Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 86 of 410
Found at i:24949357 original size:46 final size:45
Alignment explanation
Indices: 24949287--24949412 Score: 132
Period size: 46 Copynumber: 2.8 Consensus size: 45
24949277 ATCTCGAGGC
* *
24949287 CGATGCATGTCCTAGACATATCTTACACTAGCTCTCGTC-TCAATGT-
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT--TCAT-AATGTG
*
24949333 CGATGCATGTCCCAGACATGTCTTACATTAGCT-TTCATAATGTGG
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTCATAATGT-G
* * *
24949378 CCAATGCATATCCCAGACATGTCTTACACTGGCTC
1 -CGATGCATGTCCCAGACATGTCTTACACTAGCTC
24949413 ACATACCAGC
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
43 7 0.10
44 1 0.01
45 1 0.01
46 59 0.87
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTCATAATGTG
Found at i:24958398 original size:40 final size:40
Alignment explanation
Indices: 24958353--24958519 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
24958343 CGGAATATAA
24958353 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
24958393 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
24958433 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
24958473 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
24958512 CCGGATAT
1 CCGGATAT
24958520 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:24962039 original size:44 final size:44
Alignment explanation
Indices: 24961971--24962069 Score: 164
Period size: 44 Copynumber: 2.2 Consensus size: 44
24961961 TGTGTTATCG
* *
24961971 TGTAAGACCACGTCTGGGATGTTGGCAT-GAACTTATGATTTACA
1 TGTAAGACCACATCTGGGAGGTTGGCATCG-ACTTATGATTTACA
24962015 TGTAAGACCACATCTGGGAGGTTGGCATCGACTTATGATTTACA
1 TGTAAGACCACATCTGGGAGGTTGGCATCGACTTATGATTTACA
24962059 TGTAAGACCAC
1 TGTAAGACCAC
24962070 GTCAATTTGG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
44 51 0.98
45 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
TGTAAGACCACATCTGGGAGGTTGGCATCGACTTATGATTTACA
Found at i:24966987 original size:12 final size:12
Alignment explanation
Indices: 24966970--24966994 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24966960 GTGTGGCGTT
24966970 CAACCCCGATAC
1 CAACCCCGATAC
24966982 CAACCCCGATAC
1 CAACCCCGATAC
24966994 C
1 C
24966995 TTTGTTTCCT
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:0.32, C:0.52, G:0.08, T:0.08
Consensus pattern (12 bp):
CAACCCCGATAC
Found at i:24967446 original size:21 final size:22
Alignment explanation
Indices: 24967402--24967447 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
24967392 AGTAAGTTTC
**
24967402 TAAAAAAATTGAAAAAAATCGTA
1 TAAAAAAA-TGAAAAAAAGAGTA
24967425 TAAAAAAA-GAAAAAAAGAGTA
1 TAAAAAAATGAAAAAAAGAGTA
24967446 TA
1 TA
24967448 TAGTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
23 8 0.38
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (22 bp):
TAAAAAAATGAAAAAAAGAGTA
Found at i:24971032 original size:50 final size:50
Alignment explanation
Indices: 24970952--24971074 Score: 192
Period size: 50 Copynumber: 2.5 Consensus size: 50
24970942 CCGTAAGTAA
* *
24970952 TGAGATCCCATATAAGACCATGTTTAGGACAAGGCATTGGCATCGATATG
1 TGAGATCCCATGTAAGACCATGTCTAGGACAAGGCATTGGCATCGATATG
* *
24971002 TGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
1 TGAGATCCCATGTAAGACCATGTCTAGGACAAGGCATTGGCATCGATATG
* *
24971052 TGAAATCCCATGTAGGACCATGT
1 TGAGATCCCATGTAAGACCATGT
24971075 GACAGCCCTA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (50 bp):
TGAGATCCCATGTAAGACCATGTCTAGGACAAGGCATTGGCATCGATATG
Found at i:24973339 original size:49 final size:49
Alignment explanation
Indices: 24973279--24973603 Score: 470
Period size: 49 Copynumber: 6.4 Consensus size: 49
24973269 TACACATGTG
* * * *
24973279 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* * *
24973328 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
24973377 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
24973426 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAA--T----GTG-A---A-A-GTGTATGTATA
24973487 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
24973536 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
24973585 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
24973604 TAATGTAAAA
Statistics
Matches: 256, Mismatches: 8, Indels: 24
0.89 0.03 0.08
Matches are distributed among these distances:
49 200 0.78
50 1 0.00
51 2 0.01
54 1 0.00
55 6 0.02
56 1 0.00
59 2 0.01
60 1 0.00
61 42 0.16
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:24973479 original size:12 final size:12
Alignment explanation
Indices: 24973464--24973490 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24973454 GAATGTGAAA
24973464 GTGTATGTATAT
1 GTGTATGTATAT
24973476 GTGTATGTATAT
1 GTGTATGTATAT
24973488 GTG
1 GTG
24973491 ATAAGGCCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (12 bp):
GTGTATGTATAT
Found at i:24973486 original size:159 final size:159
Alignment explanation
Indices: 24973317--24973603 Score: 538
Period size: 159 Copynumber: 1.8 Consensus size: 159
24973307 GAATGTGAAA
*
24973317 GTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGA
1 GTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGA
*
24973382 TGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
66 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
24973447 ATGTGGTGAATGTGAAAGTGTATGTATAT
131 ATGTGGTGAATGTGAAAGTGTATGTATAT
* *
24973476 GTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGA
1 GTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGA
24973541 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
66 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
24973604 TAATGTAAAA
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
159 124 1.00
ACGTcount: A:0.28, C:0.08, G:0.33, T:0.31
Consensus pattern (159 bp):
GTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGA
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATGTATAT
Found at i:24973490 original size:61 final size:61
Alignment explanation
Indices: 24973415--24973588 Score: 264
Period size: 61 Copynumber: 3.0 Consensus size: 61
24973405 GAATGTGAAA
24973415 GTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATAT
1 GTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATAT
24973476 GTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAA--T----GTG-A---A-A-
1 GTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATAT
24973525 GTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATAT
1 GTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATAT
24973586 GTG
1 GTG
24973589 ATAAGGCCTA
Statistics
Matches: 101, Mismatches: 0, Indels: 24
0.81 0.00 0.19
Matches are distributed among these distances:
49 42 0.42
50 1 0.01
51 2 0.02
54 1 0.01
55 6 0.06
56 1 0.01
59 2 0.02
60 1 0.01
61 45 0.45
ACGTcount: A:0.28, C:0.07, G:0.32, T:0.33
Consensus pattern (61 bp):
GTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATAT
Found at i:24973498 original size:110 final size:110
Alignment explanation
Indices: 24973370--24973588 Score: 429
Period size: 110 Copynumber: 2.0 Consensus size: 110
24973360 GTGAAAGTGG
*
24973370 ATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAG
1 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAG
24973435 GCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGT
66 GCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGT
24973480 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAG
1 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAG
24973545 GCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTG
66 GCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTG
24973589 ATAAGGCCTA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.28, C:0.07, G:0.32, T:0.32
Consensus pattern (110 bp):
ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAG
GCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGT
Found at i:24976406 original size:21 final size:21
Alignment explanation
Indices: 24976369--24976408 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24976359 AATCATTAAA
*
24976369 TTGATGTTATGATATGTGTCT
1 TTGATGTTATGAAATGTGTCT
24976390 TTGATGTGTAT-AAATGTGT
1 TTGATGT-TATGAAATGTGT
24976409 AAGGGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (21 bp):
TTGATGTTATGAAATGTGTCT
Found at i:24979329 original size:16 final size:16
Alignment explanation
Indices: 24979308--24979341 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
24979298 CCTATGACCA
24979308 AAGCTGGAAAAGATTC
1 AAGCTGGAAAAGATTC
24979324 AAGCTGGAAAAGATTC
1 AAGCTGGAAAAGATTC
24979340 AA
1 AA
24979342 TCTTTGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.24, T:0.18
Consensus pattern (16 bp):
AAGCTGGAAAAGATTC
Found at i:24984686 original size:41 final size:41
Alignment explanation
Indices: 24984639--24984728 Score: 153
Period size: 41 Copynumber: 2.2 Consensus size: 41
24984629 TATTGCATTC
* *
24984639 ATATTTTCTACCTTTAAGTTTAACTATCTTTTCCAACAATA
1 ATATTTTCTACCTCTAAGTGTAACTATCTTTTCCAACAATA
*
24984680 ATATTTTCTACCTCTAAGTGTAACTATCTTTTCCAACATTA
1 ATATTTTCTACCTCTAAGTGTAACTATCTTTTCCAACAATA
24984721 ATATTTTC
1 ATATTTTC
24984729 CCTTGCTTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (41 bp):
ATATTTTCTACCTCTAAGTGTAACTATCTTTTCCAACAATA
Found at i:24988042 original size:28 final size:26
Alignment explanation
Indices: 24987990--24988042 Score: 61
Period size: 28 Copynumber: 2.0 Consensus size: 26
24987980 TTATTTTGTT
**
24987990 AAAATAAATTTAAAAATTTAAAATCC
1 AAAATAAATTTAAAAATCGAAAATCC
*
24988016 AAAATTAATATTTAAAAATCGAGAATC
1 AAAA-TAA-ATTTAAAAATCGAAAATC
24988043 TGATGGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 3 0.14
28 15 0.68
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (26 bp):
AAAATAAATTTAAAAATCGAAAATCC
