Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 88 of 103
Found at i:32482689 original size:2 final size:2
Alignment explanation
Indices: 32482682--32482715 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
32482672 CAAGTAAGAA
32482682 AT AT 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 AT AT
32482716 TAACATCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32484350 original size:114 final size:115
Alignment explanation
Indices: 32484146--32484364 Score: 287
Period size: 114 Copynumber: 1.9 Consensus size: 115
32484136 CACGCTATGA
* * * ** *
32484146 TGTTACACGCTATGTACAAAAATATGTGACACGTCATGTACAAAAACTTATGACAAGTTATGGTT
1 TGTTACACGCTATGTACAAAAATATATGACACGTCACGTACAAAAACTTATAACAAGCCATGATT
** * *
32484211 AATTTGTTACACATTATGTA-TAAAAACCTGTGACAAGCCGTGGTTAGCG
66 AACGTGTTACACATTATGTACAAAAAACATGTGACAAGCCGTGGTTAGCG
* * *
32484260 TGTTACACGCTATGTACAAAAATATATGACACGTTACGTACAAAAACTTGTAACAAGCCGTGATT
1 TGTTACACGCTATGTACAAAAATATATGACACGTCACGTACAAAAACTTATAACAAGCCATGATT
* * *
32484325 AGCGTGTTACACGTTATGTACAAAAAATATGTGACAAGCC
66 AACGTGTTACACATTATGTACAAAAAACATGTGACAAGCC
32484365 AAGTACAAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
114 72 0.82
115 16 0.18
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.29
Consensus pattern (115 bp):
TGTTACACGCTATGTACAAAAATATATGACACGTCACGTACAAAAACTTATAACAAGCCATGATT
AACGTGTTACACATTATGTACAAAAAACATGTGACAAGCCGTGGTTAGCG
Found at i:32484397 original size:70 final size:69
Alignment explanation
Indices: 32484251--32484420 Score: 169
Period size: 70 Copynumber: 2.4 Consensus size: 69
32484241 TGACAAGCCG
* ** * *
32484251 TGGTTAGCGTGTTACACGCTATGTACAAAAATATATGACACGTTACGTACAAAAACTTGTAACAA
1 TGGTTAGCGTGTTACACGCTATGTACAAAAATATATGACAAGCCAAGTACAAAAACTCGTAACAA
* *
32484316 GCCG
66 ACCA
* * * * *
32484320 TGATTAGCGTGTTACACGTTATGTACAAAAAATATGTGACAAGCCAAGTACAAAATCTCGTGACA
1 TGGTTAGCGTGTTACACGCTATGTAC-AAAAATATATGACAAGCCAAGTACAAAAACTCGTAACA
**
32484385 AATTA
65 AACCA
* * * *
32484390 TGGTTAGCTTGTTATATGCCATGTACAAAAA
1 TGGTTAGCGTGTTACACGCTATGTACAAAAA
32484421 CTCGTGACAA
Statistics
Matches: 80, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
69 29 0.36
70 51 0.64
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.28
Consensus pattern (69 bp):
TGGTTAGCGTGTTACACGCTATGTACAAAAATATATGACAAGCCAAGTACAAAAACTCGTAACAA
ACCA
Found at i:32484418 original size:45 final size:45
Alignment explanation
Indices: 32484362--32484448 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
32484352 TATGTGACAA
* *
32484362 GCCAAGTACAAAATCTCGTGACAAATTATGGTTAGCTTGTTATAT
1 GCCAAGTACAAAAACTCGTGACAAATTAAGGTTAGCTTGTTATAT
* * *
32484407 GCCATGTACAAAAACTCGTGACAAGTTAAGGTTAGGTTGTTA
1 GCCAAGTACAAAAACTCGTGACAAATTAAGGTTAGCTTGTTA
32484449 CACGTCATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (45 bp):
GCCAAGTACAAAAACTCGTGACAAATTAAGGTTAGCTTGTTATAT
Found at i:32484465 original size:45 final size:45
Alignment explanation
Indices: 32484362--32484458 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 45
32484352 TATGTGACAA
* * * * *
32484362 GCCAAGTACAAAATCTCGTGACAAATTATGGTTAGCTTGTTATAT
1 GCCATGTACAAAAACTCGTGACAAATTAAGGTTAGCTTGTTACAC
* *
32484407 GCCATGTACAAAAACTCGTGACAAGTTAAGGTTAGGTTGTTACAC
1 GCCATGTACAAAAACTCGTGACAAATTAAGGTTAGCTTGTTACAC
*
32484452 GTCATGT
1 GCCATGT
32484459 TGAAAAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (45 bp):
GCCATGTACAAAAACTCGTGACAAATTAAGGTTAGCTTGTTACAC
Found at i:32484576 original size:29 final size:30
Alignment explanation
Indices: 32484527--32484594 Score: 102
Period size: 29 Copynumber: 2.2 Consensus size: 30
32484517 AAAAAGGTTA
*
32484527 TTACACGTCATGTTGAAAAAAAAATATTGTTG
1 TTACACGTCATGTT--AAAAAAAATATTATTG
32484559 TTACACGTCATGTT-AAAAAAATATTATTG
1 TTACACGTCATGTTAAAAAAAATATTATTG
32484588 TTACACG
1 TTACACG
32484595 ACATATTCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 21 0.60
32 14 0.40
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (30 bp):
TTACACGTCATGTTAAAAAAAATATTATTG
Found at i:32484617 original size:27 final size:29
Alignment explanation
Indices: 32484544--32484607 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
32484534 TCATGTTGAA
* * *
32484544 AAAAAAATATTGTTGTTACACGTCATGTT
1 AAAAAAATATTATTGTTACACGACATATT
32484573 AAAAAAATATTATTGTTACACGACATATT
1 AAAAAAATATTATTGTTACACGACATATT
*
32484602 CAAAAA
1 AAAAAA
32484608 CATTTTGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (29 bp):
AAAAAAATATTATTGTTACACGACATATT
Found at i:32499115 original size:11 final size:11
Alignment explanation
Indices: 32499099--32499124 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32499089 TAATAATTTT
32499099 ATTTTTTATTA
1 ATTTTTTATTA
32499110 ATTTTTTATTA
1 ATTTTTTATTA
32499121 ATTT
1 ATTT
32499125 AAAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTTTTATTA
Found at i:32499883 original size:53 final size:53
Alignment explanation
Indices: 32499805--32499908 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
32499795 CAACCCCAAG
*
32499805 TGCTCTGTTCTTTTCGAAGTCAACGTCTAATTTTCCTTGCATCTTTCTCTCTC
1 TGCTCTGTTCTTTTCCAAGTCAACGTCTAATTTTCCTTGCATCTTTCTCTCTC
*
32499858 TGCTCTGTTCTTTTCCAAGTGAACGTCTAATTTTCCTTGCATCTTTCTCTC
1 TGCTCTGTTCTTTTCCAAGTCAACGTCTAATTTTCCTTGCATCTTTCTCTC
32499909 ACTTTCTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.13, C:0.28, G:0.12, T:0.47
Consensus pattern (53 bp):
TGCTCTGTTCTTTTCCAAGTCAACGTCTAATTTTCCTTGCATCTTTCTCTCTC
Found at i:32507883 original size:67 final size:67
Alignment explanation
Indices: 32507804--32507936 Score: 248
Period size: 67 Copynumber: 2.0 Consensus size: 67
32507794 GAACCATGGT
* *
32507804 TTTATCCATCTAATTATTTGTGGGGGCTTAGAATAATGGATTGGGAATTCTATGTTCCACAGTTT
1 TTTATCCATCTAATTATCTATGGGGGCTTAGAATAATGGATTGGGAATTCTATGTTCCACAGTTT
32507869 TC
66 TC
32507871 TTTATCCATCTAATTATCTATGGGGGCTTAGAATAATGGATTGGGAATTCTATGTTCCACAGTTT
1 TTTATCCATCTAATTATCTATGGGGGCTTAGAATAATGGATTGGGAATTCTATGTTCCACAGTTT
32507936 T
66 T
32507937 GCTATTTGCA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (67 bp):
TTTATCCATCTAATTATCTATGGGGGCTTAGAATAATGGATTGGGAATTCTATGTTCCACAGTTT
TC
Found at i:32509359 original size:18 final size:18
Alignment explanation
Indices: 32509336--32509373 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32509326 TTGGTAAATG
32509336 TTCTCTCTCCCTCTCTCT
1 TTCTCTCTCCCTCTCTCT
* *
32509354 TTCTCTGTCTCTCTCTCT
1 TTCTCTCTCCCTCTCTCT
32509372 TT
1 TT
32509374 TATAGAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.42, G:0.03, T:0.55
Consensus pattern (18 bp):
TTCTCTCTCCCTCTCTCT
Found at i:32523545 original size:19 final size:19
Alignment explanation
Indices: 32523521--32523557 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
32523511 ACATGAAACC
*
32523521 TTCCATTATGCTAGGGAAA
1 TTCCATTATGCCAGGGAAA
32523540 TTCCATTATGCCAGGGAA
1 TTCCATTATGCCAGGGAA
32523558 GGATGAGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (19 bp):
TTCCATTATGCCAGGGAAA
Found at i:32527868 original size:24 final size:24
Alignment explanation
Indices: 32527836--32527884 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
32527826 TTATGTTACA
32527836 TAGTTTCACCTTGTTTTCTTTGCT
1 TAGTTTCACCTTGTTTTCTTTGCT
32527860 TAGTTTCACCTTGTTTTCTTTGCT
1 TAGTTTCACCTTGTTTTCTTTGCT
32527884 T
1 T
32527885 TTTACTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.08, C:0.20, G:0.12, T:0.59
Consensus pattern (24 bp):
TAGTTTCACCTTGTTTTCTTTGCT
Found at i:32533942 original size:2 final size:2
Alignment explanation
Indices: 32533930--32533964 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
32533920 TATGGCCACG
* *
32533930 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32533965 TAGGAGGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32541378 original size:70 final size:70
Alignment explanation
Indices: 32541296--32541438 Score: 286
Period size: 70 Copynumber: 2.0 Consensus size: 70
32541286 AGAAAGAAGA
32541296 AAATCATAAACACCTAACAATAAAAAGGAACAAAATGCCATTTCACTCAACATAGTGAAAGTTTT
1 AAATCATAAACACCTAACAATAAAAAGGAACAAAATGCCATTTCACTCAACATAGTGAAAGTTTT
32541361 ACCTG
66 ACCTG
32541366 AAATCATAAACACCTAACAATAAAAAGGAACAAAATGCCATTTCACTCAACATAGTGAAAGTTTT
1 AAATCATAAACACCTAACAATAAAAAGGAACAAAATGCCATTTCACTCAACATAGTGAAAGTTTT
