Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 51 of 199
Found at i:20207611 original size:21 final size:20
Alignment explanation
Indices: 20207572--20207629 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 20
20207562 ACATGAGTAA
* *
20207572 CAAATATATTATATTTTTCT
1 CAAAAATATGATATTTTTCT
*
20207592 CAAAAATTATGATTTTTTTCT
1 CAAAAA-TATGATATTTTTCT
**
20207613 TTAAAATATGATATTTT
1 CAAAAATATGATATTTT
20207630 GGATTCAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.53
Consensus pattern (20 bp):
CAAAAATATGATATTTTTCT
Found at i:20209014 original size:20 final size:19
Alignment explanation
Indices: 20208978--20209016 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
20208968 ATTTGCCAGT
20208978 TTTAAAAATATATATTTTA
1 TTTAAAAATATATATTTTA
20208997 TTTATAAAAT-TATCATTTTA
1 TTTA-AAAATATAT-ATTTTA
20209017 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAAAAATATATATTTTA
Found at i:20210387 original size:34 final size:34
Alignment explanation
Indices: 20210348--20210426 Score: 149
Period size: 34 Copynumber: 2.3 Consensus size: 34
20210338 TCATATATGG
*
20210348 ATGAGGAAATCCCCAGATGAGTTATTCACCTTGA
1 ATGAGGAAATCCCAAGATGAGTTATTCACCTTGA
20210382 ATGAGGAAATCCCAAGATGAGTTATTCACCTTGA
1 ATGAGGAAATCCCAAGATGAGTTATTCACCTTGA
20210416 ATGAGGAAATC
1 ATGAGGAAATC
20210427 AAATGGTCGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (34 bp):
ATGAGGAAATCCCAAGATGAGTTATTCACCTTGA
Found at i:20216420 original size:20 final size:20
Alignment explanation
Indices: 20216395--20216439 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
20216385 CATTATAACG
20216395 GATACCCTTCTTGACATATA
1 GATACCCTTCTTGACATATA
20216415 GATACCCTTCTTGACATATA
1 GATACCCTTCTTGACATATA
20216435 GATAC
1 GATAC
20216440 ATATATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (20 bp):
GATACCCTTCTTGACATATA
Found at i:20221017 original size:9 final size:9
Alignment explanation
Indices: 20221000--20221066 Score: 100
Period size: 9 Copynumber: 7.4 Consensus size: 9
20220990 GTAGTGATTC
*
20221000 AATTTGGTT
1 AATTCGGTT
20221009 AATTCGGTT
1 AATTCGGTT
20221018 AATTCGGTT
1 AATTCGGTT
*
20221027 AATTCGGGT
1 AATTCGGTT
20221036 AATTCGAG-T
1 AATTCG-GTT
20221045 AATTCGGTT
1 AATTCGGTT
20221054 AATTCGGTT
1 AATTCGGTT
20221063 AATT
1 AATT
20221067 TTTAACCAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
8 1 0.02
9 52 0.96
10 1 0.02
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:20221472 original size:9 final size:9
Alignment explanation
Indices: 20221455--20221503 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
20221445 GTAGTGATTC
*
20221455 AATTTGGTT
1 AATTCGGTT
20221464 AATTCGGTT
1 AATTCGGTT
*
20221473 AATTCGGGT
1 AATTCGGTT
20221482 AATTCGGTT
1 AATTCGGTT
20221491 AATTCGGTT
1 AATTCGGTT
20221500 AATT
1 AATT
20221504 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:20221497 original size:437 final size:437
Alignment explanation
Indices: 20221018--20221874 Score: 1651
Period size: 437 Copynumber: 2.0 Consensus size: 437
20221008 TAATTCGGTT
20221018 AATTCGGTTAATTCGGGTAATTCGAGTAATTCGGTTAATTCGGTTAATTTTTAACCAAAAATAAA
1 AATTCGGTTAATTCGGGTAATTCGAGTAATTCGGTTAATTCGGTTAATTTTTAACCAAAAATAAA
20221083 AAACATATAATTTTCGGTTAATTCGGTTAACCGACCGAATTAACCGAAAAAATTTCAGTTCGGTT
66 AAACATATAATTTTCGGTTAATTCGGTTAACCGACCGAATTAACCGAAAAAATTTCAGTTCGGTT
20221148 AATTTTTTTGAAAAAAAATTTCGGTTCAGTTAATTCGGTTAATGTTATTTCGGGTCGATTAACCG
131 AATTTTTTTGAAAAAAAATTTCGGTTCAGTTAATTCGGTTAATGTTATTTCGGGTCGATTAACCG
20221213 GTCGGTTAACCGAATGAATACCCCTAGTTCCAAGTTCGTGGTCCTTACCGATAACGTTGCCAACA
196 GTCGGTTAACCGAATGAATACCCCTAGTTCCAAGTTCGTGGTCCTTACCGATAACGTTGCCAACA
20221278 GTTATTTTCTAACCTAGAAAAAGTTATCTCCCAAACAGGCTCATTGACAGGTTTTCCTAGCTGAG
261 GTTATTTTCTAACCTAGAAAAAGTTATCTCCCAAACAGGCTCATTGACAGGTTTTCCTAGCTGAG
*
20221343 TTTGATTTCATAATAAAGTATAAAGTCGGGGAGTGCCAACATTATAATTGATGCACTTAGCTGAA
326 TTTGATTTCACAATAAAGTATAAAGTCGGGGAGTGCCAACATTATAATTGATGCACTTAGCTGAA
20221408 AGATGGAGTTTGCGACAATCAACCAACTTATAATTATGTAGTGATTC
391 AGATGGAGTTTGCGACAATCAACCAACTTATAATTATGTAGTGATTC
* * *
20221455 AATTTGGTTAATTCGGTTAATTCGGGTAATTCGGTTAATTCGGTTAATTTTTAACCAAAAATAAA
1 AATTCGGTTAATTCGGGTAATTCGAGTAATTCGGTTAATTCGGTTAATTTTTAACCAAAAATAAA
*
20221520 AAACATATAATTTTCGGTTAATTCGGTTAACCGACCGAATTAACCGAAAAAATTTCGGTTCGGTT
66 AAACATATAATTTTCGGTTAATTCGGTTAACCGACCGAATTAACCGAAAAAATTTCAGTTCGGTT
*
20221585 AATTTTTTTGAAAAAAAATTTCGGTTCGGTTAATTCGGTTAATGTTATTTCGGGTCGATTAACCG
131 AATTTTTTTGAAAAAAAATTTCGGTTCAGTTAATTCGGTTAATGTTATTTCGGGTCGATTAACCG
20221650 GTCGGTTAACCGAATGAATACCCCTAGTTCCAAGTTCGTGGTCCTTACCGATAACGTTGCCAACA
196 GTCGGTTAACCGAATGAATACCCCTAGTTCCAAGTTCGTGGTCCTTACCGATAACGTTGCCAACA
*
20221715 GTTATTTTCTAACCTAGAAAGAGTTATCTCCCAAACAGGCTCATTGACAGGTTTTCCTAGCTGAG
261 GTTATTTTCTAACCTAGAAAAAGTTATCTCCCAAACAGGCTCATTGACAGGTTTTCCTAGCTGAG
20221780 TTTGATTTCACAATAAAGTATAAAGTCGGGGAGTGCCAACATTATAATTGATGCACTTAGCTGAA
326 TTTGATTTCACAATAAAGTATAAAGTCGGGGAGTGCCAACATTATAATTGATGCACTTAGCTGAA
20221845 AGATGGAGTTTGCGACAATCAACCAACTTA
391 AGATGGAGTTTGCGACAATCAACCAACTTA
20221875 ATGGTTTCTT
Statistics
Matches: 413, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
437 413 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (437 bp):
AATTCGGTTAATTCGGGTAATTCGAGTAATTCGGTTAATTCGGTTAATTTTTAACCAAAAATAAA
AAACATATAATTTTCGGTTAATTCGGTTAACCGACCGAATTAACCGAAAAAATTTCAGTTCGGTT
AATTTTTTTGAAAAAAAATTTCGGTTCAGTTAATTCGGTTAATGTTATTTCGGGTCGATTAACCG
GTCGGTTAACCGAATGAATACCCCTAGTTCCAAGTTCGTGGTCCTTACCGATAACGTTGCCAACA
GTTATTTTCTAACCTAGAAAAAGTTATCTCCCAAACAGGCTCATTGACAGGTTTTCCTAGCTGAG
TTTGATTTCACAATAAAGTATAAAGTCGGGGAGTGCCAACATTATAATTGATGCACTTAGCTGAA
AGATGGAGTTTGCGACAATCAACCAACTTATAATTATGTAGTGATTC
Found at i:20241308 original size:23 final size:22
Alignment explanation
Indices: 20241282--20241326 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
20241272 TGCAATTTAC
*
20241282 TTCTGATATTTGAAAATTATATT
1 TTCTCATATTTGAAAA-TATATT
* *
20241305 TTCTCATTTTTGGAAATATATT
1 TTCTCATATTTGAAAATATATT
20241327 ATATATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (22 bp):
TTCTCATATTTGAAAATATATT
Found at i:20244310 original size:49 final size:50
Alignment explanation
Indices: 20244252--20244362 Score: 147
Period size: 49 Copynumber: 2.3 Consensus size: 50
20244242 TTATAAAACT
*
20244252 TATATATATAAAATACA-TAATGCATTTATGAAAACAAGGAAA-ATATAAA
1 TATATATATAAAATACATTAATGCATTTAT-AAAAAAAGGAAATATATAAA
* * * *
20244301 TATATATATAAAATATATTCATGCATTTATAAAAAAATGAAATATATAAG
1 TATATATATAAAATACATTAATGCATTTATAAAAAAAGGAAATATATAAA
20244351 TATA-ATATAAAA
1 TATATATATAAAA
20244363 ACGTGGAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
49 34 0.62
50 21 0.38
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (50 bp):
TATATATATAAAATACATTAATGCATTTATAAAAAAAGGAAATATATAAA
Found at i:20244632 original size:3 final size:3
Alignment explanation
Indices: 20244624--20244681 Score: 84
Period size: 3 Copynumber: 19.3 Consensus size: 3
20244614 ATATGTAGGT
20244624 ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA TATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
20244669 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
20244682 CAAAATTAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.08
3 41 0.80
4 6 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:20244650 original size:15 final size:16
Alignment explanation
Indices: 20244623--20244681 Score: 97
Period size: 15 Copynumber: 3.9 Consensus size: 16
20244613 TATATGTAGG
20244623 TATAATAATAATAATA
1 TATAATAATAATAATA
20244639 TATAAT-ATAATAATA
1 TATAATAATAATAATA
20244654 TATAAT-ATAATAATA
1 TATAATAATAATAATA
20244669 -ATAATAATAATAA
1 TATAATAATAATAA
20244682 CAAAATTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.12
15 31 0.74
16 6 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TATAATAATAATAATA
Found at i:20245146 original size:23 final size:22
Alignment explanation
Indices: 20245103--20245160 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
20245093 AAAGGGTATA
* *
20245103 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
20245124 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
20245147 TACATATCATATCT
1 TACAAATCATATCT
20245161 AAGTTTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:20245163 original size:19 final size:19
Alignment explanation
Indices: 20245116--20245194 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 19
20245106 AAATTAAATC
*
20245116 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
20245136 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
* *
20245158 TCTAAGTTTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
20245179 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
20245195 CTCGAAGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 13 0.27
21 17 0.35
22 7 0.15
23 11 0.23
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:20245176 original size:21 final size:21
Alignment explanation
Indices: 20245150--20245193 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
20245140 CTAAGATTAC
*
20245150 ATATCATATCTAAGTTTGCAT
1 ATATCATATCTAAGATTGCAT
20245171 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
20245192 AT
1 AT
20245194 CCTCGAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:20249139 original size:5 final size:6
Alignment explanation
Indices: 20249129--20249153 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20249119 ATTAATAATA
20249129 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
20249154 AAAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:20249279 original size:16 final size:17
Alignment explanation
Indices: 20249243--20249279 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
20249233 CAATTTTATT
20249243 TAATAATAAATTTTAAA
1 TAATAATAAATTTTAAA
