Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 118 of 127
Found at i:22493287 original size:15 final size:15
Alignment explanation
Indices: 22493259--22493305 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
22493249 CACTAGCCTC
*
22493259 TTTGCTTTCCTTTTT
1 TTTGCTTTCATTTTT
* *
22493274 TTTGTTTTTA-TTTT
1 TTTGCTTTCATTTTT
22493288 TTTGCTTTCATTTTT
1 TTTGCTTTCATTTTT
22493303 TTT
1 TTT
22493306 TTGTCTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.04, C:0.11, G:0.06, T:0.79
Consensus pattern (15 bp):
TTTGCTTTCATTTTT
Found at i:22493289 original size:14 final size:14
Alignment explanation
Indices: 22493259--22493304 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
22493249 CACTAGCCTC
*
22493259 TTTGCTTTCCTTTTT
1 TTTGCTTT-CATTTT
* *
22493274 TTTGTTTTTATTTT
1 TTTGCTTTCATTTT
22493288 TTTGCTTTCATTTT
1 TTTGCTTTCATTTT
22493302 TTT
1 TTT
22493305 TTTGTCTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 19 0.73
15 7 0.27
ACGTcount: A:0.04, C:0.11, G:0.07, T:0.78
Consensus pattern (14 bp):
TTTGCTTTCATTTT
Found at i:22499535 original size:7 final size:7
Alignment explanation
Indices: 22499521--22499553 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
22499511 GGGACTTGAA
22499521 ATGAGAG
1 ATGAGAG
*
22499528 AGGAGAG
1 ATGAGAG
22499535 ATGAGAG
1 ATGAGAG
22499542 ATGAGAG
1 ATGAGAG
22499549 -TGAGA
1 ATGAGA
22499554 CTTGAGGCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.42, C:0.00, G:0.45, T:0.12
Consensus pattern (7 bp):
ATGAGAG
Found at i:22503202 original size:97 final size:96
Alignment explanation
Indices: 22502979--22503274 Score: 452
Period size: 97 Copynumber: 3.1 Consensus size: 96
22502969 CTAAGTTACT
22502979 TGGGTTTTGTTCTATATAATCTAAAAAGAATTAGAAAATGGCAAGTGATCACAACTTGTTGCACA
1 TGGGTTTTGTTCTATATAATCTAAAAAGAATTAGAAAATGGCAAGTGATCACAACTTGTTGCACA
*
22503044 TGTAAGAACAGTAATA-TTTCTGGGTCTGCC
66 TGTAAGAGCAGTAATATTTTCTGGGTCTGCC
* * *
22503074 TGGGTTTTATTATATATAATCTAAAAAGAATTAGGAAATGGCAAGCTGATCACATA-TTGTTGCA
1 TGGGTTTTGTTCTATATAATCTAAAAAGAATTAGAAAATGGCAAG-TGATCACA-ACTTGTTGCA
*
22503138 CATGTAAGAGCAGTAATATTTTCTGGGTCGGCC
64 CATGTAAGAGCAGTAATATTTTCTGGGTCTGCC
* * * *
22503171 TGGGTTTTGTTCTATGTAATCTGAAAAGAATTAGAAAATGGCAAGTTAATCACAAGTTGTTGCAC
1 TGGGTTTTGTTCTATATAATCTAAAAAGAATTAGAAAATGGCAAG-TGATCACAACTTGTTGCAC
*
22503236 ATGTAAGAGCAGTAATATTTTCTCGGTCTGCC
65 ATGTAAGAGCAGTAATATTTTCTGGGTCTGCC
*
22503268 TAGGTTT
1 TGGGTTT
22503275 GAGTAAAGTA
Statistics
Matches: 182, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
95 42 0.23
96 34 0.19
97 106 0.58
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (96 bp):
TGGGTTTTGTTCTATATAATCTAAAAAGAATTAGAAAATGGCAAGTGATCACAACTTGTTGCACA
TGTAAGAGCAGTAATATTTTCTGGGTCTGCC
Found at i:22507823 original size:12 final size:12
Alignment explanation
Indices: 22507806--22507831 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22507796 GCATCTCAGA
22507806 TGTGGGAATAAC
1 TGTGGGAATAAC
22507818 TGTGGGAATAAC
1 TGTGGGAATAAC
22507830 TG
1 TG
22507832 ATGTAAATCA
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:0.31, C:0.08, G:0.35, T:0.27
Consensus pattern (12 bp):
TGTGGGAATAAC
Found at i:22508690 original size:39 final size:39
Alignment explanation
Indices: 22508636--22508714 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 39
22508626 AAAAGTATGG
*
22508636 AGAAAATGCTTTTTCTC-TTTCGTCAACTTATTATGAGAT
1 AGAAAATGATTTTTCTCATTT-GTCAACTTATTATGAGAT
*
22508675 AGAAAATGATTTTTCTCATTTGTGAACTTATTATGAGAT
1 AGAAAATGATTTTTCTCATTTGTCAACTTATTATGAGAT
22508714 A
1 A
22508715 TGACTAATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 34 0.92
40 3 0.08
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (39 bp):
AGAAAATGATTTTTCTCATTTGTCAACTTATTATGAGAT
Found at i:22512434 original size:9 final size:9
Alignment explanation
Indices: 22512410--22512451 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
22512400 CAATTTGTCC
*
22512410 TGTATTATTT
1 TGTATT-TTA
22512420 TGTATTTTA
1 TGTATTTTA
22512429 TGTATTTTA
1 TGTATTTTA
*
22512438 TATATTTTA
1 TGTATTTTA
22512447 T-TATT
1 TGTATT
22512452 ATGTATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 4 0.13
9 20 0.67
10 6 0.20
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (9 bp):
TGTATTTTA
Found at i:22512460 original size:19 final size:18
Alignment explanation
Indices: 22512422--22512480 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
22512412 TATTATTTTG
22512422 TATTTTATGTATTTTATA
1 TATTTTATGTATTTTATA
22512440 TATTTTAT-TATTATGTATA
1 TATTTTATGTATT-T-TATA
* *
22512459 TA-TTTATTTA-TTTATT
1 TATTTTATGTATTTTATA
22512475 TATTTT
1 TATTTT
22512481 TTATTAGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 5 0.14
17 8 0.22
18 15 0.42
19 8 0.22
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTTTATGTATTTTATA
Found at i:22512927 original size:26 final size:24
Alignment explanation
Indices: 22512885--22512938 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
22512875 CTGGGAGTGA
*
22512885 GAAAAATTTTTTAGAAATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
* *
22512909 CGAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTT-TAGAAATTTCTGG
22512935 GAAA
1 GAAA
22512939 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:22512982 original size:31 final size:31
Alignment explanation
Indices: 22512947--22513017 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
22512937 AATTTCCAGA
* ** *
22512947 TTCCGGCGAAAATTCCGGCGAAGTTTGAATT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
22512978 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
22513009 TTCCGGCGA
1 TTCCGGCGA
22513018 CCTGCCCAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCCAACATTGAAGT
Found at i:22513467 original size:23 final size:23
Alignment explanation
Indices: 22513424--22513467 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
22513414 GCTCCAGGTT
* * *
22513424 TTTTTTTTTTTTTTTTCTTTGAA
1 TTTTTTTTCTTTGTTTATTTGAA
22513447 TTTTTTTTCTTTGTTTATTTG
1 TTTTTTTTCTTTGTTTATTTG
22513468 TTTATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.82
Consensus pattern (23 bp):
TTTTTTTTCTTTGTTTATTTGAA
Found at i:22513532 original size:14 final size:14
Alignment explanation
Indices: 22513507--22513545 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
22513497 GTTTATGTAA
22513507 TATTTTTTTTA-TT
1 TATTTTTTTTATTT
22513520 TATTTTTTATTATTT
1 TATTTTTT-TTATTT
*
22513535 TATTTTCTTTA
1 TATTTTTTTTA
22513546 AATAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 8 0.35
14 6 0.26
15 9 0.39
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTTTATTT
Found at i:22513844 original size:62 final size:61
Alignment explanation
Indices: 22513558--22513930 Score: 458
Period size: 62 Copynumber: 6.1 Consensus size: 61
22513548 TAAAAATAAA
* * *
22513558 AAAATTCCAAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAAT
1 AAAATTTC-AAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * * *
22513620 AAATTTTC---AAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAAATTTCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * *
22513677 -AAATTTCAAAAAAAAAAAATATTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAA
1 AAAATTTCAAAAAAAATATAT-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AA-AAAT
*
22513741 ATAAATTTCCAAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 A-AAATTT-CAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
22513804 CAAAATTTCAAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 -AAAATTTCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
22513866 CAAAATTTC--CAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCCTATAAAAA-
1 -AAAATTTCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAA-TTTTCCT-TAAAAAT
22513926 AAAAT
1 AAAAT
22513931 CATTCCTTCC
Statistics
Matches: 278, Mismatches: 19, Indels: 31
0.85 0.06 0.09
Matches are distributed among these distances:
56 6 0.02
57 41 0.15
58 5 0.02
59 39 0.14
60 15 0.05
61 37 0.13
62 68 0.24
63 10 0.04
64 6 0.02