Found at i:24988344 original size:19 final size:19
Alignment explanation
Indices: 24988317--24988355 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
24988307 TAGTCACTGC
*
24988317 TCATTTATATTACTATGGT
1 TCATGTATATTACTATGGT
24988336 TCATGTATATTACTATGGT
1 TCATGTATATTACTATGGT
24988355 T
1 T
24988356 TCACAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (19 bp):
TCATGTATATTACTATGGT
Found at i:25016287 original size:26 final size:26
Alignment explanation
Indices: 25016258--25016309 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
25016248 CCCTTTTCCC
25016258 TACTCCACTCATGCCGCTA-TTCCATT
1 TACTCCACTCATGCCG-TAGTTCCATT
* *
25016284 TACTCTACTTATGCCGTAGTTCCATT
1 TACTCCACTCATGCCGTAGTTCCATT
25016310 AAACGCTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.19, C:0.33, G:0.10, T:0.38
Consensus pattern (26 bp):
TACTCCACTCATGCCGTAGTTCCATT
Found at i:25025388 original size:32 final size:32
Alignment explanation
Indices: 25025351--25025417 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
25025341 ATAAGGCCTA
25025351 ATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATAT
25025383 ATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATAT
25025415 ATG
1 ATG
25025418 TGATAAGGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.31
Consensus pattern (32 bp):
ATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:25025437 original size:47 final size:48
Alignment explanation
Indices: 25025383--25025493 Score: 206
Period size: 49 Copynumber: 2.3 Consensus size: 48
25025373 AAGTGTATAT
25025383 ATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTA
25025430 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
1 ATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTA
25025479 ATGGCCGATGTGATG
1 ATGGCCGATGTGATG
25025494 TGTAACACCC
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
47 27 0.44
49 35 0.56
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (48 bp):
ATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTA
Found at i:25026352 original size:40 final size:40
Alignment explanation
Indices: 25026307--25026473 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
25026297 CGGAATATAA
25026307 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25026347 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
25026387 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
25026427 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
25026466 CCGGATAT
1 CCGGATAT
25026474 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25033799 original size:40 final size:40
Alignment explanation
Indices: 25033754--25033921 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
25033744 CGGAATATAA
25033754 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25033794 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
25033834 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
25033874 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
25033914 CCGGATAT
1 CCGGATAT
25033922 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25035688 original size:47 final size:47
Alignment explanation
Indices: 25035601--25035724 Score: 158
Period size: 47 Copynumber: 2.6 Consensus size: 47
25035591 GTCACATGAT
* * *
25035601 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAC
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAACGTGAC
* * *
25035650 GAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGAC
* *
25035697 GGATGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
25035725 TCCCGAAGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
47 53 0.80
49 13 0.20
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.27
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGAC
Found at i:25037195 original size:40 final size:40
Alignment explanation
Indices: 25037151--25037435 Score: 489
Period size: 40 Copynumber: 7.1 Consensus size: 40
25037141 GAGAATTGAG
*
25037151 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
25037191 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
25037231 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
25037271 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* *
25037311 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
25037351 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * * *
25037391 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
25037431 AGTGA
1 AGTGA
25037436 CATGTATTCG
Statistics
Matches: 232, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 232 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
Found at i:25044024 original size:49 final size:47
Alignment explanation
Indices: 25043945--25044306 Score: 580
Period size: 47 Copynumber: 7.6 Consensus size: 47
25043935 TATTTGAATA
*
25043945 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
25043992 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
25044041 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
25044088 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
25044135 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
25044184 AATGTAAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGACG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
25044233 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
25044280 GATGTGAAAGTGTATAGATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
25044307 TCCCGAAGGG
Statistics
Matches: 298, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
47 159 0.53
49 139 0.47
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:25044153 original size:96 final size:95
Alignment explanation
Indices: 25043945--25044306 Score: 584
Period size: 96 Copynumber: 3.8 Consensus size: 95
25043935 TATTTGAATA
*
25043945 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATA
25044010 TATGTGATAAGGCCTAATGGCCGATGTGATG
65 TATGTGATAAGGCCTAATGGCCGATGTGATG
25044041 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATAT
25044105 ATGTGATAAGGCCTAATGGCCGATGTGATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATG
*
25044135 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATA
*
25044200 TATATGTGATAAGGCCTAATGGCCGATGTGACG
63 TATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
25044233 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG-TATAG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATAT
25044297 ATGTGATAAG
66 ATGTGATAAG
25044307 TCCCGAAGGG
Statistics
Matches: 251, Mismatches: 11, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
94 61 0.24
96 144 0.57
98 46 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (95 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:25045620 original size:21 final size:22
Alignment explanation
Indices: 25045580--25045620 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25045570 TTCCAAATAA
* *
25045580 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
25045602 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
25045621 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:25047281 original size:40 final size:40
Alignment explanation
Indices: 25047173--25047382 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
25047163 CGGGATTTAA
* * * * *
25047173 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
25047213 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25047253 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25047293 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25047333 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25047373 CCGGATATAT
1 CCGGATATAT
25047383 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:25060032 original size:30 final size:29
Alignment explanation
Indices: 25059938--25060039 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
25059928 TATAGTGAAT
* * *
25059938 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
25059967 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
25059995 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
25060025 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
25060040 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:25087403 original size:38 final size:38
Alignment explanation
Indices: 25087352--25087432 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
25087342 TAAAACCAAG
25087352 ATAAACATAACTCATACTTATGATGACCGAATTCAAAT
1 ATAAACATAACTCATACTTATGATGACCGAATTCAAAT
25087390 ATAAACATAACTCATACTTATGATGACCGAATTCAAAT
1 ATAAACATAACTCATACTTATGATGACCGAATTCAAAT
25087428 ATAAA
1 ATAAA
25087433 AGTTTAGCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.28
Consensus pattern (38 bp):
ATAAACATAACTCATACTTATGATGACCGAATTCAAAT
Found at i:25087632 original size:17 final size:17
Alignment explanation
Indices: 25087610--25087652 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
25087600 AATCTATAAA
25087610 ACAGAGTAACATAATAC
1 ACAGAGTAACATAATAC
25087627 ACAGAGTAACATAATAC
1 ACAGAGTAACATAATAC
25087644 ACAGAGTAA
1 ACAGAGTAA
25087653 GCTACCACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.16
Consensus pattern (17 bp):
ACAGAGTAACATAATAC
Found at i:25091662 original size:21 final size:21
Alignment explanation
Indices: 25091636--25091677 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25091626 TTTCAAAAGA
25091636 GTAGTTAAGAATATCATGTAT
1 GTAGTTAAGAATATCATGTAT
25091657 GTAGTTAAGAATATCATGTAT
1 GTAGTTAAGAATATCATGTAT
25091678 ATAATCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (21 bp):
GTAGTTAAGAATATCATGTAT
Found at i:25093556 original size:25 final size:25
Alignment explanation
Indices: 25093528--25093589 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
25093518 CAGCTCGTGT
* *
25093528 GAGCTTACCGTTATTCAACTCGGAG
1 GAGCTTACCATTATTCAACTCAGAG
* *
25093553 GAGCATACCATTATTCAACTTAGAG