20249260 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
20249275 TAATA
1 TAATA
20249280 TTCATCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:20252477 original size:20 final size:21
Alignment explanation
Indices: 20252452--20252494 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
20252442 AAAAACTTTT
20252452 GGGGAAAAAAAT-AGAATAAG
1 GGGGAAAAAAATCAGAATAAG
*
20252472 GGGGAAAAAAATCAGCATAAG
1 GGGGAAAAAAATCAGAATAAG
20252493 GG
1 GG
20252495 TGGTTGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.53, C:0.05, G:0.33, T:0.09
Consensus pattern (21 bp):
GGGGAAAAAAATCAGAATAAG
Found at i:20268300 original size:20 final size:20
Alignment explanation
Indices: 20268275--20268357 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 20
20268265 CGAACTTTTT
20268275 GGGTAATTTTCAGGTAATTC
1 GGGTAATTTTCAGGTAATTC
*
20268295 GGGTAATTTTAAGGTAATTC
1 GGGTAATTTTCAGGTAATTC
* *
20268315 GGTTAA--TTCAGTTAATTC
1 GGGTAATTTTCAGGTAATTC
* *
20268333 GGTTAATCTT---GTAATTC
1 GGGTAATTTTCAGGTAATTC
20268350 GGGTAATT
1 GGGTAATT
20268358 CGGGGAATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
17 12 0.22
18 16 0.30
20 26 0.48
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (20 bp):
GGGTAATTTTCAGGTAATTC
Found at i:20268301 original size:9 final size:9
Alignment explanation
Indices: 20268287--20268366 Score: 54
Period size: 9 Copynumber: 8.8 Consensus size: 9
20268277 GTAATTTTCA
20268287 GGTAATTCG
1 GGTAATTCG
**
20268296 GGTAATTTTAA
1 GGTAA--TTCG
20268307 GGTAATTCG
1 GGTAATTCG
* *
20268316 GTTAATTCA
1 GGTAATTCG
*
20268325 GTTAATTCG
1 GGTAATTCG
* *
20268334 GTTAA-TCT
1 GGTAATTCG
*
20268342 TGTAATTCG
1 GGTAATTCG
20268351 GGTAATTCG
1 GGTAATTCG
*
20268360 GGGAATT
1 GGTAATT
20268367 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
8 5 0.09
9 43 0.78
11 7 0.13
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (9 bp):
GGTAATTCG
Found at i:20272357 original size:18 final size:19
Alignment explanation
Indices: 20272318--20272364 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
20272308 AAAAAAACAT
* *
20272318 TTTAACTTTCCTATTATTA
1 TTTAATTTTACTATTATTA
20272337 TTTAATTTTACTATT-TTA
1 TTTAATTTTACTATTATTA
*
20272355 TTTTATTTTA
1 TTTAATTTTA
20272365 TTTTCATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTAATTTTACTATTATTA
Found at i:20272362 original size:23 final size:22
Alignment explanation
Indices: 20272329--20272380 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
20272319 TTAACTTTCC
20272329 TATTATTATTTAATTTT-ACTATTT
1 TATT-TTATTTAATTTTCA-T-TTT
*
20272353 TATTTTATTTTATTTTCATTTT
1 TATTTTATTTAATTTTCATTTT
20272375 TATTTT
1 TATTTT
20272381 TGCCAGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 9 0.35
23 12 0.46
24 5 0.19
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTTTATTTAATTTTCATTTT
Found at i:20273997 original size:217 final size:214
Alignment explanation
Indices: 20273595--20274010 Score: 654
Period size: 217 Copynumber: 1.9 Consensus size: 214
20273585 AAAATTCAAG
* * * *
20273595 AGGATATTTGGCTATTTGGTTAAATGAGAAATCGAAACCCAGCAGATTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCCAACACATTAGGGCACGTTCCTCGAA
*
20273660 TTTCAAAACACAAAACATTGCCTTACTTTAAAATTTTTAAAAGGATATTTAGCTATTTGGTTGAA
66 TTTCAAAACACAAAACATTGCCTTACTTTAAAATTTTTAAAAGGATATTTAGCGATTTGGTTGAA
*
20273725 CAAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGC
131 CAAGAAAAATCGAAACCCAGCACATTAGAGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGC
20273790 CTTATTTAAAATTTTTAAA
196 CTTATTTAAAATTTTTAAA
* *
20273809 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTAAACGAG--AAATCGAAACCCAACACATTAGGGCACG-TTCCTC
* * *
20273874 GAATTTTC-AAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTTAGCGATTTGGT
63 GAA-TTTCAAAACACAAAACATTGCCTTACTTTAAAATTTTTAAAAGGATATTTAGCGATTTGGT
* * * *
20273938 TGAACGAGAAAAATCGAAACCCAGCACATTAGAGCACGTTTTCTCGAATTTCTAAACGCAAAATA
127 TGAACAAGAAAAATCGAAACCCAGCACATTAGAGCACGTTTCCTCGAATTTCCAAACGCAAAACA
20274003 TTGCCTTA
192 TTGCCTTA
20274011 CTTCGATTTT
Statistics
Matches: 183, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
214 25 0.14
216 26 0.14
217 128 0.70
218 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (214 bp):
AGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCCAACACATTAGGGCACGTTCCTCGAA
TTTCAAAACACAAAACATTGCCTTACTTTAAAATTTTTAAAAGGATATTTAGCGATTTGGTTGAA
CAAGAAAAATCGAAACCCAGCACATTAGAGCACGTTTCCTCGAATTTCCAAACGCAAAACATTGC
CTTATTTAAAATTTTTAAA
Found at i:20274023 original size:109 final size:109
Alignment explanation
Indices: 20273595--20274013 Score: 650
Period size: 109 Copynumber: 3.9 Consensus size: 109
20273585 AAAATTCAAG
* * * *
20273595 AGGATATTTGGCTATTTGGTTAAATGAG--AAATCGAAACCCAGCAGATTAGGGCACG-TTCCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
* *
20273657 GAATTTCAAAACACAAAACATTGCCTTACTTTAAAATTTTTAAA
66 GAATTTCTAAACGCAAAACATTGCCTTACTTTAAAATTTTTAAA
*
20273701 AGGATATTTAGCTATTTGGTTGAACAAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
*
20273766 GAATTTCCAAACGCAAAACATTGCCTTA-TTTAAAATTTTTAAA
66 GAATTTCTAAACGCAAAACATTGCCTTACTTTAAAATTTTTAAA
* *
20273809 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
* *
20273874 GAATTT-TCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCT-AAACGCAAAACATTGCCTTACTTTAAAATTTTTAAA
* * *
20273918 AGGATATTTAGCGATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGAGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
*
20273983 GAATTTCTAAACGCAAAATATTGCCTTACTT
66 GAATTTCTAAACGCAAAACATTGCCTTACTT
20274014 CGATTTTTTT
Statistics
Matches: 290, Mismatches: 17, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
106 24 0.08
108 130 0.45
109 135 0.47
110 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (109 bp):
AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
GAATTTCTAAACGCAAAACATTGCCTTACTTTAAAATTTTTAAA
Found at i:20274090 original size:15 final size:15
Alignment explanation
Indices: 20274066--20274096 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20274056 AATAAATATG
*
20274066 ATAATGTGAACAAAA
1 ATAATATGAACAAAA
20274081 ATAATATGAACAAAA
1 ATAATATGAACAAAA
20274096 A
1 A
20274097 CGAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:20295058 original size:22 final size:21
Alignment explanation
Indices: 20295016--20295079 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
20295006 TCAGTTTTGT
* *
20295016 ACTTAAATTAATGATTATTTA
1 ACTTTAATTAATCATTATTTA
*
20295037 ACTTTAATTAATCATATTTTTA
1 ACTTTAATTAATCAT-TATTTA
**
20295059 GTTTTAATTAATC-TTAATTTA
1 ACTTTAATTAATCATT-ATTTA
20295080 CTAAATTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 1 0.03
21 18 0.51
22 16 0.46
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (21 bp):
ACTTTAATTAATCATTATTTA
Found at i:20295101 original size:19 final size:19
Alignment explanation
Indices: 20295064--20295101 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
20295054 TTTTAGTTTT
*
20295064 AATTAATCTTAATTTACTA
1 AATTAATCTTAATTCACTA
20295083 AATTAATCTATAA-TCACTA
1 AATTAATCT-TAATTCACTA
20295102 TTACGGTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTAATCTTAATTCACTA
Found at i:20314039 original size:10 final size:10
Alignment explanation
Indices: 20314026--20314064 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
20314016 ATAAAAGCTC
20314026 TAAAAATTAT
1 TAAAAATTAT
** *
20314036 TAAATTTTAA
1 TAAAAATTAT
20314046 TAAAAATTAT
1 TAAAAATTAT
20314056 TAAAAATTA
1 TAAAAATTA
20314065 GAAAAAAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:20314071 original size:20 final size:20
Alignment explanation
Indices: 20314026--20314064 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20314016 ATAAAAGCTC
**
20314026 TAAAAATTATTAAATTTTAA
1 TAAAAATTATTAAAAATTAA
20314046 TAAAAATTATTAAAAATTA
1 TAAAAATTATTAAAAATTA
20314065 GAAAAAAATA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAAATTATTAAAAATTAA
Found at i:20314141 original size:36 final size:35
Alignment explanation
Indices: 20314056--20314143 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 35
20314046 TAAAAATTAT
*
20314056 TAAAAATTAGAAAAAAATAAAAATGTAAACATTTTA
1 TAAAAATTA-TAAAAAATAAAAATGTAAACATTTTA
* * *
20314092 TAAAAATCATAAAATATAAAATTGTAAA-ATTTTA
1 TAAAAATTATAAAAAATAAAAATGTAAACATTTTA
20314126 TAAGAAAATTATAAAAAA
1 T-A-AAAATTATAAAAAA
20314144 AAACGTAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
34 7 0.16
35 17 0.39
36 20 0.45
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (35 bp):
TAAAAATTATAAAAAATAAAAATGTAAACATTTTA
Found at i:20314383 original size:11 final size:11
Alignment explanation
Indices: 20314369--20314401 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
20314359 GATGCATTTT
20314369 ATAATTTTATA
1 ATAATTTTATA
20314380 ATAATTTTTATA
1 ATAA-TTTTATA
20314392 A-AATTTTATA
1 ATAATTTTATA
20314402 TATTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.33
11 6 0.29
12 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATAATTTTATA
Found at i:20314390 original size:20 final size:18
Alignment explanation
Indices: 20314365--20314495 Score: 61
Period size: 18 Copynumber: 6.8 Consensus size: 18
20314355 TTTTGATGCA
20314365 TTTTATAATTTTATAATAAT
1 TTTTATAATTTT-TAAT-AT
*
20314385 TTTTATAAAATTTTATATATTTT
1 TTTTAT--AATTTT-TA-A-TAT
* *
20314408 TTTTCTAATTTTTAATAAAA
1 TTTTATAATTTTTAAT--AT
20314428 TTTTA-ATATTTTT-ATAT
1 TTTTATA-ATTTTTAATAT
**
20314445 TTTTATTAAAATTTAATAT
1 TTTTA-TAATTTTTAATAT
* *
20314464 TTTTATAACTTTTATTGAT
1 TTTTATAATTTTTAAT-AT
*
20314483 TTTT-TACTTTTTA
1 TTTTATAATTTTTA
20314496 TAATTTTTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
17 6 0.07
18 20 0.23
19 20 0.23
20 18 0.21
21 6 0.07
22 9 0.10
23 7 0.08
24 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTTATAATTTTTAATAT
Found at i:20314399 original size:22 final size:20