66 39 0.14
67 12 0.04
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.33
Consensus pattern (61 bp):
AAAATTTCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
Found at i:22514528 original size:26 final size:22
Alignment explanation
Indices: 22514475--22514521 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
22514465 ATTTAGAATC
22514475 AGCAAATAAAAAAATAAATATT
1 AGCAAATAAAAAAATAAATATT
*
22514497 AGCAAATAAGAAAATAAATATT
1 AGCAAATAAAAAAATAAATATT
22514519 AGC
1 AGC
22514522 TTCCAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.21
Consensus pattern (22 bp):
AGCAAATAAAAAAATAAATATT
Found at i:22521720 original size:5 final size:5
Alignment explanation
Indices: 22521710--22521739 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
22521700 TCTCTCTTGG
*
22521710 TCTTT TCTTT TCTGT TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
22521740 GCGCTTCGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:22524257 original size:28 final size:28
Alignment explanation
Indices: 22524226--22524280 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
22524216 ATTTGATTTT
22524226 CTTTGTAAACCCAATTTTTTTAATACCG
1 CTTTGTAAACCCAATTTTTTTAATACCG
**
22524254 CTTTGTAAATTCAATTTTTTTAATACC
1 CTTTGTAAACCCAATTTTTTTAATACC
22524281 CCAATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.47
Consensus pattern (28 bp):
CTTTGTAAACCCAATTTTTTTAATACCG
Found at i:22525904 original size:34 final size:33
Alignment explanation
Indices: 22525861--22525947 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 33
22525851 TCAAAAATAA
* * *
22525861 ATTTATGAAAAATCATATGATTTTTTGA-AAATTT
1 ATTTTTGAAAAATCATAT-A-TTTTTCATAAATTC
22525895 ATTTTTGAAAAGATTCATA-ATTTTTCATAAATTC
1 ATTTTTGAAAA-A-TCATATATTTTTCATAAATTC
*
22525929 ATTTTTGAAAAATTATATA
1 ATTTTTGAAAAATCATATA
22525948 ACTTTTTAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
32 4 0.09
33 8 0.18
34 27 0.60
35 1 0.02
36 5 0.11
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (33 bp):
ATTTTTGAAAAATCATATATTTTTCATAAATTC
Found at i:22527549 original size:17 final size:17
Alignment explanation
Indices: 22527527--22527562 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22527517 GGATTCCAGA
*
22527527 GAAAGTGTGGTACCTGG
1 GAAAGTGTGATACCTGG
*
22527544 GAAAGTTTGATACCTGG
1 GAAAGTGTGATACCTGG
22527561 GA
1 GA
22527563 TTTTGTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.11, G:0.36, T:0.25
Consensus pattern (17 bp):
GAAAGTGTGATACCTGG
Found at i:22534382 original size:14 final size:14
Alignment explanation
Indices: 22534363--22534390 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22534353 TCCTATAAAT
22534363 ACAAGGCTTAGAGC
1 ACAAGGCTTAGAGC
22534377 ACAAGGCTTAGAGC
1 ACAAGGCTTAGAGC
22534391 GAAGGCCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.29, T:0.14
Consensus pattern (14 bp):
ACAAGGCTTAGAGC
Found at i:22539847 original size:14 final size:14
Alignment explanation
Indices: 22539813--22539839 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22539803 ATCTTACATT
22539813 TACTTTATTAAAGC
1 TACTTTATTAAAGC
22539827 TACTTTATTAAAG
1 TACTTTATTAAAG
22539840 TTGCTTTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (14 bp):
TACTTTATTAAAGC
Found at i:22551257 original size:21 final size:21
Alignment explanation
Indices: 22551232--22551275 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
22551222 AGAGTAAGAT
22551232 ATCATCAATGTAGATAAATGC
1 ATCATCAATGTAGATAAATGC
* *
22551253 ATCATTAATGTAGATAAGTGC
1 ATCATCAATGTAGATAAATGC
22551274 AT
1 AT
22551276 ATTCAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (21 bp):
ATCATCAATGTAGATAAATGC
Found at i:22552176 original size:22 final size:23
Alignment explanation
Indices: 22552148--22552200 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
22552138 AATTTAATAC
*
22552148 TATATAAAATAT-TTTAAAAAAT
1 TATATAAAATATAATTAAAAAAT
*
22552170 TATAT-AAATATAATTATAAAAT
1 TATATAAAATATAATTAAAAAAT
22552192 TATAATAAA
1 TAT-ATAAA
22552201 GAAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 6 0.23
22 16 0.62
23 2 0.08
24 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TATATAAAATATAATTAAAAAAT
Found at i:22552199 original size:23 final size:22
Alignment explanation
Indices: 22552165--22552210 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
22552155 AATATTTTAA
* *
22552165 AAAATTATATAAATATAATTAT
1 AAAATTATATAAAGAAAATTAT
22552187 AAAATTATAATAAAGAAAATTAT
1 AAAATTAT-ATAAAGAAAATTAT
22552210 A
1 A
22552211 GATAAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAATTATATAAAGAAAATTAT
Found at i:22552207 original size:15 final size:16
Alignment explanation
Indices: 22552187--22552216 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22552177 ATATAATTAT
22552187 AAAATTATA-ATAAAG
1 AAAATTATAGATAAAG
22552202 AAAATTATAGATAAA
1 AAAATTATAGATAAA
22552217 TTACTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (16 bp):
AAAATTATAGATAAAG
Found at i:22552513 original size:2 final size:2
Alignment explanation
Indices: 22552506--22552532 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22552496 ACTCATGTAA
22552506 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
22552533 AACCCACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22553391 original size:29 final size:28
Alignment explanation
Indices: 22553365--22553419 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
22553355 TTATTATTTT
22553365 ATTTAAATAAATTATTATATTTTTATTAC
1 ATTTAAATAAATTATTA-ATTTTTATTAC
*
22553394 ATTTAAATAAATTTTTAATTTTTATT
1 ATTTAAATAAATTATTAATTTTTATT
22553420 GTACATCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTTAAATAAATTATTAATTTTTATTAC
Found at i:22553432 original size:30 final size:28
Alignment explanation
Indices: 22553369--22553445 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
22553359 TATTTTATTT
* **
22553369 AAATAAATTATTATATTTTTATTACATTT
1 AAATAAATTTTTA-ATTTTTATTACATCC
22553398 AAATAAATTTTTAATTTTTATTGTACATCC
1 AAATAAATTTTTAATTTTTA-T-TACATCC
*
22553428 AAATAAAATTTTTTATTT
1 AAAT-AAATTTTTAATTT
22553446 GTATCCTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 7 0.17
29 13 0.32
30 9 0.22
31 12 0.29
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.53
Consensus pattern (28 bp):
AAATAAATTTTTAATTTTTATTACATCC
Found at i:22553577 original size:31 final size:31
Alignment explanation
Indices: 22553537--22553597 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
22553527 CACTTGAATA
22553537 TAAATTAAAAT-ATAAAAATATAAAAATTTATC
1 TAAATTAAAATAAT-AAAAT-TAAAAATTTATC
*
22553569 TAAA-TAAAATAATAAAATTTAAAATTTAT
1 TAAATTAAAATAATAAAATTAAAAATTTAT
22553598 TTTAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 10 0.37
31 11 0.41
32 6 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (31 bp):
TAAATTAAAATAATAAAATTAAAAATTTATC
Found at i:22567183 original size:29 final size:29
Alignment explanation
Indices: 22567141--22567206 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
22567131 GAAACGTGTC
*
22567141 CCAATAATTGTTTATA-CCAACAAATGGGA
1 CCAATAATAGTTTA-AGCCAACAAATGGGA
* *
22567170 CCAATAATAGTTTAAGCTAAGAAATGGGA
1 CCAATAATAGTTTAAGCCAACAAATGGGA
*
22567199 CCACTAAT
1 CCAATAAT
22567207 TGTTATAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 1 0.03
29 31 0.97
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (29 bp):
CCAATAATAGTTTAAGCCAACAAATGGGA
Found at i:22572944 original size:22 final size:20
Alignment explanation
Indices: 22572916--22572990 Score: 87
Period size: 22 Copynumber: 3.5 Consensus size: 20
22572906 AATTTTACTT
22572916 ATAAATAATATTATATAAATAA
1 ATAAATAATATTATAT-AAT-A
*
22572938 ATAAATAATATTATATAATC
1 ATAAATAATATTATATAATA
* *
22572958 ATAAATATTATTAATTTAATTA
1 ATAAATAATATT-ATATAA-TA
22572980 ATAAATAATAT
1 ATAAATAATAT
22572991 ACTACTAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 11 0.24
21 8 0.17
22 27 0.59
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAATAATATTATATAATA
Found at i:22572963 original size:42 final size:41