1 GAGCTTACCATTATTCAACTCAGAG
*
25093578 GAGCTTAGCATT
1 GAGCTTACCATT
25093590 TACAGCTCGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (25 bp):
GAGCTTACCATTATTCAACTCAGAG
Found at i:25094381 original size:64 final size:64
Alignment explanation
Indices: 25094302--25094430 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
25094292 ATCAAGGACT
*
25094302 TAGTTTCCCTTTTCAGCCAAATCTTGAAATTTTTTTCCAAGGCGAAATTTTAAGAAATACTTTA
1 TAGTTTCCCTTTTCAGCCAAATCTTGAAATTTTCTTCCAAGGCGAAATTTTAAGAAATACTTTA
25094366 TAGTTTCCCTTTTCAGCCAAATCTTGAAATTTTCTTCCAAGGCGAAATTTTAAGAAATACTTTA
1 TAGTTTCCCTTTTCAGCCAAATCTTGAAATTTTCTTCCAAGGCGAAATTTTAAGAAATACTTTA
25094430 T
1 T
25094431 CGCCAACAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (64 bp):
TAGTTTCCCTTTTCAGCCAAATCTTGAAATTTTCTTCCAAGGCGAAATTTTAAGAAATACTTTA
Found at i:25099813 original size:29 final size:29
Alignment explanation
Indices: 25099781--25099847 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
25099771 AATCGTATTC
* *
25099781 ATATGGCCCACTAGGCCCAAATCACCTGT
1 ATATGGCCCACTAGGCCCAAATCACATCT
* * *
25099810 ATATGCCCCATTAGGCCCAAATCAGATCT
1 ATATGGCCCACTAGGCCCAAATCACATCT
25099839 ATATGGCCC
1 ATATGGCCC
25099848 GTTCGGCCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.22
Consensus pattern (29 bp):
ATATGGCCCACTAGGCCCAAATCACATCT
Found at i:25099855 original size:29 final size:29
Alignment explanation
Indices: 25099781--25099857 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
25099771 AATCGTATTC
* * * *
25099781 ATATGGCCCACTAGGCCCAAATCACCTGT
1 ATATGCCCCATTAGGCCCAAATCACATCT
*
25099810 ATATGCCCCATTAGGCCCAAATCAGATCT
1 ATATGCCCCATTAGGCCCAAATCACATCT
* * *
25099839 ATATGGCCCGTTCGGCCCA
1 ATATGCCCCATTAGGCCCA
25099858 GTCACATTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.22
Consensus pattern (29 bp):
ATATGCCCCATTAGGCCCAAATCACATCT
Found at i:25100694 original size:19 final size:21
Alignment explanation
Indices: 25100653--25100700 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
25100643 TATGTGAAAC
25100653 AAAGAAAATTGTGTAGAGAAGA
1 AAAG-AAATTGTGTAGAGAAGA
*
25100675 ATAGAAATTG-GTAG-GAAGA
1 AAAGAAATTGTGTAGAGAAGA
25100694 AAAGAAA
1 AAAGAAA
25100701 GAAAAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.46
20 4 0.17
21 6 0.25
22 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (21 bp):
AAAGAAATTGTGTAGAGAAGA
Found at i:25102718 original size:40 final size:40
Alignment explanation
Indices: 25102610--25102819 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
25102600 CGGGATTTAA
* * * * *
25102610 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
25102650 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25102690 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25102730 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25102770 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25102810 CCGGATATAT
1 CCGGATATAT
25102820 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:25110855 original size:40 final size:40
Alignment explanation
Indices: 25110747--25110996 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
25110737 CGGGATTTAA
* * * * *
25110747 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
25110787 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25110827 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25110867 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25110907 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25110947 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25110987 CCGGATATAT
1 CCGGATATAT
25110997 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:25113546 original size:27 final size:27
Alignment explanation
Indices: 25113516--25113575 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
25113506 GTGACGAAGT
25113516 CACCAGATACAGAT-ACTGTGGCAGAGC
1 CACCAGAT-CAGATAACTGTGGCAGAGC
* *
25113543 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAACTGTGGCAGAGC
25113570 CACCAG
1 CACCAG
25113576 GACGCTTCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGATCAGATAACTGTGGCAGAGC
Found at i:25113981 original size:8 final size:8
Alignment explanation
Indices: 25113965--25113994 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25113955 TAAAAAATAC
25113965 CGGCTTTT
1 CGGCTTTT
*
25113973 CGGCATTT
1 CGGCTTTT
25113981 CGGCTTTT
1 CGGCTTTT
25113989 CGGCTT
1 CGGCTT
25113995 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:25115204 original size:26 final size:26
Alignment explanation
Indices: 25115150--25115256 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
25115140 TGAAATTCCC
25115150 ATCATGGAACATTTACCT-ACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25115175 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
25115201 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25115227 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25115253 ATCA
1 ATCA
25115257 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 18 0.23
26 61 0.77
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25126747 original size:27 final size:26
Alignment explanation
Indices: 25126699--25126750 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
25126689 GCGAGGCTGC
*
25126699 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
25126725 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
25126751 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:25139174 original size:37 final size:37
Alignment explanation
Indices: 25139124--25139246 Score: 228
Period size: 37 Copynumber: 3.3 Consensus size: 37
25139114 TTATTACAAA
*
25139124 GTCTTACCTGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
25139161 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
25139198 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
25139235 GTCTCACCCGGA
1 GTCTTACCCGGA
25139247 ATATATTTCC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 84 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:25139362 original size:48 final size:48
Alignment explanation
Indices: 25139291--25139633 Score: 491
Period size: 48 Copynumber: 7.3 Consensus size: 48
25139281 TGTTACAACA
* * *
25139291 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * * *
25139339 TTCACATTCGCCATTCGGCTTTACGACATATACACATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
25139387 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
25139435 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
25139483 TT--C---A-CCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * *
25139525 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
25139573 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
25139621 TTCACATTAGCCA
1 TTCACATTAGCCA
25139634 CATGTATTTC
Statistics
Matches: 273, Mismatches: 16, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
42 40 0.15
43 1 0.00
44 1 0.00
46 1 0.00
47 1 0.00
48 229 0.84
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
Found at i:25139544 original size:138 final size:138
Alignment explanation
Indices: 25139291--25139625 Score: 508
Period size: 138 Copynumber: 2.4 Consensus size: 138
25139281 TGTTACAACA
* * *
25139291 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACATATATATTT--CA----CCATTCG
* * * *
25139356 GCTTTACGACATATACACATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
60 GCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACACATACA
25139421 TATCACACATGTAT
125 TATCACACATGTAT
* *
25139435 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACCATTCGGCTTTA
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACATATATATTTCACCATTCGGCTTTA
* *
25139500 CCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACACATACATATCAC
66 CCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCAC
25139565 ACATGTAT
131 ACATGTAT
*
25139573 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCAC
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACATATATATTTCAC
25139626 ATTAGCCACA
Statistics
Matches: 177, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
138 130 0.73
142 2 0.01
144 45 0.25
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (138 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACATATATATTTCACCATTCGGCTTTA
CCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCAC
ACATGTAT
Found at i:25139644 original size:68 final size:68
Alignment explanation
Indices: 25139564--25139700 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 68
25139554 ATACATATCA
* * *
25139564 CACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATT
1 CACATGTATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATATTTCACATT
25139629 AGC
66 AGC
* *
25139632 CACATGTATTTCACATTAGCCATTCGGTTTTACCACACATACATATCACACATGTATTTCACATT
1 CACATGTATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATATTTCACATT
25139697 AGC
66 AGC
25139700 C
1 C
25139701 GTTCGACTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (68 bp):
CACATGTATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATATTTCACATT
AGC
Found at i:25142283 original size:39 final size:39
Alignment explanation
Indices: 25142221--25142352 Score: 201
Period size: 39 Copynumber: 3.4 Consensus size: 39
25142211 GGGATGTCAC
*
25142221 AAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCG
1 AAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCG
* *
25142260 AAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGCCCG
1 AAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCG
*
25142299 AAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCG
1 AAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAG-CCCG
**
25142339 AAGGCGTTTGTGCG
1 AAGGCAATTGTGCG
25142353 GGTTACCATA
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 68 0.81
40 16 0.19