Alignment explanation
Indices: 20314380--20314471 Score: 57
Period size: 21 Copynumber: 4.7 Consensus size: 20
20314370 TAATTTTATA
20314380 ATAATTTTTATAAAATTTTAT
1 ATAATTTTTATAAAATTTT-T
* * **
20314401 ATATTTTTTTTCTAATTTTT
1 ATAATTTTTATAAAATTTTT
** *
20314421 AATAAAATTT-TAATATTTTT
1 -ATAATTTTTATAAAATTTTT
*
20314441 AT-ATTTTTATTAAAA-TTTA
1 ATAATTTTTA-TAAAATTTTT
20314460 AT-ATTTTTATAA
1 ATAATTTTTATAA
20314472 CTTTTATTGA
Statistics
Matches: 54, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
18 7 0.13
19 14 0.26
20 12 0.22
21 21 0.39
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (20 bp):
ATAATTTTTATAAAATTTTT
Found at i:20314476 original size:28 final size:29
Alignment explanation
Indices: 20314380--20314503 Score: 116
Period size: 27 Copynumber: 4.3 Consensus size: 29
20314370 TAATTTTATA
20314380 ATAATTTTTA-TAAAATTTTATATATTTTTTTT
1 ATAATTTTTATTAAAATTTTA-ATA---TTTTT
* *
20314412 CTAATTTTTAATAAAATTTTAATATTTTT
1 ATAATTTTTATTAAAATTTTAATATTTTT
20314441 AT-ATTTTTATTAAAA-TTTAATATTTTT
1 ATAATTTTTATTAAAATTTTAATATTTTT
* * *
20314468 ATAACTTTTATT--GATTTT-TTACTTTTT
1 ATAATTTTTATTAAAATTTTAATA-TTTTT
20314495 ATAATTTTT
1 ATAATTTTT
20314504 TTTTCCATAT
Statistics
Matches: 81, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
26 3 0.04
27 30 0.37
28 20 0.25
29 6 0.07
32 12 0.15
33 10 0.12
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (29 bp):
ATAATTTTTATTAAAATTTTAATATTTTT
Found at i:20314477 original size:18 final size:19
Alignment explanation
Indices: 20314365--20314503 Score: 56
Period size: 19 Copynumber: 7.2 Consensus size: 19
20314355 TTTTGATGCA
*
20314365 TTTTATAATTTTATAATAAT
1 TTTTATAACTTT-TAATAAT
* *
20314385 TTTTATAAAATTTTATATATTTT
1 TTTTAT-AACTTTTA-ATA--AT
* * *
20314408 TTTTCTAATTTTTAATAAAA
1 TTTTATAACTTTTAAT-AAT
*
20314428 TTTTA-ATA-TTTTTAT-AT
1 TTTTATA-ACTTTTAATAAT
**
20314445 TTTTATTAAAATTTAAT-AT
1 TTTTA-TAACTTTTAATAAT
* *
20314464 TTTTATAACTTTTATTGAT
1 TTTTATAACTTTTAATAAT
*
20314483 TTTT-T-ACTTTTTATAAT
1 TTTTATAACTTTTAATAAT
20314500 TTTT
1 TTTT
20314504 TTTTCCATAT
Statistics
Matches: 92, Mismatches: 17, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
17 19 0.21
18 10 0.11
19 26 0.28
20 13 0.14
21 10 0.11
22 8 0.09
23 6 0.07
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTATAACTTTTAATAAT
Found at i:20330249 original size:46 final size:45
Alignment explanation
Indices: 20330182--20330589 Score: 451
Period size: 46 Copynumber: 9.6 Consensus size: 45
20330172 TTTGAGTACT
* *
20330182 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
20330228 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
20330264 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
20330310 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
20330356 TCTGATCAAGTGAAAAAGTGATAAGT-G-A---TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
20330392 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
20330428 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
20330474 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
20330520 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
20330565 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
20330590 ATCATACGTA
Statistics
Matches: 324, Mismatches: 15, Indels: 49
0.84 0.04 0.13
Matches are distributed among these distances:
34 1 0.00
36 90 0.28
37 2 0.01
38 1 0.00
39 1 0.00
40 5 0.02
41 1 0.00
42 4 0.01
43 13 0.04
44 4 0.01
45 23 0.07
46 179 0.55
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:20330259 original size:36 final size:36
Alignment explanation
Indices: 20330218--20330454 Score: 222
Period size: 36 Copynumber: 6.0 Consensus size: 36
20330208 GGTAGCTTTA
20330218 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
20330254 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
* *
20330299 AGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
20330345 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
20330382 GATATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
20330418 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
20330454 G
1 G
20330455 TTAGCCTTAG
Statistics
Matches: 183, Mismatches: 8, Indels: 20
0.87 0.04 0.09
Matches are distributed among these distances:
36 99 0.54
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 76 0.42
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:20330410 original size:128 final size:126
Alignment explanation
Indices: 20330182--20330589 Score: 539
Period size: 128 Copynumber: 3.2 Consensus size: 126
20330172 TTTGAGTACT
*
20330182 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* * *
20330247 GATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 GATAAGTGATATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC--TAGCTACACTTA
20330310 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
20330375 GATAAGTGATATACTTATCTGATCAAGTGAAAAAGTGATAA---GT-GCTA--T--ACTTA
66 GATAAGTGATATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
* * * *
20330428 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
20330493 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCT
66 GATAAGT-G-A----TA--T--ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTAGCT
20330558 ACACTTA
120 ACACTTA
*
20330565 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
20330590 ATCATACGTA
Statistics
Matches: 250, Mismatches: 11, Indels: 31
0.86 0.04 0.11
Matches are distributed among these distances:
118 73 0.29
119 1 0.00
120 2 0.01
122 2 0.01
124 4 0.02
125 2 0.01
126 1 0.00
128 129 0.52
131 2 0.01
132 1 0.00
133 3 0.01
135 13 0.05
136 5 0.02
137 12 0.05
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (126 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGATATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
Found at i:20330494 original size:164 final size:164
Alignment explanation
Indices: 20330223--20330546 Score: 576
Period size: 164 Copynumber: 2.0 Consensus size: 164
20330213 CTTTAGCTAC
20330223 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
* *
20330288 GTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACAC
66 GTGGTAGCCTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACAC
20330353 TTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
131 TTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
* *
20330387 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
* * *
20330452 GTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACAC
66 GTGGTAGCCTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACAC
*
20330517 TTATCTGATCAAGTGACAAAGTGATAAGTG
131 TTATCTGATCAAGTGAAAAAGTGATAAGTG
20330547 GTAGCCTAGC
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
164 152 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (164 bp):
ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
GTGGTAGCCTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACAC
TTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
Found at i:20331420 original size:17 final size:15
Alignment explanation
Indices: 20331400--20331434 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
20331390 GAATTGAATA
20331400 ATTGTATGATTATAGTT
1 ATTGTATG-TTATA-TT
20331417 ATTGTATGTTATATT
1 ATTGTATGTTATATT
20331432 ATT
1 ATT
20331435 TTACTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 5 0.28
17 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (15 bp):
ATTGTATGTTATATT
Found at i:20336228 original size:9 final size:9
Alignment explanation
Indices: 20336216--20336240 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20336206 GCATATTTTG
20336216 CATTTTATT
1 CATTTTATT
20336225 CATTTTATT
1 CATTTTATT
20336234 CATTTTA
1 CATTTTA
20336241 GTCCTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
CATTTTATT
Found at i:20337792 original size:17 final size:17
Alignment explanation
Indices: 20337770--20337802 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20337760 TTAACTTAAC
20337770 TAAATTAATT-TCTCAAT
1 TAAATT-ATTGTCTCAAT
20337787 TAAATTATTGTCTCAA
1 TAAATTATTGTCTCAA
20337803 ATCAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (17 bp):
TAAATTATTGTCTCAAT
Found at i:20342682 original size:37 final size:40
Alignment explanation
Indices: 20342596--20342725 Score: 133
Period size: 37 Copynumber: 3.3 Consensus size: 40
20342586 TTTGGCACCT
* * *
20342596 AGTGCCTCATCAGATAATTCGAAGTAATAATTTGACACCC
1 AGTGCCTCATCGGATAAGTCGAAGTAATAATTTGAAACCC
* * *
20342636 AATGTCTCATCGGCTAAGTCGAAGT-A-AA-TTGAAACCC
1 AGTGCCTCATCGGATAAGTCGAAGTAATAATTTGAAACCC
* *
20342673 AGTGCCTCATCGAATATA-TCTGAAGTAATAATTTGACACCC
1 AGTGCCTCATCGGATA-AGTC-GAAGTAATAATTTGAAACCC
*
20342714 AGTGTCTCATCG
1 AGTGCCTCATCG
20342726 ACTCGAAGTC
Statistics
Matches: 73, Mismatches: 12, Indels: 9
0.78 0.13 0.10
Matches are distributed among these distances:
37 22 0.30
38 8 0.11
39 2 0.03
40 22 0.30
41 19 0.26
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (40 bp):
AGTGCCTCATCGGATAAGTCGAAGTAATAATTTGAAACCC
Found at i:20342716 original size:41 final size:40
Alignment explanation
Indices: 20342586--20342726 Score: 132
Period size: 40 Copynumber: 3.6 Consensus size: 40
20342576 AGCATACCAG
* *
20342586 TTTGGCACCTAGTGCCTCATC-AGATAAT-TCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGA-ATAATCT-GAAGTAATAA
* * **
20342626 TTTGACACCCAATGTCTCATCGGCTAAGTC-GAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGAATAA-TCTGAAGTAATAA
*
20342664 -TTGAAACCCAGTGCCTCATCGAATATATCTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGAATA-ATCTGAAGTAATAA
*
20342704 TTTGACACCCAGTGTCTCATCGA
1 TTTGACACCCAGTGCCTCATCGA
20342727 CTCGAAGTCG
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
37 22 0.28
38 8 0.10
39 2 0.03
40 27 0.34
41 21 0.26
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGAATAATCTGAAGTAATAA
