Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 331 of 427
Found at i:96502617 original size:21 final size:21
Alignment explanation
Indices: 96502593--96502636 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
96502583 AAAAGCAAAT
* *
96502593 AATAATAAATAATAAAGAGAA
1 AATAATAAATAACAAAAAGAA
*
96502614 AATAATAACTAACAAAAAGAA
1 AATAATAAATAACAAAAAGAA
96502635 AA
1 AA
96502637 CTTATCAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.16
Consensus pattern (21 bp):
AATAATAAATAACAAAAAGAA
Found at i:96506409 original size:138 final size:138
Alignment explanation
Indices: 96506215--96506491 Score: 554
Period size: 138 Copynumber: 2.0 Consensus size: 138
96506205 ACAGGTTTTA
96506215 CTTACATTGGCCTGTTAACAAATCCCCGTTAGCGAAGATGAACGGATACTATGCACCAGGTAGGA
1 CTTACATTGGCCTGTTAACAAATCCCCGTTAGCGAAGATGAACGGATACTATGCACCAGGTAGGA
96506280 TTCCAAAGAAGAGAAGGTGAGTCATTAAGACCGCTTAAGTATCAAGCTCTCCCTAGATCCAATCC
66 TTCCAAAGAAGAGAAGGTGAGTCATTAAGACCGCTTAAGTATCAAGCTCTCCCTAGATCCAATCC
96506345 TAGATATG
131 TAGATATG
96506353 CTTACATTGGCCTGTTAACAAATCCCCGTTAGCGAAGATGAACGGATACTATGCACCAGGTAGGA
1 CTTACATTGGCCTGTTAACAAATCCCCGTTAGCGAAGATGAACGGATACTATGCACCAGGTAGGA
96506418 TTCCAAAGAAGAGAAGGTGAGTCATTAAGACCGCTTAAGTATCAAGCTCTCCCTAGATCCAATCC
66 TTCCAAAGAAGAGAAGGTGAGTCATTAAGACCGCTTAAGTATCAAGCTCTCCCTAGATCCAATCC
96506483 TAGATATG
131 TAGATATG
96506491 C
1 C
96506492 ATATACCCGT
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 139 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (138 bp):
CTTACATTGGCCTGTTAACAAATCCCCGTTAGCGAAGATGAACGGATACTATGCACCAGGTAGGA
TTCCAAAGAAGAGAAGGTGAGTCATTAAGACCGCTTAAGTATCAAGCTCTCCCTAGATCCAATCC
TAGATATG
Found at i:96506652 original size:28 final size:28
Alignment explanation
Indices: 96506620--96506698 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
96506610 CATACATGCT
**
96506620 TATGGCCCACTAAGCCCAATCTTAT-TCA
1 TATGGCCCACTAAGCCCAATCACATCT-A
* *
96506648 TATGGCCCATTAGGCCCAAATCACATCTA
1 TATGGCCCACTAAGCCC-AATCACATCTA
*
96506677 TATGGCCCACT-AGCCTAATCAC
1 TATGGCCCACTAAGCCCAATCAC
96506699 TTTTACAGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
27 6 0.14
28 18 0.43
29 17 0.40
30 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.25
Consensus pattern (28 bp):
TATGGCCCACTAAGCCCAATCACATCTA
Found at i:96512588 original size:20 final size:20
Alignment explanation
Indices: 96512563--96512607 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
96512553 AGAGACTAAA
* *
96512563 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
96512583 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
96512603 ATGAA
1 ATGAA
96512608 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:96527265 original size:20 final size:22
Alignment explanation
Indices: 96527216--96527265 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 22
96527206 TTATTTCATA
96527216 ATAGTTCA-AAAAATAAAAAAT
1 ATAGTTCATAAAAATAAAAAAT
96527237 ATA-TT--TAAAAATAAAAAA-
1 ATAGTTCATAAAAATAAAAAAT
96527255 A-AGTTCATAAA
1 ATAGTTCATAAA
96527266 TGGTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
17 1 0.04
18 3 0.12
19 12 0.48
20 6 0.24
21 3 0.12
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (22 bp):
ATAGTTCATAAAAATAAAAAAT
Found at i:96527904 original size:16 final size:16
Alignment explanation
Indices: 96527868--96527906 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
96527858 AATCATATAT
96527868 ATATTATATCATTTTC
1 ATATTATATCATTTTC
*
96527884 ATATTATATTTATTTTC
1 ATATTATA-TCATTTTC
96527901 -TATTAT
1 ATATTAT
96527907 TTTTTTGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATTATATCATTTTC
Found at i:96536142 original size:3 final size:3
Alignment explanation
Indices: 96536134--96536168 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
96536124 TAGAACAGAT
96536134 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
96536169 GCCCCGACCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:96539088 original size:2 final size:2
Alignment explanation
Indices: 96539081--96539118 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
96539071 AAATATCGGG
* *
96539081 AT AT AT AT AT AT AT AT AT AT GT AT AT GT 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
96539119 TTTCTTTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96539551 original size:13 final size:13
Alignment explanation
Indices: 96539533--96539609 Score: 82
Period size: 13 Copynumber: 5.9 Consensus size: 13
96539523 AGTTCTTCAT
96539533 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
96539546 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
* * *
96539559 TACTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
96539572 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
*
96539585 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
*
96539598 TGCTTTGGAAAA
1 TGCTTTTGAAAA
96539610 ATTTAAATGT
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:96540309 original size:15 final size:15
Alignment explanation
Indices: 96540289--96540321 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
96540279 CTTCAAGAAG
96540289 AAAAACAA-ATAAAAA
1 AAAAACAAGA-AAAAA
