Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 99 of 320
Found at i:31750436 original size:21 final size:23
Alignment explanation
Indices: 31750391--31750439 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
31750381 ATGATGTATG
*
31750391 ATTTGGTTGTAAAATGGTTGAGA
1 ATTTGGTTATAAAATGGTTGAGA
*
31750414 ATTTGG-TATAAAAT-GTTGTGA
1 ATTTGGTTATAAAATGGTTGAGA
31750435 ATTTG
1 ATTTG
31750440 TTGTTTGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 11 0.46
22 7 0.29
23 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.43
Consensus pattern (23 bp):
ATTTGGTTATAAAATGGTTGAGA
Found at i:31754088 original size:47 final size:47
Alignment explanation
Indices: 31754024--31754421 Score: 643
Period size: 47 Copynumber: 8.5 Consensus size: 47
31754014 ATTCAGCCAA
* *
31754024 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
31754071 GAAAGTGTATTTGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
31754118 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
31754165 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
31754212 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
31754259 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
31754306 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * * * * * * * *
31754353 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* **
31754400 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATGTGTGATAAG
31754422 TCCCGAAGGG
Statistics
Matches: 330, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 330 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:31754609 original size:37 final size:37
Alignment explanation
Indices: 31754539--31754618 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
31754529 TCCGAGCTCT
* * *
31754539 AAAGACCCGATGACTACGTGTGGGAATTTTGTCCGGG
1 AAAGACCCGATAACTACGTGTGGGAATTATGTCCAGG
*
31754576 AAAGACCCGATAACTTCGTGT-GGAGATTATGTCCAGG
1 AAAGACCCGATAACTACGTGTGGGA-ATTATGTCCAGG
*
31754613 TAAGAC
1 AAAGAC
31754619 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 3 0.08
37 34 0.92
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (37 bp):
AAAGACCCGATAACTACGTGTGGGAATTATGTCCAGG
Found at i:31756445 original size:58 final size:57
Alignment explanation
Indices: 31756306--31756446 Score: 160
Period size: 57 Copynumber: 2.5 Consensus size: 57
31756296 ATGTATACAA
* ** ** *
31756306 CAGGATTACCAGTTCAGGCTAAATCCTTTTTATGACATATGCTCTAAAGAGCTTAAT
1 CAGGATTACCAGTCCAGGCTAAATCCAGTCGATAACATATGCTCTAAAGAGCTTAAT
* * *
31756363 CTGGATTACCTGTCCGGGCTAAATCCAGTCGATAACATATGCT-TGAAAG-GACTTAGAT
1 CAGGATTACCAGTCCAGGCTAAATCCAGTCGATAACATATGCTCT-AAAGAG-CTTA-AT
31756421 CAGGATTACCAGTCCAGGCTAAATCC
1 CAGGATTACCAGTCCAGGCTAAATCC
31756447 TTTCTGTAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
56 2 0.03
57 42 0.61
58 25 0.36
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (57 bp):
CAGGATTACCAGTCCAGGCTAAATCCAGTCGATAACATATGCTCTAAAGAGCTTAAT
Found at i:31766382 original size:22 final size:22
Alignment explanation
Indices: 31766354--31766399 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
31766344 ACGCCGTAGG
*
31766354 CAGGACAACACATAGCCTTAAA
1 CAGGACAACACATAGCCGTAAA
*
31766376 CAGGACAGCACATAGCCGTAAA
1 CAGGACAACACATAGCCGTAAA
31766398 CA
1 CA
31766400 TCGCAGCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.28, G:0.17, T:0.11
Consensus pattern (22 bp):
CAGGACAACACATAGCCGTAAA
Found at i:31766406 original size:22 final size:22
Alignment explanation
Indices: 31766357--31766407 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
31766347 CCGTAGGCAG
* * *
31766357 GACAACACATAGCCTTAAACAG
1 GACAGCACATAGCCGTAAACAC
31766379 GACAGCACATAGCCGTAAACATC
1 GACAGCACATAGCCGTAAACA-C
31766402 G-CAGCA
1 GACAGCA
31766408 ACACTGCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.41, C:0.29, G:0.18, T:0.12
Consensus pattern (22 bp):
GACAGCACATAGCCGTAAACAC
Found at i:31766627 original size:22 final size:21
Alignment explanation
Indices: 31766602--31766666 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
31766592 GCATATATGT
*
31766602 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCAT-ATCAGG
* *
31766624 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAAAGCCATAT-CAGG
*
31766646 TTGGCGCAAAGCCATGATCAG
1 TTGGCACAAAGCCAT-ATCAG
31766667 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (21 bp):
TTGGCACAAAGCCATATCAGG
Found at i:31766887 original size:41 final size:41
Alignment explanation
Indices: 31766808--31766966 Score: 239
Period size: 41 Copynumber: 3.9 Consensus size: 41
31766798 TAAAAGCCAC
*
31766808 CGGTGGATCCACGGTCGTCAAG-AACCATGCGATCCTTAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAAT
* * * *
31766848 CGGTGGATCCACGGTCGTTAAGAAACCATGTGATCCTTAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAAT
* *
31766889 CGGTGGATCCACGATTGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAAT
*
31766930 CGGTGGATCCACAATCGTCAAGCAACCATGCGATCCT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCT
31766967 CAATTTCTTC
Statistics
Matches: 108, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 21 0.19
41 87 0.81
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (41 bp):
CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAAT
Found at i:31767238 original size:27 final size:27
Alignment explanation
Indices: 31767208--31767278 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
31767198 TTTCACCCTA
*
31767208 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAAATCTACAAAC
* * * *
31767235 CAAGGGTATTTCGGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAAATCTACAAAC
* *
31767262 CAATGGTATTTTTGTAA
1 CAAGGGTATTTTGGTAA
31767279 TTTTTGAAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAAATCTACAAAC
Found at i:31767297 original size:28 final size:27
Alignment explanation
Indices: 31767230--31767604 Score: 205
Period size: 27 Copynumber: 13.9 Consensus size: 27
31767220 GGTAAATCTA
* *
31767230 CAAACCAAGGGTATTTCGGTAATTTTG
1 CAAATCAAGGGTATTTCTGTAATTTTG
* * *
31767257 CAAACCAATGGTATTTTTGTAATTTTTG
1 CAAATCAAGGGTATTTCTGTAA-TTTTG
*
31767285 -AAAGTCAAGGGTATTTCTATAATTTTG
1 CAAA-TCAAGGGTATTTCTGTAATTTTG
* * *
31767312 TAAATCAGGGGTATTTCTGTAATTTTC
1 CAAATCAAGGGTATTTCTGTAATTTTG
*
31767339 CAAATCAAGGGTATTTC-GATAATTTTC
1 CAAATCAAGGGTATTTCTG-TAATTTTG
* * *
31767366 CAAATTAGGGGTATTT-TGGTAATTTTA
1 CAAATCAAGGGTATTTCT-GTAATTTTG
* * *
31767393 CAAATTGAA-AGTATTT-TGGTAATTTTA
1 CAAA-TCAAGGGTATTTCT-GTAATTTTG
* * *
31767420 CAAGTCGAA-GGTATTTCGGTAATTTTA
1 CAAATC-AAGGGTATTTCTGTAATTTTG
** * * * **
31767447 CAGGTCGAGAGTATTTCGGTAATTTCA
1 CAAATCAAGGGTATTTCTGTAATTTTG
** * *
31767474 CAAATCTGGGGTATTT-TGGTGATTTTA
1 CAAATCAAGGGTATTTCT-GTAATTTTG
* * *
31767501 CAAACCAAGGTTATTT-TGGTAGTTTTG
1 CAAATCAAGGGTATTTCT-GTAATTTTG
* * *
31767528 CTAATCGATGGTATTT-TGGTAATTTTG
1 CAAATCAAGGGTATTTCT-GTAATTTTG
* * *
31767555 TAAACCAAGGGTA-TTCAGTAATTTTG
1 CAAATCAAGGGTATTTCTGTAATTTTG
* *
31767581 TAAACCAAGGGTATTT-TAGTAATT
1 CAAATCAAGGGTATTTCT-GTAATT
31767605 CTACCCTACA
Statistics
Matches: 280, Mismatches: 54, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
26 27 0.10
27 228 0.81
28 25 0.09
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCTGTAATTTTG
Found at i:31767376 original size:54 final size:53
Alignment explanation
Indices: 31767228--31767604 Score: 233
Period size: 54 Copynumber: 7.0 Consensus size: 53
31767218 TTGGTAAATC
* * * **
31767228 TACAAACCAAGGGTATTTCGGTAATTTTGCAAACCAATGGTATTTTTGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTTTGCAAATCAGGGGTA-TTTTGTAATTT
** * *
31767282 TTGAAAGTCAAGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTCGATAATTTTGCAAATCAGGGGTATTT-TGTAATTT
* * *
31767337 TCCAAATCAAGGGTATTTCGATAATTTTCCAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTTTGCAAATCAGGGGTATTTT-GTAATTT
* * * * * * * *
31767391 TACAAATTGAA-AGTATTTTGGTAATTTTACAAGTC-GAAGGTATTTCGGTAATTT
1 TACAAA-TCAAGGGTATTTCGATAATTTTGCAAATCAG-GGGTATTT-TGTAATTT
** * * * ** * *
31767445 TACAGGTCGAGAGTATTTCGGTAATTTCACAAATCTGGGGTATTTTGGTGATTT
1 TACAAATCAAGGGTATTTCGATAATTTTGCAAATCAGGGGTATTTT-GTAATTT
* * * * * * *
31767499 TACAAACCAAGGTTATTTTGGTAGTTTTGCTAATC-GATGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTTTGCAAATCAG-GGGTATTTT-GTAATTT
** * * * *
31767553 TGTAAACCAAGGGTA-TTC-AGTAATTTTGTAAACCAAGGGTATTTTAGTAATT
1 TACAAATCAAGGGTATTTCGA-TAATTTTGCAAATCAGGGGTATTTT-GTAATT
31767605 CTACCCTACA
Statistics
Matches: 251, Mismatches: 60, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
53 31 0.12
54 175 0.70
55 45 0.18
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (53 bp):
TACAAATCAAGGGTATTTCGATAATTTTGCAAATCAGGGGTATTTTGTAATTT
Found at i:31767581 original size:26 final size:27
Alignment explanation
Indices: 31767537--31767604 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 27
31767527 GCTAATCGAT
**
31767537 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTCAGTAATTTTGTAAACCAAG
31767564 GGTA-TTCAGTAATTTTGTAAACCAAG
1 GGTATTTCAGTAATTTTGTAAACCAAG
*
31767590 GGTATTTTAGTAATT
1 GGTATTTCAGTAATT
31767605 CTACCCTACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 24 0.65
27 13 0.35
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTGTAAACCAAG
Found at i:31767619 original size:27 final size:27
Alignment explanation
Indices: 31767589--31767642 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31767579 TGTAAACCAA
* * *
31767589 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCAATAATACTACCCTACAG
*
31767616 GGGTATTTCAATAATACTAGCCTACAG
1 GGGTATTTCAATAATACTACCCTACAG
31767643 ATATGAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (27 bp):
GGGTATTTCAATAATACTACCCTACAG
Found at i:31788260 original size:30 final size:30
Alignment explanation
Indices: 31788226--31788285 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
31788216 CTTTAATACG
*
31788226 AACTTTAGAAAAATTACATTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* * *
31788256 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
31788286 GGCTCGGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:31796475 original size:18 final size:18
Alignment explanation
Indices: 31796454--31796509 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
31796444 AAATATTTAA
31796454 AAATTAAAATCCATAAAT
1 AAATTAAAATCCATAAAT
*
31796472 AAA-TAAATATTTC-T-AA-
1 AAATTAAA-A-TCCATAAAT
31796488 AAATTAAAATCCATAAAT
1 AAATTAAAATCCATAAAT
31796506 AAAT
1 AAAT
31796510 AAATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
15 2 0.07
16 5 0.17
17 12 0.40
18 9 0.30
19 2 0.07
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATTAAAATCCATAAAT
Found at i:31796522 original size:38 final size:38
Alignment explanation
Indices: 31796442--31796531 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 38
31796432 TTTTCATATA
31796442 AAAAATATT-TAAAAATTAAAATCCATAAATAAATAAAT
1 AAAAAT-TTCTAAAAATTAAAATCCATAAATAAATAAAT
31796480 ----ATTTCTAAAAATTAAAATCCATAAATAAATAAAT
1 AAAAATTTCTAAAAATTAAAATCCATAAATAAATAAAT
*
31796514 AAAAATTTCTAATAATTA
1 AAAAATTTCTAAAAATTA
31796532 TTTAAAAACC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 2 0.04
34 31 0.67
38 13 0.28
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (38 bp):
AAAAATTTCTAAAAATTAAAATCCATAAATAAATAAAT
Found at i:31797053 original size:10 final size:10
Alignment explanation
Indices: 31797038--31797109 Score: 55
Period size: 10 Copynumber: 7.7 Consensus size: 10
31797028 ATTTGTAATG
31797038 ATTATTTATA
1 ATTATTTATA
31797048 ATTATTTATA
1 ATTATTTATA
* *
31797058 ATTCTTAATA
1 ATTATTTATA
31797068 ATT-TTTA-A
1 ATTATTTATA
**
31797076 AGAATTTATA
1 ATTATTTATA
*
31797086 ATT-TTTTTA
1 ATTATTTATA
*
31797095 A-AATTT-TA
1 ATTATTTATA
31797103 ATTATTT
1 ATTATTT
31797110 GAAAAACCTT
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