32541431 ACCTG
66 ACCTG
32541436 AAA
1 AAA
32541439 CGGTTGCACC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (70 bp):
AAATCATAAACACCTAACAATAAAAAGGAACAAAATGCCATTTCACTCAACATAGTGAAAGTTTT
ACCTG
Found at i:32544172 original size:17 final size:18
Alignment explanation
Indices: 32544139--32544172 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32544129 AAGATTTTTC
*
32544139 AAAAATCTCAATGTAATT
1 AAAAATATCAATGTAATT
32544157 AAAAATATCAAT-TAAT
1 AAAAATATCAATGTAAT
32544173 GTTTTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAAATATCAATGTAATT
Found at i:32550375 original size:2 final size:2
Alignment explanation
Indices: 32550368--32550394 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32550358 CGAAAAACAC
32550368 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
32550395 ACAAAGTTGA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32550672 original size:13 final size:13
Alignment explanation
Indices: 32550654--32550678 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32550644 CACTACATGC
32550654 GGGGGGGGGAGGG
1 GGGGGGGGGAGGG
32550667 GGGGGGGGGAGG
1 GGGGGGGGGAGG
32550679 TGAAGAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.92, T:0.00
Consensus pattern (13 bp):
GGGGGGGGGAGGG
Found at i:32560405 original size:22 final size:22
Alignment explanation
Indices: 32560318--32560409 Score: 60
Period size: 22 Copynumber: 4.0 Consensus size: 22
32560308 TTTTAATATC
* **
32560318 TAAAATTTTATTACATTAAAACCA
1 TAAAATTCTATT-CA-TAAAAAAA
*
32560342 TAAAATTTCCATTTCATAAAAAAA
1 TAAAA-TTCTA-TTCATAAAAAAA
* *
32560366 TAAAATTCTAAT-ATTAAATAAA
1 TAAAATTCTATTCA-TAAAAAAA
* *
32560388 TTAAATTTTATTCATAAAAAAA
1 TAAAATTCTATTCATAAAAAAA
32560410 AGGTACATAA
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
21 1 0.02
22 24 0.45
23 5 0.09
24 16 0.30
25 5 0.09
26 2 0.04
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAAATTCTATTCATAAAAAAA
Found at i:32562915 original size:33 final size:32
Alignment explanation
Indices: 32562849--32562915 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
32562839 TTGAGAATTT
*
32562849 AATATTTTCTATTATTTGGATAAATTATCAAA
1 AATATTTTCTATTATTTGGATAAATTATAAAA
* *
32562881 AATATTTTTTATTATTTGGATCATATTATAAAA
1 AATATTTTCTATTATTTGGAT-AAATTATAAAA
32562914 AA
1 AA
32562916 CTTTTTAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 20 0.65
33 11 0.35
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (32 bp):
AATATTTTCTATTATTTGGATAAATTATAAAA
Found at i:32562948 original size:15 final size:14
Alignment explanation
Indices: 32562928--32562982 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
32562918 TTTTAGTAAC
32562928 ATTATAAAAAATCAT
1 ATTATAAAAAAT-AT
32562943 ATTAT-AAAAATATT
1 ATTATAAAAAATA-T
* *
32562957 TTTTTAAAAAA-AT
1 ATTATAAAAAATAT
32562970 ATTATAAAAAATA
1 ATTATAAAAAATA
32562983 GACACTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
13 11 0.33
14 12 0.36
15 10 0.30
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (14 bp):
ATTATAAAAAATAT
Found at i:32565878 original size:25 final size:25
Alignment explanation
Indices: 32565850--32565902 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
32565840 TCGTTTAACC
32565850 AATCAAATGGGTTTATTTATTGTTG
1 AATCAAATGGGTTTATTTATTGTTG
32565875 AATCAAATGGGTTTATTTATTGTTG
1 AATCAAATGGGTTTATTTATTGTTG
32565900 AAT
1 AAT
32565903 GCGTAGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.47
Consensus pattern (25 bp):
AATCAAATGGGTTTATTTATTGTTG
Found at i:32566464 original size:16 final size:15
Alignment explanation
Indices: 32566443--32566495 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
32566433 TTAATAACAC
32566443 TATAAAAATATCATAT
1 TATAAAAATAT-ATAT
* *
32566459 TATAAAAATATTTTT
1 TATAAAAATATATAT
32566474 TATAAAAATAT-TA-
1 TATAAAAATATATAT
32566487 TA-AAAAATA
1 TATAAAAATA
32566496 GACAATAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.21
13 2 0.06
14 1 0.03
15 13 0.38
16 11 0.32
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
TATAAAAATATATAT
Found at i:32566476 original size:15 final size:15
Alignment explanation
Indices: 32566443--32566485 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
32566433 TTAATAACAC
*
32566443 TATAAAAATATCATAT
1 TATAAAAATAT-TTAT
*
32566459 TATAAAAATATTTTT
1 TATAAAAATATTTAT
32566474 TATAAAAATATT
1 TATAAAAATATT
32566486 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAAAAATATTTAT
Found at i:32576019 original size:56 final size:56
Alignment explanation
Indices: 32575952--32576062 Score: 222
Period size: 56 Copynumber: 2.0 Consensus size: 56
32575942 TTAGTTCAAG
32575952 GGACTGAGTACAATGAAATTAAATGAATACTCCATGGTTTAGAATGTCTGAAAACT
1 GGACTGAGTACAATGAAATTAAATGAATACTCCATGGTTTAGAATGTCTGAAAACT
32576008 GGACTGAGTACAATGAAATTAAATGAATACTCCATGGTTTAGAATGTCTGAAAAC
1 GGACTGAGTACAATGAAATTAAATGAATACTCCATGGTTTAGAATGTCTGAAAAC
32576063 CCATATTAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (56 bp):
GGACTGAGTACAATGAAATTAAATGAATACTCCATGGTTTAGAATGTCTGAAAACT
Found at i:32577964 original size:25 final size:26
Alignment explanation
Indices: 32577918--32577973 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
32577908 ACACTAAATT
* *
32577918 ATAAACAAGTAAAAATTAAAAATAT-A
1 ATAAACAAGAAAAAAATAAAAA-ATGA
*
32577944 ATAAACAA-AAAAAAATGAAAAATGA
1 ATAAACAAGAAAAAAATAAAAAATGA
32577969 ATAAA
1 ATAAA
32577974 TGAAAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 2 0.08
25 16 0.62
26 8 0.31
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.18
Consensus pattern (26 bp):
ATAAACAAGAAAAAAATAAAAAATGA
Found at i:32577966 original size:7 final size:7
Alignment explanation
Indices: 32577954--32577983 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
32577944 ATAAACAAAA
32577954 AAAAATG
1 AAAAATG
32577961 AAAAATG
1 AAAAATG
32577968 AATAAATG
1 AA-AAATG
32577976 AAAAATG
1 AAAAATG
32577983 A
1 A
32577984 TGAAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (7 bp):
AAAAATG
Found at i:32577980 original size:26 final size:26
Alignment explanation
Indices: 32577918--32577973 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
32577908 ACACTAAATT
** * *
32577918 ATAAACAAGTAAAAATTAAAAATATA
1 ATAAACAAAAAAAAATGAAAAATAGA
32577944 ATAAACAAAAAAAAATGAAAAAT-GA
1 ATAAACAAAAAAAAATGAAAAATAGA
32577969 ATAAA
1 ATAAA
32577974 TGAAAAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.18
Consensus pattern (26 bp):
ATAAACAAAAAAAAATGAAAAATAGA
Found at i:32583237 original size:13 final size:13
Alignment explanation
Indices: 32583219--32583244 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32583209 GTTAATCCTA
32583219 TTTTTTTCCTTTT
1 TTTTTTTCCTTTT
32583232 TTTTTTTCCTTTT
1 TTTTTTTCCTTTT
32583245 CTTTGCTGTG
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTCCTTTT
Found at i:32593979 original size:35 final size:34
Alignment explanation
Indices: 32593940--32594009 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 34
32593930 AATTCTCAAA
32593940 TATAAATTGTAGTGTTGCACTATTACTTAGAATT
1 TATAAATTGTAGTGTTGCACTATTACTTAGAATT
* *
32593974 NTATAAGTTGTAGTGTTGCACTGTTACTTAGAATT
1 -TATAAATTGTAGTGTTGCACTATTACTTAGAATT
32594009 T
1 T
32594010 CATCAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.44
Consensus pattern (34 bp):
TATAAATTGTAGTGTTGCACTATTACTTAGAATT
Found at i:32594425 original size:41 final size:41
Alignment explanation
Indices: 32594346--32594426 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
32594336 AATTTAAGCA
* * *
32594346 TATCATAACATATTATATCTTAACAATTCAACATAATAACT
1 TATCATAAAATATTATATCTCAACAATTCAACACAATAACT
* * *
32594387 TATCATAAAATATTATATCTCAATAGTTCATCACAATAAC
1 TATCATAAAATATTATATCTCAACAATTCAACACAATAAC
32594427 CAAATTTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (41 bp):
TATCATAAAATATTATATCTCAACAATTCAACACAATAACT
Found at i:32594624 original size:2 final size:2
Alignment explanation
Indices: 32594612--32594660 Score: 75
Period size: 2 Copynumber: 25.0 Consensus size: 2
32594602 TCTATTTGTC
32594612 AT AT A- AT AT AT AT AT AT AT AT AT -T 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 AT AT
32594652 AT AT GAT AT
1 AT AT -AT AT
32594661 CACCATTACT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.05
