATACCTCAGCGT
GACCTG
Found at i:101657841 original size:35 final size:31
Alignment explanation
Indices: 101657802--101657871 Score: 86
Period size: 35 Copynumber: 2.1 Consensus size: 31
101657792 ATATACATAT
* *
101657802 AATAAAATACATGTATTGATAATATATATGATAAG
1 AATAAAATAAATGTA---ATAATATACAT-ATAAG
101657837 AATAAAATAAATGTAATAATATACATATAAG
1 AATAAAATAAATGTAATAATATACATATAAG
101657868 AATA
1 AATA
101657872 TAAAATCTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 9 0.27
32 10 0.30
35 14 0.42
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (31 bp):
AATAAAATAAATGTAATAATATACATATAAG
Found at i:101666527 original size:24 final size:25
Alignment explanation
Indices: 101666495--101666563 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 25
101666485 GAGCTAAATT
101666495 AGTAAGATCATACGAGCTA-AGAAC
1 AGTAAGATCATACGAGCTATAGAAC
* * *
101666519 AGTAAGATCTTACGAGCTGATATACC
1 AGTAAGATCATACGAGCT-ATAGAAC
*
101666545 AGTAAGCTCATACGAGCTA
1 AGTAAGATCATACGAGCTA
101666564 CGGTGAGACT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
24 17 0.45
25 2 0.05
26 19 0.50
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (25 bp):
AGTAAGATCATACGAGCTATAGAAC
Found at i:101668777 original size:60 final size:60
Alignment explanation
Indices: 101668704--101668843 Score: 178
Period size: 60 Copynumber: 2.3 Consensus size: 60
101668694 TAGTGTTAAC
* *
101668704 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* *
101668765 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
101668825 TGGGCCTTGCCCATATCAA
1 TGGGCCTAGCCCATATCAA
101668844 CAAAGTTGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
60 55 0.79
61 13 0.19
62 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:101668804 original size:28 final size:27
Alignment explanation
Indices: 101668703--101668804 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
101668693 TTAGTGTTAA
* *
101668703 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
101668731 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
101668763 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
101668791 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
101668805 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:101671674 original size:7 final size:7
Alignment explanation
Indices: 101671662--101671725 Score: 84
Period size: 6 Copynumber: 9.9 Consensus size: 7
101671652 TGCAAATGAA
101671662 TCATTTC
1 TCATTTC
101671669 TCATTTC
1 TCATTTC
101671676 TCATTTC
1 TCATTTC
101671683 TCATTTC
1 TCATTTC
101671690 TCATTT-
1 TCATTTC
101671696 TCATTTC
1 TCATTTC
*
101671703 -CACTTC
1 TCATTTC
101671709 -CATTTC
1 TCATTTC
101671715 -CATTTC
1 TCATTTC
101671721 -CATTT
1 TCATTT
101671726 TGAGAAAACC
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
6 27 0.50
7 27 0.50
ACGTcount: A:0.16, C:0.30, G:0.00, T:0.55
Consensus pattern (7 bp):
TCATTTC
Found at i:101672374 original size:7 final size:7
Alignment explanation
Indices: 101672362--101672395 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
101672352 TAAATAAAAC
101672362 CATAAAT
1 CATAAAT
101672369 CATAAAT
1 CATAAAT
*
101672376 CATAGAT
1 CATAAAT
101672383 CATAAAT
1 CATAAAT
*
101672390 CGTAAA
1 CATAAA
101672396 AGTCCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (7 bp):
CATAAAT
Found at i:101672584 original size:6 final size:6
Alignment explanation
Indices: 101672575--101672604 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
101672565 TAAGCCTCTT
*
101672575 TCAGTA TCAGTA TCAGTA ACAGTA TCAGTA
1 TCAGTA TCAGTA TCAGTA TCAGTA TCAGTA
101672605 CGCACAAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (6 bp):
TCAGTA
Found at i:101678730 original size:2 final size:2
Alignment explanation
Indices: 101678719--101678764 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
101678709 ATCATTCAAC
101678719 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
101678760 TA TA T
1 TA TA T
101678765 TAGGCATTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101681243 original size:18 final size:19
Alignment explanation
Indices: 101681206--101681248 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
101681196 GGTAAATATT
*
101681206 TATTTTGATGTTTTTGATA
1 TATTTTGATGTTTATGATA
101681225 T-TTTTGATGTATTAT-ATA
1 TATTTTGATGT-TTATGATA
101681243 TATTTT
1 TATTTT
101681249 AAAATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (19 bp):
TATTTTGATGTTTATGATA