8 5 0.10
9 20 0.42
10 23 0.48
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (10 bp):
ATTATTTATA
Found at i:31797099 original size:18 final size:19
Alignment explanation
Indices: 31797065--31797105 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
31797055 ATAATTCTTA
31797065 ATAA-TTTTTAAAGAATTT
1 ATAATTTTTTAAAGAATTT
*
31797083 ATAATTTTTTTAA-AATTT
1 ATAATTTTTTAAAGAATTT
31797101 -TAATT
1 ATAATT
31797106 ATTTGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 9 0.43
19 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATAATTTTTTAAAGAATTT
Found at i:31797114 original size:17 final size:18
Alignment explanation
Indices: 31797041--31797114 Score: 55
Period size: 19 Copynumber: 4.1 Consensus size: 18
31797031 TGTAATGATT
31797041 ATTTATAATTATTT-ATAA
1 ATTTATAATTATTTGA-AA
* *
31797059 TTCTTAATAATT-TTTAAAGA
1 AT-TT-ATAATTATTTGAA-A
* *
31797079 ATTTATAATTTTTTTAAA
1 ATTTATAATTATTTGAAA
31797097 ATTT-TAATTATTTGAAA
1 ATTTATAATTATTTGAAA
31797114 A
1 A
31797115 ACCTTGTCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
17 12 0.26
18 12 0.26
19 13 0.28
20 9 0.20
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTATAATTATTTGAAA
Found at i:31799942 original size:46 final size:45
Alignment explanation
Indices: 31799839--31800009 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 45
31799829 TTGTGTGAGC
* * *
31799839 TAGTGTAAGACATGTCTGGGACATGTCATCAGCATTGAGACG-AGTG
1 TAGTGTAAGACATGTCTGGGACATG-CATCGGCCTCGAGACGTAG-G
* *
31799885 CTAGTGTAAGACATGTCTAGGACATGCTTCGGCCTCGAGACGTAAGG
1 -TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGT-AGG
*
31799932 TAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGT--G
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAGG
31799975 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 T-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
31800010 ACCTGACCCC
Statistics
Matches: 109, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
43 2 0.02
44 9 0.08
45 16 0.15
46 55 0.50
47 25 0.23
48 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (45 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAGG
Found at i:31807396 original size:12 final size:12
Alignment explanation
Indices: 31807379--31807412 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
31807369 TATTGTTATA
31807379 ATCTATTTATCT
1 ATCTATTTATCT
*
31807391 ATCTATCTATCT
1 ATCTATTTATCT
*
31807403 ATTTATTTAT
1 ATCTATTTAT
31807413 TTGTTCTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (12 bp):
ATCTATTTATCT
Found at i:31809378 original size:19 final size:19
Alignment explanation
Indices: 31809354--31809398 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
31809344 CGTCTCTTTT
31809354 TGCATT-CATTTCATGCATA
1 TGCATTGCATTTCAT-CATA
31809373 TGCATTGCATTTCATCATA
1 TGCATTGCATTTCATCATA
31809392 TGCATTG
1 TGCATTG
31809399 AATGTCACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.42
Consensus pattern (19 bp):
TGCATTGCATTTCATCATA
Found at i:31812125 original size:43 final size:42
Alignment explanation
Indices: 31811962--31812130 Score: 148
Period size: 43 Copynumber: 3.9 Consensus size: 42
31811952 CGTACAATGT
* * * *
31811962 CAACGTCCCAGGCGTGGTCTTACATGTAATCACATGTCGATGC
1 CAACGTCCCAGACGTGGTCTTACACG-AAACACATATCGATGC
*
31812005 C-ACTGTCCCAGACAG-GGTCTTACACGAATCACAATTAT-GATGC
1 CAAC-GTCCCAGAC-GTGGTCTTACACGAAACAC-A-TATCGATGC
* * * *
31812048 CGATGTCCCAAACATGGTCTTACTA-GAAATCACATATCGATGC
1 CAACGTCCCAGACGTGGTCTTAC-ACGAAA-CACATATCGATGC
*
31812091 CAACGTCCTAGACGTGGTCTTACACGAGAACACATATCGA
1 CAACGTCCCAGACGTGGTCTTACACGA-AACACATATCGA
31812131 AAATCCTATG
Statistics
Matches: 103, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 12 0.12
43 81 0.79
44 10 0.10
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (42 bp):
CAACGTCCCAGACGTGGTCTTACACGAAACACATATCGATGC
Found at i:31818269 original size:39 final size:40
Alignment explanation
Indices: 31818215--31818391 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
31818205 AAACCAAGTA
* * * * *
31818215 CCTTCGGAATTTAG-CCAGATATAGCT-ACTAGCTCAAATC
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
* *
31818254 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
31818294 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
31818334 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
31818373 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
31818392 TTATCATCCG
Statistics
Matches: 124, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 48 0.39
40 75 0.60
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:31818292 original size:40 final size:40
Alignment explanation
Indices: 31818248--31818395 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
31818238 GCTACTAGCT
*
31818248 CAAATCCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
31818288 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
31818328 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
31818367 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
31818396 CATCCGAATA
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
38 1 0.01
39 34 0.34
40 63 0.64
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:31825447 original size:40 final size:40
Alignment explanation
Indices: 31825396--31825583 Score: 290
Period size: 40 Copynumber: 4.7 Consensus size: 40
31825386 ACTACTTGCT
*
31825396 CAAATCCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
31825436 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
**
31825476 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * *
31825516 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
31825555 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
31825584 CATCCGAATA
Statistics
Matches: 136, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.01
39 32 0.24
40 100 0.74
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:31827050 original size:13 final size:13
Alignment explanation
Indices: 31827013--31827052 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
31827003 ACTCTGTAGG
31827013 GACACGCCCGTGT
1 GACACGCCCGTGT
** *
31827026 GACATTCTCGTGT
1 GACACGCCCGTGT
31827039 GACACGCCCGTGT
1 GACACGCCCGTGT
31827052 G
1 G
31827053 CGATTACTCT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.30, T:0.23
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:31827657 original size:23 final size:19
Alignment explanation
Indices: 31827626--31827683 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
31827616 AAAGTTTTCC
31827626 AAAAAAGAAAAGAATAAGAAG
1 AAAAAAGAAAAGAA-AA-AAG
*
31827647 AAGAAGAAG-AAATAAAAAAG
1 AA-AA-AAGAAAAGAAAAAAG
31827667 AAAAAAGAAAAGAAAAA
1 AAAAAAGAAAAGAAAAA
31827684 GGAGAGGCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 3 0.09
19 10 0.31
20 5 0.16
21 4 0.12
22 7 0.22
23 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.03
Consensus pattern (19 bp):
AAAAAAGAAAAGAAAAAAG
Found at i:31827670 original size:6 final size:6
Alignment explanation
Indices: 31827627--31827684 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
31827617 AAGTTTTCCA
* * * *
31827627 AAAAAG -AAAAG AATAAG AAGAAG AAGAAG AAATA- AAAAAG AAAAA-
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
31827672 AGAAAAG AAAAAG
1 A-AAAAG AAAAAG
31827685 GAGAGGCCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 10 0.23
6 32 0.74
7 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:31828696 original size:46 final size:46
Alignment explanation
Indices: 31828492--31828688 Score: 261
Period size: 46 Copynumber: 4.3 Consensus size: 46
31828482 ACCCAGATCA
* * * * **
31828492 ATGGATTAAAGAAGATACAAATCCTGTAACCC-TAAGTTACAGTGGG
1 ATGGATTGAAGAAGATACAAATCATAT-ACCCTTGAGTTGTAGTGGG
* * *
31828538 ATGGATTGAAGAAGATACAAATCTTATACCCCTGAGTTGCAGTGGG
1 ATGGATTGAAGAAGATACAAATCATATACCCTTGAGTTGTAGTGGG
*
31828584 ATGGATTGAAGAAGATACAAATCCTATACCCTTGAGTTGTAGTGGG
1 ATGGATTGAAGAAGATACAAATCATATACCCTTGAGTTGTAGTGGG
*
31828630 ATGGATTGAAGATGATACAAATCATATACCCTTGAGTTGTAGTGGG
1 ATGGATTGAAGAAGATACAAATCATATACCCTTGAGTTGTAGTGGG
* *
31828676 GTGGATAGAAGAA
1 ATGGATTGAAGAA
31828689 ACCACAAAGT
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 133 0.97
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (46 bp):
ATGGATTGAAGAAGATACAAATCATATACCCTTGAGTTGTAGTGGG
Found at i:31829446 original size:143 final size:143
Alignment explanation
Indices: 31829085--31829435 Score: 535
Period size: 143 Copynumber: 2.5 Consensus size: 143
31829075 CATCATGGCA
* **
31829085 AATCTTATCTCCCTAAAGTTGTAGTGGAATAGATTGAAGCCACAAGCCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCCCTGAAGTTG
* * *
31829150 CAGCGGAGCAGACTAATGACAGCGAATATTATTTCCCTGAACTTGCAGTGGAACAGATTAAAGCT
66 CAGCGGAGCAGACTAATGACAGCGAACATCATTTCCCTGAACTTACAGTGGAACAGATTAAAGCT
31829215 AAAAATTATGGTG
131 AAAAATTATGGTG
* *
31829228 AATCTTATCTCCCTAAAGTTGCAGTTGAGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCCCTGAAGTTG
* * * *
31829293 CAGCGGAGCAGACTGAA-GATAGCGGACCTCATTTCCCT-AACGTTATAGTGGAACAGATTAAAG
66 CAGCGGAGCAGACT-AATGACAGCGAACATCATTTCCCTGAAC-TTACAGTGGAACAGATTAAAG
*
31829356 CTACAAATTATGGTG
129 CTAAAAATTATGGTG
* *
31829371 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTTCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCCCTGAAGTTG
31829436 TAGTAGAGCA
Statistics
Matches: 190, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
142 3 0.02
143 185 0.97
144 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (143 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCCCTGAAGTTG
CAGCGGAGCAGACTAATGACAGCGAACATCATTTCCCTGAACTTACAGTGGAACAGATTAAAGCT
AAAAATTATGGTG
Found at i:31829486 original size:45 final size:44
Alignment explanation
Indices: 31829374--31829568 Score: 162
Period size: 45 Copynumber: 4.4 Consensus size: 44
31829364 TATGGTGAAT
* * * * ** *
31829374 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACC-AGC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATACCAATC
* *
31829418 CTTATCT-TCCTGAAGTTGTAGTAGAGCAGGTTGAAATTACCGATC
1 CTTATCTCT-CTGAAGTTGCAGTAGAGCAGGTTGAAA-TACCAATC
* * * * *
31829463 CTTATCTCTCTGAACTTGCAGTAGAGTAGGATAAAATACACAAAC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAC-CAATC
* * * *
31829508 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATACCAATT
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATACCAATC
31829552 CTTATCTC-CTTGAAGTT
1 CTTATCTCTC-TGAAGTT
31829569 CCAACAGAGT
Statistics
Matches: 121, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
43 1 0.01
44 53 0.44
45 66 0.55
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATACCAATC
Found at i:31829522 original size:90 final size:90
Alignment explanation
Indices: 31829417--31829917 Score: 288
Period size: 90 Copynumber: 5.6 Consensus size: 90
31829407 AAGCCACCAG
* ** * * *
31829417 CCTTATCTTCCTGAAGTTGTAGTAGAGCAGGTTGAAATTACCGATCCTTATCTCTCTGAACTTGC
1 CCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATCCTTATCTCTCTGAACTTAC
*
31829482 AGTAGAGTAGGATAAAATACACAAA
66 AATAGAGTAGGATAAAATACACAAA
* * *
31829507 CCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAA-TACCAATTCTTATCTC-CTTGAAGTTC
1 CCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATCCTTATCTCTC-TGAACTTA
* ** *
31829570 CAACAGAGTA-GATTGAA-GCTACAAA
65 CAATAGAGTAGGATAAAATAC-ACAAA
* * * * * * * *** *
31829595 TCTCT-TCTCCTTGAAATTACATTGGAACAGATCGAAGCCA-CAATCTTTATCTCTCTGAAGC-T
1 CCT-TATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATCCTTATCTCTCTGAA-CTT
*
31829657 ACAATAGAGTAGGATAAAAATACACGAA
64 ACAATAGAGTAGGAT-AAAATACACAAA
** * * * *
31829685 CCTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAAATTACCAATTCTTATCTC-CTTGAAGTTC
1 CCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATCCTTATCTCTC-TGAACTTA
*** ** *
31829749 CAGCGGAGTA-GATCGAA-GCTACAAA
65 CAATAGAGTAGGATAAAATAC-ACAAA