2 40 0.91
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32594639 original size:19 final size:19
Alignment explanation
Indices: 32594612--32594654 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
32594602 TCTATTTGTC
32594612 ATATAATATATATATATAT
1 ATATAATATATATATATAT
*
32594631 ATATTATATATATATATAT
1 ATATAATATATATATATAT
32594650 ATATA
1 ATATA
32594655 TGATATCACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATAATATATATATATAT
Found at i:32594643 original size:21 final size:21
Alignment explanation
Indices: 32594617--32594660 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
32594607 TTGTCATATA
*
32594617 ATATATATATATATATATTAT
1 ATATATATATATATATATGAT
32594638 ATATATATATATATATATGAT
1 ATATATATATATATATATGAT
32594659 AT
1 AT
32594661 CACCATTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATATATATATATATATATGAT
Found at i:32594660 original size:19 final size:18
Alignment explanation
Indices: 32594612--32594660 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
32594602 TCTATTTGTC
32594612 ATATA-ATATATATATAT
1 ATATATATATATATATAT
32594629 ATATAT-TATATATATAT
1 ATATATATATATATATAT
32594646 ATATATATATGATAT
1 ATATATATAT-ATAT
32594661 CACCATTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 22 0.76
18 3 0.10
19 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATATATATATATATAT
Found at i:32614715 original size:15 final size:15
Alignment explanation
Indices: 32614695--32614726 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32614685 TAATGTTATA
32614695 ATTAAAATAAAAAAT
1 ATTAAAATAAAAAAT
*
32614710 ATTAAAATAAAATAT
1 ATTAAAATAAAAAAT
32614725 AT
1 AT
32614727 AATATAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTAAAATAAAAAAT
Found at i:32614730 original size:20 final size:21
Alignment explanation
Indices: 32614683--32614731 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
32614673 AAAAATATTT
* *
32614683 TATAATGTTATAATTAAAATA
1 TATAATATTATAAATAAAATA
* *
32614704 AAAAATATTA-AAATAAAATA
1 TATAATATTATAAATAAAATA
32614724 TATAATAT
1 TATAATAT
32614732 AAGAATTAGA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
TATAATATTATAAATAAAATA
Found at i:32614749 original size:33 final size:32
Alignment explanation
Indices: 32614712--32614845 Score: 114
Period size: 33 Copynumber: 4.1 Consensus size: 32
32614702 TAAAAAATAT
32614712 TAAAATAAAATATATAATATAAGAATTAGAAAA
1 TAAAATAAAATATATAATATAAGAATTA-AAAA
*
32614745 TAAAATAAAATATATATAATATAAGTAA--AAAAT
1 TAAAAT-AAA-ATATATAATATAAG-AATTAAAAA
* * *
32614778 TAAAATAAACTATATAATGTAAAAATTATATTAAA
1 TAAAATAAAATATATAATATAAGAATTA-A--AAA
* *
32614813 -AAAATAAAA-ATAAAATATATGACATTAAAAA
1 TAAAATAAAATATATAATATAAGA-ATTAAAAA
32614844 TA
1 TA
32614846 TATGTAAGAG
Statistics
Matches: 81, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
30 2 0.02
31 14 0.17
32 5 0.06
33 26 0.32
34 16 0.20
35 16 0.20
36 2 0.02
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (32 bp):
TAAAATAAAATATATAATATAAGAATTAAAAA
Found at i:32614815 original size:40 final size:40
Alignment explanation
Indices: 32614771--32614848 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 40
32614761 TAATATAAGT
* *
32614771 AAAAAATTAAAATAAACTATAT-A-ATGTAAAAATTATATTA
1 AAAAAATAAAAATAAAATATATGACAT-TAAAAA-TATATTA
32614811 AAAAAATAAAAATAAAATATATGACATTAAAAATATAT
1 AAAAAATAAAAATAAAATATATGACATTAAAAATATAT
32614849 GTAAGAGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 25 0.74
41 7 0.21
42 2 0.06
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (40 bp):
AAAAAATAAAAATAAAATATATGACATTAAAAATATATTA
Found at i:32615355 original size:21 final size:20
Alignment explanation
Indices: 32615323--32615379 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
32615313 CCCCAACTCA
* *
32615323 AAGGAAGTAACTTTGCATTCC
1 AAGGAAGCAACTTTACATT-C
*
32615344 AAGGACGCAACTTTTACATTC
1 AAGGAAGCAAC-TTTACATTC
32615365 AAGGAAGCAACTTTA
1 AAGGAAGCAACTTTA
32615380 ATTTCAGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 4 0.13
21 20 0.65
22 7 0.23
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (20 bp):
AAGGAAGCAACTTTACATTC
Found at i:32621678 original size:35 final size:35
Alignment explanation
Indices: 32621639--32621709 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
32621629 GAAACAAAAG
32621639 TTAATTGTTATGAACATGAATTTATCTACACTTTT
1 TTAATTGTTATGAACATGAATTTATCTACACTTTT
32621674 TTAATTGTTATGAACATGAATTTATCTACACTTTT
1 TTAATTGTTATGAACATGAATTTATCTACACTTTT
32621709 T
1 T
32621710 ACATGCACAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.49
Consensus pattern (35 bp):
TTAATTGTTATGAACATGAATTTATCTACACTTTT
Found at i:32621992 original size:2 final size:2
Alignment explanation
Indices: 32621985--32622010 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32621975 GGAAGAAGGC
32621985 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
32622011 CAACACAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32637891 original size:2 final size:2
Alignment explanation
Indices: 32637884--32637938 Score: 58
Period size: 2 Copynumber: 27.0 Consensus size: 2
32637874 AAAATCATGT
** *
32637884 AG AG AG AG AG AG AG AG AG AG AG ACG -G CN TG TAG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG A-G AG AG AG -AG AG AG AG AG AG
32637927 AG AG AG AG AG AG
1 AG AG AG AG AG AG
32637939 GCCATTTTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
1 1 0.02
2 43 0.93
3 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.47, T:0.04
Consensus pattern (2 bp):
AG
Found at i:32640111 original size:3 final size:3
Alignment explanation
Indices: 32640103--32640129 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32640093 ATTTAGATTC
32640103 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
32640130 ACTGTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:32648434 original size:15 final size:15
Alignment explanation
Indices: 32648411--32648440 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32648401 AAGTTATCAT
*
32648411 TTTTTAAAATTTTTA
1 TTTTAAAAATTTTTA
32648426 TTTTAAAAATTTTTA
1 TTTTAAAAATTTTTA
32648441 AAAAAATTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTAAAAATTTTTA
Found at i:32651535 original size:2 final size:2
Alignment explanation
Indices: 32651528--32651552 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32651518 CTGATATTTC
32651528 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
32651553 TTTAACATAT
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:32655726 original size:78 final size:77
Alignment explanation
Indices: 32655597--32655751 Score: 265
Period size: 78 Copynumber: 2.0 Consensus size: 77
32655587 AGTTTTTATG
* * *
32655597 ATATTTAAAAATTGTGATTAAAACACTTGAGGTATTTGGTTTAACGATAAAATATATGTACTTTC
1 ATATTCAAAAATTGTGATTAAAACACTTAAGGTATTTGGTTTAACGATAAAATATATGAACTTTC
32655662 AATTCAACAAAAT
66 AATTCAA-AAAAT
*
32655675 ATATTCAAAAATTGTGATTAAAACACTTAAGGTATTTGGTTTAATGATAAAATATATGAACTTTC
1 ATATTCAAAAATTGTGATTAAAACACTTAAGGTATTTGGTTTAACGATAAAATATATGAACTTTC
32655740 AATTCAAAAAAT
66 AATTCAAAAAAT
32655752 TAAAGGTTAA
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 5 0.07
78 68 0.93
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (77 bp):
ATATTCAAAAATTGTGATTAAAACACTTAAGGTATTTGGTTTAACGATAAAATATATGAACTTTC
AATTCAAAAAAT
Found at i:32659585 original size:10 final size:10
Alignment explanation
Indices: 32659570--32659699 Score: 137
Period size: 10 Copynumber: 13.6 Consensus size: 10
32659560 TCAAATGGGC
32659570 ATATATGTAT
1 ATATATGTAT
*
32659580 ATATA--TAC
1 ATATATGTAT
*
32659588 ATATATATAT
1 ATATATGTAT
*
32659598 ATATATATAT
1 ATATATGTAT
* *
32659608 TTATATATAT
1 ATATATGTAT
*
32659618 ATATATATAT
1 ATATATGTAT
*
32659628 GTATATGTAT
1 ATATATGTAT
32659638 ATATATGTAT
1 ATATATGTAT
32659648 ATATA--TAT
1 ATATATGTAT
*
32659656 GTATATGTAT
1 ATATATGTAT
32659666 ATATATGTAT
1 ATATATGTAT
32659676 ATATA--TAT
1 ATATATGTAT
*
32659684 GTATATGTAT
1 ATATATGTAT
32659694 ATATAT
1 ATATAT
32659700 TTCATCAAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
8 21 0.20
10 82 0.80
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (10 bp):
ATATATGTAT
Found at i:32659586 original size:6 final size:6