Found at i:101681263 original size:11 final size:11
Alignment explanation
Indices: 101681247--101681280 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
101681237 TATATATATT
*
101681247 TTAAAATTATA
1 TTAAAATAATA
101681258 TTAAAATAATA
1 TTAAAATAATA
*
101681269 TAAAAATAATA
1 TTAAAATAATA
101681280 T
1 T
101681281 GGGTGGACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TTAAAATAATA
Found at i:101681915 original size:21 final size:23
Alignment explanation
Indices: 101681891--101681946 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
101681881 CTTGATAACC
*
101681891 ATGTAAGAAAAAG-AAAAAA-TA
1 ATGTAACAAAAAGAAAAAAAGTA
101681912 ATGTAACAAAAAGAAAAAAAGTA
1 ATGTAACAAAAAGAAAAAAAGTA
101681935 ATGTAACAAAAA
1 ATGTAACAAAAA
101681947 ATAATATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 12 0.38
22 6 0.19
23 14 0.44
ACGTcount: A:0.70, C:0.04, G:0.12, T:0.14
Consensus pattern (23 bp):
ATGTAACAAAAAGAAAAAAAGTA
Found at i:101682290 original size:19 final size:19
Alignment explanation
Indices: 101682250--101682294 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
101682240 TCAAATTAAG
*
101682250 TTTTTATAATATTTAGTTA
1 TTTTTATAATATTTAGTAA
*
101682269 TTTTT-TAATATTTTTGTAA
1 TTTTTATAATA-TTTAGTAA
101682288 TTTTTAT
1 TTTTTAT
101682295 TTTTTCTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 16 0.73
20 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTTTATAATATTTAGTAA
Found at i:101685693 original size:3 final size:3
Alignment explanation
Indices: 101685685--101685717 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
101685675 TAATTGTTTA
101685685 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
101685718 GCAGTCTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:101685983 original size:10 final size:10
Alignment explanation
Indices: 101685965--101686023 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
101685955 AAAATAAATT
*
101685965 TTATTAAAAA
1 TTATAAAAAA
*
101685975 TTAGAAAAATAA
1 TTA-TAAAA-AA
*
101685987 TTATAAAATA
1 TTATAAAAAA
101685997 TTAT-AAAAA
1 TTATAAAAAA
*
101686006 TCATAAAAAA
1 TTATAAAAAA
101686016 TTATAAAA
1 TTATAAAA
101686024 TGCATCAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 7 0.18
10 20 0.51
11 7 0.18
12 5 0.13
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:101686035 original size:19 final size:19
Alignment explanation
Indices: 101685970--101686023 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 19
101685960 AAATTTTATT
* *
101685970 AAAAATTAGAAAAATAATTA
1 AAAAATTATAAAAATCA-TA
101685990 TAAAATATTATAAAAATCATA
1 -AAAA-ATTATAAAAATCATA
101686011 AAAAATTATAAAA
1 AAAAATTATAAAA
101686024 TGCATCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 9 0.30
20 4 0.13
21 6 0.20
22 11 0.37
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAAATTATAAAAATCATA
Found at i:101686317 original size:17 final size:17
Alignment explanation
Indices: 101686295--101686329 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
101686285 AATAAATATA
101686295 TATATTT-TATTTTTAAT
1 TATATTTATA-TTTTAAT
101686312 TATATTTATATTTTAAT
1 TATATTTATATTTTAAT
101686329 T
1 T
101686330 TTAATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATATTTATATTTTAAT
Found at i:101686321 original size:23 final size:23
Alignment explanation
Indices: 101686290--101686360 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
101686280 TATATAATAA
*
101686290 ATATATATATTTTATTTTTAATT
1 ATATATATATTTTAATTTTAATT
*
101686313 ATATTTATATTTTAATTTTAATT
1 ATATATATATTTTAATTTTAATT
* * * *
101686336 TTA-ATATA-ATCAATTTTTATT
1 ATATATATATTTTAATTTTAATT
101686357 ATAT
1 ATAT
101686361 TTTTCAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
21 12 0.31
22 4 0.10
23 23 0.59
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATATATATTTTAATTTTAATT
Found at i:101689789 original size:9 final size:9
Alignment explanation
Indices: 101689771--101689812 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
101689761 CTAATGGCAT
*
101689771 ATATACATA
1 ATATATATA
101689780 ATATATATA
1 ATATATATA
* *
101689789 ATACACATA
1 ATATATATA
101689798 ATATATAT-
1 ATATATATA
101689806 ATATATA
1 ATATATA
101689813 CATATTAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (9 bp):
ATATATATA
Found at i:101689798 original size:18 final size:19
Alignment explanation
Indices: 101689769--101689816 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
101689759 AACTAATGGC
*