* * * * * ** * ** *
31829774 TCTCT-TCTTCCAGAAATTACATTGGAGCATATCGAAGCTA-CAATCCTTATCTCTCTGAAGTTA
1 CCT-TATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATCCTTATCTCTCTGAACTTA
* * * * *
31829837 TAGTAAAGCAGGATAAAAATACATAAA
65 CAATAGAGTAGGAT-AAAATACACAAA
* * * * * * *
31829864 CCTTTTCTCCTTGAAGTTGCAGTGGAACAAGTTGAAATTATCAATTCTTATCTC
1 CCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATCCTTATCTC
31829918 CTTTAAGCTC
Statistics
Matches: 298, Mismatches: 92, Indels: 41
0.69 0.21 0.10
Matches are distributed among these distances:
87 1 0.00
88 88 0.30
89 72 0.24
90 100 0.34
91 37 0.12
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (90 bp):
CCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATCCTTATCTCTCTGAACTTAC
AATAGAGTAGGATAAAATACACAAA
Found at i:31829566 original size:44 final size:44
Alignment explanation
Indices: 31829371--31829756 Score: 151
Period size: 44 Copynumber: 8.7 Consensus size: 44
31829361 AATTATGGTG
* * * **
31829371 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACC-
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAA-ATACCA
** * *
31829415 AGCCTTATCTTCC-TGAAGTTGTAGTAGAGCAGGTTGAAATTACC-
1 AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGGTTGAAA-TACCA
* * * * * *
31829459 GATCCTTATCT-CTCTGAACTTGCAGTAGAGTAGGATAAAATACACA
1 AAT-CTTATCTCCT-TGAAGTTGCAGTGGAGCAGGTTGAAATAC-CA
* * *
31829505 AACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATACCA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAATACCA
* * *** * * *
31829549 ATTCTTATCTCCTTGAAGTTCCAACAGAGTAGATTGAAGCTA-CA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAA-ATACCA
* * * * * * *
31829593 AATCTCT-TCTCCTTGAAATTACATTGGAACAGATCG-AA-GCCA
1 AATCT-TATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAATACCA
* * * * * ** *
31829635 CAATCTTTATCT-CTCTGAAGCTACAATAGAGTAGGATAAAAATACACG
1 -AATC-TTATCTCCT-TGAAGTTGCAGTGGAGCAGG-TTGAAATAC-CA
* * * *
31829683 AACCTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAAATTACCA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAA-TACCA
* * *
31829728 ATTCTTATCTCCTTGAAGTTCCAGCGGAG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAG
31829757 TAGATCGAAG
Statistics
Matches: 246, Mismatches: 75, Indels: 41
0.68 0.21 0.11
Matches are distributed among these distances:
42 2 0.01
43 9 0.04
44 110 0.45
45 93 0.38
46 26 0.11
47 5 0.02
48 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAATACCA
Found at i:31829615 original size:88 final size:88
Alignment explanation
Indices: 31829512--31829802 Score: 250
Period size: 88 Copynumber: 3.3 Consensus size: 88
31829502 ACAAACCTTA
*
31829512 TCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATACCAATTCTTATCTCCTTGAAGTTCCAACAGA
1 TCTCCCTGAAATTACAGTGGAGCAGGTTGAAATACCAATTCTTATCTCCTTGAAGTTCCAACAGA
31829577 GTAGATTGAAGCTACAAATCTCT
66 GTAGATTGAAGCTACAAATCTCT
* * * * * * * * * *
31829600 TCTCCTTGAAATTACATTGGAACAGATCG-AA-GCCACAATCTTTATCT-CTCTGAAGCTACAAT
1 TCTCCCTGAAATTACAGTGGAGCAGGTTGAAATACCA-ATTC-TTATCTCCT-TGAAGTTCCAAC
* ** *
31829662 AGAGTAGGA-TAAAAATACACGAACCT-T
63 AGAGTA-GATTGAAGCTACA--AATCTCT
* ** * * *
31829689 ATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCG
1 -TCTCCCTGAAATTACAGTGGAGCAGGTTGAAA-TACCAATTCTTATCTCCTTGAAGTTCCAACA
*
31829754 GAGTAGATCGAAGCTACAAATCTCT
64 GAGTAGATTGAAGCTACAAATCTCT
* * *
31829779 TCTTCCAGAAATTACATTGGAGCA
1 TCTCCCTGAAATTACAGTGGAGCA
31829803 TATCGAAGCT
Statistics
Matches: 148, Mismatches: 42, Indels: 25
0.69 0.20 0.12
Matches are distributed among these distances:
86 3 0.02
87 7 0.05
88 51 0.34
89 25 0.17
90 27 0.18
91 27 0.18
92 5 0.03
93 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (88 bp):
TCTCCCTGAAATTACAGTGGAGCAGGTTGAAATACCAATTCTTATCTCCTTGAAGTTCCAACAGA
GTAGATTGAAGCTACAAATCTCT
Found at i:31829772 original size:179 final size:178
Alignment explanation
Indices: 31829463--31830012 Score: 725
Period size: 179 Copynumber: 3.1 Consensus size: 178
31829453 ATTACCGATC
* *
31829463 CTTATCTCTCTGAA-CTTGCAGTAGAGTAGGAT-AAAATACACAAACCTTATCTCCCTGAAGTTA
1 CTTATCTCTCTGAAGC-TACAGTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTG
* * * *
31829526 CAGTGGAGCAGGTTGAAA-TACCAATTCTTATCTCCTTGAAGTTCCAACAGAGTAGATTGAAGCT
65 CAGTGGAGCAAGTTGAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCT
* * *
31829590 ACAAATCTCTTCTCCTTGAAATTACATTGGAACAGATCGAAGCCACAAT
130 ACAAATCTCTTCTCCTTGAAATTACATTGGAGCAAATCGAAGCTACAAT
* *
31829639 CTTTATCTCTCTGAAGCTACAATAGAGTAGGATAAAAATACACGAACCTTATCTCCCTGAAGTTG
1 C-TTATCTCTCTGAAGCTACAGTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTG
*
31829704 TAGTGGAGCAAGTTGAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCT
65 CAGTGGAGCAAGTTGAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCT
* *
31829769 ACAAATCTCTTCTTCC-AGAAATTACATTGGAGCATATCGAAGCTACAAT
130 ACAAATCTCTTC-TCCTTGAAATTACATTGGAGCAAATCGAAGCTACAAT
* * * * * * *
31829818 CCTTATCTCTCTGAAGTTATAGTAAAGCAGGATAAAAATACATAAACCTTTTCTCCTTGAAGTTG
1 -CTTATCTCTCTGAAGCTACAGTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTG
* * * * * *
31829883 CAGTGGAACAAGTTGAAATTATCAATTCTTATCTCCTTTAAGCTCCAGTGGAGTAGATCGAAACT
65 CAGTGGAGCAAGTTGAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCT
* * *
31829948 ACAAATCTCATC-ACTCTGAAATTACATTGGAGTAAATCGAAGCTACAAGT
130 ACAAATCTCTTCTCCT-TGAAATTACATTGGAGCAAATCGAAGCTACAA-T
31829998 CTTATCT-TCCTGAAG
1 CTTATCTCT-CTGAAG
31830013 TTGCAGTGGG
Statistics
Matches: 330, Mismatches: 34, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
176 1 0.00
177 28 0.08
178 47 0.14
179 249 0.75
180 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (178 bp):
CTTATCTCTCTGAAGCTACAGTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGC
AGTGGAGCAAGTTGAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTA
CAAATCTCTTCTCCTTGAAATTACATTGGAGCAAATCGAAGCTACAAT
Found at i:31831004 original size:17 final size:17
Alignment explanation
Indices: 31830982--31831023 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
31830972 CCATGACCAG
*
31830982 AGACCCGACCTGAGACC
1 AGACCCGACCCGAGACC
31830999 AGACCCGACCCGAGACC
1 AGACCCGACCCGAGACC
*
31831016 CGACCCGA
1 AGACCCGA
31831024 GTGTGACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.29, C:0.45, G:0.24, T:0.02
Consensus pattern (17 bp):
AGACCCGACCCGAGACC
Found at i:31831014 original size:12 final size:12
Alignment explanation
Indices: 31830999--31831024 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31830989 ACCTGAGACC
31830999 AGACCCGACCCG
1 AGACCCGACCCG
31831011 AGACCCGACCCG
1 AGACCCGACCCG
31831023 AG
1 AG
31831025 TGTGACCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.46, G:0.27, T:0.00
Consensus pattern (12 bp):
AGACCCGACCCG
Found at i:31836927 original size:40 final size:40
Alignment explanation
Indices: 31836882--31836961 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
31836872 TTGAAATATG
31836882 AATGAAATTTTATGGCCCGTATTTTAGTTTAATATTTGTA
1 AATGAAATTTTATGGCCCGTATTTTAGTTTAATATTTGTA
*
31836922 AATGAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTA
1 AATGAAATTTTATGGCCCGTATTTTAGTTTAATATTTGTA
31836962 TGTTTGTCCG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.47
Consensus pattern (40 bp):
AATGAAATTTTATGGCCCGTATTTTAGTTTAATATTTGTA
Found at i:31837126 original size:47 final size:45
Alignment explanation
Indices: 31837056--31837226 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
31837046 ACTTGTGTGA
* *
31837056 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACGAGT
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGC-TCGAGATGAGT
* * *
31837103 GCTAGTGTAAGACATGTCCGGGACATGCTTCTGCCTCGAGATGTAAG-
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCTCGAGATG--AGT
* *
31837150 G-TAGTGTAAGACATGACTGGGACATGCATCGGCTACGAGATGTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGATGAGT
*
31837195 -C-AGTGTAAGACAATGTCTAGGACATGGCATCG
1 GCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCG
31837227 ACACCTGACC
Statistics
Matches: 104, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
44 11 0.11
45 14 0.13
46 49 0.47
47 28 0.27
48 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGAGT
Found at i:31841406 original size:22 final size:23
Alignment explanation
Indices: 31841379--31841430 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
31841369 GGCCCAAATT
31841379 ATTATTATTTATCATT-AATA-C
1 ATTATTATTTATCATTAAATATC
*
31841400 AATTATTA-TTATTATTAAATATC
1 -ATTATTATTTATCATTAAATATC
31841423 ATTATTAT
1 ATTATTAT
31841431 CTTTTTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 7 0.27
22 18 0.69
23 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTATTATTTATCATTAAATATC
Found at i:31841968 original size:152 final size:154
Alignment explanation
Indices: 31841765--31842054 Score: 444
Period size: 152 Copynumber: 1.9 Consensus size: 154
31841755 AAAAAAAGAG
31841765 AGAGTTTAGATTTTTAAAAATAAAAATTTATTTTTTAGTCATTTTAAAGGAAAAGTTTAAAATTT
1 AGAGTTTAGATTTTTAAAAAT--AAATTTATTTTTTAGTCATTTTAAAGGAAAAGTTTAAAATTT
*
31841830 TGAAA-CAAAGTTTTAATCTTTTTCAACTATTTCAAAAGAAAGTTTTGATTTTTAAGAAAAATAG
64 T-AAAGCAAAGTTTTAATCTTTTTCAACTATTTCAAAAGAAAGCTTTGATTTTTAAGAAAAATAG
*
31841894 TGATATTTTTTTTCAAAAAAACAGAAAC
128 T-AAATTTTTTTTCAAAAAAACAGAAAC
31841922 AGAGTTTAGATTTTTAAAAAT-AA-TT-TTTTTTAGTCATTTTAAAGGAAAAGTTTAAAATTTTA
1 AGAGTTTAGATTTTTAAAAATAAATTTATTTTTTAGTCATTTTAAAGGAAAAGTTTAAAATTTTA
* * ** * *
31841984 AAGTAAAGTTTTGATCTTTTTCAACTATTTTGAAATAAAGCTTTGATTTTTAAGAAAAGTAGTAA
66 AAGCAAAGTTTTAATCTTTTTCAACTATTTCAAAAGAAAGCTTTGATTTTTAAGAAAAATAGTAA
31842049 ATTTTT
131 ATTTTT
31842055 CAAAGAAAAC
Statistics
Matches: 124, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
151 10 0.08
152 89 0.72
153 2 0.02
154 2 0.02
157 21 0.17
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (154 bp):
AGAGTTTAGATTTTTAAAAATAAATTTATTTTTTAGTCATTTTAAAGGAAAAGTTTAAAATTTTA
AAGCAAAGTTTTAATCTTTTTCAACTATTTCAAAAGAAAGCTTTGATTTTTAAGAAAAATAGTAA
ATTTTTTTTCAAAAAAACAGAAAC
Found at i:31842212 original size:7 final size:7
Alignment explanation
Indices: 31842195--31842227 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
31842185 AGGAAGTGTT
31842195 TTTTTTGC
1 TTTTTT-C
31842203 TTTTTTC
1 TTTTTTC
31842210 -TTTTTC
1 TTTTTTC
31842216 TTTTTTC
1 TTTTTTC
31842223 TTTTT
1 TTTTT
31842228 GATAAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 12 0.50
8 6 0.25
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:31842218 original size:13 final size:14
Alignment explanation
Indices: 31842196--31842228 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
31842186 GGAAGTGTTT
31842196 TTTTTGCTTTTTTC
1 TTTTTGCTTTTTTC
31842210 TTTTT-CTTTTTTC
1 TTTTTGCTTTTTTC
31842223 TTTTTG
1 TTTTTG
31842229 ATAAAGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (14 bp):
TTTTTGCTTTTTTC
Found at i:31845203 original size:56 final size:56
Alignment explanation
Indices: 31844881--31845200 Score: 435
Period size: 56 Copynumber: 5.7 Consensus size: 56
31844871 GAAGTATATG
* *
31844881 TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACGTTTCGTACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
* * * * *
31844937 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCGCATTTAATACAT
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
* * *
31844993 TAGCATTGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACATTTCATACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
* * *
31845049 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCTACGTTTCATACAT
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
* * * * *
31845105 TGACATCGATATGTGACTT-TGATATATGAGTGTGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGA-TTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
* **
31845161 TGGCATCGATATGTGATTCCGATATATGTGTAAGAGTAAG