Alignment explanation
Indices: 32659570--32659699 Score: 161
Period size: 6 Copynumber: 21.7 Consensus size: 6
32659560 TCAAATGGGC
* * *
32659570 ATATAT GTATAT ATATAC ATATAT ATATAT ATATAT ATTTAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * *
32659618 ATATAT ATATGT ATATGT ATATAT ATGTAT ATATAT ATGTAT ATGTAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * *
32659666 ATATAT GTATAT ATATAT GTATAT GTATAT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
32659700 TTCATCAAAA
Statistics
Matches: 108, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 108 1.00
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:32659612 original size:28 final size:28
Alignment explanation
Indices: 32659570--32659699 Score: 196
Period size: 28 Copynumber: 4.8 Consensus size: 28
32659560 TCAAATGGGC
*
32659570 ATATATGTATA--TATATACATATATAT
1 ATATATGTATATGTATATATATATATAT
*
32659596 ATATATATATAT-T-TATATATATATAT
1 ATATATGTATATGTATATATATATATAT
*
32659622 ATATATGTATATGTATATATATGTATAT
1 ATATATGTATATGTATATATATATATAT
*
32659650 ATATATGTATATGTATATATATGTATAT
1 ATATATGTATATGTATATATATATATAT
32659678 ATATATGTATATGTATATATAT
1 ATATATGTATATGTATATATAT
32659700 TTCATCAAAA
Statistics
Matches: 97, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
26 33 0.34
27 2 0.02
28 62 0.64
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (28 bp):
ATATATGTATATGTATATATATATATAT
Found at i:32664034 original size:2 final size:2
Alignment explanation
Indices: 32664027--32664074 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
32664017 ATGATTGGCT
32664027 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32664069 TA TA TA
1 TA TA TA
32664075 AACAAAGTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32667898 original size:2 final size:2
Alignment explanation
Indices: 32667891--32667926 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
32667881 GCTACTTTTC
32667891 AT AT AT 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 AT AT AT
32667927 TNNNNNNNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32668049 original size:2 final size:2
Alignment explanation
Indices: 32668042--32668079 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
32668032 CTTATTTCCG
32668042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32668080 AAGTTTTACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32684076 original size:362 final size:362
Alignment explanation
Indices: 32683410--32684136 Score: 980
Period size: 362 Copynumber: 2.0 Consensus size: 362
32683400 GCTTTTTAAT
**
32683410 CTTAAAAGTCTTCATATCCAAACAAAGGGATACATGAACCATCCATTCACATTCATTCCCCTTAC
1 CTTAAAAGTCTTCATATCCAAACAAAGGGATACATGAACCATCCATTCACACCCATTCCCCTTAC
* * *
32683475 AGTATGCCCTTTCTACTATCTTTTCATTCTTAGCCCTATATAACTCAATCTTTTTTTGAATTATA
66 AGTATGCCCTTTCTA-TATCTTTTCATTCTTAGCCCTATATAACTCAATCATTTCTTAAATTATA
* * * * *
32683540 TAATTTGTCATCACTTTCCTAAAGTGCTAAGCATTGTTAAATAACATAATTTCAACAAGCCTCAC
130 TAATCTATCATCACTCTCCTAAAGTGCTAAGCACTATTAAATAACATAATTTCAACAAGCCTCAC
* * * *
32683605 CTTCCCACACTCATCAAGTGTGTAAGGGATGCCTCTCATTGACCTATTAATAGCTCTACCTTCCT
195 CTTCCAACACTCATCAAGTGCGTAAAGGATGCCTCTCATTGACCTATTAATAGCTCTACCTTCCC
* * ** *
32683670 TATCAAAGTCAGAGCTTGCTTGATTTCTCTCCTCCATGTCACTACCAATATT-AGATAGCCCATC
260 TATCAAAGTCAGAGCTTACTTGATTTCCCTCCTCCACATCACTACCAATATTAAGATAACCCATC
* *
32683734 AATATCACTATCTTCCTCAAGAGAGAATTACCTTGAGA
325 AACATCACTATCTTCCTCAAAAGAGAATTACCTTGAGA
* * *
32683772 CTTAAAAGTCTTTATATCCAAACGAAA-GGATGCATGAACCATCCATTCACACCCATTCCCTTTA
1 CTTAAAAGTCTTCATATCCAAAC-AAAGGGATACATGAACCATCCATTCACACCCATTCCCCTTA
*
32683836 C-GATATG-CCTTATGCCT-TGTCTTTTCATTCTTAGCCCTATATAACTCAATCATTTCTTAAAT
65 CAG-TATGCCCTT-T--CTATATCTTTTCATTCTTAGCCCTATATAACTCAATCATTTCTTAAAT
* * * ** *
32683898 TATGTAATCTATCATCAC-CTCCATAAAGTGTTGAGCACTATTAAATAACATGTTTTCAGCAAGC
126 TATATAATCTATCATCACTCTCC-TAAAGTGCTAAGCACTATTAAATAACATAATTTCAACAAGC
* * * *
32683962 CTCACCTTCTAACACTCGTCAGGTGCGTAAAGGATGCCTCTCATTGACCTATTAATAGCTCTATC
190 CTCACCTTCCAACACTCATCAAGTGCGTAAAGGATGCCTCTCATTGACCTATTAATAGCTCTACC
* **
32684027 TTCCCTATCAAAGTTAGAGCTTACTTGATTTCCCTCCTTTACATCACTACCAATATTAGAGATAA
255 TTCCCTATCAAAGTCAGAGCTTACTTGATTTCCCTCCTCCACATCACTACCAATATTA-AGATAA
* *
32684092 CCCGTCAACATCACTATCTTCCTCAAAAGAGAATTGCCTTGAGA
319 CCCATCAACATCACTATCTTCCTCAAAAGAGAATTACCTTGAGA
32684136 C
1 C
32684137 AGACTTATAT
Statistics
Matches: 317, Mismatches: 40, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
361 8 0.03
362 258 0.81
363 3 0.01
364 48 0.15
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.34
Consensus pattern (362 bp):
CTTAAAAGTCTTCATATCCAAACAAAGGGATACATGAACCATCCATTCACACCCATTCCCCTTAC
AGTATGCCCTTTCTATATCTTTTCATTCTTAGCCCTATATAACTCAATCATTTCTTAAATTATAT
AATCTATCATCACTCTCCTAAAGTGCTAAGCACTATTAAATAACATAATTTCAACAAGCCTCACC
TTCCAACACTCATCAAGTGCGTAAAGGATGCCTCTCATTGACCTATTAATAGCTCTACCTTCCCT
ATCAAAGTCAGAGCTTACTTGATTTCCCTCCTCCACATCACTACCAATATTAAGATAACCCATCA
ACATCACTATCTTCCTCAAAAGAGAATTACCTTGAGA
Found at i:32687962 original size:16 final size:16
Alignment explanation
Indices: 32687941--32687973 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
32687931 AATGGAACAT
32687941 TATTTGATTTAACCTA
1 TATTTGATTTAACCTA
32687957 TATTTGATTTAACCTA
1 TATTTGATTTAACCTA
32687973 T
1 T
32687974 CAGATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (16 bp):
TATTTGATTTAACCTA
Found at i:32688796 original size:7 final size:7
Alignment explanation
Indices: 32688784--32688809 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32688774 AAATGGGAGG
32688784 GAGAGTT
1 GAGAGTT
32688791 GAGAGTT
1 GAGAGTT
32688798 GAGAGTT
1 GAGAGTT
32688805 GAGAG
1 GAGAG
32688810 GAGTTGGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (7 bp):
GAGAGTT
Found at i:32689147 original size:13 final size:13
Alignment explanation
Indices: 32689106--32689140 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
32689096 TGATTTAAAG
*
32689106 AAATGAAAAAATA
1 AAATTAAAAAATA
*
32689119 GAATTAAAAAATA
1 AAATTAAAAAATA
32689132 AAATTAAAA
1 AAATTAAAA
32689141 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (13 bp):
AAATTAAAAAATA
Found at i:32689668 original size:21 final size:21
Alignment explanation
Indices: 32689644--32689696 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
32689634 TTATTTTGTT
*
32689644 TTTTAATAATCTGAATT-TAAA
1 TTTTAATAATC-AAATTATAAA
32689665 TTTTAAT-ATCAAATTATAAA
1 TTTTAATAATCAAATTATAAA
32689685 TTTTAAT-ATCAA
1 TTTTAATAATCAA
32689697 CTTGTGTCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.13
20 19 0.63
21 7 0.23
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTTAATAATCAAATTATAAA
Found at i:32689686 original size:20 final size:19
Alignment explanation
Indices: 32689657--32689696 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
32689647 TAATAATCTG
32689657 AATTTAAATTTTAATATCA
1 AATTTAAATTTTAATATCA
32689676 AATTATAAATTTTAATATCA
1 AATT-TAAATTTTAATATCA
32689696 A
1 A
32689697 CTTGTGTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTTAAATTTTAATATCA
Found at i:32693697 original size:2 final size:2
Alignment explanation
Indices: 32693690--32693753 Score: 78
Period size: 2 Copynumber: 32.5 Consensus size: 2
32693680 ATTTATATGC
* * *
32693690 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TT TA AA AA NTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
32693731 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
32693754 TATTTTAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
1 2 0.04
2 52 0.95
3 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:32693733 original size:37 final size:36
Alignment explanation
Indices: 32693691--32693764 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 36
32693681 TTTATATGCT
32693691 ATATATATATATATATATATATATATTAATTTAAAA
1 ATATATATATATATATATATATATATTAATTTAAAA
*
32693727 ANTATATATATATATATATATATATATTATTTTAAAA
1 A-TATATATATATATATATATATATATTAATTTAAAA
32693764 A
1 A
32693765 ATAAAACTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.47
Consensus pattern (36 bp):
ATATATATATATATATATATATATATTAATTTAAAA
Found at i:32698680 original size:38 final size:39
Alignment explanation