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
AAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCG
Found at i:25144998 original size:73 final size:73
Alignment explanation
Indices: 25144879--25145026 Score: 287
Period size: 73 Copynumber: 2.0 Consensus size: 73
25144869 GCAATAAAAG
25144879 TAAAATGGCTAAAGTAATAAAAATGGAGTGTTCCTAATATCCTAGTTCCCTGGCAACGGCGCCAA
1 TAAAATGGCTAAAGTAATAAAAATGGAGTGTTCCTAATATCCTAGTTCCCTGGCAACGGCGCCAA
25144944 AAACTTGA
66 AAACTTGA
*
25144952 TAAAATGGCTAAAGTAATAAAAATTGAGTGTTCCTAATATCCTAGTTCCCTGGCAACGGCGCCAA
1 TAAAATGGCTAAAGTAATAAAAATGGAGTGTTCCTAATATCCTAGTTCCCTGGCAACGGCGCCAA
25145017 AAACTTGA
66 AAACTTGA
25145025 TA
1 TA
25145027 CGTGATATTC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (73 bp):
TAAAATGGCTAAAGTAATAAAAATGGAGTGTTCCTAATATCCTAGTTCCCTGGCAACGGCGCCAA
AAACTTGA
Found at i:25150853 original size:56 final size:56
Alignment explanation
Indices: 25150770--25150958 Score: 270
Period size: 56 Copynumber: 3.4 Consensus size: 56
25150760 TCCCATACAG
* * * * **
25150770 GGTCTTACTTGCACTCATTTATTGGAGTCACATAAAGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACGT
* *
25150826 GGTTTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACGT
* *
25150882 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACATATAAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACGT
* *
25150938 GGTCTTACTCACACACGTATA
1 GGTCTTACTCGCACACATATA
25150959 CCAATGCCAT
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACGT
Found at i:25156528 original size:25 final size:24
Alignment explanation
Indices: 25156437--25156538 Score: 66
Period size: 23 Copynumber: 4.3 Consensus size: 24
25156427 CTTGTAACGC
* * * *
25156437 GAAGCTAATACAGAGCCATTTTGG
1 GAAGCTCATAAAGAGCCATATCGG
25156461 GAAGCTCATAAAGAGCC-TATCGG
1 GAAGCTCATAAAGAGCCATATCGG
* *** *
25156484 GAAGCTTATCCTG-GCTATATAACGG
1 GAAGCTCATAAAGAGCCATAT--CGG
*
25156509 GAAGCTCAT-AAGAGCCATATCAG
1 GAAGCTCATAAAGAGCCATATCGG
*
25156532 AAAGCTC
1 GAAGCTC
25156539 CAAAAATCCA
Statistics
Matches: 59, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
22 2 0.03
23 24 0.41
24 16 0.27
25 17 0.29
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (24 bp):
GAAGCTCATAAAGAGCCATATCGG
Found at i:25160764 original size:47 final size:47
Alignment explanation
Indices: 25160663--25160766 Score: 109
Period size: 47 Copynumber: 2.2 Consensus size: 47
25160653 ATTGATAAGT
* * * **
25160663 ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAGAGT
1 ACCTATATCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAGAAA
* * * * * *
25160710 ACGTATATCATGGCCTATAGCCCAATCAAGGTAACTCCTCTCTGAAA
1 ACCTATATCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAGAAA
25160757 ACCTATATCA
1 ACCTATATCA
25160767 CAGCCCGAAG
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (47 bp):
ACCTATATCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAGAAA
Found at i:25168027 original size:54 final size:54
Alignment explanation
Indices: 25167941--25168080 Score: 158
Period size: 54 Copynumber: 2.6 Consensus size: 54
25167931 GAGGAAGCGT
* * * * *
25167941 TCTGGTGGCTATGCCACAAATATCTAATCTGGTGGCTCTGTCATAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCT-GTCTGGTGGCTCTGCCACAAATATCTGTA
* *
25167995 TCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGT-CTGGTGGCTCTGCCACAAATATCTGTA
* *
25168050 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTG-TCTGG
25168081 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
53 1 0.01
54 54 0.73
55 19 0.26
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
TCTGGTGGCTCTGCCACATATATCTGTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:25168070 original size:27 final size:27
Alignment explanation
Indices: 25167941--25168080 Score: 135
Period size: 27 Copynumber: 5.2 Consensus size: 27
25167931 GAGGAAGCGT
* * *
25167941 TCTGGTGGCTATGCCACAAATATCT-AA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* * *
25167968 TCTGGTGGCTCTGTCATAAATATCTG-A
1 TCTGGTGGCTCTGCCA-CATTATCTGTA
25167995 TCTGGTGGCTCTGCCACATATATCTGT-
1 TCTGGTGGCTCTGCCACAT-TATCTGTA
*
25168022 CCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* *
25168050 TCTGGTGACTCTGTCACATTATCTGT-
1 TCTGGTGGCTCTGCCACATTATCTGTA
25168076 TCTGG
1 TCTGG
25168081 CAGCCATGCT
Statistics
Matches: 97, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
26 6 0.06
27 75 0.77
28 16 0.16
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACATTATCTGTA
Found at i:25170261 original size:26 final size:26
Alignment explanation
Indices: 25170225--25170332 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
25170215 CATGAAATTC
25170225 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
25170251 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
25170277 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
25170303 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
25170329 TTAT
1 TTAT
25170333 GAATTTGTAT
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:25176647 original size:24 final size:24
Alignment explanation
Indices: 25176602--25176683 Score: 85
Period size: 23 Copynumber: 3.4 Consensus size: 24
25176592 CAGCTTGTAT
*
25176602 GAGCTTACTGATGTTTTAGCTCCTAA
1 GAGCTTACT-AT-TTTTAGCTCATAA
**
25176628 GAGCTTACTATTTTTAGCTCATTG
1 GAGCTTACTATTTTTAGCTCATAA
* * *
25176652 GAGCTTACT-GTTTTAGCTCGTAT
1 GAGCTTACTATTTTTAGCTCATAA
25176675 GAGCTTACT
1 GAGCTTACT
25176684 GTTCATCTGC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 19 0.39
24 19 0.39
25 2 0.04
26 9 0.18
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (24 bp):
GAGCTTACTATTTTTAGCTCATAA
Found at i:25179469 original size:27 final size:27
Alignment explanation
Indices: 25178886--25179468 Score: 717
Period size: 27 Copynumber: 21.6 Consensus size: 27
25178876 AAAGTACTCC
25178886 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
25178913 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
25178940 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
25178967 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
25178994 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
25179021 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
25179048 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
25179075 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
25179102 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
25179129 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
25179156 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
25179183 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
25179210 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
25179237 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
25179264 CGATTTATTGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
25179290 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* * *
25179318 CGATTTACATAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
25179345 CGATTTACAGAATTACCGTTTTAGCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
25179372 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
25179399 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
25179426 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
25179453 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
25179469 TAAAATACCC
Statistics
Matches: 485, Mismatches: 61, Indels: 20
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 475 0.98
28 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:25180806 original size:9 final size:9
Alignment explanation
Indices: 25180794--25180850 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
25180784 TTTGATAAAC
25180794 ATGATATGT
1 ATGATATGT
*
25180803 ATGATATGCAC
1 ATGATATG--T
*
25180814 ATGACATGT
1 ATGATATGT
*
25180823 ATGATATGCAC
1 ATGATATG--T
25180834 ATGATATGT
1 ATGATATGT
25180843 ATGATATG
1 ATGATATG
25180851 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:25180817 original size:20 final size:20
Alignment explanation
Indices: 25180792--25180862 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
25180782 ATTTTGATAA
25180792 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
25180812 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
25180832 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
25180852 ACATGAGATGT
1 ACATGATATGT
25180863 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:25180839 original size:11 final size:11
Alignment explanation
Indices: 25180803--25180857 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
25180793 CATGATATGT
25180803 ATGATATGCAC
1 ATGATATGCAC
* *
25180814 ATGACATG--T
1 ATGATATGCAC
25180823 ATGATATGCAC
1 ATGATATGCAC
*
25180834 ATGATATG--T
1 ATGATATGCAC
25180843 ATGATATGCAC
1 ATGATATGCAC
25180854 ATGA
1 ATGA
25180858 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:25180939 original size:23 final size:23
Alignment explanation
Indices: 25180909--25181075 Score: 271
Period size: 23 Copynumber: 7.1 Consensus size: 23
25180899 AGGAAGTGCA
25180909 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
25180932 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
25180956 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
25180980 AAAGAGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
25181003 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
25181026 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
25181049 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
25181073 AAA
1 AAA
25181076 AGAGGCTAGG
Statistics
Matches: 137, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
23 70 0.51
24 67 0.49
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:25180964 original size:24 final size:23
Alignment explanation
Indices: 25180908--25181097 Score: 265