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAG
31845201 ACCCTGTATG
Statistics
Matches: 230, Mismatches: 32, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
55 2 0.01
56 227 0.99
57 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (56 bp):
TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
Found at i:31849164 original size:40 final size:40
Alignment explanation
Indices: 31849109--31849330 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
31849099 TATTCGAATG
31849109 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
31849149 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
31849189 ATATCCGGGCTAAGTACCGAATGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
31849229 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * * *
31849269 ATATCCGGGCTAAGACTCGAAAGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
31849309 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
31849331 TACTTGGGTT
Statistics
Matches: 165, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 12 0.07
40 150 0.91
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:31850881 original size:43 final size:43
Alignment explanation
Indices: 31850832--31850987 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
31850822 ATGTGTTCTT
*
31850832 ATGTAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTGC
1 ATGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTGC
* * * * * *
31850875 ATGTAAGACCATGTCTGGGACATCGACATCG-TATTTAATT-C
1 ATGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTGC
* * * * *
31850916 GTGTAAGACC-CTATCTGTGATAG-TGGCATCGATATGTGATAGC
1 ATGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATGTGATTGC
* *
31850959 ATGTAAGACCATGTCTGAGACGTTGGCAT
1 ATGTAAGACCACGTCTGGGACGTTGGCAT
31850988 TGTACGATAT
Statistics
Matches: 84, Mismatches: 23, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
41 22 0.26
42 14 0.17
43 48 0.57
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
ATGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTGC
Found at i:31857299 original size:12 final size:12
Alignment explanation
Indices: 31857282--31857306 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31857272 AGAGGAACAA
31857282 ATGGAAAAGATG
1 ATGGAAAAGATG
31857294 ATGGAAAAGATG
1 ATGGAAAAGATG
31857306 A
1 A
31857307 CTACAATGGT
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:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (12 bp):
ATGGAAAAGATG
Found at i:31859764 original size:24 final size:24
Alignment explanation
Indices: 31859706--31859766 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
31859696 TTAGTCGTTT
*
31859706 TGAGCTTCCTATTATATGTTCTAG
1 TGAGCTTCCTGTTATATGTTCTAG
*
31859730 CGAGCTTCCTGTTATATGGTT-TAG
1 TGAGCTTCCTGTTATAT-GTTCTAG
31859754 TGAGCTTCCTGTT
1 TGAGCTTCCTGTT
31859767 TTAGCTCTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.44
Consensus pattern (24 bp):
TGAGCTTCCTGTTATATGTTCTAG
Found at i:31859894 original size:27 final size:26
Alignment explanation
Indices: 31859826--31859895 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 26
31859816 ACACACCTTA
*
31859826 GCTC-TTATGAGCATCCCAATTAAAG
1 GCTCTTTATGAGCTTCCCAATTAAAG
** **
31859851 GCTCTTCGTGATATTCCC-ATTAAATTG
1 GCTCTTTATGAGCTTCCCAATTAAA--G
31859878 GCTCTTTATGAGCTTCCC
1 GCTCTTTATGAGCTTCCC
31859896 GATAATACTC
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
25 10 0.30
26 8 0.24
27 15 0.45
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.36
Consensus pattern (26 bp):
GCTCTTTATGAGCTTCCCAATTAAAG
Found at i:31869746 original size:21 final size:21
Alignment explanation
Indices: 31869722--31869762 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31869712 TTGCCTAGGA
*
31869722 TATGAATTGAATTAAATTGAG
1 TATGAAATGAATTAAATTGAG
*
31869743 TATGAAATGGATTAAATTGA
1 TATGAAATGAATTAAATTGA
31869763 TGTTAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.37
Consensus pattern (21 bp):
TATGAAATGAATTAAATTGAG
Found at i:31876253 original size:41 final size:40
Alignment explanation
Indices: 31876208--31876526 Score: 289
Period size: 41 Copynumber: 7.8 Consensus size: 40
31876198 TACAGAGCAA
* *
31876208 TAGCGGCGTTTTTTACTAAAACGCAGCTAAAAACC-GATCAT
1 TAGCGGCG--TTTTAGTAAAACGCCGCTAAAAACCAGATCAT
*
31876249 TAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGATCAT
1 TAGCGGCGTTTTA-GTAAAACGCCGCTAAAAACCAGATCAT
* * * *
31876290 TAGTGACGCTTTAGGTAAAACACCGCTAAAAACCAGATCAT
1 TAGCGGCGTTTTA-GTAAAACGCCGCTAAAAACCAGATCAT
** * *
31876331 TAGCGGCGCTTTGGGTAAAACACCGCTAAAAACCAGAGCAT
1 TAGCGGCG-TTTTAGTAAAACGCCGCTAAAAACCAGATCAT
** * *
31876372 TAGCGGCGCTTTGGGTAAAATGCCGCTAAAAACCAGAGCAT
1 TAGCGGCG-TTTTAGTAAAACGCCGCTAAAAACCAGATCAT
* ** * * *
31876413 TAGCGGCGCCTTCGGTAAAACACTGCTAAAAACCAGAGCAT
1 TAGCGGCG-TTTTAGTAAAACGCCGCTAAAAACCAGATCAT
* ** *
31876454 TAGCAGCGCTTTCGGTAAAACGCCGCTAAAAACCCAGAGCAT
1 TAGCGGCG-TTTTAGTAAAACGCCGCTAAAAA-CCAGATCAT
* * *
31876496 TAGCGACGCTTTTGGTAAAACACCGCTAAAA
1 TAGCGGCG-TTTTAGTAAAACGCCGCTAAAA
31876527 GTCATAGAAC
Statistics
Matches: 247, Mismatches: 27, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
39 4 0.02
40 18 0.07
41 187 0.76
42 38 0.15
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.20
Consensus pattern (40 bp):
TAGCGGCGTTTTAGTAAAACGCCGCTAAAAACCAGATCAT
Found at i:31876335 original size:82 final size:81
Alignment explanation
Indices: 31876224--31876526 Score: 410
Period size: 82 Copynumber: 3.7 Consensus size: 81
31876214 CGTTTTTTAC
* * * *
31876224 TAAAACGCAGCTAAAAACC-GATCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGATC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACACCGCTAAAAACCAGAGC
31876288 ATTAGTGACGCTTTAGG
66 ATTAG-GACGCTTTAGG
* * *
31876305 TAAAACACCGCTAAAAACCAGATCATTAGCGGCGCTTTGGGTAAAACACCGCTAAAAACCAGAGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACACCGCTAAAAACCAGAGC
* *
31876370 ATTAGCGGCGCTTTGGG
66 ATTAG-GACGCTTTAGG
* * * *
31876387 TAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCCTTCGGTAAAACACTGCTAAAAACCAGAGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACACCGCTAAAAACCAGAGC
* *
31876452 ATTAGCAGCGCTTTCGG
66 ATTAGGA-CGCTTTAGG
* *
31876469 TAAAACGCCGCTAAAAACCCAGAGCATTAGCGACGCTTTTGGTAAAACACCGCTAAAA
1 TAAAACGCCGCTAAAAA-CCAGAGCATTAGCGGCGCTTTAGGTAAAACACCGCTAAAA
31876527 GTCATAGAAC
Statistics
Matches: 197, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
81 17 0.09
82 144 0.73
83 36 0.18
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (81 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACACCGCTAAAAACCAGAGC
ATTAGGACGCTTTAGG
Found at i:31876414 original size:123 final size:123
Alignment explanation
Indices: 31876224--31876526 Score: 437
Period size: 123 Copynumber: 2.5 Consensus size: 123
31876214 CGTTTTTTAC
* * *
31876224 TAAAACGCAGCTAAAAACC-GATCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGATC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGC
* * * * *
31876288 ATTAGTGACGCTTTAGGTAAAACACCGCTAAAAACCAGATCATTAGCGGCGCTTTGGG
66 ATTAGCGACGCCTTAGGTAAAACACCGCTAAAAACCAGAGCATTAGCAGCGCTTTCGG
* * *
31876346 TAAAACACCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGGTAAAATGCCGCTAAAAACCAGAGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGC
* * *
31876411 ATTAGCGGCGCCTTCGGTAAAACACTGCTAAAAACCAGAGCATTAGCAGCGCTTTCGG
66 ATTAGCGACGCCTTAGGTAAAACACCGCTAAAAACCAGAGCATTAGCAGCGCTTTCGG
* * *
31876469 TAAAACGCCGCTAAAAACCCAGAGCATTAGCGACGCTTTTGGTAAAACACCGCTAAAA
1 TAAAACGCCGCTAAAAA-CCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAA
31876527 GTCATAGAAC
Statistics
Matches: 160, Mismatches: 19, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
122 17 0.11
123 107 0.67
124 36 0.22
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (123 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGC
ATTAGCGACGCCTTAGGTAAAACACCGCTAAAAACCAGAGCATTAGCAGCGCTTTCGG
Found at i:31877402 original size:24 final size:22
Alignment explanation
Indices: 31877344--31877404 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 22
31877334 GATAAATGTG
*
31877344 TATATATATAAGATAAATATATA
1 TATATATATATGA-AAATATATA
*
31877367 T-TAT-TATTTGAAAATATATA
1 TATATATATATGAAAATATATA
31877387 TAAATATATATATGAAAA
1 T--ATATATATATGAAAA
31877405 GTGGTTTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 10 0.32
21 5 0.16
22 3 0.10
23 4 0.13
24 9 0.29
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (22 bp):
TATATATATATGAAAATATATA
Found at i:31886691 original size:14 final size:15
Alignment explanation
Indices: 31886672--31886704 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
31886662 GAGAGACAAT
31886672 AAAAGAAT-TTTGAA
1 AAAAGAATATTTGAA
*
31886686 AAAAGAATATTTTAA
1 AAAAGAATATTTGAA
31886701 AAAA
1 AAAA
31886705 CCCATAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (15 bp):
AAAAGAATATTTGAA
Found at i:31892442 original size:20 final size:20
Alignment explanation
Indices: 31892417--31892458 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
31892407 AGAAAGAGAA
31892417 TGAAGTAAATATCGCGAGTG
1 TGAAGTAAATATCGCGAGTG
31892437 TGAAGTAAATATCGCGAGTG
1 TGAAGTAAATATCGCGAGTG
31892457 TG
1 TG
31892459 TACAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (20 bp):
TGAAGTAAATATCGCGAGTG
Found at i:31897896 original size:25 final size:25
Alignment explanation
Indices: 31897860--31897907 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31897850 CACAAACACA
31897860 GCTCTTTATGAGCGTCCTAATATAG
1 GCTCTTTATGAGCGTCCTAATATAG
* * *
31897885 GCTCTTTTTGAGCTTTCTAATAT
1 GCTCTTTATGAGCGTCCTAATAT
31897908 GACTTGCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.44
Consensus pattern (25 bp):
GCTCTTTATGAGCGTCCTAATATAG
Found at i:31899457 original size:30 final size:30
Alignment explanation
Indices: 31899423--31899481 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
31899413 TGAAATTTTG
31899423 TGAAAAATTCTTTTAGTTTC-GATTTACTCC
1 TGAAAAATTCTTTTAG-TTCAGATTTACTCC
31899453 TGAAAAATTCTTTTAGTTCAGATTTACTC
1 TGAAAAATTCTTTTAGTTCAGATTTACTC
31899482 TTGACTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 3 0.11
30 25 0.89
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (30 bp):
TGAAAAATTCTTTTAGTTCAGATTTACTCC
Found at i:31902402 original size:50 final size:49
Alignment explanation
Indices: 31902343--31902873 Score: 230
Period size: 50 Copynumber: 11.2 Consensus size: 49
31902333 AATCCTATAC
* *
31902343 CCCTGAAGTTGCAATGGGTTAGATTGAAGCTACAATAGCGAATCTTATCT
1 CCCTGAAGTTGCAGTGGGTAAGATTGAAGCTACAATAG-GAATCTTATCT
* *
31902393 CCCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTAC---A--AATCCTATAC-
1 CCCTGAAGTTGCAGTGG-GTAAGATTGAAGCTACAATAGGAATCTTAT-CT
* ** *
31902437 CCTTGAAGTTGCAGTGGGTCGGATTGTAGCTACAATAGCGAATCTTATCT
1 CCCTGAAGTTGCAGTGGGTAAGATTGAAGCTACAATAG-GAATCTTATCT
* * *
31902487 CCCTGAAGTTGCAGTGGAGCAAGA-TAAAGCTAC---A--AATCCTATAC-
1 CCCTGAAGTTGCAGTGG-GTAAGATTGAAGCTACAATAGGAATCTTAT-CT
* ** *
31902531 CCTTGAAGTTGCAGTGGGTCGGATTGTAGCTACAATAGTGAATCTTATCT
1 CCCTGAAGTTGCAGTGGGTAAGATTGAAGCTACAATAG-GAATCTTATCT
* * * * **
31902581 CCCTGAAGTTGCAGTGCAGCAAGA-TGAAG---C--TAGAAATCTTGTAA
1 CCCTGAAGTTGCAGTG-GGTAAGATTGAAGCTACAATAGGAATCTTATCT
* * * ** * ** *
31902625 CTCTGAAGTTGTAGTGGTTTGGAATGAAGCTACAATAAAAAATCTTATTT
1 CCCTGAAGTTGCAGTGGGTAAGATTGAAGCTACAAT-AGGAATCTTATCT
* * * * * *
31902675 CCCTGAAGTTGTTATTGAGCAAGA-TAAAGCTAC---A--AATCCTATAC-
1 CCCTGAAGTTG-CAGTGGGTAAGATTGAAGCTACAATAGGAATCTTAT-CT
* * ** * *
31902719 CCTTGAAGTTGCAATGGGTCGGATTGAAGCTACCATAGCAAATCTTATCT
1 CCCTGAAGTTGCAGTGGGTAAGATTGAAGCTACAATAG-GAATCTTATCT
** * * *
31902769 CTTTAAAGTTGCAGTGGAGTAA-AATGAAGTTAC---A--AATCTTATAC-
1 CCCTGAAGTTGCAGTGG-GTAAGATTGAAGCTACAATAGGAATCTTAT-CT
* * *
31902813 CCCTAAAGTTGCAGTGGGTCAGATTGAAGCTACTATAGCGAATCTTATCT
1 CCCTGAAGTTGCAGTGGGTAAGATTGAAGCTACAATAG-GAATCTTATCT