Indices: 32698620--32698695 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 39
32698610 TGTTATGATC
* * *
32698620 AATATTGAAGTTTAAATTAAATATTAA-TTAATGAGTTA
1 AATATTGAAGTGTAAATTAAATAATAATTTAATCAGTTA
*
32698658 AATATTTAAGTGT-AATTAAAATAATAATTTAATCAGTT
1 AATATTGAAGTGTAAATT-AAATAATAATTTAATCAGTT
32698696 GGAATTAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 4 0.12
38 19 0.59
39 9 0.28
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.42
Consensus pattern (39 bp):
AATATTGAAGTGTAAATTAAATAATAATTTAATCAGTTA
Found at i:32708574 original size:2 final size:2
Alignment explanation
Indices: 32708567--32708592 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32708557 ATAATATACC
32708567 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
32708593 GGCTTTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32713900 original size:15 final size:14
Alignment explanation
Indices: 32713880--32713920 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
32713870 AATTTAATAT
32713880 TTAATTTTGTTTCTC
1 TTAATTTTGTTT-TC
32713895 TTAATTTT-TATTTC
1 TTAATTTTGT-TTTC
32713909 TT-ATTTTGTTTT
1 TTAATTTTGTTTT
32713921 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 8 0.33
14 6 0.25
15 10 0.42
ACGTcount: A:0.15, C:0.07, G:0.05, T:0.73
Consensus pattern (14 bp):
TTAATTTTGTTTTC
Found at i:32719569 original size:2 final size:2
Alignment explanation
Indices: 32719562--32719602 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
32719552 TTCCCTTCCT
32719562 TC TC TC TC TC TC TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
32719603 AATGCTTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:32725742 original size:21 final size:23
Alignment explanation
Indices: 32725718--32725765 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 23
32725708 GCATGTTTCT
*
32725718 TTTCCATTTGCTTTA-TTTCC-C
1 TTTCAATTTGCTTTATTTTCCTC
32725739 TTTCAATTTGCTTTATTTTCCTC
1 TTTCAATTTGCTTTATTTTCCTC
32725762 TTTC
1 TTTC
32725766 TCCGTGTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 14 0.58
22 5 0.21
23 5 0.21
ACGTcount: A:0.10, C:0.25, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTCAATTTGCTTTATTTTCCTC
Found at i:32726345 original size:2 final size:2
Alignment explanation
Indices: 32726338--32726363 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32726328 ATATTTACTA
32726338 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
32726364 CGTTTTGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32730286 original size:17 final size:17
Alignment explanation
Indices: 32730264--32730296 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32730254 ATAATTAAGT
32730264 ATACGGAGACCAAGAGC
1 ATACGGAGACCAAGAGC
32730281 ATACGGAGACCAAGAG
1 ATACGGAGACCAAGAG
32730297 ACTCTTAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.30, T:0.06
Consensus pattern (17 bp):
ATACGGAGACCAAGAGC
Found at i:32734712 original size:3 final size:3
Alignment explanation
Indices: 32734704--32734735 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
32734694 ATTCCTTTAT
*
32734704 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32734736 TTGCTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:32735701 original size:17 final size:17
Alignment explanation
Indices: 32735661--32735704 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
32735651 AAGTAAGCAT
32735661 ATAAAATAAAATAACAA
1 ATAAAATAAAATAACAA
* *
32735678 ATGAAATTAAATGAAC-A
1 ATAAAATAAAAT-AACAA
32735695 ATAAAATAAA
1 ATAAAATAAA
32735705 GCCGTAGGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (17 bp):
ATAAAATAAAATAACAA
Found at i:32738556 original size:9 final size:10
Alignment explanation
Indices: 32738532--32738560 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
32738522 AATACATTGG
32738532 ATATTCATAT
1 ATATTCATAT
32738542 ATATTCATA-
1 ATATTCATAT
32738551 ATATTCATAT
1 ATATTCATAT
32738561 GTTTTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (10 bp):
ATATTCATAT
Found at i:32742797 original size:2 final size:2
Alignment explanation
Indices: 32742790--32742818 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32742780 ACTTTTTCTT
32742790 TA TA 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 TA TA T
32742819 TACGTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32757886 original size:21 final size:21
Alignment explanation
Indices: 32757862--32757904 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
32757852 AGGACAAAGT
*
32757862 ATATACTT-ATTTTAAATTAAA
1 ATATA-TTGATTTTAAATAAAA
*
32757883 ATATATTGCTTTTAAATAAAA
1 ATATATTGATTTTAAATAAAA
32757904 A
1 A
32757905 CATAATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (21 bp):
ATATATTGATTTTAAATAAAA
Found at i:32759082 original size:2 final size:2
Alignment explanation
Indices: 32759075--32759100 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32759065 AATGGGATAA
32759075 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
32759101 TTTTGTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32759165 original size:51 final size:53
Alignment explanation
Indices: 32759087--32759191 Score: 178
Period size: 51 Copynumber: 2.0 Consensus size: 53
32759077 ATATATATAT
* *
32759087 ATATATATATATATTTTTGTTGTTGTCCTCCAGCTTGTAACATTTCGTCTCAC
1 ATATATATATATATTATTGTTGTTGTCCTCCAGCTTCTAACATTTCGTCTCAC
32759140 ATATATATATATA-TATT-TTGTTGTCCTCCAGCTTCTAACATTTCGTCTCAC
1 ATATATATATATATTATTGTTGTTGTCCTCCAGCTTCTAACATTTCGTCTCAC
32759191 A
1 A
32759192 GCCTACAGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
51 34 0.68
52 3 0.06
53 13 0.26
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.46
Consensus pattern (53 bp):
ATATATATATATATTATTGTTGTTGTCCTCCAGCTTCTAACATTTCGTCTCAC
Found at i:32761204 original size:18 final size:17
Alignment explanation
Indices: 32761181--32761248 Score: 75
Period size: 18 Copynumber: 3.9 Consensus size: 17
32761171 AGCGGCCAGG
32761181 AGAGAAAAAAGAAAAGAA
1 AGAG-AAAAAGAAAAGAA
*
32761199 AGAGAAAGAGAAGAAGAA
1 AGAGAAAAAGAA-AAGAA
*
32761217 AGAGGAAAAGAAAAAGAA
1 AGAGAAAAAG-AAAAGAA
*
32761235 AGAG-AGAAGAAAAG
1 AGAGAAAAAGAAAAG
32761249 GGGAGCGGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.11
17 11 0.25
18 26 0.59
19 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
AGAGAAAAAGAAAAGAA
Found at i:32761210 original size:12 final size:12
Alignment explanation
Indices: 32761190--32761248 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
32761180 GAGAGAAAAA
32761190 AGAAA-AGAAAG
1 AGAAAGAGAAAG
32761201 AGAAAGAG-AAG
1 AGAAAGAGAAAG
32761212 AAGAAAGAGGAAA-
1 -AGAAAGA-GAAAG
*
32761225 AGAAAAAGAAAG
1 AGAAAGAGAAAG
32761237 AGAGAAGA-AAAG
1 AGA-AAGAGAAAG
32761249 GGGAGCGGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
11 12 0.30
12 22 0.55
13 4 0.10
14 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (12 bp):
AGAAAGAGAAAG
Found at i:32761225 original size:30 final size:29
Alignment explanation
Indices: 32761180--32761246 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 29
32761170 GAGCGGCCAG
*
32761180 GAGAGAA-AAA-A-GAAAAGAAAGAGAAA
1 GAGAGAAGAAAGAGGAAAAGAAAAAGAAA
32761206 GAGAAGAAGAAAGAGGAAAAGAAAAAGAAA
1 GAG-AGAAGAAAGAGGAAAAGAAAAAGAAA
32761236 GAGAGAAGAAA
1 GAGAGAAGAAA
32761247 AGGGGAGCGG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
26 3 0.08
27 4 0.11
28 3 0.08
29 9 0.25
30 17 0.47
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (29 bp):
GAGAGAAGAAAGAGGAAAAGAAAAAGAAA
Found at i:32761252 original size:81 final size:79
Alignment explanation
Indices: 32761143--32761317 Score: 196
Period size: 81 Copynumber: 2.2 Consensus size: 79
32761133 CCCGGCAAAG
** *
32761143 AGAAAGAAGAGAA-AGAGAAGAAGGGGGGAGCGGCCAGGAGAGAAA-AAAGA-AAAGAAAGAGAA
1 AGAAA-AAGA-AAGAGAGAAGAAAAGGGGAGCGGCCAGGAGAAAAAGAAAGAGAAA-AAA-AGAA
* * *
32761205 AGAGAAGAAGAAAGAGGAAA
62 AGAAAAAAAGAAA-A-AAAA
**
32761225 AGAAAAAGAAAGAGAGAAGAAAAGGGGAGCGGCTGGGAGAAAAAGAAAGAGAAAAAAAGAAAGAA
1 AGAAAAAGAAAGAGAGAAGAAAAGGGGAGCGGCCAGGAGAAAAAGAAAGAGAAAAAAAGAAAGAA
32761290 AAAAAGAAAAAAAA
66 AAAAAGAAAAAAAA
32761304 AGAAAAA-AAAGAGA
1 AGAAAAAGAAAGAGA
32761318 AAAAGGTTCA
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
78 7 0.09
79 10 0.12
80 3 0.04
81 46 0.56
82 13 0.16
83 3 0.04