Found at i:20342724 original size:78 final size:77
Alignment explanation
Indices: 20342596--20342743 Score: 212
Period size: 78 Copynumber: 1.9 Consensus size: 77
20342586 TTTGGCACCT
*
20342596 AGTGCCTCATCAGATAATTCGAAGTAATAATTTGACACCCAATGTCTCATCGGCT-AAGTCGAAG
1 AGTGCCTCATCAGATAATTCGAAGTAATAATTTGACACCCAATGTCTCATCGACTCAAGTCGAAG
20342660 TAAATTGAAACCC
66 -AAATTGAAACCC
*
20342673 AGTGCCTCATC-GA-ATATATCTGAAGTAATAATTTGACACCCAGTGTCTCATCGACTCGAAGTC
1 AGTGCCTCATCAGATA-AT-TC-GAAGTAATAATTTGACACCCAATGTCTCATCGACTC-AAGTC
20342736 GAAGAAAT
62 GAAGAAAT
20342744 CCCTGAACTC
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
75 1 0.02
76 4 0.06
77 13 0.20
78 33 0.52
79 4 0.06
80 9 0.14
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (77 bp):
AGTGCCTCATCAGATAATTCGAAGTAATAATTTGACACCCAATGTCTCATCGACTCAAGTCGAAG
AAATTGAAACCC
Found at i:20342871 original size:11 final size:11
Alignment explanation
Indices: 20342855--20342879 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20342845 TTCAATTCAA
20342855 ATAATCAATAT
1 ATAATCAATAT
20342866 ATAATCAATAT
1 ATAATCAATAT
20342877 ATA
1 ATA
20342880 TACCAATTCA
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATCAATAT
Found at i:20343072 original size:9 final size:9
Alignment explanation
Indices: 20343058--20343115 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
20343048 TTTGGTTAAA
*
20343058 AATTAACTG
1 AATTAACCG
20343067 AATTAACCG
1 AATTAACCG
* *
20343076 AGTTACCCG
1 AATTAACCG
*
20343085 AATTAACTG
1 AATTAACCG
*
20343094 AATTACCCG
1 AATTAACCG
20343103 AATTAACCG
1 AATTAACCG
20343112 AATT
1 AATT
20343116 GAATCACTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:20343089 original size:18 final size:18
Alignment explanation
Indices: 20343066--20343115 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
20343056 AAAATTAACT
*
20343066 GAATTAACCGAGTTACCC
1 GAATTAACCGAATTACCC
*
20343084 GAATTAACTGAATTACCC
1 GAATTAACCGAATTACCC
20343102 GAATTAACCGAATT
1 GAATTAACCGAATT
20343116 GAATCACTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (18 bp):
GAATTAACCGAATTACCC
Found at i:20343090 original size:27 final size:27
Alignment explanation
Indices: 20343058--20343115 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
20343048 TTTGGTTAAA
* *
20343058 AATTAACTGAATTAACCGAGTTACCCG
1 AATTAACTGAATTAACCGAATTAACCG
*
20343085 AATTAACTGAATTACCCGAATTAACCG
1 AATTAACTGAATTAACCGAATTAACCG
20343112 AATT
1 AATT
20343116 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (27 bp):
AATTAACTGAATTAACCGAATTAACCG
Found at i:20343295 original size:12 final size:12
Alignment explanation
Indices: 20343278--20343307 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20343268 TATATTATTT
*
20343278 TTATTTTTTAAA
1 TTATTTATTAAA
20343290 TTATTTATTAAA
1 TTATTTATTAAA
20343302 TTATTT
1 TTATTT
20343308 GTAATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTTATTAAA
Found at i:20343346 original size:18 final size:18
Alignment explanation
Indices: 20343320--20343363 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
20343310 AATTTTTATG
* *
20343320 ATTGAGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
20343338 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
20343356 CTTGGGTT
1 ATTGGGTT
20343364 TGGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:20351658 original size:28 final size:28
Alignment explanation
Indices: 20351627--20351680 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
20351617 TTGAGTCCAA
* *
20351627 GGTTTAAGGTTTCAGGTTTAATATTTGG
1 GGTTTAAGGTTTCAAGTTTAAGATTTGG
* *
20351655 GGTTTAGGGTTTGAAGTTTAAGATTT
1 GGTTTAAGGTTTCAAGTTTAAGATTT
20351681 AAGATTTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (28 bp):
GGTTTAAGGTTTCAAGTTTAAGATTTGG
Found at i:20358862 original size:14 final size:14
Alignment explanation
Indices: 20358843--20358872 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20358833 AATTGCCTGC
*
20358843 AAATTCCAAATTCT
1 AAATTCCAAAATCT
20358857 AAATTCCAAAATCT
1 AAATTCCAAAATCT
20358871 AA
1 AA
20358873 TATTATATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATTCCAAAATCT
Found at i:20365288 original size:17 final size:17
Alignment explanation
Indices: 20365266--20365300 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20365256 GATTTACAAG
20365266 GCTTTGATCTCAAAATA
1 GCTTTGATCTCAAAATA
20365283 GCTTTGATCTCAAAATA
1 GCTTTGATCTCAAAATA
20365300 G
1 G
20365301 AGGCCAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (17 bp):
GCTTTGATCTCAAAATA
Found at i:20371556 original size:2 final size:2
Alignment explanation
Indices: 20371549--20371598 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
20371539 TATTGCTCAT
20371549 TC TC TC 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 TC TC TC
20371591 TC TC TC TC
1 TC TC TC TC
20371599 ATCCTGTGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:20376774 original size:22 final size:21
Alignment explanation
Indices: 20376743--20376787 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
20376733 CGGAAGAAAG
* *
20376743 AAGAATGAAGGAAGCAGAAGAA
1 AAGAAGGAAGGAA-AAGAAGAA
20376765 AAGAAGGAAGGAAAAGAAGAA
1 AAGAAGGAAGGAAAAGAAGAA
20376786 AA
1 AA
20376788 AAAGTAGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.02
Consensus pattern (21 bp):
AAGAAGGAAGGAAAAGAAGAA
Found at i:20376781 original size:18 final size:20
Alignment explanation
Indices: 20376739--20376785 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
20376729 AAAACGGAAG
20376739 AAAGAAGAATGAAGGAAGCA
1 AAAGAAGAATGAAGGAAGCA
* *
20376759 GAAGAA-AA-GAAGGAAGGA
1 AAAGAAGAATGAAGGAAGCA
20376777 AAAGAAGAA
1 AAAGAAGAA
20376786 AAAAAGTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 14 0.61
19 4 0.17
20 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.32, T:0.02
Consensus pattern (20 bp):
AAAGAAGAATGAAGGAAGCA
Found at i:20378478 original size:6 final size:6
Alignment explanation
Indices: 20378460--20378509 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
20378450 AGAATGTGGT
* * * *
20378460 TCTGGG TCTGGC TCCGGC TCTGGC GCTGGC TCTGGG TCTGGC TCTGGC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
20378508 TC
1 TC
20378510 CGGTGCATGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.32, G:0.38, T:0.30
Consensus pattern (6 bp):
TCTGGC
Found at i:20380249 original size:38 final size:38
Alignment explanation
Indices: 20380206--20380287 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
20380196 AAAAAGTCAG
20380206 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
* *
20380244 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
20380282 TTATAA
1 TTATAA
20380288 ACTTTATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
Found at i:20380469 original size:29 final size:29
Alignment explanation
Indices: 20380436--20380549 Score: 139
Period size: 29 Copynumber: 4.1 Consensus size: 29
20380426 TTATAAAATA
20380436 ATTACAATATTCATACAAAAAATTACAAT
1 ATTACAATATTCATACAAAAAATTACAAT
* * * * *
20380465 ATTACAATA-T--TACAATATATTGCCAC
1 ATTACAATATTCATACAAAAAATTACAAT
20380491 ATTACAATATTCATAC--AAAATTACAAT
1 ATTACAATATTCATACAAAAAATTACAAT
*
20380518 ATTACAATATTCATACAAAAAATTGCAAT
1 ATTACAATATTCATACAAAAAATTACAAT
20380547 ATT
1 ATT
20380550 CATACAAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
26 20 0.29
27 23 0.33
28 1 0.01
29 25 0.36
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (29 bp):
ATTACAATATTCATACAAAAAATTACAAT
Found at i:20380470 original size:8 final size:8
Alignment explanation
Indices: 20380457--20380528 Score: 63
Period size: 8 Copynumber: 8.4 Consensus size: 8
20380447 CATACAAAAA
20380457 ATTACAAT
1 ATTACAAT
20380465 ATTACAAT
1 ATTACAAT
20380473 ATTACAATAT
1 ATTAC-A-AT
* * *
20380483 ATTGCCAC
1 ATTACAAT
20380491 ATTACAAT
1 ATTACAAT
*
20380499 ATTCATACAAA
1 A-T--TACAAT
20380510 ATTACAAT
1 ATTACAAT
20380518 ATTACAAT
1 ATTACAAT
20380526 ATT
1 ATT
20380529 CATACAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
8 36 0.71
9 2 0.04
10 7 0.14
11 6 0.12
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.36
Consensus pattern (8 bp):
ATTACAAT
Found at i:20380527 original size:27 final size:26
Alignment explanation
Indices: 20380431--20380783 Score: 291
Period size: 27 Copynumber: 14.3 Consensus size: 26
20380421 ATTAATTATA
20380431 AAATAATTACAATATTCATACAAAAAATT
1 AAAT-ATTACAATATTCATAC--AAAATT
20380460 ACAATATTACAATA-T--TACAATATATT
1 A-AATATTACAATATTCATACAA-A-ATT
** *
20380486 GCCACATTACAATATTCATACAAAATT
1 -AAATATTACAATATTCATACAAAATT
20380513 ACAATATTACAATATTCATAC--AA--
1 A-AATATTACAATATTCATACAAAATT
*
20380536 AAA-ATTGCAATATTCATACAAAATT
1 AAATATTACAATATTCATACAAAATT
20380561 ATAATATTACAATATTCATAC-AAA--
1 A-AATATTACAATATTCATACAAAATT
20380585 AAATA-T--AATATTCATACAAAATT
1 AAATATTACAATATTCATACAAAATT
*
20380608 ACAAAATTACAATATTCATAC-AAA--
1 A-AATATTACAATATTCATACAAAATT
*
20380632 AAA-ATTGCAATATTCATACAAAATT
1 AAATATTACAATATTCATACAAAATT
20380657 ATAATATTACAATATTCATACAAAA--
1 A-AATATTACAATATTCATACAAAATT
20380682 AAATA-T--AATATTCATAC-AAA--
1 AAATATTACAATATTCATACAAAATT
* *
20380702 AAA-ATTGCAATATTCATACAAAACT
1 AAATATTACAATATTCATACAAAATT
20380727 ATAATATTACAATATTCATAC-AAA--
1 A-AATATTACAATATTCATACAAAATT
*
20380751 AAAT-TTATAATATTCATACAAAATT
1 AAATATTACAATATTCATACAAAATT
20380776 ACAATATT
1 A-AATATT
20380784 CATACAAAAA
Statistics
Matches: 272, Mismatches: 13, Indels: 80
0.75 0.04 0.22
Matches are distributed among these distances:
19 1 0.00
20 18 0.07
21 29 0.11
22 43 0.16
23 23 0.08
24 12 0.04
25 9 0.03
26 34 0.12
27 83 0.31
28 2 0.01
29 15 0.06
30 3 0.01
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (26 bp):
AAATATTACAATATTCATACAAAATT
Found at i:20380692 original size:29 final size:27
Alignment explanation