Alignment explanation
Indices: 22572915--22573017 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 41
22572905 TAATTTTACT
22572915 TATAAATAATATTATATAAATAAATAAATAATATTA-TA-TAA
1 TATAAATAATATTA-ATAAATAAATAAATAATA-TACTACTAA
* * *
22572956 TCATAAATATTATTAATTTAATTAATAAATAATATACTACTAA
1 T-ATAAATAATATTAA-TAAATAAATAAATAATATACTACTAA
22572999 TAT-AAT-ATATTAATAAATA
1 TATAAATAATATTAATAAATA
22573018 TTATTAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
39 4 0.08
40 6 0.12
41 7 0.13
42 31 0.60
43 4 0.08
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (41 bp):
TATAAATAATATTAATAAATAAATAAATAATATACTACTAA
Found at i:22573022 original size:13 final size:13
Alignment explanation
Indices: 22572958--22573030 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
22572948 TTATATAATC
22572958 ATAAATATTATTA
1 ATAAATATTATTA
* * *
22572971 ATTTAAT-TAATAA
1 A-TAAATATTATTA
* *
22572984 ATAATATACTACTA
1 ATAA-ATATTATTA
22572998 ATATAATA-TATTA
1 ATA-AATATTATTA
22573011 ATAAATATTATTA
1 ATAAATATTATTA
22573024 ATAAATA
1 ATAAATA
22573031 ATATAAAGAA
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
12 6 0.13
13 27 0.59
14 12 0.26
15 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
ATAAATATTATTA
Found at i:22573037 original size:53 final size:50
Alignment explanation
Indices: 22572914--22573037 Score: 133
Period size: 53 Copynumber: 2.4 Consensus size: 50
22572904 ATAATTTTAC
* * *
22572914 TTATAAATAATATTATATAAATAAATAAATAATATTATATAATCATAAATA
1 TTATTAATAA-ATTATATAAATAAATAAATAATATAATATAATAATAAATA
* * *
22572965 TTATTAATTTAATTA-ATAAATAATATACTACTAATATAATATATTAATAAATA
1 TTATTAA-TAAATTATATAAATAA-ATA--AATAATATAATATAATAATAAATA
*
22573018 TTATTAATAAATAATATAAA
1 TTATTAATAAATTATATAAA
22573038 GAAGAATAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
50 8 0.13
51 13 0.22
52 7 0.12
53 32 0.53
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (50 bp):
TTATTAATAAATTATATAAATAAATAAATAATATAATATAATAATAAATA
Found at i:22573141 original size:15 final size:15
Alignment explanation
Indices: 22573121--22573161 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
22573111 TATAATTATT
*
22573121 TTTTAATATTAATAA
1 TTTTAATATAAATAA
22573136 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
22573152 TTTCAATATA
1 TTTTAATATA
22573162 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:22573159 original size:25 final size:26
Alignment explanation
Indices: 22573131--22573194 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
22573121 TTTTAATATT
22573131 AATAATTTTAATAATAAAT-AATTTC
1 AATAATTTTAATAATAAATAAATTTC
*
22573156 AATATATTTTAATAATAAATAAATTTT
1 AATA-ATTTTAATAATAAATAAATTTC
22573183 AAT-ATTTTAATA
1 AATAATTTTAATA
22573195 GTTATATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
25 13 0.36
26 15 0.42
27 8 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
AATAATTTTAATAATAAATAAATTTC
Found at i:22573186 original size:10 final size:9
Alignment explanation
Indices: 22573124--22573194 Score: 53
Period size: 9 Copynumber: 8.2 Consensus size: 9
22573114 AATTATTTTT
*
22573124 TAATATTAA
1 TAATTTTAA
22573133 TAATTTTAA
1 TAATTTTAA
*
22573142 TAA--TAAA
1 TAATTTTAA
*
22573149 TAATTTCAA
1 TAATTTTAA
22573158 TATATTTTAA
1 TA-ATTTTAA
*
22573168 TAA--TAAA
1 TAATTTTAA
22573175 TAAATTTTAA
1 T-AATTTTAA
22573185 T-ATTTTAA
1 TAATTTTAA
22573193 TA
1 TA
22573195 GTTATATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
7 10 0.20
8 10 0.20
9 17 0.35
10 12 0.24
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (9 bp):
TAATTTTAA
Found at i:22575748 original size:24 final size:22
Alignment explanation
Indices: 22575696--22575750 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
22575686 TATATTTATA
*
22575696 TATATATATTTAGTTAATAAAAT
1 TATATAT-TTTAATTAATAAAAT
22575719 T-T-TATTTTAATTAATTAAAAT
1 TATATATTTTAATTAA-TAAAAT
22575740 TAATATATTTT
1 T-ATATATTTT
22575751 TACTTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 8 0.30
21 10 0.37
22 1 0.04
23 2 0.07
24 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TATATATTTTAATTAATAAAAT
Found at i:22576431 original size:28 final size:31
Alignment explanation
Indices: 22576400--22576456 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
22576390 TTTGTTGTAT
22576400 TTTGTAT-TT-TATATTTA-TATTTATTTTG
1 TTTGTATCTTATATATTTATTATTTATTTTG
*
22576428 TTTGTATCTTATGTATTTATTATTTATTT
1 TTTGTATCTTATATATTTATTATTTATTT
22576457 ATTATTACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.28
29 2 0.08
30 7 0.28
31 9 0.36
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (31 bp):
TTTGTATCTTATATATTTATTATTTATTTTG
Found at i:22576448 original size:4 final size:4
Alignment explanation
Indices: 22576436--22576590 Score: 76
Period size: 4 Copynumber: 39.5 Consensus size: 4
22576426 TGTTTGTATC
* *
22576436 TTAT GTAT TTA- TTAT TTAT TTA- TTAT TACTAT TTAT TAATAT ATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT T--TAT TTAT
* * * * *
22576482 GTAT TTA- TTAT TTAT CTAT TTAT ATA- TTAT TATAT ATAT GTAT TTA-
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-TAT TTAT TTAT TTAT
* * * *
22576528 TTA- TTAT TTAT CTAT TTAT ATA- TTA- TTAT TTAT CTAT TAAT CTT-T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT
* *
22576573 TTAT TTAT CTAA TTAT TT
1 TTAT TTAT TTAT TTAT TT
22576591 TCTTTTAATT
Statistics
Matches: 114, Mismatches: 24, Indels: 26
0.70 0.15 0.16
Matches are distributed among these distances:
3 24 0.21
4 79 0.69
5 4 0.04
6 7 0.06
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (4 bp):
TTAT
Found at i:22576459 original size:35 final size:34
Alignment explanation
Indices: 22576383--22576454 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 34
22576373 TGGGTAGGCC
*
22576383 TATTTTTTTTGTTGTATTTTGTATTTTATATTTA
1 TATTTATTTTGTTGTATTTTGTATTTTATATTTA
22576417 TATTTATTTTGTTTGTATCTTATGTA-TTTATTATTTA
1 TATTTATTTTG-TTGTAT-TT-TGTATTTTA-TATTTA
22576454 T
1 T
22576455 TTATTATTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
34 10 0.30
35 6 0.18
36 6 0.18
37 11 0.33
ACGTcount: A:0.19, C:0.01, G:0.08, T:0.71
Consensus pattern (34 bp):
TATTTATTTTGTTGTATTTTGTATTTTATATTTA
Found at i:22576489 original size:42 final size:41
Alignment explanation
Indices: 22576437--22576556 Score: 167
Period size: 42 Copynumber: 2.9 Consensus size: 41
22576427 GTTTGTATCT
22576437 TATGTATTTATTATTTATTTATTATTACTAT-TTATTAATATA
1 TATGTATTTATTATTTATTTATTATTA-TATATTATT-ATATA
*
22576479 TATGTATTTATTATTTATCTA-T-TTATATATTATTATATA
1 TATGTATTTATTATTTATTTATTATTATATATTATTATATA
22576518 TATGTATTTATTA-TTATTTATCTATTTATATATTATTAT
1 TATGTATTTATTATTTATTTAT-TA-TTATATATTATTAT
22576557 TTATCTATTA
Statistics
Matches: 71, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
38 6 0.08
39 21 0.30
40 9 0.13
41 1 0.01
42 34 0.48
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (41 bp):
TATGTATTTATTATTTATTTATTATTATATATTATTATATA
Found at i:22576577 original size:42 final size:42
Alignment explanation
Indices: 22576483--22576616 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 42
22576473 AATATATATG
*
22576483 TATTTATTATTTATCTATTTATATATTATTATATATATGTATT--
1 TATTT-TTATTTATCTATTTATATATTATTAT-T-TATCTATTAA
*
22576526 TATTATTATTTATCTATTTATATATTATTATTTATCTATTAA
1 TATTTTTATTTATCTATTTATATATTATTATTTATCTATTAA
* * * * *
22576568 TCTTTTTATTTATCTAATTAT-TTTCTTTTAATTATCTATTAA
1 TATTTTTATTTATCTATTTATATAT-TATTATTTATCTATTAA
*
22576610 CATTTTT
1 TATTTTT
22576617 TTATTTAATT
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
40 7 0.09
41 3 0.04
42 64 0.82
43 4 0.05
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (42 bp):
TATTTTTATTTATCTATTTATATATTATTATTTATCTATTAA
Found at i:22576590 original size:64 final size:64
Alignment explanation
Indices: 22576486--22576607 Score: 142
Period size: 64 Copynumber: 1.9 Consensus size: 64
22576476 ATATATGTAT
* *
22576486 TTATTATTTATCTATTTATATATTATTATATATATGTATTTAT-TATTATTTATCTATTTATATA
1 TTATTATTTATCTATTAATATATTATTATATATATGTATTT-TCTATTAATTATCTATTTATATA