Period size: 24 Copynumber: 8.0 Consensus size: 23
25180898 GAGGAAGTGC
25180908 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
25180931 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
25180954 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
25180978 CAAAAGAGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
25181002 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
25181025 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
25181049 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
25181073 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
25181097 A
1 A
25181098 TGATAAAGCA
Statistics
Matches: 154, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 65 0.42
24 79 0.51
25 10 0.06
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:25180976 original size:47 final size:47
Alignment explanation
Indices: 25180907--25181075 Score: 277
Period size: 47 Copynumber: 3.6 Consensus size: 47
25180897 GGAGGAAGTG
25180907 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
25180954 CAAAAGGGCTTATGCCCCAGTTATCAAAAGAGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
25181002 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
25181048 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
25181076 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
46 21 0.19
47 71 0.63
48 21 0.19
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:25181070 original size:94 final size:95
Alignment explanation
Indices: 25180909--25181096 Score: 317
Period size: 94 Copynumber: 2.0 Consensus size: 95
25180899 AGGAAGTGCA
25180909 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
*
25180974 TTATCAAAAGA-GCTTATGCC-CCAGTTATT
66 TTATCAAAAGAGGC-TAGGCCTCCAGTTATT
* *
25181003 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
*
25181068 TTATTAAAAGAGGCTAGGCCTCCAGTTAT
66 TTATCAAAAGAGGCTAGGCCTCCAGTTAT
25181097 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
94 78 0.89
95 10 0.11
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (95 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
TTATCAAAAGAGGCTAGGCCTCCAGTTATT
Found at i:25188266 original size:40 final size:39
Alignment explanation
Indices: 25188161--25188362 Score: 154
Period size: 40 Copynumber: 5.1 Consensus size: 39
25188151 GGATTCAACT
* * * *
25188161 GGATATAACTACAAGCACAATTGCCTTCGGGTCTTAACCC
1 GGATATAACAACTAGCACAAATGCCTTC-GGTCTTAGCCC
* **** * * *
25188201 GGATTTGGTGACTTGCACAATTGCCTTCAGGTCTTGGCCC
1 GGATATAACAACTAGCACAAATGCCTTC-GGTCTTAGCCC
* *
25188241 GGATATAACAACTCGCACGAATGCCTTCGAGTCTTAGCCC
1 GGATATAACAACTAGCACAAATGCCTTCG-GTCTTAGCCC
* * * *
25188281 GGATTTACCAACTAGCATAAATGCCTTCGGGACTTAGCCC
1 GGATATAACAACTAGCACAAATGCCTTC-GGTCTTAGCCC
* * *
25188321 GGGTATAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCC
1 GGATATAA-CAACTAGCACAAATGCCTTC-GGTCTTAGCCC
25188361 GG
1 GG
25188363 GTATCATTCA
Statistics
Matches: 131, Mismatches: 28, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 128 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
GGATATAACAACTAGCACAAATGCCTTCGGTCTTAGCCC
Found at i:25188363 original size:40 final size:41
Alignment explanation
Indices: 25188222--25188366 Score: 161
Period size: 40 Copynumber: 3.6 Consensus size: 41
25188212 CTTGCACAAT
* * * * * **
25188222 TGCCTTCAGGTCTTGGCCCGGATATAA-CAACTCGCACGAA
1 TGCCTTCGGGACTTAGCCCGGGTATAACCAACTAGCATAAA
* * * *
25188262 TGCCTTCGAGTCTTAGCCCGGAT-TTACCAACTAGCATAAA
1 TGCCTTCGGGACTTAGCCCGGGTATAACCAACTAGCATAAA
*
25188302 TGCCTTCGGGACTTAGCCCGGGTATAATC-ACTAGCATAAA
1 TGCCTTCGGGACTTAGCCCGGGTATAACCAACTAGCATAAA
25188342 TGCCTTCGGGACTTAGCCCGGGTAT
1 TGCCTTCGGGACTTAGCCCGGGTAT
25188367 CATTCAAATG
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (41 bp):
TGCCTTCGGGACTTAGCCCGGGTATAACCAACTAGCATAAA
Found at i:25196447 original size:40 final size:40
Alignment explanation
Indices: 25196340--25196543 Score: 185
Period size: 40 Copynumber: 5.1 Consensus size: 40
25196330 CGGGATTCAA
* * * * *
25196340 CCGGATATAACTACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCATAAATGCCTTCGGGTCTTAGC
* **** * * * *
25196380 CCGGATTTGGTGACTTGCACAATTGCCTTCGGGTCTTGGC
1 CCGGATATAACAACTAGCATAAATGCCTTCGGGTCTTAGC
* * **
25196420 CTGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCATAAATGCCTTCGGGTCTTAGC
* * *
25196460 CCGGATTTACCAACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACAACTAGCATAAATGCCTTCGGGTCTTAGC
* *
25196500 CCGGGTATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCATAAATGCCTTCGGGTCTTAGC
25196540 CCGG
1 CCGG
25196544 GTATCATTCA
Statistics
Matches: 134, Mismatches: 29, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
40 133 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCATAAATGCCTTCGGGTCTTAGC
Found at i:25196487 original size:80 final size:80
Alignment explanation
Indices: 25196340--25196543 Score: 214
Period size: 80 Copynumber: 2.5 Consensus size: 80
25196330 CGGGATTCAA
* * * **** * *
25196340 CCGGATATAA-CTACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTGACTTGCACAATT
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTACCAACTAGCACAAAT
* *
25196404 GCCTTCGGGTCTTGGC
65 GCCTTCGGGACTTAGC
* * * *
25196420 CTGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTACCAACTAGCATAAAT
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTACCAACTAGCACAAAT
25196484 GCCTTCGGGACTTAGC
65 GCCTTCGGGACTTAGC
* * *
25196500 CCGGGTATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
25196544 GTATCATTCA
Statistics
Matches: 101, Mismatches: 22, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
80 100 0.99
81 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTACCAACTAGCACAAATG
CCTTCGGGACTTAGC
Found at i:25202191 original size:22 final size:21
Alignment explanation
Indices: 25202163--25202203 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
25202153 CCATATTTTG
25202163 AAGTGGGTAGTAAAAGATGTAA
1 AAGTGGGTAGTAAAA-ATGTAA
25202185 AAGTGGGTAGTAAAAATGT
1 AAGTGGGTAGTAAAAATGT
25202204 GAAATAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (21 bp):
AAGTGGGTAGTAAAAATGTAA
Found at i:25203124 original size:48 final size:48
Alignment explanation
Indices: 25203070--25203207 Score: 186
Period size: 48 Copynumber: 2.9 Consensus size: 48
25203060 CACCGATATC
* * *
25203070 TGATCCCATGTAAGATCATGTCTGGGACACGGCATTGGCATCGACCTA
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATA
* * * *
25203118 TGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATTGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATA
* * *
25203166 TGATCCCATGTAAGACCATATCCGGGATATGGCATTGGCATC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
25203208 CTACCATGTG
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATA
Found at i:25208067 original size:135 final size:133
Alignment explanation
Indices: 25207780--25208050 Score: 443
Period size: 135 Copynumber: 2.0 Consensus size: 133
25207770 ACCGATCACA
* *
25207780 AAAGTCTTAAGTATTTGATGACTCAAAAGGACTTGAACTGGCGGCAACGAAGATGGTTAGAATTG
1 AAAGTCTTAAGTACTTGATGACTCAAAAGGACTTGAACTGGCGGCAACGAAGATGGTTAGAACTG
* *
25207845 TTAAAAATTATGAGCTTGTGATTGATTACCATCCGAGTAAGGCGAATGTGTTCGCCGACGCTTTG
66 TTAAAAATTATGAGCTTGTGATTGATTACCATCCGAGTAAGGCGAATGTGGTCACCGACGCTTTG
*
25207910 ATT
131 AGT
* *
25207913 AAAAAGTCTTAAGTACTTGATGACTCAAAAGGACTTGAACTTGTGGCAACGAAGATGGTTAGAAC
1 --AAAGTCTTAAGTACTTGATGACTCAAAAGGACTTGAACTGGCGGCAACGAAGATGGTTAGAAC
*
25207978 TGTTAAAAGATTATGAGCTTGTGATTGATTACCATCCGAGTAAGGCGAATGTGGTCACTGACGCT
64 TGTTAAAA-ATTATGAGCTTGTGATTGATTACCATCCGAGTAAGGCGAATGTGGTCACCGACGCT
25208043 TTGAGT
128 TTGAGT
25208049 AA
1 AA
25208051 GTCATTGTTT
Statistics
Matches: 127, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
134 2 0.02
135 67 0.53
136 58 0.46
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (133 bp):
AAAGTCTTAAGTACTTGATGACTCAAAAGGACTTGAACTGGCGGCAACGAAGATGGTTAGAACTG
TTAAAAATTATGAGCTTGTGATTGATTACCATCCGAGTAAGGCGAATGTGGTCACCGACGCTTTG
AGT
Found at i:25210379 original size:93 final size:93
Alignment explanation
Indices: 25210270--25210441 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
25210260 GCCCATAAGT
* * * *
25210270 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25210335 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
25210363 GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGATTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25210428 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
25210442 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25210437 original size:46 final size:46
Alignment explanation
Indices: 25210262--25210437 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
25210252 TGTAACCCGC
* * * *
25210262 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
25210308 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* * *
25210358 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
25210401 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25210438 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 65 0.60
47 31 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:25210456 original size:46 final size:45
Alignment explanation
Indices: 25210313--25210456 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
25210303 CGCATCCATA
* *
25210313 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * * *
25210361 A-CGAACTCAGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* *
25210406 AGTGAACTCGGATTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
25210452 AGTGA
1 AGTGA
25210457 CATGTCACTT
Statistics
Matches: 75, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 35 0.47
47 30 0.40
48 5 0.07
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:25212867 original size:30 final size:30