Indices: 20380591--20380783 Score: 149
Period size: 22 Copynumber: 7.9 Consensus size: 27
20380581 CAAAAAATAT
* * *
20380591 AATATTCATACAAAATTACAAAATTAC
1 AATATTCATACAAAAATATAATATTAC
*
20380618 AATATTCATAC--AAA-A-AA-ATTGC
1 AATATTCATACAAAAATATAATATTAC
*
20380640 AATATTCATACAAAATTATAATATTAC
1 AATATTCATACAAAAATATAATATTAC
20380667 AATATTCATAC-AAAA-A-AATA-T--
1 AATATTCATACAAAAATATAATATTAC
*
20380688 AATATTCATACAAAAA----A-ATTGC
1 AATATTCATACAAAAATATAATATTAC
*
20380710 AATATTCATACAAAACTATAATATTAC
1 AATATTCATACAAAAATATAATATTAC
*
20380737 AATATTCATAC--AAA-A-AAT-TTAT
1 AATATTCATACAAAAATATAATATTAC
* *
20380759 AATATTCATACAAAATTACAATATT
1 AATATTCATACAAAAATATAATATT
20380784 CATACAAAAA
Statistics
Matches: 137, Mismatches: 10, Indels: 38
0.74 0.05 0.21
Matches are distributed among these distances:
19 1 0.01
20 2 0.01
21 11 0.08
22 48 0.35
23 6 0.04
24 10 0.07
25 7 0.05
26 9 0.07
27 43 0.31
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.32
Consensus pattern (27 bp):
AATATTCATACAAAAATATAATATTAC
Found at i:20380709 original size:70 final size:70
Alignment explanation
Indices: 20380491--20380792 Score: 352
Period size: 70 Copynumber: 4.3 Consensus size: 70
20380481 ATATTGCCAC
* * *
20380491 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAATTGCAATATTCATACA
1 ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATACAATATTCATAC-
20380556 AAATTATAA
65 AAA--A-AA
*
20380565 TATTACAATATTCATACAAAAAATATAATATT-C-ATA--CA-A-AATTACAAAATTACAATATT
1 -ATTACAATATTCATAC-AAAATTATAATATTACAATATTCATACAA--A-AAAA-TACAATATT
20380624 CATACAAAAAA
60 CATACAAAAAA
* *
20380635 ATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATATAATATTCATACA
1 ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATACAATATTCATACA
20380700 AAAAA
66 AAAAA
* * * *
20380705 ATTGCAATATTCATACAAAACTATAATATTACAATATTCATACAAAAAATTTATAATATTCATAC
1 ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAA-ATACAATATTCATAC
20380770 ---AAA
65 AAAAAA
20380773 ATTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
20380793 AATTACTAAT
Statistics
Matches: 205, Mismatches: 10, Indels: 31
0.83 0.04 0.13
Matches are distributed among these distances:
68 35 0.17
69 16 0.08
70 74 0.36
71 20 0.10
72 6 0.03
73 7 0.03
74 18 0.09
75 17 0.08
76 12 0.06
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (70 bp):
ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATACAATATTCATACA
AAAAA
Found at i:20380752 original size:49 final size:45
Alignment explanation
Indices: 20380495--20380917 Score: 252
Period size: 48 Copynumber: 9.4 Consensus size: 45
20380485 TGCCACATTA
*
20380495 CAATATTCATACAAAATTACAATATTACAATATTCATAC-AAAAAAT-TG
1 CAATATTCATAC-AAA--A-AA-ATTACAATATTCATACAAAAAAATATT
20380543 CAATATTCATACAAAATTATAATATTACAATATTCATAC-AAAAAATA-T
1 CAATATTCATAC-AAA--A-AA-ATTACAATATTCATACAAAAAAATATT
*
20380591 -AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAAT-TG
1 CAATATTCATAC--AA--A-AAAATTACAATATTCATACAAAAAAATATT
20380639 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATA-T
1 CAATATTCATAC-AAA--A-AA-ATTACAATATTCATACAAAAAAATATT
*
20380688 -AATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATATT
1 CAATATTCATACAAAAAAATTACAATATTCATACAAAA--A-AATATT
* * *
20380735 ACAATATTCATACAAAAAATTTATAATATTCATAC---AAAAT-TA
1 -CAATATTCATACAAAAAAATTACAATATTCATACAAAAAAATATT
* * *
20380777 CAATATTCATAC-AAAAAATTACTA-ATCCA-A-AACTATAAATA--
1 CAATATTCATACAAAAAAATTACAATATTCATACAA--AAAAATATT
* * * * *
20380818 CAA-ATTTAATTATAAAATAATTACAATATTCATAC---AACAT-TA
1 CAATA-TTCA-TACAAAAAAATTACAATATTCATACAAAAAAATATT
*
20380860 CAATATTCAT--AAAAAAATTATAATATTCATAC-AAAAAAT-TT
1 CAATATTCATACAAAAAAATTACAATATTCATACAAAAAAATATT
*
20380901 AAAATATTCATACAAAA
1 -CAATATTCATACAAAA
20380918 TTCTAATCTA
Statistics
Matches: 309, Mismatches: 29, Indels: 78
0.74 0.07 0.19
Matches are distributed among these distances:
38 1 0.00
39 24 0.08
40 10 0.03
41 27 0.09
42 22 0.07
43 33 0.11
44 11 0.04
45 3 0.01
46 6 0.02
47 32 0.10
48 73 0.24
49 66 0.21
50 1 0.00
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.32
Consensus pattern (45 bp):
CAATATTCATACAAAAAAATTACAATATTCATACAAAAAAATATT
Found at i:20380906 original size:22 final size:21
Alignment explanation
Indices: 20380610--20380917 Score: 100
Period size: 22 Copynumber: 14.1 Consensus size: 21
20380600 ACAAAATTAC
*
20380610 AAAATTACAATATTCATACAAA
1 AAAATTAAAATATTCATAC-AA
**
20380632 AAAATTGCAATATTCATAC--
1 AAAATTAAAATATTCATACAA
*
20380651 AAAATTATAATATTACAATATTCATACA
1 AAAATTAAAATATT-C-ATA--C--A-A
* *
20380679 AAAAAATATAATATTCATACAAA
1 AAA-ATTAAAATATTCATAC-AA
**
20380702 AAAATTGCAATATTCATAC--
1 AAAATTAAAATATTCATACAA
* *
20380721 AAAACTATAATATTACAATATTCATACA
1 AAAATTAAAATATT-C-ATA--C--A-A
*
20380749 AAAAATTTATAATATTCATAC--
1 AAA-A-TTAAAATATTCATACAA
*
20380770 AAAATTACAATATTCATACAA
1 AAAATTAAAATATTCATACAA
** * * *
20380791 AAAATTACTA-ATCCAAAACTA
1 AAAATTAAAATATTC-ATACAA
* * *
20380812 TAAA-TACAAAT-TTAATTATAA
1 AAAATTA-AAATATTCA-TACAA
*
20380833 AATAATTACAATATTCATAC--
1 AA-AATTAAAATATTCATACAA
* *
20380853 AACATTACAATATTCATA-AA
1 AAAATTAAAATATTCATACAA
*
20380873 AAAATTATAATATTCATACAA
1 AAAATTAAAATATTCATACAA
20380894 AAAATTTAAAATATTCATACAA
1 AAAA-TTAAAATATTCATACAA
20380916 AA
1 AA
20380918 TTCTAATCTA
Statistics
Matches: 219, Mismatches: 33, Indels: 68
0.68 0.10 0.21
Matches are distributed among these distances:
19 52 0.24
20 27 0.12
21 36 0.16
22 56 0.26
23 11 0.05
24 1 0.00
25 1 0.00
26 1 0.00
27 3 0.01
28 10 0.05
29 12 0.05
30 9 0.04
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (21 bp):
AAAATTAAAATATTCATACAA
Found at i:20380919 original size:20 final size:20
Alignment explanation
Indices: 20380842--20380919 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
20380832 AAATAATTAC
* *
20380842 AATATTCATACAACA-TTAC
1 AATATTCATACAAAATTTAA
* * *
20380861 AATATTCATAAAAAAATTAT
1 AATATTCATACAAAATTTAA
20380881 AATATTCATACAAAAAATTTAA
1 AATATTCATAC--AAAATTTAA
20380903 AATATTCATACAAAATT
1 AATATTCATACAAAATT
20380920 CTAATCTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.26
20 19 0.38
22 18 0.36
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATTCATACAAAATTTAA
Found at i:20381109 original size:17 final size:15
Alignment explanation
Indices: 20381088--20381119 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
20381078 TTTTTTTCTT
20381088 TCTTCTTCT-CTTTC
1 TCTTCTTCTCCTTTC
20381102 TCTTCTTCTCCTTTC
1 TCTTCTTCTCCTTTC
20381117 TCT
1 TCT
20381120 CTTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (15 bp):
TCTTCTTCTCCTTTC
Found at i:20381122 original size:14 final size:13
Alignment explanation
Indices: 20381084--20381122 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
20381074 CTTTTTTTTT
20381084 TCTTTCT-TCTTC
1 TCTTTCTCTCTTC
20381096 TCTTTCTCTTCTTC
1 TCTTTCTC-TCTTC
20381110 TCCTTTCTCTCTT
1 T-CTTTCTCTCTT
20381123 TTTTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.29
14 10 0.42
15 7 0.29
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (13 bp):
TCTTTCTCTCTTC
Found at i:20383422 original size:6 final size:6
Alignment explanation
Indices: 20383411--20383435 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20383401 ATTACCGATA
20383411 ATGAAG ATGAAG ATGAAG ATGAAG A
1 ATGAAG ATGAAG ATGAAG ATGAAG A
20383436 AAAAGGCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
ATGAAG
Found at i:20383869 original size:53 final size:54
Alignment explanation
Indices: 20383788--20383900 Score: 210
Period size: 53 Copynumber: 2.1 Consensus size: 54
20383778 AGTTTACTTA
*
20383788 ATTATGTTATTCTTGTGTTGAAGTGAAAACTCCTTAAATTAGTATTTTCTATTC
1 ATTATGTTATTCTTGTGTTGAAGTGAAAACTCCTCAAATTAGTATTTTCTATTC
20383842 ATTAT-TTATTCTTGTGTTGAAGTGAAAACTCCTCAAATTAGTATTTTCTATTC
1 ATTATGTTATTCTTGTGTTGAAGTGAAAACTCCTCAAATTAGTATTTTCTATTC
20383895 ATTATG
1 ATTATG
20383901 ATGGTATGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
53 52 0.91
54 5 0.09
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (54 bp):
ATTATGTTATTCTTGTGTTGAAGTGAAAACTCCTCAAATTAGTATTTTCTATTC
Found at i:20384351 original size:40 final size:40
Alignment explanation
Indices: 20384296--20384382 Score: 156
Period size: 40 Copynumber: 2.1 Consensus size: 40
20384286 AAAATAAAAA
20384296 TTTAATGGTTAAATATGAAAGTACCTAATAGTTATTGTCT
1 TTTAATGGTTAAATATGAAAGTACCTAATAGTTATTGTCT
*
20384336 TTTAATGGTTAAATATGAAAGTGCCTAATAGTTATTGTCT
1 TTTAATGGTTAAATATGAAAGTACCTAATAGTTATTGTCT
20384376 TTATAAT
1 TT-TAAT
20384383 TTGGAGGTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 41 0.91
41 4 0.09
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (40 bp):
TTTAATGGTTAAATATGAAAGTACCTAATAGTTATTGTCT
Found at i:20386064 original size:15 final size:15
Alignment explanation
Indices: 20386044--20386073 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20386034 GAAGTCTATC
20386044 ACACTATCGGCTGTT
1 ACACTATCGGCTGTT
20386059 ACACTATCGGCTGTT
1 ACACTATCGGCTGTT
20386074 TTCGGTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (15 bp):
ACACTATCGGCTGTT
Found at i:20387945 original size:25 final size:25
Alignment explanation
Indices: 20387917--20387998 Score: 60
Period size: 25 Copynumber: 3.2 Consensus size: 25
20387907 GATGCAACAA
20387917 AATGACGAATTAGAAAAATCCTTAT
1 AATGACGAATTAGAAAAATCCTTAT
** * *
20387942 AATGTATC-TTTTA-ACAAGATAGCCTTTT
1 AATG-A-CGAATTAGA-AA-A-ATCCTTAT
*
20387970 ATTGACGAATTAGAAAAATCCTTAT
1 AATGACGAATTAGAAAAATCCTTAT
20387995 AATG
1 AATG
20387999 TATCTTTTAA
Statistics
Matches: 40, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
25 14 0.35
26 8 0.20
27 8 0.20
28 10 0.25
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (25 bp):
AATGACGAATTAGAAAAATCCTTAT
Found at i:20387981 original size:53 final size:53
Alignment explanation