* * * *
22576550 TTATTATTTATCTATTAATCTTTTTATT-TATCTAAT-TATTTTCTTTTAATTATCTATT
1 TTATTATTTATCTATTAAT-ATATTATTATATAT-ATGTATTTTCTATTAATTATCTATT
22576608 AACATTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
63 1 0.02
64 40 0.82
65 8 0.16
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.64
Consensus pattern (64 bp):
TTATTATTTATCTATTAATATATTATTATATATATGTATTTTCTATTAATTATCTATTTATATA
Found at i:22577319 original size:11 final size:11
Alignment explanation
Indices: 22577303--22577336 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
22577293 CCGAGCGTCA
22577303 ACCCGTGTGCG
1 ACCCGTGTGCG
*
22577314 ACCCGTGTGTG
1 ACCCGTGTGCG
*
22577325 ACCCGAGTGCG
1 ACCCGTGTGCG
22577336 A
1 A
22577337 AGCCAAGCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.32, G:0.35, T:0.18
Consensus pattern (11 bp):
ACCCGTGTGCG
Found at i:22577500 original size:28 final size:26
Alignment explanation
Indices: 22577478--22577532 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 26
22577468 ATTTAATTAT
22577478 TTAATATTTTTATTTTATTTTTATTC
1 TTAATATTTTTATTTTATTTTTATTC
*
22577504 TTAATCTTTTACTATTTTATTTTT-TTC
1 TTAATATTTT--TATTTTATTTTTATTC
22577531 TT
1 TT
22577533 TAAATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.35
27 5 0.19
28 12 0.46
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (26 bp):
TTAATATTTTTATTTTATTTTTATTC
Found at i:22577617 original size:16 final size:16
Alignment explanation
Indices: 22577590--22577625 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
22577580 AGTATCAATT
22577590 TTTTCTTAAAAAAATA
1 TTTTCTTAAAAAAATA
22577606 GTTTTC-TAAAAAAATA
1 -TTTTCTTAAAAAAATA
22577622 TTTT
1 TTTT
22577626 GAGGAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 10 0.53
17 5 0.26
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTTCTTAAAAAAATA
Found at i:22577762 original size:57 final size:57
Alignment explanation
Indices: 22577550--22577895 Score: 306
Period size: 57 Copynumber: 5.8 Consensus size: 57
22577540 AATTTGTTCA
* * * *
22577550 AAAAAAAATATTTTTGAGGAAAAGTTTGAAAGTATCAATTTTTTCTTAAAAAAATAGTTTT
1 AAAAAAAATATTTTTGA-AAAAAG-TTGAAAGTATCAA-TTTTTCTTGAAAATA-AGCTTT
* * *
22577611 CTAAAAAAATA-TTTTGAGGAAAAGTTG-AAGTATTTTTTCCAATTTTTTCTTAAAAATAAGCTT
1 -AAAAAAAATATTTTTGA-AAAAAGTTGAAAGTA-----T-CAA-TTTTTCTTGAAAATAAGC-T
22577674 TT
56 TT
22577676 AAAAAAAATATTTTTGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTT
1 AAAAAAAATATTTTTGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTT
* * *
22577733 -AAAAAAATATTTTTGAAAAAAAATCGAAAGTATCAATTTTCCTTGAAAATAAGCTTT
1 AAAAAAAATATTTTTG-AAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTT
** * *
22577790 -CTAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAG-TTT
1 AAAAAAAATA-TTTTTGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTT
* * * *
22577846 CATAAAAAGGATTTTTTTTTATGAAAAGTTGAAAGTATCAATTTTTCTTG
1 -A-AAAAA--AATATTTTTGA-AAAAAGTTGAAAGTATCAATTTTTCTTG
22577896 TACAAAATAA
Statistics
Matches: 245, Mismatches: 22, Indels: 35
0.81 0.07 0.12
Matches are distributed among these distances:
56 18 0.07
57 80 0.33
58 23 0.09
59 11 0.04
60 10 0.04
61 42 0.17
62 9 0.04
64 20 0.08
65 32 0.13
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (57 bp):
AAAAAAAATATTTTTGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTT
Found at i:22580020 original size:25 final size:23
Alignment explanation
Indices: 22579982--22580046 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
22579972 TATAAATATG
*
22579982 ATTATCTATTTTGAATAGATAAAA
1 ATTATTTATTTTGAATAG-TAAAA
* * *
22580006 ATTTTTTATTTTTGAACAGTTAAA
1 ATTATTTA-TTTTGAATAGTAAAA
22580030 ATTATTTATTTTGAATA
1 ATTATTTATTTTGAATA
22580047 AATCTATCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 8 0.24
24 17 0.50
25 9 0.26
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (23 bp):
ATTATTTATTTTGAATAGTAAAA
Found at i:22580641 original size:15 final size:16
Alignment explanation
Indices: 22580609--22580646 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
22580599 ATGTGATTTT
**
22580609 ATTAATTTAATTTTAA
1 ATTAATTTAATTCAAA
22580625 A-TAATTTAATTCAAA
1 ATTAATTTAATTCAAA
22580640 ATTAATT
1 ATTAATT
22580647 CAACTAATCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATTTAATTCAAA
Found at i:22585163 original size:2 final size:2
Alignment explanation
Indices: 22585156--22585185 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22585146 GAGTAGTCAC
22585156 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22585186 GGAAATAGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22601166 original size:19 final size:19
Alignment explanation
Indices: 22601142--22601182 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
22601132 AAATTGGGCA
22601142 GTAGTTTTTTAACTTTCTG
1 GTAGTTTTTTAACTTTCTG
22601161 GTAGTTTTTTAACTTTCTG
1 GTAGTTTTTTAACTTTCTG
22601180 GTA
1 GTA
22601183 TTAGCTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.56
Consensus pattern (19 bp):
GTAGTTTTTTAACTTTCTG
Found at i:22608058 original size:14 final size:13
Alignment explanation
Indices: 22608025--22608072 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
22608015 TTTAATAATG
*
22608025 TAGAAAAAAGAAA
1 TAGAATAAAGAAA
*
22608038 AAGAATAAAGAAA
1 TAGAATAAAGAAA
*
22608051 CTAGAATAAAAAAA
1 -TAGAATAAAGAAA
22608065 TAAGAATA
1 T-AGAATA
22608073 GAAAGGACCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.12
Consensus pattern (13 bp):
TAGAATAAAGAAA
Found at i:22613510 original size:23 final size:23
Alignment explanation
Indices: 22613463--22613513 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
22613453 GATGTATCAG
22613463 TAAAAAAATTATTTATAAATGATT
1 TAAAAAAATTATTTAT-AATGATT
*
22613487 TAAAAAAATTTATTTAT-ATTATT
1 TAAAAAAA-TTATTTATAATGATT
22613510 TAAA
1 TAAA
22613514 TAATTGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 9 0.36
24 8 0.32
25 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TAAAAAAATTATTTATAATGATT
Found at i:22613747 original size:18 final size:18
Alignment explanation
Indices: 22613690--22613747 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
22613680 TGCTTAAACA
22613690 ATAA-AAAATATAATTAT
1 ATAATAAAATATAATTAT
* * * *
22613707 TTAAATAAAATTTATTTAA
1 AT-AATAAAATATAATTAT
22613726 ATAATAAAATATAATTAT
1 ATAATAAAATATAATTAT
22613744 ATAA
1 ATAA
22613748 AATATCATAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
17 1 0.03
18 19 0.61
19 11 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATAAAATATAATTAT
Found at i:22618225 original size:81 final size:81
Alignment explanation
Indices: 22618051--22618239 Score: 227
Period size: 81 Copynumber: 2.3 Consensus size: 81
22618041 GGAAGTTACT
* * **
22618051 CCAACAAGCACAGACAGTGAAGAAGCTTCAAAAACTGAAATCAAAGATTCTGAAGCAAAGCTGCA
1 CCAACAAGCAAAGAAAGTGAAGAAGCTTCAAAAACTGAAATCAAAGAAGCTGAAGCAAAGCTGCA
* *
22618116 GTCATTAGAAGTTGCA
66 GCCATTAGAAGATGCA
** * * * * * *
22618132 CCATTAAACAAAGATAGTGAAGAATCTTCAAAAACTGAAGTTAAGGAAGCTGAAGCAAAGCTGCA
1 CCAACAAGCAAAGAAAGTGAAGAAGCTTCAAAAACTGAAATCAAAGAAGCTGAAGCAAAGCTGCA
22618197 GCCATTAGAAGATGCTA
66 GCCATTAGAAGATGC-A
*
22618214 -CAACAAGCAAAGAAATTGAAGAAGCT
1 CCAACAAGCAAAGAAAGTGAAGAAGCT
22618240 CCAGAAAGGA
Statistics
Matches: 88, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
81 87 0.99
82 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (81 bp):
CCAACAAGCAAAGAAAGTGAAGAAGCTTCAAAAACTGAAATCAAAGAAGCTGAAGCAAAGCTGCA
GCCATTAGAAGATGCA
Found at i:22636858 original size:21 final size:22
Alignment explanation
Indices: 22636819--22636870 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
22636809 TAATTTTTTT
* *
22636819 AAAAAAAACTAAAACAAAA-TA
1 AAAAAAAATTAAAACAAAAGGA
* *
22636840 AAAAAAAATTATAAGAAAAGGA
1 AAAAAAAATTAAAACAAAAGGA
22636862 AAAAAAAAT
1 AAAAAAAAT
22636871 CAAATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.12
Consensus pattern (22 bp):
AAAAAAAATTAAAACAAAAGGA
Found at i:22637125 original size:20 final size:20
Alignment explanation