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.01
Consensus pattern (79 bp):
AGAAAAAGAAAGAGAGAAGAAAAGGGGAGCGGCCAGGAGAAAAAGAAAGAGAAAAAAAGAAAGAA
AAAAAGAAAAAAAA
Found at i:32761278 original size:12 final size:11
Alignment explanation
Indices: 32761261--32761321 Score: 76
Period size: 10 Copynumber: 5.7 Consensus size: 11
32761251 GAGCGGCTGG
32761261 GAGAAAAAGAAA
1 GAGAAAAA-AAA
32761273 GAG-AAAAAAA
1 GAGAAAAAAAA
32761283 GA-AAGAAAAAA
1 GAGAA-AAAAAA
32761294 -AGAAAAAAAA
1 GAGAAAAAAAA
32761304 -AGAAAAAAAA
1 GAGAAAAAAAA
32761314 GAGAAAAA
1 GAGAAAAA
32761322 GGTTCAAACG
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
10 23 0.51
11 19 0.42
12 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
GAGAAAAAAAA
Found at i:32761289 original size:18 final size:17
Alignment explanation
Indices: 32761266--32761315 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 17
32761256 GCTGGGAGAA
32761266 AAAGAAAGAGAAAAAAAG
1 AAAGAAAGA-AAAAAAAG
*
32761284 AAAGAAA-AAAAGAAA-
1 AAAGAAAGAAAAAAAAG
32761299 AAA-AAAGAAAAAAAAG
1 AAAGAAAGAAAAAAAAG
32761315 A
1 A
32761316 GAAAAAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 3 0.11
15 10 0.36
16 7 0.25
17 1 0.04
18 7 0.25
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAAAAAAAG
Found at i:32765463 original size:10 final size:10
Alignment explanation
Indices: 32765448--32765481 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
32765438 CCTATTTTAA
32765448 AAAAAATAAT
1 AAAAAATAAT
32765458 AAAAAATAAT
1 AAAAAATAAT
32765468 AAAAAATAA-
1 AAAAAATAAT
32765477 AAAAA
1 AAAAA
32765482 TGATGATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:32766818 original size:20 final size:21
Alignment explanation
Indices: 32766793--32766832 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
32766783 GAATTATGAA
32766793 AAATAAAAAAAAT-AAATAAT
1 AAATAAAAAAAATGAAATAAT
*
32766813 AAATAAATAAAATGAAATAA
1 AAATAAAAAAAATGAAATAA
32766833 ATAGAATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (21 bp):
AAATAAAAAAAATGAAATAAT
Found at i:32771019 original size:23 final size:25
Alignment explanation
Indices: 32770983--32771032 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
32770973 ATCAAAATGG
32770983 AAAATGCAAC-AAAAAA-ATGAAAA
1 AAAATGCAACAAAAAAATATGAAAA
* *
32771006 AAAATGGAATAAAAAAATATGAAAA
1 AAAATGCAACAAAAAAATATGAAAA
32771031 AA
1 AA
32771033 GAAACATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
24 6 0.26
25 9 0.39
ACGTcount: A:0.74, C:0.04, G:0.10, T:0.12
Consensus pattern (25 bp):
AAAATGCAACAAAAAAATATGAAAA
Found at i:32771534 original size:15 final size:16
Alignment explanation
Indices: 32771503--32771560 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 16
32771493 CACCTAAAAA
32771503 AATAATAATAAAA--AT
1 AATAA-AATAAAATTAT
*
32771518 AA-AAAATTAAATTAT
1 AATAAAATAAAATTAT
*
32771533 AATAAAATAAAATATGT
1 AATAAAATAAAAT-TAT
*
32771550 AGTAAAATAAA
1 AATAAAATAAA
32771561 TAAATAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 6 0.17
14 2 0.06
15 6 0.17
16 9 0.26
17 12 0.34
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (16 bp):
AATAAAATAAAATTAT
Found at i:32772601 original size:18 final size:19
Alignment explanation
Indices: 32772578--32772613 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
32772568 TTTTTTTAAA
*
32772578 AAAAATATATATA-AAATT
1 AAAAATACATATATAAATT
32772596 AAAAATACATATATAAAT
1 AAAAATACATATATAAAT
32772614 AATAACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATACATATATAAATT
Found at i:32772743 original size:4 final size:4
Alignment explanation
Indices: 32772729--32772782 Score: 56
Period size: 4 Copynumber: 12.5 Consensus size: 4
32772719 ATTTTTTTAA
32772729 AAAT AAAAT AAAT AAAAT AAAT AAAAT AAAT AAAAT AAA- AAAT AAAT
1 AAAT -AAAT AAAT -AAAT AAAT -AAAT AAAT -AAAT AAAT AAAT AAAT
32772776 AATAT AA
1 AA-AT AA
32772783 TTGGAGCAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
3 3 0.07
4 21 0.48
5 20 0.45
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:32772743 original size:9 final size:9
Alignment explanation
Indices: 32772729--32772782 Score: 85
Period size: 9 Copynumber: 6.2 Consensus size: 9
32772719 ATTTTTTTAA
32772729 AAATAAAAT
1 AAATAAAAT
32772738 AAATAAAAT
1 AAATAAAAT
32772747 AAATAAAAT
1 AAATAAAAT
32772756 AAATAAAAT
1 AAATAAAAT
32772765 -AA-AAAAT
1 AAATAAAAT
*
32772772 AAATAATAT
1 AAATAAAAT
32772781 AA
1 AA
32772783 TTGGAGCAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
7 5 0.12
8 4 0.10
9 33 0.79
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:32772783 original size:5 final size:5
Alignment explanation
Indices: 32772728--32772782 Score: 62
Period size: 5 Copynumber: 11.4 Consensus size: 5
32772718 TATTTTTTTA
*
32772728 AAAAT AAAAT -AAAT AAAAT -AAAT AAAAT -AAAT AAAAT AAAAA ATAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT
*
32772776 AATAT AA
1 AAAAT AA
32772783 TTGGAGCAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
4 12 0.28
5 27 0.63
6 4 0.09
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:32773917 original size:9 final size:9
Alignment explanation
Indices: 32773905--32773974 Score: 61
Period size: 9 Copynumber: 7.4 Consensus size: 9
32773895 TTAAATTAAA
*
32773905 ATAATTTTT
1 ATAATTATT
32773914 ATAATTATT
1 ATAATTATT
32773923 ATAACTT-TT
1 ATAA-TTATT
*
32773932 ATAATAATT
1 ATAATTATT
32773941 ATAACTTAAATT
1 ATAA-TT--ATT
*
32773953 ATAATTTTT
1 ATAATTATT
*
32773962 ATAGTTATT
1 ATAATTATT
32773971 ATAA
1 ATAA
32773975 CTTCATAGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 1 0.02
9 36 0.73
10 3 0.06
11 2 0.04
12 7 0.14
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (9 bp):
ATAATTATT
Found at i:32773954 original size:30 final size:30
Alignment explanation
Indices: 32773920--32773977 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32773910 TTTTATAATT
32773920 ATTATAACTTTTATAATAATTATAACTTAA
1 ATTATAACTTTTATAATAATTATAACTTAA
* * *
32773950 ATTATAATTTTTATAGTTATTATAACTT
1 ATTATAACTTTTATAATAATTATAACTT
32773978 CATAGAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTATAACTTTTATAATAATTATAACTTAA
Found at i:32773964 original size:21 final size:18
Alignment explanation
Indices: 32773905--32773947 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
32773895 TTAAATTAAA
*
32773905 ATAATTTTTATAATTATT
1 ATAACTTTTATAATTATT
*
32773923 ATAACTTTTATAATAATT
1 ATAACTTTTATAATTATT
32773941 ATAACTT
1 ATAACTT
32773948 AAATTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAACTTTTATAATTATT
Found at i:32774638 original size:22 final size:23
Alignment explanation
Indices: 32774607--32774661 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
32774597 ATGCCTTACT
*
32774607 AACTAATCACGTAATGTC-TATC
1 AACTAGTCACGTAATGTCATATC
32774629 AACTAGTCACGTAATGTCATATC
1 AACTAGTCACGTAATGTCATATC
*
32774652 AACCAGTCAC
1 AACTAGTCAC
32774662 CAATATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.27
Consensus pattern (23 bp):
AACTAGTCACGTAATGTCATATC
Found at i:32774659 original size:23 final size:22
Alignment explanation
Indices: 32774613--32774661 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
32774603 TACTAACTAA
*
32774613 TCACGTAATGTCTATCAACTAG
1 TCACGTAATGTCTATCAACCAG
32774635 TCACGTAATGTCATATCAACCAG
1 TCACGTAATGTC-TATCAACCAG
32774658 TCAC
1 TCAC
32774662 CAATATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (22 bp):
TCACGTAATGTCTATCAACCAG
Found at i:32774704 original size:22 final size:22
Alignment explanation
Indices: 32774679--32774763 Score: 100
Period size: 22 Copynumber: 3.9 Consensus size: 22
32774669 TAAAAATCAG
* *
32774679 TCACGTAATGCCTAAAAACTAA
1 TCACGCAATGCTTAAAAACTAA
* *
32774701 TCACGCAATACTTAAAAACTAG
1 TCACGCAATGCTTAAAAACTAA
*
32774723 TCACGCAATGCTTAAAAA-TCGA
1 TCACGCAATGCTTAAAAACT-AA
*
32774745 TTACGCAATGCTTAAAAAC
1 TCACGCAATGCTTAAAAAC
32774764 CATTAAAACT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
21 1 0.02
22 52 0.98
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.24
Consensus pattern (22 bp):
TCACGCAATGCTTAAAAACTAA
Found at i:32774751 original size:44 final size:45
Alignment explanation
Indices: 32774658--32774763 Score: 121
Period size: 44 Copynumber: 2.4 Consensus size: 45