Indices: 20387919--20388025 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
20387909 TGCAACAAAA
20387919 TGACGAATTAGAAAAATCCTTATAATGTATCTTTTAACAAGATAGCCTTTTAT
1 TGACGAATTAGAAAAATCCTTATAATGTATCTTTTAACAAGATAGCCTTTTAT
20387972 TGACGAATTAGAAAAATCCTTATAATGTATCTTTTAACAAGATAGCCTTTTAT
1 TGACGAATTAGAAAAATCCTTATAATGTATCTTTTAACAAGATAGCCTTTTAT
20388025 T
1 T
20388026 ATTTTATAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.38
Consensus pattern (53 bp):
TGACGAATTAGAAAAATCCTTATAATGTATCTTTTAACAAGATAGCCTTTTAT
Found at i:20388456 original size:14 final size:13
Alignment explanation
Indices: 20388437--20388476 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
20388427 TTGATTGCCA
20388437 GTAAAATATTTTT
1 GTAAAATATTTTT
20388450 CGTAAAATGATTTTT
1 -GTAAAAT-ATTTTT
*
20388465 GGAAAATATTTT
1 GTAAAATATTTT
20388477 ACTTTTCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 5 0.21
14 13 0.54
15 6 0.25
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (13 bp):
GTAAAATATTTTT
Found at i:20388489 original size:34 final size:34
Alignment explanation
Indices: 20388446--20388511 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
20388436 AGTAAAATAT
*
20388446 TTTTCGTAAAATGATTT-TTGGAAAATATTTTAC
1 TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
20388479 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACTGGAAAATATTTT
20388512 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:20388576 original size:32 final size:32
Alignment explanation
Indices: 20388501--20388579 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 32
20388491 TGATTTACTG
* ** *
20388501 GAAAATATTTTCTGGTGTTTGATTGAATCTGT
1 GAAAATATTTTCTGCTGTTTGACAGAATCTCT
*
20388533 GTAAAATATTTTCTGCTGTTTGACAGATTCTCT
1 G-AAAATATTTTCTGCTGTTTGACAGAATCTCT
20388566 GAAAATATTTTCTG
1 GAAAATATTTTCTG
20388580 AAAAAGTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
32 14 0.34
33 27 0.66
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.46
Consensus pattern (32 bp):
GAAAATATTTTCTGCTGTTTGACAGAATCTCT
Found at i:20388614 original size:20 final size:20
Alignment explanation
Indices: 20388589--20388640 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
20388579 GAAAAAGTTG
20388589 TTTTTACATATATT-AATAAA
1 TTTTTACATATATTAAAT-AA
* *
20388609 TTTTT--ATATTTTAAATTA
1 TTTTTACATATATTAAATAA
20388627 TTTTTACATATATT
1 TTTTTACATATATT
20388641 GCAATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 11 0.42
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTACATATATTAAATAA
Found at i:20389220 original size:22 final size:22
Alignment explanation
Indices: 20389192--20389235 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
20389182 GATAAAATAT
20389192 GTTTTTAAGGGGAGAACTCAAG
1 GTTTTTAAGGGGAGAACTCAAG
20389214 GTTTTTAAGGGGAGAACTCAAG
1 GTTTTTAAGGGGAGAACTCAAG
20389236 TTCAAACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (22 bp):
GTTTTTAAGGGGAGAACTCAAG
Found at i:20390101 original size:14 final size:14
Alignment explanation
Indices: 20390082--20390108 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20390072 TATTCTTCTT
20390082 TGATCCAACTATGG
1 TGATCCAACTATGG
20390096 TGATCCAACTATG
1 TGATCCAACTATG
20390109 CTAGGCAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (14 bp):
TGATCCAACTATGG
Found at i:20390629 original size:17 final size:17
Alignment explanation
Indices: 20390607--20390640 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20390597 AAAAAGTATT
20390607 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
* *
20390624 TTAAAATTTTTTTAAAA
1 TTAAAAATATTTTAAAA
20390641 AAAGTATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:20390711 original size:82 final size:83
Alignment explanation
Indices: 20390593--20390758 Score: 262
Period size: 83 Copynumber: 2.0 Consensus size: 83
20390583 TTTTAAAATT
**** * * *
20390593 TTAAAAAAAGTATTTTAAAAATATTTTAAAATT-AAAATTTTTTTAAAAAAAGTATTTTAAAAGT
1 TTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAATTTAAAAAAAGTATGTAAAAAAT
20390657 ATTTTAAAATTAAAAAAA
66 ATTTTAAAATTAAAAAAA
20390675 TTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAATTTAAAAAAAGTATGTAAAAAAT
1 TTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAATTTAAAAAAAGTATGTAAAAAAT
20390740 ATTTTAAAATTAAAAAAA
66 ATTTTAAAATTAAAAAAA
20390758 T
1 T
20390759 AAATATATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
82 33 0.43
83 43 0.57
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (83 bp):
TTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAATTTAAAAAAAGTATGTAAAAAAT
ATTTTAAAATTAAAAAAA
Found at i:20390757 original size:42 final size:42
Alignment explanation
Indices: 20390587--20390757 Score: 247
Period size: 42 Copynumber: 4.1 Consensus size: 42
20390577 TAAAAATTTT
*
20390587 AAAATTTTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
**** *
20390629 ATTTTTTTAAAAAAAGTATTTTAAAAGTATTTTAAAATT-AA
1 AAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
20390670 AAAAA-TTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
1 AAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATT-AAA
* *
20390712 AAAAATTTAAAAAAAGTATGTAAAAAATATTTTAAAATTAAA
1 AAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
20390754 AAAA
1 AAAA
20390758 TAAATATATT
Statistics
Matches: 115, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
40 32 0.28
41 3 0.03
42 49 0.43
43 31 0.27
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (42 bp):
AAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
Found at i:20393995 original size:46 final size:46
Alignment explanation
Indices: 20393943--20394035 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
20393933 TGTTAGTTTC
20393943 GGTTCTCTCTATATGACCCTCAGTAGGCTTTTTTTTCATTGGAGAT
1 GGTTCTCTCTATATGACCCTCAGTAGGCTTTTTTTTCATTGGAGAT
20393989 GGTTCTCTCTATATGACCCTCAGTAGGCTTTTTTTTCATTGGAGAT
1 GGTTCTCTCTATATGACCCTCAGTAGGCTTTTTTTTCATTGGAGAT
20394035 G
1 G
20394036 AAGATGCTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.43
Consensus pattern (46 bp):
GGTTCTCTCTATATGACCCTCAGTAGGCTTTTTTTTCATTGGAGAT
Found at i:20394736 original size:4 final size:4
Alignment explanation
Indices: 20394727--20394769 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
20394717 TTCTTCTAGT
20394727 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
20394770 ACCTGAATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:20395076 original size:2 final size:2
Alignment explanation
Indices: 20395069--20395101 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
20395059 CTGTCTTTTC
20395069 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
20395102 TCAAATGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20403721 original size:22 final size:22
Alignment explanation
Indices: 20403696--20403769 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
20403686 GGATTGATTA
20403696 GGATATTTTATAGGATTTTATG
1 GGATATTTTATAGGATTTTATG
*
20403718 GGATATTTTAT-GAGATTTTAAG
1 GGATATTTTATAG-GATTTTATG
**
20403740 GGAT-TGAT-TAGGATTTTATG
1 GGATATTTTATAGGATTTTATG
* *
20403760 AGATGTTTTA
1 GGATATTTTA
20403770 AATTAAATCT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
20 12 0.29
21 6 0.15
22 23 0.56
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.47
Consensus pattern (22 bp):
GGATATTTTATAGGATTTTATG
Found at i:20405022 original size:39 final size:38
Alignment explanation
Indices: 20404925--20405076 Score: 142
Period size: 39 Copynumber: 3.9 Consensus size: 38
20404915 AGAATCCATG
* *
20404925 ACAAGGGCTGGATCTCGTCATATTACCCTAGAATCTGCA
1 ACAA-GGCTAGATCTCGTTATATTACCCTAGAATCTGCA
* *
20404964 ATAAGGCTAGATCTCGTTATATTACCCCTAGAATTTGCA
1 ACAAGGCTAGATCTCGTTATATTA-CCCTAGAATCTGCA
* * * * * * *
20405003 ACAAGGCTAGATTTTGTTATCTTGCTCGAGAATCGGCA
1 ACAAGGCTAGATCTCGTTATATTACCCTAGAATCTGCA
* * * *
20405041 ATAAATGCTAGATCTCATTAAATTACCCTAGAATCT
1 A-CAAGGCTAGATCTCGTTATATTACCCTAGAATCT
20405077 ATAATAGATT
Statistics
Matches: 87, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
38 29 0.33
39 58 0.67
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (38 bp):
ACAAGGCTAGATCTCGTTATATTACCCTAGAATCTGCA
Found at i:20407175 original size:18 final size:18
Alignment explanation
Indices: 20407152--20407189 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
20407142 AATTTAAGAA
20407152 TATAAAT-TTTGAAATTTT
1 TATAAATATTT-AAATTTT
*
20407170 TATAAATATTTTAATTTT
1 TATAAATATTTAAATTTT
20407188 TA
1 TA
20407190 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TATAAATATTTAAATTTT
Found at i:20412793 original size:37 final size:37
Alignment explanation
Indices: 20412743--20412816 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
20412733 GCTGAATGAG
* *
20412743 TCTATTTTCACATAAAAGAAACTGAGCAAGGAAAAGA
1 TCTATTTTCACATAAAAGAAACAGAGCAAGCAAAAGA
20412780 TCTATTTTCACATAAAAGAAACAGAGCAAGCAAAAGA
1 TCTATTTTCACATAAAAGAAACAGAGCAAGCAAAAGA
20412817 GTTATATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (37 bp):
TCTATTTTCACATAAAAGAAACAGAGCAAGCAAAAGA
Found at i:20425691 original size:18 final size:18
Alignment explanation
Indices: 20425654--20425691 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
20425644 ATTACTATTC
*
20425654 ATAATAATATTTTTTTAA
1 ATAATAATATTTTTTCAA
20425672 ATAA-AATATTTTATTCAA
1 ATAATAATATTTT-TTCAA
20425690 AT
1 AT
20425692 CTAACCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAATAATATTTTTTCAA
Found at i:20430915 original size:16 final size:16
Alignment explanation
Indices: 20430894--20430930 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
20430884 TTGGTTCGCT
20430894 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
20430910 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
20430926 GTAAT
1 GTAAT
20430931 AGCAATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:20430974 original size:45 final size:44