Indices: 22637081--22637143 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
22637071 ATAATTTTTT
*
22637081 AATATAAATAATATCTATAA
1 AATATAAATAATATATATAA
*
22637101 CATATAAATAATATA-ATTAA
1 AATATAAATAATATATA-TAA
*
22637121 AATATTAAATCATA-ATA-AA
1 AATA-TAAATAATATATATAA
22637140 AATA
1 AATA
22637144 AGATTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
19 7 0.19
20 20 0.56
21 9 0.25
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATAAATAATATATATAA
Found at i:22637195 original size:125 final size:125
Alignment explanation
Indices: 22637044--22637295 Score: 423
Period size: 125 Copynumber: 2.0 Consensus size: 125
22637034 ACCAAAAATC
* * *
22637044 AATTTAATAGTATAATATTCATGAAATATAATTTTTTAATATAAATAATATCTATAACATATAAA
1 AATTTAATAATATAATATTCAAGAAATATAATTTTTTAATATAAATAATATATATAACATATAAA
*
22637109 TAATATAATTAAAATATTAAATCATAATAAAAATAAGATTTTATTTTTAAATTCTGTTGA
66 TAATATAATTAAAATATTAAATCATAATAAAAATAAGATTTTAGTTTTAAATTCTGTTGA
* * *
22637169 AATTTAATAATATAATATTTAAGAAATATAATTTTTTAATATAAATAATATATGTAACATGTAAA
1 AATTTAATAATATAATATTCAAGAAATATAATTTTTTAATATAAATAATATATATAACATATAAA
* *
22637234 TAATATAATTAAAATATTAAATCATAATAAAAATAAGGTTTTAGTTTTAAATTTTGTTGA
66 TAATATAATTAAAATATTAAATCATAATAAAAATAAGATTTTAGTTTTAAATTCTGTTGA
22637294 AA
1 AA
22637296 GTTATAAGAA
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 118 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (125 bp):
AATTTAATAATATAATATTCAAGAAATATAATTTTTTAATATAAATAATATATATAACATATAAA
TAATATAATTAAAATATTAAATCATAATAAAAATAAGATTTTAGTTTTAAATTCTGTTGA
Found at i:22637797 original size:17 final size:17
Alignment explanation
Indices: 22637777--22637811 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22637767 TTTATAAAAA
*
22637777 AAAAAATATTATAGTTG
1 AAAAAATATTACAGTTG
22637794 AAAAAATATTACAGTTG
1 AAAAAATATTACAGTTG
22637811 A
1 A
22637812 TTTAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.31
Consensus pattern (17 bp):
AAAAAATATTACAGTTG
Found at i:22638421 original size:30 final size:31
Alignment explanation
Indices: 22638387--22638446 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
22638377 ATATAAAAAT
22638387 TATTTATAAAAAATTTAA-AAAATTAAATAA
1 TATTTATAAAAAATTTAATAAAATTAAATAA
* * *
22638417 TATTTTTAAAAAGTTTAATAAATTTAAATA
1 TATTTATAAAAAATTTAATAAAATTAAATA
22638447 CTTATGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (31 bp):
TATTTATAAAAAATTTAATAAAATTAAATAA
Found at i:22638424 original size:21 final size:20
Alignment explanation
Indices: 22638400--22638441 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
22638390 TTATAAAAAA
22638400 TTTAAAAAATTAAATAATATT
1 TTTAAAAAATTAAATAA-ATT
* *
22638421 TTTAAAAAGTTTAATAAATT
1 TTTAAAAAATTAAATAAATT
22638441 T
1 T
22638442 AAATACTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTAAAAAATTAAATAAATT
Found at i:22638529 original size:247 final size:250
Alignment explanation
Indices: 22638051--22638724 Score: 668
Period size: 247 Copynumber: 2.8 Consensus size: 250
22638041 CAATGAGGGC
* *
22638051 TTTTCTAGAGTTGTTATGGTATTTATATATATTTTTTTCACATTTTCTTTGTAAAATATATTTAA
1 TTTTCTAGAGTTGTTATAGTATTTATATATA-TTATTTCACATTTTCTTTGTAAAATATATTTAA
** *
22638116 AAGCTAAAGATAATACAATGATTATTTATTAAAAAAATTAAAGATATTAAATAATATTTTTAAAA
65 AAGCTAAAGATAATACAAAAATTATTTATTAAAAAAATTAAAGAAATTAAATAATATTTTTAAAA
* * *
22638181 GTTGTGATAATTTTAAATACTCATATTAACTATAAATAAATTGAAAAAGATAAATTACTTTAAAA
130 GTTGTAATAAATTTAAATACTCATATTAACTACAAATAAATTGAAAAAGATAAATTACTTTAAAA
* *
22638246 TTAATTTTAAATTGAGATAAAATGATATACAAAAAAATTTTGATGTAAGGAGAAAT
195 TTAATTTTAAATTAAGATAAAATAATATACAAAAAAATTTTGATGTAAGGAGAAAT
*
22638302 TTTTCT-GAAGTTGTTTTAGTATTTATATATA-TATTTCACATTTAT-TTTGTAAAATATATTTA
1 TTTTCTAG-AGTTGTTATAGTATTTATATATATTATTTCACATTT-TCTTTGTAAAATATATTTA
* * * *
22638364 AAAGTTGAAGATAATATAAAAATTATTTA-TAAAAAATTTAAA-AAATTAAATAATATTTTTAAA
64 AAAGCTAAAGATAATACAAAAATTATTTATTAAAAAAATTAAAGAAATTAAATAATATTTTT-AA
* * * * * * *
22638427 AAGTT-TAATAAATTTAAATACTTATGTTAATTGCAGATATATT-AGAAAATATAAATTACTTTA
128 AAGTTGTAATAAATTTAAATACTCATATTAACTACAAATAAATTGA-AAAAGATAAATTACTTTA
* * ** * * * *
22638490 AAATTGATTTTAAATTAAGATGAGGTAATGTATAAAAAAA---T--TGTCA-TA-AAAT
192 AAATTAATTTTAAATTAAGATAAAATAATATACAAAAAAATTTTGATGTAAGGAGAAAT
* * * * * *
22638542 TGTTAT-G-G-TATT-T-GTA--TAT-T-T-TT-TTT-ACA-TTACTTTTTGAAATATATTTAAA
1 TTTTCTAGAGTTGTTATAGTATTTATATATATTATTTCACATTTTCTTTGTAAAATATATTTAAA
* * * * *
22638594 AGCTGAAGATAATATAAGAATTATTTA-TAAAAAATATTAAAGATACTAAATAATATTTTTAAAA
66 AGCTAAAGATAATACAAAAATTATTTATTAAAAAA-ATTAAAGAAATTAAATAATATTTTTAAAA
* * * * *
22638658 GTTGTAATAAATTTAAATACTAATATTAACTTCATATAAATTTTAAAAA-ATAAATTTCTTTAAA
130 GTTGTAATAAATTTAAATACTCATATTAACTACAAATAAA-TTGAAAAAGATAAATTACTTTAAA
22638722 ATT
194 ATT
22638725 TAAATTGGTT
Statistics
Matches: 364, Mismatches: 48, Indels: 43
0.80 0.11 0.09
Matches are distributed among these distances:
228 51 0.14
229 15 0.04
230 66 0.18
231 8 0.02
232 2 0.01
233 3 0.01
235 3 0.01
236 1 0.00
237 3 0.01
238 1 0.00
240 9 0.02
241 1 0.00
242 4 0.01
244 1 0.00
246 1 0.00
247 95 0.26
248 19 0.05
249 52 0.14
250 2 0.01
251 27 0.07
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (250 bp):
TTTTCTAGAGTTGTTATAGTATTTATATATATTATTTCACATTTTCTTTGTAAAATATATTTAAA
AGCTAAAGATAATACAAAAATTATTTATTAAAAAAATTAAAGAAATTAAATAATATTTTTAAAAG
TTGTAATAAATTTAAATACTCATATTAACTACAAATAAATTGAAAAAGATAAATTACTTTAAAAT
TAATTTTAAATTAAGATAAAATAATATACAAAAAAATTTTGATGTAAGGAGAAAT
Found at i:22640511 original size:6 final size:7
Alignment explanation
Indices: 22640494--22640518 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22640484 ATTAACTGGG
22640494 TTTTTTA
1 TTTTTTA
22640501 TTTTTTA
1 TTTTTTA
22640508 TTTTTTA
1 TTTTTTA
22640515 TTTT
1 TTTT
22640519 CAGAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:22640953 original size:23 final size:23
Alignment explanation
Indices: 22640901--22640953 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
22640891 ACTTTAAGTG
**
22640901 TATTTATATCATATTATTGGGTA
1 TATTTATATCATATTATTGAATA
* *
22640924 TAATTATATCATATATATTTAAT-
1 TATTTATATCATAT-TATTGAATA
22640947 TATTTAT
1 TATTTAT
22640954 TTTATAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.55
Consensus pattern (23 bp):
TATTTATATCATATTATTGAATA
Found at i:22641476 original size:15 final size:16
Alignment explanation
Indices: 22641456--22641486 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
22641446 ATTTTTTTAG
22641456 ATAAATTA-TAAAATT
1 ATAAATTATTAAAATT
22641471 ATAAATTATTAAAATT
1 ATAAATTATTAAAATT
22641487 TAATTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAATTATTAAAATT
Found at i:22643153 original size:17 final size:18
Alignment explanation
Indices: 22643121--22643155 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22643111 TCTTGTCCTG
*
22643121 TTGTAATTTTTTTCTTTT
1 TTGTAATTTGTTTCTTTT
22643139 TTGTAA-TTGTTTCTTTT
1 TTGTAATTTGTTTCTTTT
22643156 GTATGTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.11, C:0.06, G:0.09, T:0.74
Consensus pattern (18 bp):
TTGTAATTTGTTTCTTTT
Found at i:22644570 original size:36 final size:36
Alignment explanation
Indices: 22644521--22644593 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
22644511 TCAGCAACAA
*
22644521 GAACTAGTTGAAGAAAAAAAGGCGATGATGACGGGT
1 GAACTAGTCGAAGAAAAAAAGGCGATGATGACGGGT
* * * *
22644557 GAACTGGTCGAAGAAAAATAGGTGATGATGATGGGT
1 GAACTAGTCGAAGAAAAAAAGGCGATGATGACGGGT
22644593 G
1 G
22644594 GTTCAAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.38, C:0.07, G:0.36, T:0.19
Consensus pattern (36 bp):
GAACTAGTCGAAGAAAAAAAGGCGATGATGACGGGT
Found at i:22646838 original size:38 final size:38
Alignment explanation
Indices: 22646778--22646855 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
22646768 AGGGGTTAGT
22646778 TTCTCTCATTGTTTTAGCTTGTCTGATCTCATCTAGCA
1 TTCTCTCATTGTTTTAGCTTGTCTGATCTCATCTAGCA
* **
22646816 TTCTCTCATTGTATTT-GTTTGTCTGATCTTGTCTAGCA
1 TTCTCTCATTGT-TTTAGCTTGTCTGATCTCATCTAGCA
22646854 TT
1 TT
22646856 TTGTACCATC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 33 0.92