*
31902863 CCCTAAAGTTG
1 CCCTGAAGTTG
31902874 TAGTAGAGCA
Statistics
Matches: 357, Mismatches: 76, Indels: 96
0.67 0.14 0.18
Matches are distributed among these distances:
43 17 0.05
44 144 0.40
45 6 0.02
46 1 0.00
47 9 0.03
49 5 0.01
50 157 0.44
51 18 0.05
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (49 bp):
CCCTGAAGTTGCAGTGGGTAAGATTGAAGCTACAATAGGAATCTTATCT
Found at i:31902468 original size:44 final size:44
Alignment explanation
Indices: 31902420--31902565 Score: 145
Period size: 44 Copynumber: 3.2 Consensus size: 44
31902410 AGCAAGATGA
31902420 AGCTACAAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGT
1 AGCTACAAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGT
* * * **
31902464 AGCTACAATAGCGAATCT-TATCTCCCTGAAGTTGCAGTGGAG-CAAGA-TAA
1 AGCTACAA-ATC----CTATA-C-CCTTGAAGTTGCAGTGG-GTC-GGATTGT
31902514 AGCTACAAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGT
1 AGCTACAAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGT
31902558 AGCTACAA
1 AGCTACAA
31902566 TAGTGAATCT
Statistics
Matches: 80, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
43 3 0.04
44 34 0.43
45 5 0.06
46 2 0.03
48 2 0.03
49 5 0.06
50 26 0.32
51 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
AGCTACAAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGT
Found at i:31902493 original size:94 final size:94
Alignment explanation
Indices: 31902332--31903251 Score: 938
Period size: 94 Copynumber: 9.8 Consensus size: 94
31902322 GTGAAACCAT
* * **
31902332 AAATCCTATACCCCTGAAGTTGCAATGGGTTAGATTGAAGCTACAATAGCGAATCTTATCTCCCT
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCT
31902397 GAAGTTGCAGTGGAGCAAGATGAAGCTAC
66 GAAGTTGCAGTGGAGCAAGATGAAGCTAC
*
31902426 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGTAGCTACAATAGCGAATCTTATCTCCCT
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCT
*
31902491 GAAGTTGCAGTGGAGCAAGATAAAGCTAC
66 GAAGTTGCAGTGGAGCAAGATGAAGCTAC
* *
31902520 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGTAGCTACAATAGTGAATCTTATCTCCCT
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCT
* *
31902585 GAAGTTGCAGTGCAGCAAGATGAAGCTAG
66 GAAGTTGCAGTGGAGCAAGATGAAGCTAC
* * * * * * * *** *
31902614 AAATCTTGTA-ACTCTGAAGTTGTAGTGGTTTGGAATGAAGCTACAATAAAAAATCTTATTTCCC
1 AAATCCTATACCCT-TGAAGTTGCAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCC
* * *
31902678 TGAAGTTGTTA-TTGAGCAAGATAAAGCTAC
65 TGAAGTTG-CAGTGGAGCAAGATGAAGCTAC
* * * **
31902708 AAATCCTATACCCTTGAAGTTGCAATGGGTCGGATTGAAGCTACCATAGCAAATCTTATCTCTTT
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCT
* * * *
31902773 AAAGTTGCAGTGGAGTAAAATGAAGTTAC
66 GAAGTTGCAGTGGAGCAAGATGAAGCTAC
* * * * *
31902802 AAATCTTATACCCCTAAAGTTGCAGTGGGTCAGATTGAAGCTACTATAGCGAATCTTATCTCCCT
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCT
* * * *
31902867 AAAGTTGTAGTAGAGCAAGATGAAACTAC
66 GAAGTTGCAGTGGAGCAAGATGAAGCTAC
* * * * *
31902896 AAATCCTATA-CCTCTAAAGTTGTAGTGGGTCGAATTGAAGCTACCATAGAGAATCTTATCT-CC
1 AAATCCTATACCCT-TGAAGTTGCAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCC
* * *
31902959 TTAATGTTGTAGTGGAGCAAGATGAAGTTAC
65 TGAA-GTTGCAGTGGAGCAAGATGAAGCTAC
* * * * * * * *
31902990 AATTCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACCACCATAAC-ATATCTTATCTCCC
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATAGCGA-ATCTTATCTCCC
* * * * * *
31903054 TAAAGCTGCAATGGGGCAAAATAAAGCTAC
65 TGAAGTTGCAGTGGAGCAAGATGAAGCTAC
* * * * * * * *
31903084 AAATCCAATACCCTTAAAGTTGCAGTGGGTCCGATTGAAGCTACCATAACAAATCTTTTCTCCTT
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCT
** * *
31903149 GAAGTTGCAACGGAGTAAGGT-AGAGCTAC
66 GAAGTTGCAGTGGAGCAAGATGA-AGCTAC
* * * ** * * *
31903178 AAATCCTATATCCC-TAAAATTGCAATGAAAT-GGATTGAAACTACAATAACAAATCTTATCTCC
1 AAATCCTATA-CCCTTGAAGTTGCAGTG-GGTCGGATTGAAGCTACAATAGCGAATCTTATCTCC
* *
31903241 TTAAAGTTGCA
64 CTGAAGTTGCA
31903252 ATGAAACAAT
Statistics
Matches: 695, Mismatches: 118, Indels: 26
0.83 0.14 0.03
Matches are distributed among these distances:
93 12 0.02
94 668 0.96
95 15 0.02
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (94 bp):
AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCT
GAAGTTGCAGTGGAGCAAGATGAAGCTAC
Found at i:31903295 original size:49 final size:49
Alignment explanation
Indices: 31903176--31903298 Score: 115
Period size: 49 Copynumber: 2.5 Consensus size: 49
31903166 AGGTAGAGCT
** * **
31903176 ACAAATCCTATATCCCTAAAATTGCAATGAAATGGATTGAAACTACAATA
1 ACAAATCCTACCT-CCTAAAGTTGCAATGAAATCAATTGAAACTACAATA
* * **
31903226 ACAAATCTTATCTCCTTAAAGTTGCAATGAAA-CAATTGAAACTGTAAT-
1 ACAAATCCTACCTCC-TAAAGTTGCAATGAAATCAATTGAAACTACAATA
31903274 ACTAAATCCTACCTTCCTAAAGTTG
1 AC-AAATCCTACC-TCCTAAAGTTG
31903299 TAGCGAAGCG
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
48 2 0.03
49 30 0.49
50 29 0.48
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (49 bp):
ACAAATCCTACCTCCTAAAGTTGCAATGAAATCAATTGAAACTACAATA
Found at i:31911892 original size:31 final size:33
Alignment explanation
Indices: 31911851--31911913 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 33
31911841 TAAAATCGGT
*
31911851 AAATAGTATTTTCCAAAA-AA-AATATTTTTAG
1 AAATAATATTTTCCAAAATAAGAATATTTTTAG
31911882 AAATAATATTTTCCAAAATAAGAATATTTTTA
1 AAATAATATTTTCCAAAATAAGAATATTTTTA
31911914 AAAAAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 17 0.59
32 2 0.07
33 10 0.34
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (33 bp):
AAATAATATTTTCCAAAATAAGAATATTTTTAG
Found at i:31911900 original size:15 final size:15
Alignment explanation
Indices: 31911851--31911902 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
31911841 TAAAATCGGT
*
31911851 AAATAGTATTTTCCAA
1 AAATAATATTTTCC-A
* *
31911867 AAAAAATATTTT-TA
1 AAATAATATTTTCCA
31911881 GAAATAATATTTTCCA
1 -AAATAATATTTTCCA
31911897 AAATAA
1 AAATAA
31911903 GAATATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 1 0.03
15 17 0.59
16 11 0.38
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (15 bp):
AAATAATATTTTCCA
Found at i:31913538 original size:29 final size:29
Alignment explanation
Indices: 31913496--31913551 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
31913486 TGCCATATGG
31913496 CTCACCATTGTATGTATGATTTGTGAGTA
1 CTCACCATTGTATGTATGATTTGTGAGTA
* *
31913525 CTCACCATTGTATGTGTTATTTGTGAG
1 CTCACCATTGTATGTATGATTTGTGAG
31913552 CATATGGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (29 bp):
CTCACCATTGTATGTATGATTTGTGAGTA
Found at i:31915267 original size:8 final size:8
Alignment explanation
Indices: 31915256--31915281 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
31915246 TTAAAAATTC
31915256 AAAATAAT
1 AAAATAAT
31915264 AAAATAAT
1 AAAATAAT
31915272 AAAATAAT
1 AAAATAAT
31915280 AA
1 AA
31915282 GAGCTGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:31917470 original size:100 final size:100
Alignment explanation
Indices: 31917292--31917472 Score: 229
Period size: 100 Copynumber: 1.8 Consensus size: 100
31917282 GTCACAAGTA
* *
31917292 AATAAATCCATAAATGGATCTAAGATTTATTCTACCTAGGTCCTGCCCAATGTACTGTCAATCCA
1 AATAAATCCATAAACGGATCTAAGATTTATTCTACCTAGGTCCTGCCCAATGCACTGTCAATCCA
*
31917357 GTCAGTCACATCTATGACTCTATCTTTTAAGAGTC
66 GTCAATCACATCTATGACTCTATCTTTTAAGAGTC
* * * ** * * * *
31917392 AATAAATCTATAAACGGATCTAGGATTTATTCTA-CTTGGTTCCTGTTCGATGCACTGTTAGTCT
1 AATAAATCCATAAACGGATCTAAGATTTATTCTACCTAGG-TCCTGCCCAATGCACTGTCAATCC
*
31917456 AGTCAATCATATCTATG
65 AGTCAATCACATCTATG
31917473 TATTTACCTT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
99 4 0.06
100 63 0.94
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.35
Consensus pattern (100 bp):
AATAAATCCATAAACGGATCTAAGATTTATTCTACCTAGGTCCTGCCCAATGCACTGTCAATCCA
GTCAATCACATCTATGACTCTATCTTTTAAGAGTC
Found at i:31929305 original size:20 final size:20
Alignment explanation
Indices: 31929276--31929322 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
31929266 ATTTTGATAA
*
31929276 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
31929296 ACATGATATGTGTGATATGC
1 ACATGATATGTATGATATGC
31929316 ACATGAT
1 ACATGAT
31929323 GTATTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:31929430 original size:24 final size:24
Alignment explanation
Indices: 31929371--31929477 Score: 180
Period size: 24 Copynumber: 4.4 Consensus size: 24
31929361 GGAGGAAGTG
31929371 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
31929395 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
31929420 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
31929444 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
31929467 TAAAAGAGGCT
1 TAAAAG-GGCT
31929478 AGCCCTCCAG
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
23 18 0.23
24 38 0.48
25 23 0.29
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:31929443 original size:49 final size:47
Alignment explanation
Indices: 31929371--31929477 Score: 178
Period size: 49 Copynumber: 2.2 Consensus size: 47
31929361 GGAGGAAGTG
31929371 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGA-AAAGGGCTT-TGCCCCAGTTAT
*
31929420 TAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTTGCCCCAGTTAT
31929467 TAAAAGAGGCT
1 TAAAAG-GGCT
31929478 AGCCCTCCAG
Statistics
Matches: 56, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
47 18 0.32
48 13 0.23
49 25 0.45
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (47 bp):
TAAAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTTGCCCCAGTTAT
Found at i:31929720 original size:31 final size:31
Alignment explanation
Indices: 31929685--31929747 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
31929675 CGTTTACAGT
*
31929685 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
* * **
31929716 AAAGGCTTTGGCCTAGTGTTACGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
31929747 A
1 A
31929748 GTGTGAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATACGAAATATGA
Found at i:31936532 original size:49 final size:49
Alignment explanation
Indices: 31936453--31936634 Score: 256
Period size: 49 Copynumber: 3.7 Consensus size: 49
31936443 TCTATTGTGA
31936453 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
31936502 GGTCGCATGTGTAGTACTAAGTGCATGCTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* *
31936552 CGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
31936602 GGTCGCATGTGTAGTACCAAGTGCAGGATACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
31936635 TGCGTACCAG
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 71 0.62
50 4 0.03
51 40 0.35
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:31936634 original size:100 final size:100
Alignment explanation
Indices: 31936455--31936647 Score: 341
Period size: 100 Copynumber: 1.9 Consensus size: 100
31936445 TATTGTGAGG
*
31936455 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACC
* * *
31936520 AAGTGCATGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGATACTATGCGTACCAGATAACTTCGA
*
31936555 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACC
31936620 AAGTGCAGGATACTATGCGTACCAGATA
66 AAGTGCAGGATACTATGCGTACCAGATA
31936648 GCTTTGGCTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACC
AAGTGCAGGATACTATGCGTACCAGATAACTTCGA
Found at i:31945827 original size:27 final size:28
Alignment explanation
Indices: 31945781--31945834 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
31945771 ACATTGGAAC
31945781 AAAATAGTCATCTTACCATATA-AGGGT
1 AAAATAGTCATCTTACCATATATAGGGT
* *
31945808 AAAATAGTCATTTTATCATATATAGGG
1 AAAATAGTCATCTTACCATATATAGGG
31945835 GGTCCAGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (28 bp):
AAAATAGTCATCTTACCATATATAGGGT
Found at i:31948606 original size:28 final size:28
Alignment explanation
Indices: 31948566--31948619 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