Alignment explanation
Indices: 20430910--20431004 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 44
20430900 GAATAGAGGC
20430910 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
20430955 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
20430999 GGAATG
1 GTAATG
20431005 AAGGTGTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:20431182 original size:18 final size:17
Alignment explanation
Indices: 20431160--20431194 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20431150 TAATTATTAA
*
20431160 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
20431178 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
20431195 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:20431287 original size:16 final size:14
Alignment explanation
Indices: 20431257--20431308 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
20431247 CAATAAAATA
20431257 TAATTTAAAATAAT
1 TAATTTAAAATAAT
20431271 TAATATTAAATATAAT
1 TAAT-TTAAA-ATAAT
* *
20431287 TTAGTTAAAAT-AT
1 TAATTTAAAATAAT
20431300 ATAATTTAA
1 -TAATTTAA
20431309 TAAAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 2 0.06
14 12 0.39
15 10 0.32
16 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
TAATTTAAAATAAT
Found at i:20431360 original size:117 final size:120
Alignment explanation
Indices: 20431154--20431374 Score: 360
Period size: 117 Copynumber: 1.9 Consensus size: 120
20431144 TTAACATAAT
*
20431154 TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATAT
1 TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTC-TAATAATCAATATTCTTATAT
20431219 GAATTTACTAAAATCATAATATATAATACAAT-AAAATATAATTTAAAATAATTAA
65 GAATTTACTAAAATCATAATATATAATACAATGAAAATATAATTTAAAATAATTAA
*
20431274 TATTAAATATAATTTAGTTAAAATATATAATTTAATAAAATTC-AAT-AT-AATTATTCTTATAT
1 TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAA-TATTCTTATAT
* *
20431336 GAATTTACTAAAATCATATTATATAATACTATGAAAATA
65 GAATTTACTAAAATCATAATATATAATACAATGAAAATA
20431375 ATATATAATC
Statistics
Matches: 95, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
116 2 0.02
117 43 0.45
118 9 0.09
120 41 0.43
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAATATTCTTATATG
AATTTACTAAAATCATAATATATAATACAATGAAAATATAATTTAAAATAATTAA
Found at i:20434067 original size:46 final size:46
Alignment explanation
Indices: 20434000--20434092 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
20433990 CCTCAAAGAA
*
20434000 CAAAGACTTGCAATCAGAAACTATTAGGCTTCACAGAATAAACTTT
1 CAAAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTT
*
20434046 CAAAGACTTGCAATCAGAAACTATGATGCTTCACAGAATAAACTTT
1 CAAAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTT
20434092 C
1 C
20434093 TCGGATACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (46 bp):
CAAAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTT
Found at i:20437999 original size:46 final size:46
Alignment explanation
Indices: 20437942--20438035 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
20437932 ACAATGCTAT
* * *
20437942 AACTCAGTATGGTTTCCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAATATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
*
20437988 AACTCAATATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAATATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
20438034 AA
1 AA
20438036 TTTTCCATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (46 bp):
AACTCAATATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:20467981 original size:21 final size:21
Alignment explanation
Indices: 20467955--20467995 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20467945 ATCTGCTCAA
* *
20467955 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
20467976 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
20467996 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:20474331 original size:15 final size:15
Alignment explanation
Indices: 20474311--20474344 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20474301 TATAATAAAC
20474311 AAAAAAT-TTTTTATA
1 AAAAAATCTTTTT-TA
20474326 AAAAAATCTTTTTTA
1 AAAAAATCTTTTTTA
20474341 AAAA
1 AAAA
20474345 TATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAAAATCTTTTTTA
Found at i:20474482 original size:12 final size:12
Alignment explanation
Indices: 20474465--20474489 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20474455 ATTAATGTAA
20474465 AATTATTTTGTT
1 AATTATTTTGTT
20474477 AATTATTTTGTT
1 AATTATTTTGTT
20474489 A
1 A
20474490 GTAATTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
AATTATTTTGTT
Found at i:20474529 original size:38 final size:36
Alignment explanation
Indices: 20474432--20474538 Score: 94
Period size: 36 Copynumber: 3.0 Consensus size: 36
20474422 ATTTTGTTAC
* *
20474432 TGTTTTGTGTTTTGTGATTTTTTATTAATGTAAAAT
1 TGTTTTGTGTTTTGTGATTTTTTAGTAATGTAAAAG
* ** * *
20474468 TATTTTGT-TAAT-T-ATTTTGTTAGTAATTTATGTAAG
1 TGTTTTGTGTTTTGTGATTTT-TTAGTAATGTA--AAAG
*
20474504 TGTTTTGTGTTTTGTGATTTTTTAGTAATATAAAA
1 TGTTTTGTGTTTTGTGATTTTTTAGTAATGTAAAA
20474539 TATTTAAAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
33 5 0.09
34 10 0.19
35 2 0.04
36 18 0.34
37 2 0.04
38 11 0.21
39 5 0.09
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (36 bp):
TGTTTTGTGTTTTGTGATTTTTTAGTAATGTAAAAG
Found at i:20474629 original size:105 final size:105
Alignment explanation
Indices: 20474512--20474713 Score: 302
Period size: 103 Copynumber: 1.9 Consensus size: 105
20474502 AGTGTTTTGT
* * *
20474512 GTTTTGTGA-TTTTTTAGTAATATAAAATATTTAAAAAAATTATTTTTATAGTTATTTTGTTAGT
1 GTTTTGTAATTTTTTTAGTAATAT--AAT-TTTAAAAAAAATAATTTTATAGTTATTTTGTTAGT
20474576 AATTTATGATTA-GTT-TATAAATTGTTAGTGTTTAATTTAGG
63 AATTTATGATTAGGTTATATAAATTGTTAGTGTTTAATTTAGG
* *
20474617 GTTTTGTAATTTTTTTATTAATGTAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAAT
1 GTTTTGTAATTTTTTTAGTAATATAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAAT
*
20474682 TTATGATTAGGTTATATAAATTGTTGGTGTTT
66 TTATGATTAGGTTATATAAATTGTTAGTGTTT
20474714 TTTGACTTAT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
103 45 0.51
104 6 0.07
105 25 0.28
106 12 0.14
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (105 bp):
GTTTTGTAATTTTTTTAGTAATATAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAAT
TTATGATTAGGTTATATAAATTGTTAGTGTTTAATTTAGG
Found at i:20474759 original size:94 final size:101
Alignment explanation
Indices: 20474557--20474916 Score: 359
Period size: 103 Copynumber: 3.6 Consensus size: 101
20474547 AAAATTATTT
*
20474557 TTATAGTTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTTAATTTAGGGTT
1 TTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTT-ATTTA--GAT
* * ** * * ** *
20474620 TTGTAATTTTTTTATTAATGTAATT-TTAAAAAAAATAATT
63 CTGTGA-TTTAGTAATAATATAATTCTTTTAAAAAA-AATG
*
20474660 TTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTGGTGTTT-TTT-GA-CT-
1 TTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTATTTAGATCTG
**
20474721 T-A-TTAGTAA-CGTA-AATTCTTTTAAAAAAAGATG
66 TGATTTAGTAATAATATAATTCTTTTAAAAAAA-ATG
20474754 TTATAGTTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTTAGTTTAGGATT
1 TTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA-TTTA-GA-T
* ** * * *
20474817 TTGTGATTTTTTAATAATATAATTTTTTTAAAAATAATT
63 CTGTGATTTAGTAATAATATAATTCTTTTAAAAAAAATG
*
20474856 TTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATTAATTGTTAGTGTTTAATTTAG
1 TTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTT-ATTTAG
20474917 TGTTTTGTGA
Statistics
Matches: 217, Mismatches: 22, Indels: 36
0.79 0.08 0.13
Matches are distributed among these distances:
92 17 0.08
93 8 0.04
94 45 0.21
95 4 0.02
96 2 0.01
97 1 0.00
98 2 0.01
99 2 0.01
100 2 0.01
101 5 0.02
102 35 0.16
103 52 0.24
104 24 0.11
105 18 0.08
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (101 bp):
TTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTATTTAGATCTG
TGATTTAGTAATAATATAATTCTTTTAAAAAAAATG
Found at i:20474853 original size:15 final size:17
Alignment explanation
Indices: 20474823--20474857 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
20474813 GATTTTGTGA
20474823 TTTTTTAATAATATAAT
1 TTTTTTAATAATATAAT
20474840 TTTTTTAA-AA-ATAAT
1 TTTTTTAATAATATAAT
20474855 TTT
1 TTT
20474858 ATAGTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 2 0.11
17 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTTAATAATATAAT
Found at i:20474860 original size:102 final size:105
Alignment explanation
Indices: 20474734--20474965 Score: 319
Period size: 104 Copynumber: 2.2 Consensus size: 105
20474724 TAGTAACGTA
* * *
20474734 AATTCTTTTAAAAAAAGATGTTATAGTTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTG
1 AATTTTTTTAAAAATA-ATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTG
*
20474797 TTAGTGTTTAGTTTAG-GATTTTGTGATTTTTTAAT-AATAT
65 TTAGTGTTTAATTTAGTG-TTTTGTGATTTTTTAATAAATAT
*
20474837 AATTTTTTTAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATTAATTGT
1 AATTTTTTTAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGT
* *
20474902 TAGTGTTTAATTTAGTGTTTTGTGATTTTTTTATAAATGT
66 TAGTGTTTAATTTAGTGTTTTGTGATTTTTTAATAAATAT
* **
20474942 AAATTTTTTATAATGTAATTTTAT
1 AATTTTTTTA-AAAATAATTTTAT
20474966 TTTTATTTGA
Statistics
Matches: 114, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
102 33 0.29
103 17 0.15
104 39 0.34
105 14 0.12
106 11 0.10
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.55
Consensus pattern (105 bp):
AATTTTTTTAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGT
TAGTGTTTAATTTAGTGTTTTGTGATTTTTTAATAAATAT
Found at i:20474956 original size:16 final size:16
Alignment explanation
Indices: 20474928--20474963 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
20474918 GTTTTGTGAT
20474928 TTTTTTATAAATGTAAA