39 3 0.08
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.51
Consensus pattern (38 bp):
TTCTCTCATTGTTTTAGCTTGTCTGATCTCATCTAGCA
Found at i:22654950 original size:22 final size:22
Alignment explanation
Indices: 22654924--22654967 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22654914 GATTGTCTAT
*
22654924 CTTAATTTTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22654946 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22654968 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22665633 original size:22 final size:22
Alignment explanation
Indices: 22665608--22665651 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22665598 ATTTTCAGTC
*
22665608 CTTAATTCTAGGGATAAAAATA
1 CTTAATTCTAGAGATAAAAATA
* *
22665630 CTTAATTTTAGAGATACAAATA
1 CTTAATTCTAGAGATAAAAATA
22665652 TAAATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATAAAAATA
Found at i:22679031 original size:23 final size:23
Alignment explanation
Indices: 22679004--22679050 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
22678994 GTTTTTTGAG
22679004 AAATTGAAGTATTTTTGAGACTT
1 AAATTGAAGTATTTTTGAGACTT
*
22679027 AAATTGAAGTGTTTTTGAGACTT
1 AAATTGAAGTATTTTTGAGACTT
22679050 A
1 A
22679051 CATTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.19, T:0.43
Consensus pattern (23 bp):
AAATTGAAGTATTTTTGAGACTT
Found at i:22684548 original size:22 final size:22
Alignment explanation
Indices: 22684523--22684564 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22684513 TTGTCTATCC
* *
22684523 TAATTTTAGGGATACAAATACT
1 TAATTCTAGAGATACAAATACT
22684545 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
22684565 TAAATATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACT
Found at i:22696993 original size:13 final size:12
Alignment explanation
Indices: 22696964--22697008 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
22696954 TATTTAATAA
22696964 TAAAAATTTTAT
1 TAAAAATTTTAT
22696976 T-AAAATATTTAT
1 TAAAAAT-TTTAT
22696988 TAAAAATTATTAT
1 TAAAAATT-TTAT
22697001 CTAAAAAT
1 -TAAAAAT
22697009 ATATCAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.17
12 8 0.28
13 9 0.31
14 7 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAATTTTAT
Found at i:22697005 original size:14 final size:13
Alignment explanation
Indices: 22696964--22697008 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
22696954 TATTTAATAA
22696964 TAAAAATT-TTAT
1 TAAAAATTATTAT
22696976 T-AAAA-TATTTAT
1 TAAAAATTA-TTAT
22696988 TAAAAATTATTAT
1 TAAAAATTATTAT
22697001 CTAAAAAT
1 -TAAAAAT
22697009 ATATCAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 1 0.04
11 4 0.14
12 6 0.21
13 8 0.29
14 9 0.32
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAAATTATTAT
Found at i:22697017 original size:25 final size:25
Alignment explanation
Indices: 22696965--22697022 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
22696955 ATTTAATAAT
* *
22696965 AAAAATT-TTATTAAAATATTTATT
1 AAAAATTATTATTAAAATATATATC
22696989 AAAAATTATTATCTAAAA-ATATATC
1 AAAAATTATTAT-TAAAATATATATC
*
22697014 AAAATTTAT
1 AAAAATTAT
22697023 ACACTTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 7 0.24
25 17 0.59
26 5 0.17
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (25 bp):
AAAAATTATTATTAAAATATATATC
Found at i:22697362 original size:17 final size:16
Alignment explanation
Indices: 22697342--22697375 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22697332 TGCATTCAAT
*
22697342 AAAAATTTGATAAAATA
1 AAAAATATG-TAAAATA
22697359 AAAAATATGTAAAATA
1 AAAAATATGTAAAATA
22697375 A
1 A
22697376 TATAATTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAAATATGTAAAATA
Found at i:22701010 original size:22 final size:20
Alignment explanation
Indices: 22700985--22701028 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
22700975 TATATTCGAA
22700985 TATTATGATAAAATAATTTATT
1 TATTA-GATAAAATAATTT-TT
* *
22701007 TATTAGTTAAAATTATTTTT
1 TATTAGATAAAATAATTTTT
22701027 TA
1 TA
22701029 AAAAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTAGATAAAATAATTTTT
Found at i:22701048 original size:18 final size:18
Alignment explanation
Indices: 22701025--22701077 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
22701015 AAAATTATTT
*
22701025 TTTAAAAAATTTATATAA
1 TTTAAAAAATTAATATAA
**
22701043 TTTAAATTATTAATATAA
1 TTTAAAAAATTAATATAA
*
22701061 TTTTTAAAAATATAATA
1 -TTTAAAAAAT-TAATA
22701078 AAACATATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 15 0.56
19 7 0.26
20 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAAAAAATTAATATAA
Found at i:22721301 original size:21 final size:21
Alignment explanation
Indices: 22721277--22721318 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22721267 TTTACTGGTG
*
22721277 ATTCTCCCAGGTTTAATACTA
1 ATTCTCCAAGGTTTAATACTA
22721298 ATTCTCCAAGGTTTAATACTA
1 ATTCTCCAAGGTTTAATACTA
22721319 GCTTCAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (21 bp):
ATTCTCCAAGGTTTAATACTA
Found at i:22725340 original size:12 final size:12
Alignment explanation
Indices: 22725317--22725379 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
22725307 ATATAATTTT
22725317 TTATTT-TTTAA
1 TTATTTATTTAA
22725328 TTATTTATTTAA
1 TTATTTATTTAA
22725340 TTATATATATTT-A
1 TTAT-T-TATTTAA
*
22725353 -TATATATTTAA
1 TTATTTATTTAA
22725364 TT-TTATATTTATA
1 TTATT-TATTTA-A
22725377 TTA
1 TTA
22725380 AAAAATAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
10 5 0.12
11 8 0.19
12 19 0.45
13 5 0.12
14 5 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATTTATTTAA
Found at i:22725361 original size:24 final size:22
Alignment explanation
Indices: 22725333--22725377 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
22725323 TTTAATTATT
22725333 TATTTAATTATATATATTTATATA
1 TATTTAATT-T-TATATTTATATA
22725357 TATTTAATTTTATATTTATAT
1 TATTTAATTTTATATTTATAT
22725378 TAAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.52
23 1 0.05
24 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTAATTTTATATTTATATA
Found at i:22725392 original size:19 final size:20
Alignment explanation
Indices: 22725368--22725419 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
22725358 ATTTAATTTT
22725368 ATATTTATATTAAAA-AATA
1 ATATTTATATTAAAACAATA
*
22725387 ATATTTTAAATTAAAACAATA
1 ATA-TTTATATTAAAACAATA
22725408 ATATTT-TATTAA
1 ATATTTATATTAA
22725420 TTTTAGGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 8 0.28
20 14 0.48
21 7 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATTTATATTAAAACAATA
Found at i:22725394 original size:20 final size:21
Alignment explanation
Indices: 22725371--22725416 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
22725361 TAATTTTATA
22725371 TTTATATTAAAA-AATAATAT
1 TTTATATTAAAACAATAATAT
*
22725391 TTTAAATTAAAACAATAATAT
1 TTTATATTAAAACAATAATAT
22725412 TTTAT
1 TTTAT
22725417 TAATTTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTATATTAAAACAATAATAT
Found at i:22741815 original size:2 final size:2
Alignment explanation
Indices: 22741799--22741835 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
22741789 CCAATAGAAA
22741799 AT AT -T AT AT -T AT AT AT AT CAT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
22741836 GATTGGCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 2 0.06
2 28 0.88
3 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:22742985 original size:3 final size:3
Alignment explanation
Indices: 22742979--22743006 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22742969 AATAATAAAA
22742979 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
22743007 CTATAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:22754912 original size:20 final size:20
Alignment explanation
Indices: 22754887--22754924 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22754877 TATTTATATA
22754887 ATATAAAATATTA-ATATTTT
1 ATATAAAA-ATTATATATTTT
22754907 ATATAAAAATTATATATT
1 ATATAAAAATTATATATT