31948556 GTATGTACGA
*
31948566 CACTTAATGTGTGAGATATCGAGTATGG
1 CACTTAATGTGTGAGACATCGAGTATGG
* *
31948594 CACTTAGTGTGTGAGACATTGAGTAT
1 CACTTAATGTGTGAGACATCGAGTAT
31948620 TTAACGGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (28 bp):
CACTTAATGTGTGAGACATCGAGTATGG
Found at i:31950203 original size:22 final size:22
Alignment explanation
Indices: 31950175--31950296 Score: 60
Period size: 22 Copynumber: 5.3 Consensus size: 22
31950165 TTCCACGTTC
31950175 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
31950197 ATCACATATATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
31950222 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
31950244 ATCACATATGTG-CATGT-T-CACATT
1 ATCACAT-TG-GCCAT-TCTGC-C-TT
31950268 CATCACATTGGCCATTC-GACCTT
1 -ATCACATTGGCCATTCTG-CCTT
31950291 ATCACA
1 ATCACA
31950297 CATATGCATG
Statistics
Matches: 77, Mismatches: 4, Indels: 38
0.65 0.03 0.32
Matches are distributed among these distances:
22 24 0.31
23 18 0.23
24 17 0.22
25 18 0.23
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:31950226 original size:47 final size:47
Alignment explanation
Indices: 31950172--31950417 Score: 429
Period size: 47 Copynumber: 5.2 Consensus size: 47
31950162 CACTTCCACG
*
31950172 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
31950219 TTTATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
31950266 TTCATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
31950313 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
31950360 TTCATCACATTGGCCATTCGGCCTTATCACATATGTACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
31950407 TTCATCACATT
1 TTCATCACATT
31950418 AAATCCTAAA
Statistics
Matches: 188, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 188 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:31950343 original size:22 final size:22
Alignment explanation
Indices: 31950220--31950391 Score: 88
Period size: 22 Copynumber: 7.4 Consensus size: 22
31950210 ATGTTCACAT
*
31950220 TTATCACATTGGCCATTCGGCC
1 TTATCACATTGGCCATTCGACC
*
31950242 TTATCACATATGTG-CATGTTC-ACA
1 TTATCACAT-TG-GCCA--TTCGACC
31950266 TTCATCACATTGGCCATTCGACC
1 TT-ATCACATTGGCCATTCGACC
*
31950289 TTATCACACATAT-G-CATGTTC-ACA
1 TTAT--CACAT-TGGCCA--TTCGACC
*
31950313 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCGACC
* *
31950336 TTATCACATATATG-CATGTTC-ACA
1 TTATCACAT-T-GGCCA--TTCGACC
*
31950360 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCGACC
31950383 TTATCACAT
1 TTATCACAT
31950392 ATGTACATGT
Statistics
Matches: 115, Mismatches: 12, Indels: 46
0.66 0.07 0.27
Matches are distributed among these distances:
22 35 0.30
23 27 0.23
24 27 0.23
25 26 0.23
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
TTATCACATTGGCCATTCGACC
Found at i:31952500 original size:40 final size:40
Alignment explanation
Indices: 31952456--31952841 Score: 673
Period size: 40 Copynumber: 9.6 Consensus size: 40
31952446 GCATCACTAA
31952456 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
1 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
*
31952496 AATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACG
1 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
* *
31952536 AAATGCTCTTCGGGACTTAGCCCAGATATATCACCAGCACA
1 -AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
*
31952577 AATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACG
1 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
*
31952617 AATGCTCTTCGAGACTTAGCCCGGATATATCACCAGCACG
1 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
31952657 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
1 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
* *
31952697 AATGCTCTTTGGGACTTAGCCCGGATATATCACTAGCACG
1 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
31952737 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
1 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
* *
31952777 AATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCATG
1 AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
*
31952817 AATGCTCTTCGGGACTGAGCCCGGA
1 AATGCTCTTCGGGACTTAGCCCGGA
31952842 AATAACATAT
Statistics
Matches: 328, Mismatches: 17, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
40 291 0.89
41 37 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
Found at i:31954350 original size:47 final size:47
Alignment explanation
Indices: 31954296--31954539 Score: 411
Period size: 47 Copynumber: 5.2 Consensus size: 47
31954286 CACTTCCACG
*
31954296 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
31954343 TTTATCACATTGGCCATTCGGCCTTATCAC--ATGTGGATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
31954388 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
31954435 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
31954482 TTCATCACATTGGCCATTCGGCCTTATCACATATGTACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
31954529 TTCATCACATT
1 TTCATCACATT
31954540 AAATCCTAAA
Statistics
Matches: 185, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
45 42 0.23
47 143 0.77
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:31954417 original size:92 final size:93
Alignment explanation
Indices: 31954296--31954539 Score: 409
Period size: 92 Copynumber: 2.6 Consensus size: 93
31954286 CACTTCCACG
* *
31954296 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
* *
31954361 CGGCCTTATCAC-ATGTGGATGTTCACA
66 CGGCCTTATCACAATATGCATGTTCACA
*
31954388 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
31954453 CGGCCTTATCACATATATGCATGTTCACA
66 CGGCCTTATCACA-ATATGCATGTTCACA
* *
31954482 TTCATCACATTGGCCATTCGGCCTTATCACATATGTACATGTTCACATTCATCACATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATT
31954540 AAATCCTAAA
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
92 74 0.52
94 68 0.48
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (93 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACAATATGCATGTTCACA
Found at i:31954582 original size:139 final size:135
Alignment explanation
Indices: 31954296--31954567 Score: 361
Period size: 139 Copynumber: 2.0 Consensus size: 135
31954286 CACTTCCACG
* *
31954296 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
** * * * * **
31954361 CGGCCTTATCACATGTGGATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGC
66 CGGCCTTATCACATGTACATGTTCACATTCATCACATT-G-AAAT--GCCTAATCACAAATATAA
31954426 ATGTTCACA
127 ATGTTCACA
31954435 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
31954500 CGGCCTTATCACATATGTACATGTTCACATTCATCACATT-AAAT-CCTAAATCA-AAATATAAA
66 CGGCCTTATCAC--ATGTACATGTTCACATTCATCACATTGAAATGCCT-AATCACAAATATAAA
*
31954562 TTTTCA
128 TGTTCA
31954568 TGTATTCACA
Statistics
Matches: 119, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
135 14 0.12
136 4 0.03
138 2 0.02
139 75 0.63
141 24 0.20
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (135 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACATGTACATGTTCACATTCATCACATTGAAATGCCTAATCACAAATATAAATGT
TCACA
Found at i:31956854 original size:13 final size:13
Alignment explanation
Indices: 31956836--31956861 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31956826 ATTTTTATTT
31956836 TTAACATAAAATA
1 TTAACATAAAATA
31956849 TTAACATAAAATA
1 TTAACATAAAATA
31956862 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:31957678 original size:51 final size:51
Alignment explanation
Indices: 31957617--31957720 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
31957607 GTACAAGTCA
* * * *
31957617 GTATACCCCCTAGTTGGCACACGGCTTAGCACATGGGCGTTTGACTTGACT
1 GTATACCCCCTAATTGGCACACGGCCTAGCACACGAGCGTTTGACTTGACT
*
31957668 GTATATCCCCTAATTGGCACACGGCCTAGCACACGAGCGTTTGACTTGACT
1 GTATACCCCCTAATTGGCACACGGCCTAGCACACGAGCGTTTGACTTGACT
31957719 GT
1 GT
31957721 GTTGCATAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (51 bp):
GTATACCCCCTAATTGGCACACGGCCTAGCACACGAGCGTTTGACTTGACT
Found at i:31964496 original size:96 final size:96
Alignment explanation
Indices: 31964311--31964489 Score: 279
Period size: 96 Copynumber: 1.9 Consensus size: 96
31964301 AAAAAAATAA
* * *
31964311 ACTCAAAGCAAATATAACTAAAATAAATAACAAGAGGAAAGAGTAAACTCTATTCAGTTGAACAA
1 ACTCAAAGCAAACATAACTAAAATAAATAACAAGAGGAAAAAGTAAACTCTATTCAGTTCAACAA
**
31964376 CCTTTTGGATCTATTCTGTATGATGCACTCC
66 CCTTTCAGATCTATTCTGTATGATGCACTCC
*
31964407 ACTCAAAGCAAACATAATTAAAATAAATAA-ATAGAGGAAAAAGTAAACTCTATTCAGTTCAACA
1 ACTCAAAGCAAACATAACTAAAATAAATAACA-AGAGGAAAAAGTAAACTCTATTCAGTTCAACA
*
31964471 GCCTTTCAGATCTATTCTG
65 ACCTTTCAGATCTATTCTG
31964490 ATTGATGTGC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
95 1 0.01
96 74 0.99
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (96 bp):
ACTCAAAGCAAACATAACTAAAATAAATAACAAGAGGAAAAAGTAAACTCTATTCAGTTCAACAA
CCTTTCAGATCTATTCTGTATGATGCACTCC
Found at i:31968434 original size:18 final size:17
Alignment explanation
Indices: 31968407--31968442 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
31968397 CTTGGCCTAT
*
31968407 TGCAGTAACAGTAAACAG
1 TGCAGCAACAGT-AACAG
31968425 TGCAGCAACAGTAACAG
1 TGCAGCAACAGTAACAG
31968442 T
1 T
31968443 CCAGATATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (17 bp):
TGCAGCAACAGTAACAG
Found at i:31977008 original size:48 final size:48
Alignment explanation
Indices: 31976951--31977126 Score: 237
Period size: 48 Copynumber: 3.7 Consensus size: 48
31976941 TAAGTTGCTA
* *
31976951 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAAT-GCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAA-TATGGCCG
* * *
31976999 ATACCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGCCG
* * * * *
31977047 ATGCCATGTCCCATACATGGTCTTACACTGGCTCTCGTAATGTGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGCCG
*
31977095 ATGCCATGTCCTAGACATGGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
31977127 ACACATATCA
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 2 0.02
48 112 0.98
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGCCG
Found at i:31987293 original size:50 final size:50
Alignment explanation
Indices: 31987173--31987450 Score: 254
Period size: 50 Copynumber: 5.5 Consensus size: 50
31987163 TTGGTACGTA
* * * *
31987173 TAGTAGCCTACACTTAGTACTACACATGCGACC-AACAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* *
31987222 TAGTAGCCTACACGTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * *** * * ** *
31987272 TAGTAGCCTGCACTTAATACTACACACGTGA-TTGAAGTTGTCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CCATCTGATACACG
* * ** ** *
31987323 TAGTAGCTTGCACTTAGTACTACACATGCAACCTAAATATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * *
31987373 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
*
31987425 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
31987451 TGAGTTCTCA
Statistics
Matches: 184, Mismatches: 39, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
49 31 0.17
50 84 0.46
51 34 0.18
52 35 0.19
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:31987348 original size:101 final size:101
Alignment explanation
Indices: 31987222--31987403 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
31987212 CTGATACACG
** *
31987222 TAGTAGCCTACACGTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACGTAGTACTACACACGCAACCTAAACATCTGATACACGTAGTAGCCTGCACTT
31987287 AATACTACACACGTGATTGAAGTTGTCGGGTATGCA
66 AATACTACACACGTGATTGAAGTTGTCGGGTATGCA
* * * * * * *
31987323 TAGTAGCTTGCACTTAGTACTACACATGCAACCTAAATATCTGGTACACGTAGTAGCTTGCACTT
1 TAGTAGCCTACACGTAGTACTACACACGCAACCTAAACATCTGATACACGTAGTAGCCTGCACTT
*
31987388 AGTACTACACACGTGA
66 AATACTACACACGTGA
31987404 CCTAAAACCA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTACACGTAGTACTACACACGCAACCTAAACATCTGATACACGTAGTAGCCTGCACTT
AATACTACACACGTGATTGAAGTTGTCGGGTATGCA