1 TTTTTTATAAATGT-AA
20474945 TTTTTTAT-AATGTAA
1 TTTTTTATAAATGTAA
20474960 TTTT
1 TTTT
20474964 ATTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTTTTATAAATGTAA
Found at i:20491999 original size:7 final size:7
Alignment explanation
Indices: 20491987--20492014 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
20491977 CATTCACGCC
20491987 TCGCCTT
1 TCGCCTT
20491994 TCGCCTT
1 TCGCCTT
20492001 TCGCCTT
1 TCGCCTT
20492008 TCGCCTT
1 TCGCCTT
20492015 GTTTTCACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.43, G:0.14, T:0.43
Consensus pattern (7 bp):
TCGCCTT
Found at i:20492199 original size:16 final size:16
Alignment explanation
Indices: 20492164--20492199 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
20492154 TTTGGTTCGC
*
20492164 TGTATTGGATTAAAGG
1 TGTATTGGATTAAAGA
*
20492180 TGTATTGGATTAGAGA
1 TGTATTGGATTAAAGA
20492196 TGTA
1 TGTA
20492200 ATAGCAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAAAGA
Found at i:20492456 original size:18 final size:17
Alignment explanation
Indices: 20492435--20492469 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20492425 TTATTATTAA
*
20492435 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
20492453 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
20492470 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:20492583 original size:17 final size:15
Alignment explanation
Indices: 20492534--20492575 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
20492524 GTAAAATATA
20492534 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
20492549 TATTAAATATATTAT
1 AATTAAATATATTAT
20492564 AATTAAATATAT
1 AATTAAATATAT
20492576 AATTTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:20492604 original size:119 final size:121
Alignment explanation
Indices: 20492413--20492702 Score: 473
Period size: 119 Copynumber: 2.4 Consensus size: 121
20492403 ATTTAATCAT
*
20492413 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
20492478 ATTAATATTCTTATATGAATTTACTCAGATTATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGT-AAATGA-AA
*
20492535 A-TT-AACATAATTATTATTAAATATATTATAATT-AAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
20492597 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
* *
20492653 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA
20492703 AATAATTTAA
Statistics
Matches: 158, Mismatches: 6, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
118 7 0.04
119 103 0.65
120 45 0.28
121 2 0.01
122 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.44
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
Found at i:20492796 original size:24 final size:25
Alignment explanation
Indices: 20492750--20492797 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
20492740 TATGAATTTG
20492750 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
20492776 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
20492798 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:20492802 original size:92 final size:92
Alignment explanation
Indices: 20492706--20492933 Score: 234
Period size: 92 Copynumber: 2.5 Consensus size: 92
20492696 GATTTAAAAT
* * *
20492706 AATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAA
1 AATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA
*
20492768 TTATTACATATAATTTAATAATTAATATTA
64 -TATTAAATATAATTTAATAATTAATATTA
* * * * *
20492798 AATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATA
* *
20492863 TTAAATATAATTTAAT-AGTGATA-TA
66 TTAAATATAATTTAATAATTAATATTA
* * *
20492888 TAATTTCATAAAATTCTTAATAATAAAATGT-TTTTATATGAATTTA
1 -AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
20492934 CTAAAATCAA
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 79 0.68
93 9 0.08
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATA
TTAAATATAATTTAATAATTAATATTA
Found at i:20496264 original size:97 final size:97
Alignment explanation
Indices: 20496153--20496874 Score: 1362
Period size: 97 Copynumber: 7.5 Consensus size: 97
20496143 TTTAATAACA
20496153 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
20496218 TAAAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
*
20496250 ATTATATAAGCATCGAAATTGAAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
20496315 TAAAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
20496347 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
*
20496412 TAAAATATGCATATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
20496444 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
*
20496509 TAAAATATGCAGATTTAATATTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
20496541 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
*
20496606 TAAAATATGCAAATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
*
20496638 ATTATATAAGCATCGAAATTGAAACTTGATTGA----TTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
20496699 TAAAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
20496731 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
20496796 TAAAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
*
20496828 ATTATATAAGCATCGAAATTGAAACTTGATTGATTGTTTATATAAGT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGT
20496875 TTTAAAAATA
Statistics
Matches: 610, Mismatches: 11, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
93 91 0.15
97 519 0.85
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (97 bp):
ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
TAAAATATGCAGATTTAATCTTAAATTTGGAC
Found at i:20496964 original size:384 final size:384
Alignment explanation
Indices: 20496152--20496874 Score: 1232
Period size: 384 Copynumber: 1.9 Consensus size: 384
20496142 ATTTAATAAC
* ***
20496152 AATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAA
1 AATTATATAAGCATCAAAATAACAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAA
*
20496217 TTAAAATATGCAGATTTAATCTTAAATTTGGACATTATATAAGCATCGAAATTGAAACTTGATTG
66 TTAAAATATGCAAATTTAATCTTAAATTTGGACATTATATAAGCATCGAAATTGAAACTTGATTG
20496282 ATTGTTTATATAAGTACCGAATTATATTTTAATTAAAATATGCAGATTTAATCTTAAATTTGGAC
131 A---TTTATATAAGTACCGAATTATATTTTAATTAAAATATGCAGATTTAATCTTAAATTTGGAC
20496347 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
193 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
* *
20496412 TAAAATATGCATATTTAATCTTAAATTTGGACATTATATAAGCATCGAAATTGGAACTTGATTGA
258 TAAAATATGCAGATTTAATCTTAAATTTGGACATTATATAAGCATCGAAATTGAAACTTGATTGA
** * * * **
20496477 TTGTTTATATAAGTACCGAATTATATTTTAATTAAAATATGCAGATTTAATATTAAATTTGGA
323 TTGTTTATATAAGTACAAAATGAGATTTTAATTAAAATAAGCA-ATTTAATATTAAATTTCAA
* * ***
20496540 CATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAA
1 AATTATATAAGCATCAAAATAACAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAA
20496605 TTAAAATATGCAAATTTAATCTTAAATTTGGACATTATATAAGCATCGAAATTGAAACTTGATTG
66 TTAAAATATGCAAATTTAATCTTAAATTTGGACATTATATAAGCATCGAAATTGAAACTTGATTG
20496670 A-TTATATAAGTACCGAATTATATTTTAATTAAAATATGCAGATTTAATCTTAAATTTGGACATT
131 ATTTATATAAGTACCGAATTATATTTTAATTAAAATATGCAGATTTAATCTTAAATTTGGACATT
20496734 ATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAATTAA
196 ATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAATTAA
20496799 AATATGCAGATTTAATCTTAAATTTGGACATTATATAAGCATCGAAATTGAAACTTGATTGATTG
261 AATATGCAGATTTAATCTTAAATTTGGACATTATATAAGCATCGAAATTGAAACTTGATTGATTG
20496864 TTTATATAAGT
326 TTTATATAAGT
20496875 TTTAAAAATA
Statistics
Matches: 331, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
384 202 0.61
388 129 0.39
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (384 bp):
AATTATATAAGCATCAAAATAACAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAA
TTAAAATATGCAAATTTAATCTTAAATTTGGACATTATATAAGCATCGAAATTGAAACTTGATTG
ATTTATATAAGTACCGAATTATATTTTAATTAAAATATGCAGATTTAATCTTAAATTTGGACATT
ATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAATTAA
AATATGCAGATTTAATCTTAAATTTGGACATTATATAAGCATCGAAATTGAAACTTGATTGATTG
TTTATATAAGTACAAAATGAGATTTTAATTAAAATAAGCAATTTAATATTAAATTTCAA
Found at i:20496972 original size:13 final size:13
Alignment explanation
Indices: 20496954--20496980 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20496944 TAATAACAAC
20496954 TATATTGTTTAAA
1 TATATTGTTTAAA
20496967 TATATTGTTTAAA
1 TATATTGTTTAAA
20496980 T
1 T
20496981 TAAACCGAAA
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:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TATATTGTTTAAA
Found at i:20508346 original size:18 final size:16
Alignment explanation
Indices: 20508301--20508350 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 16
20508291 GATGGTATAT
20508301 GAAATATATTTAAAAA
1 GAAATATATTTAAAAA
20508317 GTAAGATA-ATTTAATAAA
1 G-AA-ATATATTTAA-AAA
20508335 GAAATTATATTTAAAA
1 GAAA-TATATTTAAAA
20508351 TCATAAACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.07
17 14 0.48
18 13 0.45
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (16 bp):
GAAATATATTTAAAAA
Found at i:20514693 original size:3 final size:3
Alignment explanation
Indices: 20514685--20514734 Score: 73
Period size: 3 Copynumber: 16.0 Consensus size: 3
20514675 CTGTTTGTAC
*
20514685 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT GGTAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT
20514732 TAT
1 TAT
20514735 AACAATGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 40 0.93
5 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:20514818 original size:18 final size:19
Alignment explanation
Indices: 20514790--20514827 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
20514780 TTTTATTCTA
20514790 TATATATACATATACATTT
1 TATATATACATATACATTT
*
20514809 TATA-ATACATATATATTT
1 TATATATACATATACATTT
20514827 T
1 T
20514828 CCATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATACATATACATTT
Done.