22754925 ATAATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATAAAAATTATATATTTT
Found at i:22757442 original size:3 final size:3
Alignment explanation
Indices: 22757434--22757469 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
22757424 GTAGAATATT
22757434 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22757470 AACAAGTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22757515 original size:35 final size:37
Alignment explanation
Indices: 22757460--22757529 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 37
22757450 AATAATAATA
* *
22757460 ATAATAATAAAACAAGT-AAAATG-AAATAGAAAAAT
1 ATAAAAATAAAACAAATAAAAATGTAAATAGAAAAAT
* *
22757495 ATAAAAATAAAATAAATAAAAATGTAATTAGAAAA
1 ATAAAAATAAAACAAATAAAAATGTAAATAGAAAA
22757530 TAAAATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 14 0.48
36 6 0.21
37 9 0.31
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.21
Consensus pattern (37 bp):
ATAAAAATAAAACAAATAAAAATGTAAATAGAAAAAT
Found at i:22758341 original size:3 final size:3
Alignment explanation
Indices: 22758335--22758362 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22758325 TGATGATGAT
22758335 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
22758363 TGTAAACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:22758588 original size:17 final size:18
Alignment explanation
Indices: 22758567--22758618 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
22758557 AAAAATATAT
22758567 TTTAAATTTTTATTTTTA
1 TTTAAATTTTTATTTTTA
* **
22758585 -TTAAAATTTTAAATTTA
1 TTTAAATTTTTATTTTTA
**
22758602 TTTATCTTTTTATTTTT
1 TTTAAATTTTTATTTTT
22758619 TAATTTTATT
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTAAATTTTTATTTTTA
Found at i:22768450 original size:16 final size:20
Alignment explanation
Indices: 22768411--22768456 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 20
22768401 CAAAAAAAAG
22768411 TTTTTTATTTATTCGTTATA
1 TTTTTTATTTATTCGTTATA
22768431 TTTTTTATTT-TT-GTT-T-
1 TTTTTTATTTATTCGTTATA
22768447 TTTTTTATTT
1 TTTTTTATTT
22768457 CTCTTCACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.38
17 1 0.04
18 3 0.12
19 2 0.08
20 10 0.38
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (20 bp):
TTTTTTATTTATTCGTTATA
Found at i:22774484 original size:28 final size:29
Alignment explanation
Indices: 22774429--22774515 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
22774419 ACTTTCTCAC
*
22774429 TTTATTTAAATAAATTTTTAT-ATTTTTA
1 TTTATTTAAATAAATTTTTATAATTTTAA
22774457 TTATATTTAAATAAATTTTTA-AATTTTAA
1 TT-TATTTAAATAAATTTTTATAATTTTAA
* *
22774486 TTTATTCAAATAAATACTTTATAACTTTTA
1 TTTATTTAAATAAAT-TTTTATAA-TTTTA
22774516 CACACATATA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
28 14 0.27
29 30 0.59
30 2 0.04
31 5 0.10
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTATTTAAATAAATTTTTATAATTTTAA
Found at i:22774506 original size:29 final size:28
Alignment explanation
Indices: 22774429--22774500 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 28
22774419 ACTTTCTCAC
* *
22774429 TTTATTTAAATAAATTTTTATATTTTTA
1 TTTATTTAAATAAATTTTTAAATTTTAA
22774457 TTATATTTAAATAAATTTTTAAATTTTAA
1 TT-TATTTAAATAAATTTTTAAATTTTAA
*
22774486 TTTATTCAAATAAAT
1 TTTATTTAAATAAAT
22774501 ACTTTATAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.35
29 26 0.65
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTATTTAAATAAATTTTTAAATTTTAA
Found at i:22774747 original size:18 final size:17
Alignment explanation
Indices: 22774721--22774785 Score: 53
Period size: 18 Copynumber: 3.8 Consensus size: 17
22774711 TTATAAGTTG
*
22774721 ATTTTAATTGAATTAATT
1 ATTTAAATT-AATTAATT
*
22774739 ATTTAAATTGATTTAATTT
1 ATTTAAATT-AATTAA-TT
* *
22774758 AGTT-AATTAATTGATT
1 ATTTAAATTAATTAATT
22774774 A-TTAAATTAATT
1 ATTTAAATTAATT
22774786 TTAATTAGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 2 0.05
16 11 0.28
17 4 0.10
18 18 0.45
19 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
ATTTAAATTAATTAATT
Found at i:22774797 original size:22 final size:23
Alignment explanation
Indices: 22774764--22774811 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
22774754 ATTTAGTTAA
* *
22774764 TTAATTGATTAT-TAAATTAATT
1 TTAATTGATTATAAAAAATAATT
22774786 TTAATT-AGTTATAAAAAATAATT
1 TTAATTGA-TTATAAAAAATAATT
22774809 TTA
1 TTA
22774812 TATGAAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 1 0.05
22 10 0.45
23 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TTAATTGATTATAAAAAATAATT
Found at i:22777069 original size:28 final size:29
Alignment explanation
Indices: 22777018--22777078 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
22777008 CAAATTTCAT
* **
22777018 ATAAAAATTATATATTATAATTTTTATTA
1 ATAAAAATAATATAAAATAATTTTTATTA
*
22777047 ATAAAAATAATATAAAAT-ATTTTTATTT
1 ATAAAAATAATATAAAATAATTTTTATTA
22777075 ATAA
1 ATAA
22777079 TTTTTAACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
ATAAAAATAATATAAAATAATTTTTATTA
Found at i:22784513 original size:22 final size:21
Alignment explanation
Indices: 22784485--22784526 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22784475 TATTAGTATG
*
22784485 AATTTCATATAAAATTTAAATA
1 AATTTCACAT-AAATTTAAATA
*
22784507 AATTTCACATAATTTTAAAT
1 AATTTCACATAAATTTAAAT
22784527 TATAAGAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTTCACATAAATTTAAATA
Found at i:22800992 original size:12 final size:12
Alignment explanation
Indices: 22800975--22801000 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22800965 TACAAGTTTT
22800975 GAGCGAATTTAA
1 GAGCGAATTTAA
22800987 GAGCGAATTTAA
1 GAGCGAATTTAA
22800999 GA
1 GA
22801001 TAAATATAAA
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:0.42, C:0.08, G:0.27, T:0.23
Consensus pattern (12 bp):
GAGCGAATTTAA
Found at i:22805644 original size:5 final size:5
Alignment explanation
Indices: 22805634--22805674 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
22805624 GTAGTCTTAA
* *
22805634 TTATT TTATT TTATT TTATT TCATT TTGTT TT-TT TT-TT TTA
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTA
22805675 CTCCCATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
4 8 0.25
5 24 0.75
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:22811512 original size:22 final size:23
Alignment explanation
Indices: 22811481--22811525 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
22811471 TATTTTTTTC
*
22811481 AAATAATATTAATATAATTATTA
1 AAATAATATTAAAATAATTATTA
*
22811504 AAAT-ATATTAAAATTATTATTA
1 AAATAATATTAAAATAATTATTA
22811526 TTTAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATAATATTAAAATAATTATTA
Found at i:22811539 original size:17 final size:16
Alignment explanation
Indices: 22811513--22811560 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
22811503 AAAATATATT
*
22811513 AAAATTATTATTATTTA
1 AAAATAATTA-TATTTA
22811530 AAAATAATTATATTT-
1 AAAATAATTATATTTA
*
22811545 -TAATAATTATATTTA
1 AAAATAATTATATTTA
22811560 A
1 A
22811561 TATTAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 13 0.48
16 5 0.19
17 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAATAATTATATTTA
Found at i:22811587 original size:19 final size:20
Alignment explanation
Indices: 22811550--22811588 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
22811540 TATTTTAATA
* *
22811550 ATTATATTTAATATTAAAAT
1 ATTATATTTAACATAAAAAT
22811570 ATTATA-TTAACATAAAAAT
1 ATTATATTTAACATAAAAAT
22811589 GCTTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTATATTTAACATAAAAAT
Found at i:22811657 original size:23 final size:22
Alignment explanation
Indices: 22811618--22811760 Score: 81
Period size: 23 Copynumber: 6.0 Consensus size: 22
22811608 ATTATTCTTT
22811618 ATATTATTTTTAATATATTATA
1 ATATTATTTTTAATATATTATA
* * *
22811640 ATATTCTTTATTACTATATTATT
1 ATATTATTT-TTAATATATTATA
* * *
22811663 ATAATATTTACTAATTAAATTAATA
1 ATATTATTT-TTAA-TATATT-ATA
* *
22811688 ATATTTGTTATTGTATTATTTATTAATA
1 ATA-TTATT-TT-TA--ATATATT-ATA
*
22811716 TATTATTATTTATTAATATATTTTA
1 -A-TATTATTT-TTAATATATTATA
22811741 ATATTATTTTTAA-ATATTAT