101689769 ATATATACATAATATATAT
1 ATATACACATAATATATAT
101689788 A-ATACACATAATATATAT
1 ATATACACATAATATATAT
*
101689806 ATATATACATA
1 ATATACACATA
101689817 TTAGAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATACACATAATATATAT
Found at i:101690330 original size:11 final size:12
Alignment explanation
Indices: 101690314--101690350 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
101690304 AAGAAAAAAA
101690314 GGAAGAGAG-AG
1 GGAAGAGAGAAG
101690325 GGAAGAGAGAAG
1 GGAAGAGAGAAG
101690337 GG-AGAGAGAAG
1 GGAAGAGAGAAG
101690348 GGA
1 GGA
101690351 GGGGGAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:101690351 original size:11 final size:11
Alignment explanation
Indices: 101690312--101690361 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
101690302 GAAAGAAAAA
*
101690312 AAGGAAGAGAG
1 AAGGGAGAGAG
101690323 -AGGGAAGAGAG
1 AAGGG-AGAGAG
101690334 AAGGGAGAGAG
1 AAGGGAGAGAG
* *
101690345 AAGGGAGGGGG
1 AAGGGAGAGAG
101690356 AAGGGA
1 AAGGGA
101690362 AATCCGGTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (11 bp):
AAGGGAGAGAG
Found at i:101690645 original size:32 final size:29
Alignment explanation
Indices: 101690609--101690683 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 29
101690599 TTTTTTTTGG
*
101690609 TTTTTTTTTTGCTGGAAATTTTTTTCTGGAAA
1 TTTTTTTTTTGCTGG-AATTTTTTGCTGG--A
*
101690641 TTTTTTTTGGTGCTGGAATTTTTTGCTGGA
1 TTTTTTTT-TTGCTGGAATTTTTTGCTGGA
101690671 TTTTTTTTTTGCT
1 TTTTTTTTTTGCT
101690684 TCCCCTCTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.10
30 9 0.23
32 20 0.51
33 6 0.15
ACGTcount: A:0.12, C:0.07, G:0.19, T:0.63
Consensus pattern (29 bp):
TTTTTTTTTTGCTGGAATTTTTTGCTGGA
Found at i:101690646 original size:33 final size:30
Alignment explanation
Indices: 101690609--101690680 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 30
101690599 TTTTTTTTGG
*
101690609 TTTTTTTTTTGCTGGAAATTTTTTTCTGGAAAT
1 TTTTTTTTTTGCTGG-AATTTTTTGCTGG--AT
**
101690642 TTTTTTTGGTGCTGGAATTTTTTGCTGGAT
1 TTTTTTTTTTGCTGGAATTTTTTGCTGGAT
101690672 TTTTTTTTT
1 TTTTTTTTT
101690681 GCTTCCCCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 9 0.26
32 12 0.35
33 13 0.38
ACGTcount: A:0.12, C:0.06, G:0.18, T:0.64
Consensus pattern (30 bp):
TTTTTTTTTTGCTGGAATTTTTTGCTGGAT
Found at i:101690647 original size:14 final size:15
Alignment explanation
Indices: 101690612--101690647 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
101690602 TTTTTGGTTT
101690612 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
101690627 TTTTTTT-CTGGAAA
1 TTTTTTTGCTGGAAA
101690641 TTTTTTT
1 TTTTTTT
101690648 TGGTGCTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:101690648 original size:15 final size:16
Alignment explanation
Indices: 101690611--101690683 Score: 66
Period size: 16 Copynumber: 4.7 Consensus size: 16
101690601 TTTTTTGGTT
101690611 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
101690627 -TTTTTTT-CTGGAAA
1 TTTTTTTTGCTGGAAA
101690641 TTTTTTTTGGTGCTGG-AA
1 -TTTTTTT--TGCTGGAAA
**
101690659 --TTTTTTGCTGGATT
1 TTTTTTTTGCTGGAAA
101690673 TTTTTTTTGCT
1 TTTTTTTTGCT
101690684 TCCCCTCTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
13 6 0.13
14 7 0.15
15 12 0.26
16 15 0.32
18 3 0.06
19 4 0.09
ACGTcount: A:0.12, C:0.07, G:0.19, T:0.62
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:101690676 original size:14 final size:15
Alignment explanation
Indices: 101690611--101690678 Score: 63
Period size: 15 Copynumber: 4.5 Consensus size: 15
101690601 TTTTTTGGTT
101690611 TTTTTTTTGCTGGAA
1 TTTTTTTTGCTGGAA
*
101690626 ATTTTTTT-CTGGAAA
1 TTTTTTTTGCTGG-AA
101690641 TTTTTTTTGGTGCTGGAA
1 -TTTTTTT--TGCTGGAA
101690659 --TTTTTTGCTGG-A
1 TTTTTTTTGCTGGAA
101690671 TTTTTTTT
1 TTTTTTTT
101690679 TTGCTTCCCC
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
12 1 0.02
13 6 0.14
14 10 0.23
15 14 0.32
16 6 0.14
18 3 0.07
19 4 0.09
ACGTcount: A:0.13, C:0.06, G:0.19, T:0.62
Consensus pattern (15 bp):
TTTTTTTTGCTGGAA
Found at i:101692133 original size:48 final size:50
Alignment explanation
Indices: 101692057--101692202 Score: 174
Period size: 48 Copynumber: 2.9 Consensus size: 50
101692047 ATATGACCTA
**
101692057 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAA-AA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
* *
101692105 AGG-TACAACTCACCTCTCGCAATATGAGTTGCTTTTTGAAAGACAGAAATTAAC
1 AGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-A-A-CAA-TAAC