Alignment explanation
Indices: 25212823--25212911 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
25212813 CAAAGATAAC
25212823 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
25212852 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
25212882 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
25212912 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:25212871 original size:15 final size:15
Alignment explanation
Indices: 25212823--25212902 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
25212813 CAAAGATAAC
*
25212823 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
25212837 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
25212852 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
25212867 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
25212882 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
25212897 AAGAAA
1 AAGAAA
25212903 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:25212911 original size:15 final size:15
Alignment explanation
Indices: 25212834--25212911 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
25212824 AGAAAACCGA
25212834 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
25212849 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
25212863 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
25212878 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
25212894 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
25212909 ATA
1 ATA
25212912 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:25215969 original size:47 final size:50
Alignment explanation
Indices: 25215849--25216028 Score: 195
Period size: 47 Copynumber: 3.8 Consensus size: 50
25215839 TGTAACCCGC
* * *
25215849 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G---GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACAT
*
25215894 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTCACAT
* * *
25215944 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACAT
*
25215988 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC
25216029 CAATATCCCA
Statistics
Matches: 114, Mismatches: 8, Indels: 21
0.80 0.06 0.15
Matches are distributed among these distances:
43 3 0.03
44 4 0.04
45 36 0.32
46 2 0.02
47 59 0.52
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (50 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACAT
Found at i:25216016 original size:94 final size:92
Alignment explanation
Indices: 25215857--25216028 Score: 299
Period size: 94 Copynumber: 1.8 Consensus size: 92
25215847 GCCCATAAGT
*
25215857 GAACTCGGACTCAACTCAACGAGCTCGGGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGAGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
25215922 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* *
25215949 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGG--AGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
25216014 ACGAGTTCGGATGCC
64 ACGAGTTCGGATGCC
25216029 CAATATCCCA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 27 0.36
94 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGAGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25216060 original size:17 final size:17
Alignment explanation
Indices: 25216038--25216072 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
25216028 CCAATATCCC
25216038 AGTGACATGTCACTTGT
1 AGTGACATGTCACTTGT
25216055 AGTGACATGTCACTTGT
1 AGTGACATGTCACTTGT
25216072 A
1 A
25216073 TCCTAATCCA
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:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (17 bp):
AGTGACATGTCACTTGT
Found at i:25222507 original size:40 final size:40
Alignment explanation
Indices: 25222399--25222608 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
25222389 CGGGATTTAA
* * * * *
25222399 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
25222439 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25222479 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25222519 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25222559 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25222599 CCGGATATAT
1 CCGGATATAT
25222609 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:25230622 original size:40 final size:40
Alignment explanation
Indices: 25230514--25230723 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
25230504 CGGGATTTAA
* * * * *
25230514 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
25230554 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25230594 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25230634 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25230674 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25230714 CCGGATATAT
1 CCGGATATAT
25230724 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:25232907 original size:21 final size:22
Alignment explanation
Indices: 25232881--25232921 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
25232871 TACTTGACAT
25232881 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
25232902 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
25232922 ACCATTCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:25237297 original size:25 final size:26
Alignment explanation
Indices: 25237254--25237302 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
25237244 TGTTGAGAGA
25237254 AAATTCTCTAAAGTGATTTTTCTAGG
1 AAATTCTCTAAAGTGATTTTTCTAGG
25237280 AAATT-TCTAAAGAT-ATTTTTCTA
1 AAATTCTCTAAAG-TGATTTTTCTA
25237303 ATTTACAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (26 bp):
AAATTCTCTAAAGTGATTTTTCTAGG
Found at i:25241082 original size:51 final size:51
Alignment explanation
Indices: 25240996--25241115 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
25240986 AACTAAGTTA
* *
25240996 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
** * * *
25241047 TTTGGATGAAATATGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
25241098 TCCGGATGAAATATGAAG
1 TCCGGATGAAATATGAAG
25241116 TAAGTTTGAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
Found at i:25244570 original size:19 final size:20
Alignment explanation
Indices: 25244528--25244570 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
25244518 CGTATAACTA
* *
25244528 TATTTTAAAAATAAAATATT
1 TATTCTAAAAATAAAATATC
*
25244548 TATTCTAAAATTAAAAT-TC
1 TATTCTAAAAATAAAATATC
25244567 TATT
1 TATT
25244571 ATAGTATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTCTAAAAATAAAATATC
Found at i:25245751 original size:6 final size:6
Alignment explanation
Indices: 25245740--25245772 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
25245730 AACTCTACCC
25245740 CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTT
1 CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTT
25245773 ATCTCTCCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
CTTCCT
Found at i:25249682 original size:47 final size:48
Alignment explanation
Indices: 25249609--25249781 Score: 169
Period size: 47 Copynumber: 3.7 Consensus size: 48
25249599 GGAAATTGAG
* * * *
25249609 ATCCGAACTCATTGAGTTGTGGTCCGAGTTCATGAGAATT-ATG-AGGC
1 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCAT-ACAATTGATGCAAGC
** * *
25249656 ATCCGAACTCGTTGAGTTGCATTCCGAGTTCA-CCTATTGATGCAAGC
1 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATACAATTGATGCAAGC
* *
25249703 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCAT--TATGGATGCGAA-C
1 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATACAATTGATGC-AAGC
* * *
25249749 ACCCGAGCTCGTTGAGTTGCGTTCCGAGTTCAT
1 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCAT
25249782 TATGGGTAAG
Statistics
Matches: 108, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
45 3 0.03
46 42 0.39
47 63 0.58
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATACAATTGATGCAAGC
Found at i:25249763 original size:46 final size:46
Alignment explanation
Indices: 25249658--25249786 Score: 179
Period size: 46 Copynumber: 2.8 Consensus size: 46
25249648 TATGAGGCAT
* * * *
25249658 CCGAACTCGTTGAGTTGCATTCCGAGTTCACCTATTGATGCAAGCAT
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAAGCAC
*
25249705 CCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCGAA-CAC
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGC-AAGCAC
*
25249751 CCGAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGG
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
25249787 GTAAGATTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
46 44 0.59
47 30 0.41
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAGCAC
Found at i:25256271 original size:29 final size:29
Alignment explanation
Indices: 25256238--25256397 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
25256228 GTGACGAGAT
25256238 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
25256267 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
25256296 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
25256325 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
25256354 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
25256383 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
25256398 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:25261598 original size:40 final size:40
Alignment explanation
Indices: 25261553--25261720 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
25261543 CGGAATATAA
*
25261553 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
25261593 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25261633 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
25261673 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
25261713 CCGGATAT
1 CCGGATAT
25261721 CATTCAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