32774648 TATCAACCAG
* *
32774658 TCAC-CAATATTTAAAAA-TCAGTCACGTAATGCCTAAAAACTAA
1 TCACGCAATACTTAAAAACTCAGTCACGCAATGCCTAAAAACTAA
* *
32774701 TCACGCAATACTTAAAAACT-AGTCACGCAATGCTTAAAAA-TCGA
1 TCACGCAATACTTAAAAACTCAGTCACGCAATGCCTAAAAACT-AA
* *
32774745 TTACGCAATGCTTAAAAAC
1 TCACGCAATACTTAAAAAC
32774764 CATTAAAACT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
43 5 0.09
44 48 0.89
45 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (45 bp):
TCACGCAATACTTAAAAACTCAGTCACGCAATGCCTAAAAACTAA
Found at i:32775909 original size:24 final size:24
Alignment explanation
Indices: 32775877--32775924 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
32775867 AAACATCGTT
* *
32775877 GTGCTTTTGTTTCTCTTAAAAAAA
1 GTGCTTTTGCTTCTCTAAAAAAAA
32775901 GTGCTTTTGCTTCTCTAAAAAAAA
1 GTGCTTTTGCTTCTCTAAAAAAAA
32775925 AACCAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (24 bp):
GTGCTTTTGCTTCTCTAAAAAAAA
Found at i:32776262 original size:41 final size:40
Alignment explanation
Indices: 32776194--32776272 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 40
32776184 GTAATGAGTC
* *
32776194 ACTCAAAAGTCTTTTCTTCCTCATTTCTTTGTGCAATTATT
1 ACTCAAAAGTCTATTCTCCCTCATTTC-TTGTGCAATTATT
*
32776235 ACTCAAAAGTCTATTCTCCCTCTTTTCTTGTGCAATTA
1 ACTCAAAAGTCTATTCTCCCTCATTTCTTGTGCAATTA
32776273 CTGTAGTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 11 0.31
41 24 0.69
ACGTcount: A:0.23, C:0.24, G:0.08, T:0.46
Consensus pattern (40 bp):
ACTCAAAAGTCTATTCTCCCTCATTTCTTGTGCAATTATT
Found at i:32778136 original size:20 final size:21
Alignment explanation
Indices: 32778113--32778152 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
32778103 TGNAAAAATT
32778113 AATATT-TT-ATATATAATTTA
1 AATATTATTAATAT-TAATTTA
32778133 AATATTATTAATATTAATTT
1 AATATTATTAATATTAATTT
32778153 TGATTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATATTATTAATATTAATTTA
Found at i:32778194 original size:31 final size:31
Alignment explanation
Indices: 32778156--32778220 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
32778146 TTAATTTTGA
**
32778156 TTAAAATATTAAAATATTACGATATCAATAT
1 TTAAAATATTAAAATATTAAAATATCAATAT
*
32778187 TTAAAATATTAAAATATTAAAATATTAATAT
1 TTAAAATATTAAAATATTAAAATATCAATAT
32778218 TTA
1 TTA
32778221 TTTATTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (31 bp):
TTAAAATATTAAAATATTAAAATATCAATAT
Found at i:32778203 original size:23 final size:22
Alignment explanation
Indices: 32778160--32778203 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
32778150 TTTTGATTAA
**
32778160 AATATTAAAATATTACGATATC
1 AATATTAAAATATTAAAATATC
32778182 AATATTTAAAATATTAAAATAT
1 AATA-TTAAAATATTAAAATAT
32778204 TAAAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
AATATTAAAATATTAAAATATC
Found at i:32778234 original size:8 final size:8
Alignment explanation
Indices: 32778155--32778214 Score: 77
Period size: 8 Copynumber: 7.6 Consensus size: 8
32778145 ATTAATTTTG
32778155 ATTAAAAT
1 ATTAAAAT
32778163 ATTAAAAT
1 ATTAAAAT
**
32778171 ATTACGAT
1 ATTAAAAT
* *
32778179 ATCAATAT
1 ATTAAAAT
32778187 -TTAAAAT
1 ATTAAAAT
32778194 ATTAAAAT
1 ATTAAAAT
32778202 ATTAAAAT
1 ATTAAAAT
32778210 ATTAA
1 ATTAA
32778215 TATTTATTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
7 5 0.11
8 39 0.89
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (8 bp):
ATTAAAAT
Found at i:32778266 original size:9 final size:8
Alignment explanation
Indices: 32778254--32778303 Score: 68
Period size: 8 Copynumber: 6.2 Consensus size: 8
32778244 AATAAAAATA
32778254 TTTTTATT
1 TTTTTATT
32778262 TTTTTA-T
1 TTTTTATT
32778269 TTTTTATT
1 TTTTTATT
32778277 TTTTT-TAT
1 TTTTTAT-T
32778285 TTTTTATTT
1 TTTTTA-TT
32778294 TTTTTATT
1 TTTTTATT
32778302 TT
1 TT
32778304 AAAATTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
7 8 0.21
8 22 0.58
9 7 0.18
10 1 0.03
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:32778279 original size:16 final size:16
Alignment explanation
Indices: 32778254--32778303 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
32778244 AATAAAAATA
32778254 TTTTTA-TTTTTTTAT
1 TTTTTATTTTTTTTAT
32778269 TTTTTATTTTTTTTAT
1 TTTTTATTTTTTTTAT
32778285 TTTTTATTTTTTTTAT
1 TTTTTATTTTTTTTAT
32778301 TTT
1 TTT
32778304 AAAATTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 6 0.18
16 28 0.82
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTATTTTTTTTAT
Found at i:32778303 original size:7 final size:7
Alignment explanation
Indices: 32778254--32778296 Score: 59
Period size: 7 Copynumber: 5.7 Consensus size: 7
32778244 AATAAAAATA
32778254 TTTTTATT
1 TTTTTA-T
32778262 TTTTTAT
1 TTTTTAT
32778269 TTTTTATTT
1 TTTTTA--T
32778278 TTTTTAT
1 TTTTTAT
32778285 TTTTTAT
1 TTTTTAT
32778292 TTTTT
1 TTTTT
32778297 TTATTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 20 0.61
8 6 0.18
9 7 0.21
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:32781168 original size:24 final size:25
Alignment explanation
Indices: 32781136--32781183 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
32781126 GTATTTGTTA
32781136 TTTTTTT-AAAAAT-TTAAAAATAT
1 TTTTTTTAAAAAATGTTAAAAATAT
32781159 TTTTTATTAAAAAATGTTAAAAATA
1 TTTTT-TTAAAAAATGTTAAAAATA
32781184 CATTTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.23
24 2 0.09
25 6 0.27
26 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTTTTTAAAAAATGTTAAAAATAT
Found at i:32781189 original size:26 final size:24
Alignment explanation
Indices: 32781135--32781191 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 24
32781125 TGTATTTGTT
* *
32781135 ATTTTTTTAAAAATTTAAAAATAT
1 ATTTTTTAAAAAATTTAAAAATAC
*
32781159 TTTTTATTAAAAAATGTTAAAAATAC
1 ATTTT-TTAAAAAAT-TTAAAAATAC
32781185 ATTTTTT
1 ATTTTTT
32781192 GTTCAATGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 4 0.15
25 10 0.37
26 13 0.48
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTTTTTAAAAAATTTAAAAATAC
Found at i:32782034 original size:24 final size:24
Alignment explanation
Indices: 32781970--32782099 Score: 82
Period size: 25 Copynumber: 5.2 Consensus size: 24
32781960 ACATACTGGA
* * **
32781970 AAAAATGTTGTTATAAGTTATGTT
1 AAAAATGTTGTTACACGCCATGTT
*
32781994 GAAATAAAGTTGTTACACGCCATGTT
1 -AAA-AATGTTGTTACACGCCATGTT
* *
32782020 CAAAATGTTGTTACACACCA-GTT
1 AAAAATGTTGTTACACGCCATGTT
* *
32782043 GAAAAAATGTTGTTATATGCCATGTT
1 --AAAAATGTTGTTACACGCCATGTT
** * *
32782069 GAAAAAAATTATTACACACCATGTT
1 -AAAAATGTTGTTACACGCCATGTT
32782094 GAAAAA
1 -AAAAA
32782100 AAATTATTAC
Statistics
Matches: 82, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
23 3 0.04
24 15 0.18
25 45 0.55
26 19 0.23
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (24 bp):
AAAAATGTTGTTACACGCCATGTT
Found at i:32782055 original size:25 final size:26
Alignment explanation
Indices: 32781989--32782159 Score: 154
Period size: 26 Copynumber: 6.7 Consensus size: 26
32781979 GTTATAAGTT
*
32781989 ATGTTGAAATAAA-GTTGTTACACGCC
1 ATGTTGAAA-AAATGTTGTTACACACC
*
32782015 ATGTT--CAAAATGTTGTTACACACC
1 ATGTTGAAAAAATGTTGTTACACACC
* **
32782039 A-GTTGAAAAAATGTTGTTATATGCC
1 ATGTTGAAAAAATGTTGTTACACACC
* *
32782064 ATGTTGAAAAAA-ATTATTACACACC
1 ATGTTGAAAAAATGTTGTTACACACC
** * *
32782089 ATGTTGAAAAAAAATTATTACACATC
1 ATGTTGAAAAAATGTTGTTACACACC
* * * *
32782115 ATGTTGAAAAAAAGTTATTGCACATC
1 ATGTTGAAAAAATGTTGTTACACACC
*
32782141 ATGTTGAAAAAATGATGTT
1 ATGTTGAAAAAATGTTGTT
32782160 GTTACACGTC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.05
24 14 0.11
25 36 0.29
26 67 0.54
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (26 bp):
ATGTTGAAAAAATGTTGTTACACACC
Found at i:32782259 original size:26 final size:26
Alignment explanation
Indices: 32781968--32782295 Score: 143
Period size: 26 Copynumber: 12.5 Consensus size: 26
32781958 AAACATACTG
* *
32781968 GAAAAAATGTTGTTATA-AGTTATGTT
1 GAAAAAAAGTTGTTATACA-TCATGTT
* * **
32781994 GAAATAAAGTTGTTACACGCCATGTT
1 GAAAAAAAGTTGTTATACATCATGTT
* * * *
32782020 --CAAAATGTTGTTACACACCA-GTT
1 GAAAAAAAGTTGTTATACATCATGTT
* ***
32782043 GAAAAAATGTTGTTATATGCCATGTT
1 GAAAAAAAGTTGTTATACATCATGTT
* * *
32782069 GAAAAAAA-TTATTACACACCATGTT
1 GAAAAAAAGTTGTTATACATCATGTT
* * *
32782094 GAAAAAAAATTATTACACATCATGTT
1 GAAAAAAAGTTGTTATACATCATGTT