*
101692159 AGGCTCAACTCACCTCTCGCAATGTGAGTTGA-TTTTGAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
101692203 GGAATTGGAA
Statistics
Matches: 83, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
47 1 0.01
48 36 0.43
49 1 0.01
50 2 0.02
51 3 0.04
52 1 0.01
53 10 0.12
54 28 0.34
55 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (50 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
Found at i:101692388 original size:140 final size:135
Alignment explanation
Indices: 101692244--101692917 Score: 940
Period size: 140 Copynumber: 4.8 Consensus size: 135
101692234 AGCGTGCCCC
101692244 GAGGCTCAACTCA-C-C-TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 GAGGCTCAACTCACCGCATATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
* * *
101692306 TGAGGCTAAACTCACCTCTCACCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTAC
65 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTAC
*
101692371 CTCAACGTGTTTT
123 CTCAACGTGTCTT
101692384 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGT
1 GAGGCTCAACTCA---C-CGC-ATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGT
*
101692449 GTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTC
61 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTC
101692514 AACGTGTCTT
126 AACGTGTCTT
101692524 GAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACC
1 GAGGCTCAACTCA---C-CG-CATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACC
*
101692589 TCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAA
54 TCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAA
101692654 TTACCTCAACGTGTCTT
119 TTACCTCAACGTGTCTT
*
101692671 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGT
1 GAGGCTCAACTCA---C-CGC-ATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGT
*
101692736 GTCTTGAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTGAAACATAAATTGAAATTACCTC
61 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTC
101692801 AACGTGTCTT
126 AACGTGTCTT
101692811 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGT
1 GAGGCTCAACTCA---C-CGC-ATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGT
101692876 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
61 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
101692918 CTGTCACTTG
Statistics
Matches: 506, Mismatches: 11, Indels: 34
0.92 0.02 0.06
Matches are distributed among these distances:
140 277 0.55
141 1 0.00
142 2 0.00
143 2 0.00
144 1 0.00
145 2 0.00
146 2 0.00
147 209 0.41
148 10 0.02
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (135 bp):
GAGGCTCAACTCACCGCATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGT
GTCTT
Found at i:101692397 original size:70 final size:66
Alignment explanation
Indices: 101692358--101692917 Score: 715
Period size: 70 Copynumber: 7.9 Consensus size: 66
101692348 CATAAATTGA
*
101692358 AAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTTGA
101692423 AACAT
62 AACAT
*
101692428 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTTGA
101692493 AACAT
62 AACAT
*
101692498 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTTGA
101692563 AACATAAATT
62 AAC----A-T
*
101692573 GAAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 --AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTT
101692638 GAAACAT
60 GAAACAT
*
101692645 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTTGA
101692710 AACAT
62 AACAT
*
101692715 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTTGA
101692780 AACAT
62 AACAT
101692785 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTTGA
101692850 AACAT
62 AACAT
101692855 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTT
101692918 CTGTCACTTG
Statistics
Matches: 472, Mismatches: 11, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
70 402 0.85
72 1 0.00
73 1 0.00
74 1 0.00
75 1 0.00
77 66 0.14
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (66 bp):
AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCGCAATATGAGTTGATTTTGAAACA
T
Found at i:101692550 original size:217 final size:217
Alignment explanation
Indices: 101692259--101692917 Score: 1224
Period size: 217 Copynumber: 3.1 Consensus size: 217
101692249 TCAACTCACC
*
101692259 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTAAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
*
101692324 TCACCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