1 ATATTATTTTTAATATATTAT
22811761 TATTAATATA
Statistics
Matches: 92, Mismatches: 18, Indels: 23
0.69 0.14 0.17
Matches are distributed among these distances:
21 6 0.07
22 12 0.13
23 29 0.32
24 6 0.07
25 7 0.08
26 9 0.10
27 3 0.03
28 11 0.12
29 7 0.08
30 2 0.02
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (22 bp):
ATATTATTTTTAATATATTATA
Found at i:22811724 original size:18 final size:18
Alignment explanation
Indices: 22811701--22811781 Score: 87
Period size: 18 Copynumber: 4.6 Consensus size: 18
22811691 TTTGTTATTG
*
22811701 TATTATTTATTAATATAT
1 TATTATTTATTAATATAA
22811719 TATTATTTATTAATAT-A
1 TATTATTTATTAATATAA
* **
22811736 TTTTAATATTATTTTTA-AA
1 TATT-AT-TTATTAATATAA
22811755 TATTA-TTATTAATATAA
1 TATTATTTATTAATATAA
22811772 TATTATTTAT
1 TATTATTTAT
22811782 AAGTAAAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
16 7 0.14
17 10 0.20
18 23 0.45
19 11 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTATTTATTAATATAA
Found at i:22811741 original size:10 final size:11
Alignment explanation
Indices: 22811728--22811769 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
22811718 TTATTATTTA
22811728 TTAATA-TATT
1 TTAATATTATT
22811738 TTAATATTATTT
1 TTAATATTA-TT
22811750 TTAAATATTATT
1 TT-AATATTATT
22811762 ATTAATAT
1 -TTAATAT
22811770 AATATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.21
11 2 0.07
12 11 0.39
13 9 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTAATATTATT
Found at i:22811920 original size:22 final size:23
Alignment explanation
Indices: 22811895--22811941 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
22811885 AAAATAATTT
22811895 TTATTTTTTATTAATCAAT-AAA
1 TTATTTTTTATTAATCAATCAAA
*
22811917 TTATTTTTTATTGATCAATCAAA
1 TTATTTTTTATTAATCAATCAAA
22811940 TT
1 TT
22811942 TTTATTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATTTTTTATTAATCAATCAAA
Found at i:22811946 original size:26 final size:25
Alignment explanation
Indices: 22811890--22811947 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 25
22811880 TTTAAAAAAT
22811890 AATTTTTATTTTTTATTAATCAATA
1 AATTTTTATTTTTTATTAATCAATA
*
22811915 AA---TTATTTTTTATTGATCAATCA
1 AATTTTTATTTTTTATTAATCAAT-A
22811938 AATTTTTATT
1 AATTTTTATT
22811948 AAACAAATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 18 0.64
23 3 0.11
25 2 0.07
26 5 0.18
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (25 bp):
AATTTTTATTTTTTATTAATCAATA
Found at i:22820614 original size:21 final size:20
Alignment explanation
Indices: 22820577--22820618 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
22820567 AAGTATTAAT
* *
22820577 TTTAATTTTTGTGATTAAAA
1 TTTAATTTTTATAATTAAAA
22820597 TTTAATTTTTAATAATTAAAA
1 TTTAATTTTT-ATAATTAAAA
22820618 T
1 T
22820619 CATTTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTAATTTTTATAATTAAAA
Found at i:22821356 original size:21 final size:22
Alignment explanation
Indices: 22821318--22821369 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
22821308 TCTGAAATTA
22821318 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
22821340 ATAAAATATTA-TTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
*
22821361 A-CAAATATT
1 ATAAAATATT
22821370 TAAATATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:22821366 original size:20 final size:20
Alignment explanation
Indices: 22821317--22821369 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 20
22821307 ATCTGAAATT
22821317 AATAAAATATTATTTTTTAAA
1 AATAAAATATTATTTTTT-AA
22821338 ATATAAAATATTA-TTTTTAA
1 A-ATAAAATATTATTTTTTAA
22821358 AATACAAATATT
1 AATA-AAATATT
22821370 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.10
20 10 0.33
21 6 0.20
22 11 0.37
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAAAATATTATTTTTTAA
Found at i:22821798 original size:4 final size:4
Alignment explanation
Indices: 22821781--22821811 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
22821771 TGTGAAACAC
*
22821781 AAAT AAAC AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
22821812 GAGACGTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:22822480 original size:17 final size:17
Alignment explanation
Indices: 22822458--22822494 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
22822448 AAACCTTATA
22822458 ATTTTATATTCATTTTG
1 ATTTTATATTCATTTTG
22822475 ATTTTATATTCATTTTG
1 ATTTTATATTCATTTTG
22822492 ATT
1 ATT
22822495 AATCAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (17 bp):
ATTTTATATTCATTTTG
Found at i:22836821 original size:22 final size:22
Alignment explanation
Indices: 22836781--22836822 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
22836771 TGTATATTTA
*
22836781 TATTTGTATCTCCAGAATTAAG
1 TATTTGTATCTCCAAAATTAAG
22836803 TATTTGTATC-CCTAAAATTA
1 TATTTGTATCTCC-AAAATTA
22836823 GGATAGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (22 bp):
TATTTGTATCTCCAAAATTAAG
Found at i:22840772 original size:22 final size:22
Alignment explanation
Indices: 22840746--22840787 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22840736 TGTATATTTA
* *
22840746 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
22840768 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
22840788 GGATAGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:22844523 original size:21 final size:21
Alignment explanation
Indices: 22844497--22844536 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22844487 GAGATGATCG
*
22844497 TCGTCC-TCGGAGGAGAAGAGA
1 TCGTCCATC-GAGAAGAAGAGA
22844518 TCGTCCATCGAGAAGAAGA
1 TCGTCCATCGAGAAGAAGA
22844537 ATAAGGCGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.33, C:0.20, G:0.33, T:0.15
Consensus pattern (21 bp):
TCGTCCATCGAGAAGAAGAGA
Found at i:22850558 original size:2 final size:2
Alignment explanation
Indices: 22850551--22850575 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22850541 GCAATATCCC
22850551 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22850576 TCTTCTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22851677 original size:4 final size:4
Alignment explanation
Indices: 22851668--22851700 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
22851658 ACCTCGTTAG
22851668 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
22851701 ATATTACCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:22861784 original size:35 final size:35
Alignment explanation
Indices: 22861703--22861784 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
22861693 AAACAAAATT
* * **
22861703 AGCAGTAGTAGCATTTTACATTTTAAGAGAATACA
1 AGCACTAGTAGTATTTTACATTCCAAGAGAATACA
*
22861738 AGCACTAGTAGTATTTTACA-TCCAAGCAGAATAGA
1 AGCACTAGTAGTATTTTACATTCCAAG-AGAATACA
22861773 AGCACTAGTAGT
1 AGCACTAGTAGT
22861785 GGTCCAAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
34 4 0.10
35 37 0.90
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (35 bp):
AGCACTAGTAGTATTTTACATTCCAAGAGAATACA
Found at i:22861804 original size:35 final size:35
Alignment explanation
Indices: 22861729--22861808 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
22861719 TACATTTTAA
* ** *
22861729 GAGAATACAAGCACTAGTAGTATTTTACATCCAAG
1 GAGAATACAAGCACTAGTAGTAGTCCAAATCCAAG
* * * *
22861764 CAGAATAGAAGCACTAGTAGTGGTCCAAATCCTAG
1 GAGAATACAAGCACTAGTAGTAGTCCAAATCCAAG
22861799 GAGAATACAA
1 GAGAATACAA
22861809 CAGCATCTGC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.21
Consensus pattern (35 bp):
GAGAATACAAGCACTAGTAGTAGTCCAAATCCAAG
Found at i:22864624 original size:28 final size:27
Alignment explanation
Indices: 22864584--22864646 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
22864574 TGAATTTTAT
22864584 TATATAATAAATTAATAAAATTTATTAC
1 TATATAATAAATTAA-AAAATTTATTAC
* *
22864612 TATATTAA-AAATTAAAAATTTTATTAT
1 TATA-TAATAAATTAAAAAATTTATTAC
*
22864639 TTTATAAT
1 TATATAAT
22864647 TTTAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 3 0.10
27 13 0.43
28 11 0.37
29 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TATATAATAAATTAAAAAATTTATTAC
Done.