40 102 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25261703 original size:80 final size:80
Alignment explanation
Indices: 25261569--25261718 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
25261559 ATAACCATGT
* *
25261569 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
25261634 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
25261649 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
25261712 CCCGGAT
64 CCCGGAT
25261719 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:25269606 original size:40 final size:40
Alignment explanation
Indices: 25269561--25269728 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
25269551 CGGAATATAA
*
25269561 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
25269601 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25269641 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
25269681 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
25269721 CCGGATAT
1 CCGGATAT
25269729 CATTCAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
40 102 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25269711 original size:80 final size:80
Alignment explanation
Indices: 25269577--25269726 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
25269567 ATAACCATGT
* *
25269577 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
25269642 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
25269657 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
25269720 CCCGGAT
64 CCCGGAT
25269727 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:25275517 original size:29 final size:29
Alignment explanation
Indices: 25275484--25275643 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
25275474 GTGACGAGAT
25275484 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
25275513 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
25275542 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
25275571 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
25275600 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
25275629 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
25275644 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:25291636 original size:15 final size:15
Alignment explanation
Indices: 25291601--25291641 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
25291591 AAATATTTAA
25291601 AATTTATTTTCTGTG
1 AATTTATTTTCTGTG
*
25291616 --TTTATTTTGTGTG
1 AATTTATTTTCTGTG
25291629 AATTTA-TTTCTGT
1 AATTTATTTTCTGT
25291642 AAAATTTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
13 12 0.55
14 6 0.27
15 4 0.18
ACGTcount: A:0.17, C:0.05, G:0.15, T:0.63
Consensus pattern (15 bp):
AATTTATTTTCTGTG
Found at i:25300274 original size:54 final size:54
Alignment explanation
Indices: 25300106--25300289 Score: 219
Period size: 55 Copynumber: 3.4 Consensus size: 54
25300096 CATGTCATGA
* * * *
25300106 CATGGTCTTACGTGGTATCATTGCCTTAT-GAACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
* ** * * *
25300159 CATGGTCTTAAATGGGA-CCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTGA
1 CATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGG
* *
25300214 CATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
*
25300268 TATGGTCTTACATGATATCCTT
1 CATGGTCTTACATGATATCCTT
25300290 ATCTTACCAA
Statistics
Matches: 109, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
52 1 0.01
53 22 0.20
54 41 0.38
55 43 0.39
56 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (54 bp):
CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
Found at i:25303782 original size:39 final size:39
Alignment explanation
Indices: 25303723--25303823 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
25303713 ACTCTGATGA
*
25303723 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
* *
25303762 GCTTTAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
* * *
25303801 GCATCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
25303824 AAATCACGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.14, C:0.26, G:0.24, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
Found at i:25304851 original size:45 final size:45
Alignment explanation
Indices: 25304784--25305046 Score: 156
Period size: 45 Copynumber: 5.9 Consensus size: 45
25304774 TCATTTATAG
** * * *
25304784 CTTCAATCTATTCCACTGCAACTTTAGGGAAATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCTAT
* * * ** * **
25304829 CTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAG-GCTGGTGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCTAT
* ** *
25304873 CTTCAATCTGCTTCACTACAACTTCA-AAAAGATAAGATTTGCCAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAA-ATAAGATTTGCTAT
* * *
25304918 -TTGCAATCTACTCTACTACAACTTCAGGGAAATGAGATTTGCTAT
1 CTT-CAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCTAT
* * * ** * * * * **
25304963 TTTTAGTCTGCTCTGCTGCAACTTCAGAGAGATAAGACTTG-TGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCTAT
* * * * *
25305007 CTTTAATCTGCTCCATTATAACTTCAGGGAGATTAGATTT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAAATAAGATTT
25305047 ACCATGATGA
Statistics
Matches: 161, Mismatches: 52, Indels: 11
0.72 0.23 0.05
Matches are distributed among these distances:
43 1 0.01
44 64 0.40
45 92 0.57
46 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCTAT
Found at i:25304956 original size:134 final size:134
Alignment explanation
Indices: 25304787--25305032 Score: 323
Period size: 134 Copynumber: 1.8 Consensus size: 134
25304777 TTTATAGCTT
* * *
25304787 CAATCTATTCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACT
1 CAATCTACTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACT
* *
25304852 TCA-AGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTACAACTTCAAAAAGATAAGATTTGCC
66 TCAGA-GAGATAAGACTGGTGGCTTCAATCTGCTCCACTACAACTTCAAAAAGATAAGATTTGCC
25304916 ATTTG
130 ATTTG
* * * * * ** *
25304921 CAATCTACTCTACTACAACTTCAGGGAAATGAGATTTGCTATTTTTAGTCTGCTCTGCTGCAACT
1 CAATCTACTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACT
* * * *
25304986 TCAGAGAGATAAGACTTGTGGCTTTAATCTGCTCCATTATAACTTCA
66 TCAGAGAGATAAGACTGGTGGCTTCAATCTGCTCCACTACAACTTCA
25305033 GGGAGATTAG
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
134 93 0.99
135 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (134 bp):
CAATCTACTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACT
TCAGAGAGATAAGACTGGTGGCTTCAATCTGCTCCACTACAACTTCAAAAAGATAAGATTTGCCA
TTTG
Found at i:25307111 original size:46 final size:44
Alignment explanation
Indices: 25306925--25307240 Score: 145
Period size: 46 Copynumber: 6.8 Consensus size: 44
25306915 TCATTTGTGT
* * ** *
25306925 ATGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATG
1 ATGAGCCAATGTAAGACATGTCTGGGACATGCATCAGCCTCA--A-G
* * * *
25306972 A-GAGCCAATATAAGACCATATCTGGGATATGGCATC-GACAAT-AAG
1 ATGAGCCAATGTAAGA-CATGTCTGGGACAT-GCATCAG-C-CTCAAG
* * *
25307017 ACGAGCGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAG
1 ATGAGC-C-AATGTAAGACATGTCTGGGACATGCATCAGCCTCAAG
* *
25307063 ATGTAAGCCAATGTAAGACATGTCTGAGACATGCATCAG-CTATAAG
1 ATG--AGCCAATGTAAGACATGTCTGGGACATGCATCAGCCT-CAAG
* * * * ** **
25307109 ATGAGCTAGTATAAGACATTTCTGGGACATGCATTTGCACGGATATG
1 ATGAGCCAATGTAAGACATGTCTGGGACATGCATCAGC-CTCA-A-G
* * * * * * *
25307156 CAAGAGCTAGTGTAAGACATGCCTGGGACATGCAACGGCATCAATG
1 -ATGAGCCAATGTAAGACATGTCTGGGACATGCATCAGCCTCAA-G
*
25307202 ATGACAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 ATG--AGCCAATGTAAGA-CATGTCTGGGACAT-GCATC
25307241 GACAACTTAT
Statistics
Matches: 206, Mismatches: 42, Indels: 40
0.72 0.15 0.14
Matches are distributed among these distances:
44 27 0.13
45 8 0.04
46 64 0.31
47 43 0.21
48 60 0.29
49 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (44 bp):
ATGAGCCAATGTAAGACATGTCTGGGACATGCATCAGCCTCAAG
Found at i:25307230 original size:48 final size:45
Alignment explanation
Indices: 25306932--25307240 Score: 184
Period size: 48 Copynumber: 6.6 Consensus size: 45
25306922 TGTATGAGCT
** *
25306932 AGTGTAAGACATGTCTGGGACATGCATTGGC-CACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACA-ATGATGA-AGCC
* * * * *
25306978 AATATAAGACCATATCTGGGATATGGCATC-G-ACAAT-AAGACGAGCGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAATGATGA--AGC-C
* *
25307025 TAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCAG-CACAATGATG-AAGCC
* * * *
25307072 AATGTAAGACATGTCTGAGACATGCATCAGCTATAA-GATG-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-ACAATGATGAAGCC
* * ** * *
25307116 AGTATAAGACATTTCTGGGACATGCATTTGCACGGAT-ATGCAAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCAC-AATGATG--A-AGCC
* * *
25307164 AGTGTAAGACATGCCTGGGACATGCAACGGCATCAATGATGACAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA-CAATGATGA-AGCC
25307211 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
25307241 GACAACTTAT
Statistics
Matches: 203, Mismatches: 38, Indels: 41
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.00
44 32 0.16
45 4 0.02
46 51 0.25
47 43 0.21
48 59 0.29
49 12 0.06
50 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACAATGATGAAGCC
Found at i:25308361 original size:21 final size:21
Alignment explanation
Indices: 25308319--25308363 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25308309 GACACAGGCA
* *
25308319 TGTTACCCTTCCACACGAGCG
1 TGTTACCCCTCCACAAGAGCG
* *
25308340 TGTTACCCCTCCATAAGGGCG
1 TGTTACCCCTCCACAAGAGCG
25308361 TGT
1 TGT
25308364 GCCCTATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.33, G:0.22, T:0.27
Consensus pattern (21 bp):
TGTTACCCCTCCACAAGAGCG
Found at i:25317645 original size:82 final size:82
Alignment explanation
Indices: 25317491--25317654 Score: 274
Period size: 82 Copynumber: 2.0 Consensus size: 82
25317481 AAGGGCCTCT
*