65 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
101692389 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
130 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
101692454 GAGGCTTAACTCACCTCTCGCAA
195 GAGGCTTAACTCACCTCTCGCAA
101692477 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
101692542 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
101692607 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
131 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
101692672 AGGCTTAACTCACCTCTCGCAA
196 AGGCTTAACTCACCTCTCGCAA
101692694 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
101692759 CGCCATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
101692817 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
131 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
*
101692882 AGGCTCAACTCACCTCTCGCAA
196 AGGCTTAACTCACCTCTCGCAA
101692904 TATGAGTTGATTTT
1 TATGAGTTGATTTT
101692918 CTGTCACTTG
Statistics
Matches: 437, Mismatches: 4, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
210 131 0.30
212 1 0.00
213 1 0.00
217 294 0.67
218 10 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (217 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
AGGCTTAACTCACCTCTCGCAA
Found at i:101701660 original size:93 final size:93
Alignment explanation
Indices: 101701548--101701719 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
101701538 GCCCATAAGT
* *
101701548 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
101701613 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
101701641 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
101701706 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
101701720 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:101701715 original size:46 final size:46
Alignment explanation
Indices: 101701540--101701715 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
101701530 TGTAACCCGC
* * *
101701540 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
101701586 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
101701636 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
101701679 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
101701716 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:101704135 original size:29 final size:29
Alignment explanation
Indices: 101704096--101704183 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
101704086 CAAAGATAAC
*
101704096 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
101704125 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
101704154 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
101704184 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:101704154 original size:15 final size:15
Alignment explanation
Indices: 101704096--101704174 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
101704086 CAAAGATAAC
*
101704096 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
101704110 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
101704125 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
101704139 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
101704154 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
101704169 AAGAAA
1 AAGAAA
101704175 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:101704183 original size:15 final size:15
Alignment explanation
Indices: 101704107--101704183 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
101704097 AGAAAACCGA
101704107 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
101704122 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
101704136 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
101704150 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
101704166 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
101704181 ATA
1 ATA
101704184 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:101707246 original size:93 final size:93
Alignment explanation
Indices: 101707134--101707305 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
101707124 GCCCATAAGT
* *
101707134 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
101707199 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
101707227 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
101707292 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
101707306 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Done.