Found at i:31987403 original size:151 final size:151
Alignment explanation
Indices: 31987172--31987450 Score: 409
Period size: 151 Copynumber: 1.8 Consensus size: 151
31987162 TTTGGTACGT
*
31987172 ATAGTAGCCTACACTTAGTACTACACATGCGACCAACAATCTGATACACGTAGTAGCCTACACGT
1 ATAGTAGCCTACACTTAGTACTACACATGCAACCAACAATCTGATACACGTAGTAGCCTACACGT
* *
31987237 AGTACTACACACGTGACCT-AACCATCTGATACACGTAGTAGCCTGCACTTAATACTACACACGT
66 AGTACTACACACGTGACCTAAACCATCTGAAACACGTAGTAGCCTGCACATAATACTACACACGT
31987301 GATTGAAGTTGTCGGGTATGC
131 GATTGAAGTTGTCGGGTATGC
* * * * *
31987322 ATAGTAGCTTGCACTTAGTACTACACATGCAACCTAA-ATATCTGGTACACGTAGTAGCTTGCAC
1 ATAGTAGCCTACACTTAGTACTACACATGCAACC-AACA-ATCTGATACACGTAGTAGCCTACAC
* * * *
31987386 TTAGTACTACACACGTGACCTAAAACCATCTTAAACACTTAGTAGCCTGCACATAGTACTACACA
64 GTAGTACTACACACGTGACCT-AAACCATCTGAAACACGTAGTAGCCTGCACATAATACTACACA
31987451 TGAGTTCTCA
Statistics
Matches: 113, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
150 32 0.28
151 44 0.39
153 37 0.33
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (151 bp):
ATAGTAGCCTACACTTAGTACTACACATGCAACCAACAATCTGATACACGTAGTAGCCTACACGT
AGTACTACACACGTGACCTAAACCATCTGAAACACGTAGTAGCCTGCACATAATACTACACACGT
GATTGAAGTTGTCGGGTATGC
Found at i:31990103 original size:16 final size:16
Alignment explanation
Indices: 31990084--31990114 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31990074 CTTCTTCAGT
31990084 TACTCACTTACTTAAC
1 TACTCACTTACTTAAC
*
31990100 TACTTACTTACTTAA
1 TACTCACTTACTTAA
31990115 TCGAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAC
Found at i:31990497 original size:108 final size:110
Alignment explanation
Indices: 31990354--31990552 Score: 305
Period size: 108 Copynumber: 1.8 Consensus size: 110
31990344 TCCTTTTGAG
* *
31990354 ACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACC-AG
1 ACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTCCCTTA-GAAATCTCACCAAG
*
31990416 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGTA
65 TGCCATGCATTGGCATGGTCTTACATGGGACCTTTGTCTTATAGTA
* * * *
31990462 ACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTCCCTTAGAAATCTTACCAATT
1 ACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTCCCTTAGAAATCTCACCAAGT
31990527 GCCATGCATTGGCATGGTCTTACATG
66 GCCATGCATTGGCATGGTCTTACATG
31990553 TTATCCTTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 5 0.06
110 27 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (110 bp):
ACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTCCCTTAGAAATCTCACCAAGT
GCCATGCATTGGCATGGTCTTACATGGGACCTTTGTCTTATAGTA
Found at i:31990558 original size:55 final size:51
Alignment explanation
Indices: 31990306--31990560 Score: 223
Period size: 55 Copynumber: 4.8 Consensus size: 51
31990296 ACATAGGTAC
* * *
31990306 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT--TT-GAGA
1 CTTACCATTGCCATG-CTTGACATGGTCTTACATGGTATCCTTCCTTAGAAA
*
31990355 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCATTGCCATG-CTTGACATGGTCTTACATGGTATCCTT-CCTTA-GAAA
* * * * * *
31990408 CTCACCAGTGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGTCTTATAGTAA
1 CTTACCATTGCCATG-CTTGACATGGTCTTACATGGTATCC--T-TCCT-TAGAAA
* *
31990463 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTCCCTTAGAAA
1 CTTACCATTGCCATG-CTTGACATGGTCTTACATGGTATCCTT-CCTTAGAAA
* *
31990516 TCTTACCAATTGCCATGCATTGGCATGGTCTTACATGTTATCCTT
1 -CTTACC-ATTGCCATGC-TTGACATGGTCTTACATGGTATCCTT
31990561 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
49 39 0.23
52 4 0.02
53 39 0.23
54 14 0.08
55 69 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (51 bp):
CTTACCATTGCCATGCTTGACATGGTCTTACATGGTATCCTTCCTTAGAAA
Found at i:31997387 original size:28 final size:28
Alignment explanation
Indices: 31997333--31997388 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
31997323 AGTTAGATTG
*** *
31997333 AGTTATAAGGGTTCCACCTATAAAAAAA
1 AGTTATAAGGGTTCCAAAAACAAAAAAA
*
31997361 AGTTATAAGGGTTCCAAAAACATAAAAA
1 AGTTATAAGGGTTCCAAAAACAAAAAAA
31997389 TCAATAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.50, C:0.12, G:0.14, T:0.23
Consensus pattern (28 bp):
AGTTATAAGGGTTCCAAAAACAAAAAAA
Found at i:32000459 original size:42 final size:41
Alignment explanation
Indices: 32000357--32000466 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 41
32000347 TTGTTTCAAT
* * *
32000357 GCCATATCCCCGATATGGTCTTACATGAAATATCATATCGAT
1 GCCATAT-CCCGATATGGTCTTACACGAAATATCATACCGAG
* * * *
32000399 GACATGTCCTCGACATGGTCTTATACGAAATCA-CATACCGAG
1 GCCATATCC-CGATATGGTCTTACACGAAAT-ATCATACCGAG
32000441 GCCATATCCCGGATATGGTCTTACAC
1 GCCATATCCC-GATATGGTCTTACAC
32000467 AGAATCTTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
41 3 0.06
42 50 0.93
43 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (41 bp):
GCCATATCCCGATATGGTCTTACACGAAATATCATACCGAG
Found at i:32000843 original size:29 final size:28
Alignment explanation
Indices: 32000801--32000856 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
32000791 AATGTCATAT
*
32000801 TTTATCAAAATTACATTTTTGCCCCTAAA
1 TTTATCAAAATTACACTTTT-CCCCTAAA
*
32000830 TTTATCATAATTACACTTTTCCCCTAA
1 TTTATCAAAATTACACTTTTCCCCTAA
32000857 GCTCGTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (28 bp):
TTTATCAAAATTACACTTTTCCCCTAAA
Found at i:32004665 original size:47 final size:47
Alignment explanation
Indices: 32004597--32004810 Score: 152
Period size: 49 Copynumber: 4.5 Consensus size: 47
32004587 ATTGCGACAC
* *
32004597 CATGTCCCAGACATGGTCTTACACTGGCTATTACAT-TA-AAGTCGATGT
1 CATGTCCCAGACA-GGTCTTACACTGACT-TT-CATATACAAGCCGATGT
* * *
32004645 CGTGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGCCGATGT
1 CATGTCCCAGACAGGTCTTACACTGACTTTCATATA-C-AAGCCGATGT
* * ** * *
32004694 CATGTCCCAGACAGGTCTTACACT-AGCTCTCATCTATCGGTGTCGATGC
1 CATGTCCCAGACAGGTCTTACACTGA-CTTTCATATA-C-AAGCCGATGT
* * * * * *
32004743 CAGGTCCCAGACAGGTCTTACACTGAC--ACACA-ACAAGCTGACGC
1 CATGTCCCAGACAGGTCTTACACTGACTTTCATATACAAGCCGATGT
*
32004787 CATGTCCCAGACAGGTCCTACACT
1 CATGTCCCAGACAGGTCTTACACT
32004811 AGCTTGTATA
Statistics
Matches: 136, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
44 27 0.20
45 4 0.03
46 5 0.04
47 16 0.12
48 12 0.09
49 71 0.52
50 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (47 bp):
CATGTCCCAGACAGGTCTTACACTGACTTTCATATACAAGCCGATGT
Found at i:32004700 original size:49 final size:49
Alignment explanation
Indices: 32004639--32004769 Score: 167
Period size: 49 Copynumber: 2.7 Consensus size: 49
32004629 ACATTAAAGT
* * *
32004639 CGATGTCGTGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAG-GC
1 CGATGTCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGC
* *
32004688 CGATGTCATGTCCCAGACAGGTCTTACACT-AGCTCTCATCTATCGGTGT
1 CGATGTCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCGGTGC
* *
32004737 CGATGCCAGGTCCCAGACAGGTCTTACACTGAC
1 CGATGTCATGTCCCAGACAGGTCTTACACTGAC
32004770 ACACAACAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
48 2 0.03
49 69 0.96
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (49 bp):
CGATGTCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:32006868 original size:30 final size:30
Alignment explanation
Indices: 32006832--32006891 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
32006822 CAAATGTCAT
* *
32006832 ATTTTATCAAAATTACATTTTTGCCCCTAA
1 ATTTTATCAAAATTACACTTTTCCCCCTAA
*
32006862 ATTTTATCATAATTACACTTTTCCCCCTAA
1 ATTTTATCAAAATTACACTTTTCCCCCTAA
32006892 GCTCGTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (30 bp):
ATTTTATCAAAATTACACTTTTCCCCCTAA
Found at i:32009407 original size:36 final size:37
Alignment explanation
Indices: 32009284--32009386 Score: 134
Period size: 37 Copynumber: 2.8 Consensus size: 37
32009274 TCGTTTACTT
* ****
32009284 GATGCCATAGTCCAACTATGGTCTTACACAAAATCAC
1 GATGCCATAGTCCAGCTATGGTCTTACATGTCATCAC
* * *
32009321 AATGCCATAGCCCAGCTATGGTCTTACATGTCATTAC
1 GATGCCATAGTCCAGCTATGGTCTTACATGTCATCAC
32009358 GATGCCATAGTCCAGCTATGGTCTTACAT
1 GATGCCATAGTCCAGCTATGGTCTTACAT
32009387 TCCACACTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (37 bp):
GATGCCATAGTCCAGCTATGGTCTTACATGTCATCAC
Found at i:32012227 original size:32 final size:32
Alignment explanation
Indices: 32012182--32012243 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
32012172 CTTACACTGG
*
32012182 CTCACATAACAATGCCGATGTCATGTCCCAAA
1 CTCACATAACAATGCCGATGCCATGTCCCAAA
* *
32012214 CTCACATAGCAATGTCGATGCCATGTCCCA
1 CTCACATAACAATGCCGATGCCATGTCCCA
32012244 GACATGGTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.23
Consensus pattern (32 bp):
CTCACATAACAATGCCGATGCCATGTCCCAAA
Found at i:32012285 original size:48 final size:48
Alignment explanation
Indices: 32012214--32012398 Score: 316
Period size: 48 Copynumber: 3.9 Consensus size: 48
32012204 ATGTCCCAAA
* *
32012214 CTCACATAGCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGG
1 CTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
*
32012262 CTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTTATACTGG
1 CTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
* *
32012310 CTCACATAACAATGCCGATGCCGTGTCCCAAACATGGTCTTACACTGG
1 CTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
*
32012358 CTCATATAACAATGCCGATGCCATGTCCCAGACATGGTCTT
1 CTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTT
32012399 GCACGGTTAC
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 128 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (48 bp):
CTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
Found at i:32013739 original size:27 final size:27
Alignment explanation
Indices: 32013708--32013765 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
32013698 TTGTCATAAA
32013708 TTCAAATATTTTTGGGACATTAAATAC
1 TTCAAATATTTTTGGGACATTAAATAC
*
32013735 TTCAAATCTTTTTGGGACATTAAATAC
1 TTCAAATATTTTTGGGACATTAAATAC
32013762 TTCA
1 TTCA
32013766 CTCCTCACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (27 bp):
TTCAAATATTTTTGGGACATTAAATAC
Found at i:32015376 original size:37 final size:37
Alignment explanation
Indices: 32015326--32015400 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
32015316 TGGAGACACA
32015326 TTCTTGAGCATATTTACTTAATCTCACAAATTCTCTT
1 TTCTTGAGCATATTTACTTAATCTCACAAATTCTCTT
32015363 TTCTTGAGCATATTTACTTAATCTCACAAATTCTCTT
1 TTCTTGAGCATATTTACTTAATCTCACAAATTCTCTT
32015400 T
1 T
32015401 CATACTCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.21, G:0.05, T:0.47
Consensus pattern (37 bp):
TTCTTGAGCATATTTACTTAATCTCACAAATTCTCTT
Found at i:32024765 original size:49 final size:49
Alignment explanation
Indices: 32024668--32025077 Score: 706
Period size: 49 Copynumber: 8.5 Consensus size: 49
32024658 TTAGGATTTT
32024668 ATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
*
32024715 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGTCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
32024764 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
*
32024813 ATGTGATGAATGTGAAAGTGTATGTATATGCGATAAGG-CGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
* *
32024861 ATGTGATGAATGTGAAAGTGTATGTATATGCGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
32024910 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
32024959 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
* *
32025008 ATGTGATGAATGTGAAA--GTATATATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
*
32025055 ATGTGATGGAA-GTGGAAGTGTAT
1 ATGTGAT-GAATGTGAAAGTGTAT
32025078 AACTGTGATA
Statistics
Matches: 348, Mismatches: 9, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
47 64 0.18
48 51 0.15
49 233 0.67
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
Found at i:32024884 original size:146 final size:147
Alignment explanation
Indices: 32024668--32025077 Score: 706
Period size: 146 Copynumber: 2.8 Consensus size: 147