25317491 CCACTCGACATCCTCTTCTTGGAGGTTTTGAAGGATTGCCATCCATCTTTCCTCTAATATCCCAT
1 CCACTCGACATCCTCTTCTTAGAGGTTTTGAAGGATTGCCATCCATCTTTCCTCTAATATCCCAT
*
25317556 CCTGTCTTGGTGTAGCC
66 CCCGTCTTGGTGTAGCC
* ***
25317573 CCACTCGACATCCTCTTCTTAGAGGTTTTGAAGGATTGCCATCCATCTTTCCTCTGATATGTTAT
1 CCACTCGACATCCTCTTCTTAGAGGTTTTGAAGGATTGCCATCCATCTTTCCTCTAATATCCCAT
25317638 CCCGTCTTGGTGTAGCC
66 CCCGTCTTGGTGTAGCC
25317655 ACTATTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.36
Consensus pattern (82 bp):
CCACTCGACATCCTCTTCTTAGAGGTTTTGAAGGATTGCCATCCATCTTTCCTCTAATATCCCAT
CCCGTCTTGGTGTAGCC
Found at i:25321887 original size:28 final size:28
Alignment explanation
Indices: 25321822--25321922 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
25321812 ATAGTGAATC
*
25321822 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
25321851 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25321879 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
25321909 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25321923 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25326359 original size:28 final size:28
Alignment explanation
Indices: 25326294--25326394 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
25326284 ATAGTGAATC
*
25326294 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
25326323 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25326351 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
25326381 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25326395 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25334306 original size:28 final size:28
Alignment explanation
Indices: 25334241--25334341 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
25334231 ATAGTGAATC
*
25334241 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
25334270 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25334298 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
25334328 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25334342 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25336427 original size:25 final size:28
Alignment explanation
Indices: 25336372--25336430 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
25336362 AAATTAAACA
**
25336372 TTTTTTGACAAAAAAATCATTTAGTTTC
1 TTTTTTGACAAAAAAATCATTTAGTCCC
*
25336400 TTTTTT-A-AAAAAAATTATTT-GTCCC
1 TTTTTTGACAAAAAAATCATTTAGTCCC
25336425 TTTTTT
1 TTTTTT
25336431 TTTCTCTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.32
26 12 0.43
27 1 0.04
28 6 0.21
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (28 bp):
TTTTTTGACAAAAAAATCATTTAGTCCC
Found at i:25340318 original size:22 final size:21
Alignment explanation
Indices: 25340270--25340319 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
25340260 GAGAAAAAAA
*
25340270 TTTATAACTAATAGAATTTAT
1 TTTAAAACTAATAGAATTTAT
*
25340291 TCTAAAACTAAATAGAA-TTAGT
1 TTTAAAACT-AATAGAATTTA-T
25340313 TTTAAAA
1 TTTAAAA
25340320 AATAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (21 bp):
TTTAAAACTAATAGAATTTAT
Found at i:25340812 original size:30 final size:30
Alignment explanation
Indices: 25340778--25340836 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
25340768 AAAATCCACA
*
25340778 TGAAACACTCAAACTTTAAAACTC-ATATAT
1 TGAAA-ACTAAAACTTTAAAACTCTATATAT
* *
25340808 TGAAAATTAAAACTTTACAACTCTATATA
1 TGAAAACTAAAACTTTAAAACTCTATATA
25340837 AGCTAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.32
Consensus pattern (30 bp):
TGAAAACTAAAACTTTAAAACTCTATATAT
Found at i:25341919 original size:2 final size:2
Alignment explanation
Indices: 25341914--25341958 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
25341904 AAACCCATTG
25341914 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
25341956 TC T
1 TC T
25341959 GTGAAATAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:25342001 original size:15 final size:15
Alignment explanation
Indices: 25341981--25342010 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25341971 CAGTTTCAAA
25341981 GTGTTGCCTTTTTTT
1 GTGTTGCCTTTTTTT
25341996 GTGTTGCCTTTTTTT
1 GTGTTGCCTTTTTTT
25342011 TTTCTTCTTT
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:0.00, C:0.13, G:0.20, T:0.67
Consensus pattern (15 bp):
GTGTTGCCTTTTTTT
Found at i:25345507 original size:2 final size:2
Alignment explanation
Indices: 25345500--25345536 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
25345490 GTAGGCTTCA
25345500 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25345537 ATGGCTGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25346069 original size:21 final size:20
Alignment explanation
Indices: 25346002--25346098 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 20
25345992 TAATTTAATT
*
25346002 AATTTTAATTTTATATTTTTCG
1 AATTTTAATTTTA-AATTTT-G
* * **
25346024 AATTTCAAATTTCAAATTTCA
1 AATTT-TAATTTTAAATTTTG
25346045 AATTTTGAATTTTAAATTTTG
1 AATTTT-AATTTTAAATTTTG
25346066 AATTTTAAGTTTTAAAATTTT-
1 AATTTTAA-TTTT-AAATTTTG
25346087 AATTTTAATTTT
1 AATTTTAATTTT
25346099 TATTAAATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
20 6 0.10
21 34 0.55
22 16 0.26
23 6 0.10
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
AATTTTAATTTTAAATTTTG
Found at i:25346088 original size:8 final size:7
Alignment explanation
Indices: 25346002--25346100 Score: 76
Period size: 7 Copynumber: 14.0 Consensus size: 7
25345992 TAATTTAATT
25346002 AATTTT-
1 AATTTTA
25346008 AATTTTA
1 AATTTTA
* *
25346015 TATTTTTCG
1 -AATTTT-A
*
25346024 AATTTCA
1 AATTTTA
*
25346031 AATTTCA
1 AATTTTA
*
25346038 AATTTCA
1 AATTTTA
*
25346045 AATTTTG
1 AATTTTA
25346052 AATTTTA
1 AATTTTA
*
25346059 AATTTTG
1 AATTTTA
25346066 AATTTTA
1 AATTTTA
*
25346073 AGTTTTAA
1 AATTTT-A
25346081 AATTTT-
1 AATTTTA
25346087 AATTTTA
1 AATTTTA
*
25346094 ATTTTTA
1 AATTTTA
25346101 TTAAATTTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
6 12 0.16
7 48 0.64
8 15 0.20
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (7 bp):
AATTTTA
Found at i:25346738 original size:17 final size:17
Alignment explanation
Indices: 25346713--25346745 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25346703 TTGTTGAAGA
25346713 ATCTATTTGGATTTTGC
1 ATCTATTTGGATTTTGC
*
25346730 ATCTTTTTGGATTTTG
1 ATCTATTTGGATTTTG
25346746 TATCAGTCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.18, T:0.58
Consensus pattern (17 bp):
ATCTATTTGGATTTTGC
Found at i:25346772 original size:3 final size:3
Alignment explanation
Indices: 25346764--25346851 Score: 158
Period size: 3 Copynumber: 29.3 Consensus size: 3
25346754 TGTTGGAGAA
*
25346764 TCT TCT TCT TCT TCT TCT TCT TAT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
25346812 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCG TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
25346852 TTATGCTTTA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:25356171 original size:9 final size:9
Alignment explanation
Indices: 25356142--25356175 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
25356132 GCACGCGTCC
25356142 TTTTTTGTT
1 TTTTTTGTT
*
25356151 TTCTTATGTT
1 TT-TTTTGTT
25356161 TTTTTTGTT
1 TTTTTTGTT
25356170 TTTTTT
1 TTTTTT
25356176 TATTCCAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.03, C:0.03, G:0.09, T:0.85
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:25356599 original size:20 final size:20
Alignment explanation
Indices: 25356573--25356618 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
25356563 TAAAATAAAA
* *
25356573 TAAAATAATTTTTAAAAGTTC
1 TAAAAT-ATTTATAAAAATTC
25356594 -AAAATATTTATAAAAATTC
1 TAAAATATTTATAAAAATTC
25356613 TAAAAT
1 TAAAAT
25356619 TTATATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (20 bp):
TAAAATATTTATAAAAATTC
Found at i:25358307 original size:3 final size:3
Alignment explanation
Indices: 25358299--25358705 Score: 171
Period size: 3 Copynumber: 134.7 Consensus size: 3
25358289 TAAATCAGCT
25358299 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * *
25358345 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA CGACG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TA-A
* * * ** * * *
25358395 TGAG TAAA TAC GAA -AA GGA -AA TATA CAA T-G TAC T-A TAA -AA TTAA
1 T-AA T-AA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA -TAA
* * * * *
25358439 T-A TGA TAA TAA TAA TAG TGA TAA T-A CAA TGA TAA TAA TAA -AA TGGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T--AA
* * * * * *
25358486 -AA TAA TAG TGA TGA TAT TAA TAG GAA TAA TAA T-A TAGA CTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA
* * * * *
25358531 TAA CAA TAA CAGA AAA TAA TAA TAA -AA TGA TAA AAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
25358576 T-A TAA TGAA TAA TGA CAA CAA TAA T-A TAAA TAG TAA TAGA -AA -AA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TAA TAA
* * * ** * * *
25358620 CAA TAA TAGA -AA TAG CAA CGA TAA TAA TAAA TAA TAA GAG TAA TAG
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
25358666 TAA TAA TAA TAA TAAA TAA TAA TAA TAA TATG TAA TAA TA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TA
25358706 CTCTAAACGT
Statistics
Matches: 305, Mismatches: 66, Indels: 66
0.70 0.15 0.15
Matches are distributed among these distances:
2 26 0.09
3 243 0.80
4 31 0.10
5 5 0.02
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:25358489 original size:26 final size:26
Alignment explanation
Indices: 25358440--25358489 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
25358430 TAAAATTAAT
* *
25358440 ATGATAATAATAATAGTGATAATACA
1 ATGATAATAATAAAAGTGAAAATACA
25358466 ATGATAATAATAAAA-TGGAAAATA
1 ATGATAATAATAAAAGT-GAAAATA
25358490 ATAGTGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.28
Consensus pattern (26 bp):
ATGATAATAATAAAAGTGAAAATACA
Done.