* **
32782120 GAAAAAAAGTTATTGCACATCATGTT
1 GAAAAAAAGTTGTTATACATCATGTT
* *
32782146 GAAAAAATGATGTTGTTACACGTCATGTT
1 GAAAAAA--A-GTTGTTATACATCATGTT
* * * *
32782175 --TAAGATGTTGTTATATATCATGTT
1 GAAAAAAAGTTGTTATACATCATGTT
* *
32782199 GAAAACAAAAATTGTTATATGCTAT-AT-TG
1 G-AAA-AAAAGTTGTTATA--C-ATCATGTT
* *
32782228 GAAAAAAAAGTTGTTGTATATCATGTT
1 G-AAAAAAAGTTGTTATACATCATGTT
* * **
32782255 GAAAAAAAAAGTTTTTACACATTTTGTT
1 G--AAAAAAAGTTGTTATACATCATGTT
*
32782283 GAAAAAATGTTGT
1 GAAAAAAAGTTGT
32782296 AGTCATCGCG
Statistics
Matches: 235, Mismatches: 49, Indels: 36
0.73 0.15 0.11
Matches are distributed among these distances:
23 3 0.01
24 31 0.13
25 39 0.17
26 88 0.37
27 6 0.03
28 43 0.18
29 21 0.09
30 2 0.01
31 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (26 bp):
GAAAAAAAGTTGTTATACATCATGTT
Found at i:32782260 original size:28 final size:27
Alignment explanation
Indices: 32782181--32782271 Score: 98
Period size: 28 Copynumber: 3.3 Consensus size: 27
32782171 TGTTTAAGAT
32782181 GTTGTTATATATCATGTTGAAAACAAAAA
1 GTTGTT-TATATCATGTTGAAAA-AAAAA
* *
32782210 -TTG-TTATATGCTATATTGGAAAAAAAA
1 GTTGTTTATAT-C-ATGTTGAAAAAAAAA
32782237 GTTGTTGTATATCATGTTGAAAAAAAAA
1 GTTGTT-TATATCATGTTGAAAAAAAAA
32782265 GTT-TTTA
1 GTTGTTTA
32782272 CACATTTTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
26 7 0.13
27 9 0.17
28 30 0.57
29 2 0.04
30 5 0.09
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (27 bp):
GTTGTTTATATCATGTTGAAAAAAAAA
Found at i:32782563 original size:24 final size:22
Alignment explanation
Indices: 32782515--32782563 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
32782505 CCTGTAATTC
**
32782515 TTTTTCACATTCTTATTTCTTT
1 TTTTTCACATTCTTATTTCGAT
*
32782537 TTTTTCACTTCTCTTTATTTCGAT
1 TTTTTCACAT-TC-TTATTTCGAT
32782561 TTT
1 TTT
32782564 GCACCAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 9 0.41
23 2 0.09
24 11 0.50
ACGTcount: A:0.12, C:0.18, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTCACATTCTTATTTCGAT
Found at i:32782681 original size:168 final size:174
Alignment explanation
Indices: 32782482--32782805 Score: 435
Period size: 176 Copynumber: 1.9 Consensus size: 174
32782472 GGAAACTACA
* *
32782482 AAAACGCAAAAACCATTTTCTTCCCTGTAATTCTTTTTCA-C-ATTCTTATTTC-T-TTTTTT-T
1 AAAACACAAAAACCATTTTCTTCCCTGTAATTATTTTTCACCTATTCTTATTTCTTATTTTTTCT
* * * *
32782542 CACTTCTCTTTATTTCGATTTTGCACCAAATTT-AAAAAATTGAAACCTTTTGTTTATTTCAAGA
66 CACTTCTCTTTATTTCAATTTTACACCAAATTTGAAAAAATTGAAACCTTTTATTTATGTCAAGA
* *
32782606 TTGATGGAAAATTTTGAACCATTCTTTTTATTTCCTTTGCAACC
131 TCGATGGAAAATCTTGAACCATTCTTTTTATTTCCTTTGCAACC
** * *
32782650 AAAACACAAAAACTGTTTTCTTCCCTGTAATTATTTTTCACCTTCTTCTTCTTTCTTTATTTTTT
1 AAAACACAAAAACCATTTTCTTCCCTGTAATTATTTTTCACC-TATTCTTATTTC-TTATTTTTT
* * *
32782715 CTCACTTCTCTTTATTTCAATTTTACACCGAGTTTGAAAAAATTGAAACTTTTTATTTATGTCAA
64 CTCACTTCTCTTTATTTCAATTTTACACCAAATTTGAAAAAATTGAAACCTTTTATTTATGTCAA
* *
32782780 GCTCGATGGAAAATCTTGAGCCATTC
129 GATCGATGGAAAATCTTGAACCATTC
32782806 CTTTCCTTTC
Statistics
Matches: 131, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
168 36 0.27
169 1 0.01
171 9 0.07
173 1 0.01
174 6 0.05
175 30 0.23
176 48 0.37
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (174 bp):
AAAACACAAAAACCATTTTCTTCCCTGTAATTATTTTTCACCTATTCTTATTTCTTATTTTTTCT
CACTTCTCTTTATTTCAATTTTACACCAAATTTGAAAAAATTGAAACCTTTTATTTATGTCAAGA
TCGATGGAAAATCTTGAACCATTCTTTTTATTTCCTTTGCAACC
Found at i:32783120 original size:12 final size:12
Alignment explanation
Indices: 32783103--32783139 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
32783093 ATTATCTCTT
32783103 AGTTATTTAGTA
1 AGTTATTTAGTA
32783115 AGTTATTTAGTA
1 AGTTATTTAGTA
32783127 AG-TATATTAGTA
1 AGTTAT-TTAGTA
32783139 A
1 A
32783140 TGAGTCACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 3 0.12
12 21 0.88
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (12 bp):
AGTTATTTAGTA
Found at i:32784498 original size:11 final size:11
Alignment explanation
Indices: 32784466--32784508 Score: 56
Period size: 10 Copynumber: 4.1 Consensus size: 11
32784456 GTTCTAATTA
32784466 TATTATTTA-T
1 TATTATTTATT
32784476 TATTATTTATT
1 TATTATTTATT
32784487 TATT-TTTCATT
1 TATTATTT-ATT
32784498 TATTA-TTATT
1 TATTATTTATT
32784508 T
1 T
32784509 TTTAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 16 0.53
11 14 0.47
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTATTTATT
Found at i:32785655 original size:20 final size:19
Alignment explanation
Indices: 32785609--32785699 Score: 70
Period size: 20 Copynumber: 5.0 Consensus size: 19
32785599 ATCCCTTTTT
*
32785609 TTTTA-TATATTTTATATA
1 TTTTATTATATTTTATTTA
32785627 TTATT-TTATATTTTAGTTTA
1 TT-TTATTATATTTTA-TTTA
*
32785647 TTTTATTATAATTTA---A
1 TTTTATTATATTTTATTTA
*
32785663 ATTTATT-TA-TTTATTTA
1 TTTTATTATATTTTATTTA
*
32785680 TTATTATTATATTTTTTTTA
1 TT-TTATTATATTTTATTTA
32785700 GGTGTCTACA
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
14 4 0.07
15 2 0.03
16 7 0.12
17 2 0.03
18 7 0.12
19 15 0.26
20 21 0.36
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (19 bp):
TTTTATTATATTTTATTTA
Found at i:32785699 original size:28 final size:28
Alignment explanation
Indices: 32785605--32785699 Score: 72
Period size: 28 Copynumber: 3.3 Consensus size: 28
32785595 AGCCATCCCT
*
32785605 TTTTTTTTATATA-TT-TTATATATTAT-
1 TTTTTTTTATTTATTTATTAT-TATTATA
*
32785631 TTTATATTTTAGTTTATTTTATTATAATT-TAA
1 TTT-T-TTTTA-TTTA-TTTATTATTATTAT-A
* *
32785663 ATTTATTTATTTATTTATTATTATTATA
1 TTTTTTTTATTTATTTATTATTATTATA
32785691 TTTTTTTTA
1 TTTTTTTTA
32785700 GGTGTCTACA
Statistics
Matches: 53, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
26 3 0.06
27 1 0.02
28 24 0.45
29 8 0.15
30 5 0.09
31 6 0.11
32 6 0.11
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (28 bp):
TTTTTTTTATTTATTTATTATTATTATA
Found at i:32785992 original size:62 final size:62
Alignment explanation
Indices: 32785907--32786027 Score: 224
Period size: 62 Copynumber: 2.0 Consensus size: 62
32785897 TTCAATTAAA
*
32785907 ATTCCTAGATTTAACCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTGAG
1 ATTCCTAGACTTAACCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTGAG
*
32785969 ATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATT
1 ATTCCTAGACTTAACCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATT
32786028 NNNNNNNNNN
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (62 bp):
ATTCCTAGACTTAACCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTGAG
Found at i:32786449 original size:59 final size:59
Alignment explanation
Indices: 32786280--32786596 Score: 476
Period size: 59 Copynumber: 5.3 Consensus size: 59
32786270 NNNNNNNNNN
* *
32786280 AACAGGTTCGATTTAAATATTGAAATTCCTAGACTTAATTTAGGCTCGACCTATCTCAC
1 AACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAC
* * *
32786339 AACAGGTTCGATTTAAACAAAATTGAGATTCCTAGACTTAATCTAGGCTCGACCCATCTCAT
1 AACAGGTTCGATTT--A-AAAATTGAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAC
* *
32786401 AACCA-GTTCGATTTAAATATTGAAATTCCTAGACTTAATCTAGTCTCGACCTATCTCAC
1 AA-CAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAC
* *
32786460 AACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGTCTCGACTTATCTCAC
1 AACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAC
* *
32786519 AACAGGTTTGATTTAAAAATTGAAATT-TTCAGACTTAATCTAGGCTCGACCTATCTCAC
1 AACAGGTTCGATTTAAAAATTGAAATTCCT-AGACTTAATCTAGGCTCGACCTATCTCAC
32786578 AACAGGTTCGATTTAAAAA
1 AACAGGTTCGATTTAAAAA
32786597 ATTTCCTTAA
Statistics
Matches: 235, Mismatches: 17, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
58 3 0.01
59 178 0.76
60 1 0.00
61 1 0.00
62 50 0.21
63 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (59 bp):
AACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAC
Found at i:32798448 original size:17 final size:17
Alignment explanation
Indices: 32798428--32798470 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
32798418 TTTTGGATTA
*
32798428 TTTATTATTTAT-TATTT
1 TTTATT-TTTATATATAT
32798445 TTTATTTTTATATATAT
1 TTTATTTTTATATATAT
32798462 TTTATTTTT
1 TTTATTTTT
32798471 TGGTTTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATATATAT
Done.