32024658 TTAGGATTTT
32024668 ATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
*
32024731 AGTGTATGTATATGTGATAAGGCCGAATGTCCAATGTGATGAATGTGAAAGTGTATGTATATGTG
66 AGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTG
32024796 ATAAGGCCGAATGGCCA
131 ATAAGGCCGAATGGCCA
*
32024813 ATGTGATGAATGTGAAAGTGTATGTATATGCGATAAGG-CGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
32024877 AGTGTATGTATATGCGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTG
66 AGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTG
32024942 ATAAGGCCGAATGGCCA
131 ATAAGGCCGAATGGCCA
32024959 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
* * *
32025024 A--GTATATATATATGATAAGGCCGAATGGCCAATGTGATGGAA-GTGGAAGTGTAT
66 AGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
32025078 AACTGTGATA
Statistics
Matches: 251, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
145 68 0.27
146 145 0.58
147 38 0.15
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (147 bp):
ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
AGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTG
ATAAGGCCGAATGGCCA
Found at i:32024919 original size:195 final size:192
Alignment explanation
Indices: 32024668--32025077 Score: 707
Period size: 195 Copynumber: 2.1 Consensus size: 192
32024658 TTAGGATTTT
*
32024668 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGCGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
*
32024733 TGTATGTATATGTGATAAGGCCGAATGTCCAATGTGATGAATGTGAAAGTGTATGTATATGTGAT
66 TGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGAT
* *
32024798 AAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGCGATAAGG-CGAATGGCCA
131 AAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATAT--GATAAGGCCGAATGGCCA
*
32024861 ATGTGATGAATGTGAAAGTGTATGTATATGCGATAAGGCTGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATG--TATGCGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
32024926 AGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTG
64 AGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTG
32024991 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCA
129 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCA
*
32025055 ATGTGATGGAA-GTGGAAGTGTAT
1 ATGTGAT-GAATGTGAAAGTGTAT
32025078 AACTGTGATA
Statistics
Matches: 207, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
193 31 0.15
194 28 0.14
195 148 0.71
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (192 bp):
ATGTGATGAATGTGAAAGTGTATGTATGCGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
TGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGAT
AAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCA
Found at i:32027944 original size:27 final size:26
Alignment explanation
Indices: 32027902--32027953 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
32027892 ACGATGCTGC
*
32027902 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
32027928 CAGATATATGTGGCGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
32027954 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:32028634 original size:27 final size:27
Alignment explanation
Indices: 32028604--32028856 Score: 328
Period size: 27 Copynumber: 9.4 Consensus size: 27
32028594 GGGGCAAAAT
* * * *
32028604 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
32028631 GGTAA-TCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
32028657 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
32028684 AATAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
32028711 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
32028738 AATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
32028765 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
32028792 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
32028819 GGTAATTCTACCTTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
32028846 GGTAATTCTAC
1 GGTAATTCTAC
32028857 AACTTATCCA
Statistics
Matches: 193, Mismatches: 32, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 21 0.11
27 172 0.89
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:32029789 original size:47 final size:44
Alignment explanation
Indices: 32029685--32029992 Score: 226
Period size: 47 Copynumber: 6.7 Consensus size: 44
32029675 GGCGTTACAT
* * *
32029685 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTAGCC
* * *
32029729 GATGCGTGACCCAGACACGTCTTACACTGGCTATCTCTGTCGAGACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--AG-CC
*
32029776 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-GTC
1 GATGCATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTAGCC
* *
32029822 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTA--GCC
* ** ** *
32029870 GATGCATGTTCCAGACATGTCTTACACTAACCCTCGTCTGGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATC-TCTGTA-GCC
* * * * * *
32029916 GATACCATGTCCCAGACATGGGCTTACACTGGTTCTCATAATGTGGCC
1 GAT-GCATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTAGCC
* *
32029964 GAAGCATGTCCTAGACATGTCTTACACTG
1 GATGCATGTCCCAGACATGTCTTACACTG
32029993 ACGCACAAAT
Statistics
Matches: 209, Mismatches: 38, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
43 5 0.02
44 28 0.13
45 5 0.02
46 39 0.19
47 85 0.41
48 35 0.17
49 4 0.02
50 8 0.04
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGCC
Found at i:32029890 original size:94 final size:94
Alignment explanation
Indices: 32029685--32029991 Score: 315
Period size: 94 Copynumber: 3.3 Consensus size: 94
32029675 GGCGTTACAT
* * *
32029685 GATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAGCCGATG-CGTGACCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGT-GCCGATGCCATGTCCCAGACA
* * *
32029746 -CGTCTTACACTGGCTATC-TCTGTCGA-GACC
65 TGGTCTTACACTGGCTATCAT-AGT--ATGGCC
* *
32029776 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGTCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCCGATGCCATGTCCCAGACAT
*
32029841 GGTCTTACACTGGCTATCATAGTATGGCT
66 GGTCTTACACTGGCTATCATAGTATGGCC
* * * * * *
32029870 GATGCATGTTCCAGACATGTCTTACACTAACCCTCGTCT-GGATGCCGATACCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTG-TGCCGATGCCATGTCCCAGACA
* * * * *
32029934 TGGGCTTACACTGGTTCTCATAATGTGGCC
65 TGGTCTTACACTGGCTATCATAGTATGGCC
* *
32029964 GAAGCATGTCCTAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
32029992 GACGCACAAA
Statistics
Matches: 182, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
91 31 0.17
93 14 0.08
94 117 0.64
95 19 0.10
96 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTATCATAGTATGGCC
Found at i:32031603 original size:40 final size:40
Alignment explanation
Indices: 32031535--32031706 Score: 206
Period size: 40 Copynumber: 4.3 Consensus size: 40
32031525 ACCCAAGCAT
* *
32031535 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCATAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
32031574 CTTCGGGTCTTAGCCTGGATATAGCAACTCACACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
32031614 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
32031654 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
32031694 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
32031707 TCTGATTATC
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.12
40 95 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:32031648 original size:80 final size:79
Alignment explanation
Indices: 32031535--32031706 Score: 240
Period size: 80 Copynumber: 2.2 Consensus size: 79
32031525 ACCCAAGCAT
* * * *
32031535 CTTCGGGAT-TTAGCCGGATATAACAACTCGCATAAATGCCTTCGGGTCTTAGCCTGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAACAACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
32031599 AACTCACACAAATGC
65 AACTCACACAAATGC
32031614 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAG
1 CTTCGGGTCTTAG-CCGGATATAA-CAACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAG
* *
32031678 CAACTCGCACGAATGC
64 CAACTCACACAAATGC
*
32031694 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
32031707 TCTGATTATC
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
78 1 0.01
79 11 0.13
80 70 0.84
81 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAACAACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCACACAAATGC
Found at i:32038032 original size:23 final size:22
Alignment explanation
Indices: 32038002--32038044 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
32037992 TGGAAAGAAG
32038002 GTTTTCTGAAAAATCTGCATTTC
1 GTTTTCTGAAAAAT-TGCATTTC
*
32038025 GTTTTCTGAAATATTGCATT
1 GTTTTCTGAAAAATTGCATT
32038045 GGCATGATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (22 bp):
GTTTTCTGAAAAATTGCATTTC
Found at i:32043470 original size:51 final size:49
Alignment explanation
Indices: 32043344--32043537 Score: 244
Period size: 49 Copynumber: 3.9 Consensus size: 49
32043334 CTATTGTGAA
* * * * *
32043344 GTCACGTGTGTATTACTAAGTGCAGGCTATTACGTGTACCGGATAATTG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTG
* * * *
32043393 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-T-TG
* * *
32043444 ATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTG
* *
32043493 GTCGCTTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
32043538 GCTTCGGCTA
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
49 80 0.65
50 2 0.02
51 41 0.33
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTG
Found at i:32043518 original size:100 final size:100
Alignment explanation
Indices: 32043345--32043532 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
32043335 TATTGTGAAG
* * *
32043345 TCACGTGTGTATTACTAAGTGCAGGCTATTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
32043410 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
* * *
32043445 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCGCTTGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
32043510 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
32043533 AGATAGCTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:32056415 original size:16 final size:16
Alignment explanation
Indices: 32056391--32056442 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
32056381 TGGTTCACTG
* *
32056391 TAATGGAATAGGGCTA
1 TAATAGAATAGAGCTA
* *
32056407 TAATTGAATAGAGCTG
1 TAATAGAATAGAGCTA
*
32056423 TAATAGAATAGAGCTG
1 TAATAGAATAGAGCTA
32056439 TAAT
1 TAAT
32056443 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.29
Consensus pattern (16 bp):
TAATAGAATAGAGCTA
Found at i:32056508 original size:44 final size:46
Alignment explanation
Indices: 32056428--32056517 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
32056418 AGCTGTAATA
32056428 GAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGGAATG
1 GAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGGAATG
***
32056474 GAATAGAGCTGTAAT-AG-AATTCTTGTGTTTGGTTGAATGGAATG
1 GAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGGAATG
32056518 ATGTTGTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 24 0.59
45 2 0.05
46 15 0.37
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (46 bp):
GAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGGAATG
Found at i:32056997 original size:57 final size:57
Alignment explanation
Indices: 32056902--32057012 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 57
32056892 TTATTATTAA
* * * *
32056902 ATTTTAATAAGATTATTATTAAAATATTTTAATAAAAATAATAAATAATTTAATCAT
1 ATTTTAACAAGATTATTACTAAAATAATTTAATAAAAATAACAAATAATTTAATCAT
* *
32056959 ATTTTAACATGATTATTACTAAATATAATTTAAT-AAAATAACATATAATTTAAT
1 ATTTTAACAAGATTATTACTAAA-ATAATTTAATAAAAATAACAAATAATTTAAT
32057013 AAAATTCTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 38 0.81
58 9 0.19
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (57 bp):
ATTTTAACAAGATTATTACTAAAATAATTTAATAAAAATAACAAATAATTTAATCAT
Done.