96540304 AAAAACAAGAAAAAA
1 AAAAACAAGAAAAAA
96540319 AAA
1 AAA
96540322 GTCACAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.88, C:0.06, G:0.03, T:0.03
Consensus pattern (15 bp):
AAAAACAAGAAAAAA
Found at i:96540316 original size:14 final size:15
Alignment explanation
Indices: 96540289--96540321 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
96540279 CTTCAAGAAG
*
96540289 AAAAACAAATAAAAA
1 AAAAACAAAGAAAAA
96540304 AAAAAC-AAGAAAAA
1 AAAAACAAAGAAAAA
96540318 AAAA
1 AAAA
96540322 GTCACAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.88, C:0.06, G:0.03, T:0.03
Consensus pattern (15 bp):
AAAAACAAAGAAAAA
Found at i:96542295 original size:3 final size:3
Alignment explanation
Indices: 96542287--96542318 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
96542277 CTTCTTAATC
96542287 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
96542319 CATTTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:96543862 original size:50 final size:49
Alignment explanation
Indices: 96543739--96543908 Score: 168
Period size: 50 Copynumber: 3.4 Consensus size: 49
96543729 TTACCGTTGC
* * *
96543739 CATGTCCCAGACATGGTCTTACACTGGCTATCTCTATCGAGGCCGATGT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCTCTATCGAGGCCGATCT
* *
96543788 CATGTCCCAGACATGGTCTTACACTAGCTCTCGTACT-TAC-ATGCTGATCT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTC-T-CTAT-CGAGGCCGATCT
* * * *
96543838 CATGTCCTAGACATGGTCTTACACTAGCTCT-TGCGTATCCATGTCGATGC-
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCT-C-TATCGAGGCCGAT-CT
*
96543888 CATGTCCCAAACATGGTCTTA
1 CATGTCCCAGACATGGTCTTA
96543909 TACTGACATG
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
48 2 0.02
49 32 0.31
50 65 0.63
51 4 0.04
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.31
Consensus pattern (49 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCTCTATCGAGGCCGATCT
Found at i:96544031 original size:94 final size:93
Alignment explanation
Indices: 96543927--96544141 Score: 218
Period size: 94 Copynumber: 2.3 Consensus size: 93
96543917 TGTCTCGTAG
* * * * *
96543927 CCGATGCATGTCCCAGATAT-GTCTTACACTGGCTAACATCATTAAGGCCGATGCATGTCCTAGA
1 CCGATGCATGTCCCAAACATGGTCTTACACGGGCTAACATCA-TAAGGCCGATGCATGTCCCAAA
*
96543991 CATGTCTTACACTGGCACTCACCTCTACT
65 CACGTCTTACACTGGCACTCACCTCTACT
* * * ** *
96544020 CCGATGCCATGTCCCAAACGTGGTCTTACACGGGCTATCATGATGCGGCTGATGCATGTCCCAAA
1 CCGATG-CATGTCCCAAACATGGTCTTACACGGGCTAACATCATAAGGCCGATGCATGTCCCAAA
* * ** *
96544085 CACGTCTTACACTAGCCCTCGTCTC-AAT
65 CACGTCTTACACTGGCACTCACCTCTACT
*
96544113 GCTGATGCCATGTCCCAAACATGGTCTTA
1 -CCGATG-CATGTCCCAAACATGGTCTTA
96544142 TACTGACTCT
Statistics
Matches: 100, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
93 8 0.08
94 74 0.74
95 18 0.18
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (93 bp):
CCGATGCATGTCCCAAACATGGTCTTACACGGGCTAACATCATAAGGCCGATGCATGTCCCAAAC
ACGTCTTACACTGGCACTCACCTCTACT
Found at i:96552867 original size:13 final size:13
Alignment explanation
Indices: 96552849--96552878 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
96552839 GAATTAATCG
96552849 CACATGGACGTGT
1 CACATGGACGTGT
*
96552862 CACATGGGCGTGT
1 CACATGGACGTGT
96552875 CACA
1 CACA
96552879 CGGGTGTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (13 bp):
CACATGGACGTGT
Found at i:96558175 original size:40 final size:40
Alignment explanation
Indices: 96558048--96558177 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
96558038 ATGCTGGAAA
* *
96558048 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
96558088 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
96558128 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
96558168 TTATATCCGG
1 TTATATCCGG
96558178 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:96566224 original size:40 final size:40
Alignment explanation
Indices: 96566097--96566226 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
96566087 ATGCTGGAAA
* *
96566097 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
96566137 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
96566177 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
96566217 TTATATCCGG
1 TTATATCCGG
96566227 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:96570325 original size:51 final size:51
Alignment explanation
Indices: 96570267--96570366 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
96570257 CGTGTGCAGC
* * * * *
96570267 ACTGACTT-TAGGGCACGTCCATGACACACGCCCGTGTGTCCTACCCGTGAT
1 ACTGACTTATA-GACACGGCCATGACACAAGCCCGTGTGACCTAACCGTGAT
* *
96570318 ACTGACTTATAGACACGGCTATGGCACAAGCCCGTGTGACCTAACCGTG
1 ACTGACTTATAGACACGGCCATGACACAAGCCCGTGTGACCTAACCGTG
96570367 GACAATACTG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 39 0.95
52 2 0.05
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (51 bp):
ACTGACTTATAGACACGGCCATGACACAAGCCCGTGTGACCTAACCGTGAT
Found at i:96571348 original size:47 final size:47
Alignment explanation
Indices: 96571283--96571453 Score: 143
Period size: 47 Copynumber: 3.6 Consensus size: 47
96571273 TGTATCGTAC
*
96571283 CCGATGCATGTCCCAGACATGTCTTACACTGGCTAACATCATTGAGG
1 CCGAGGCATGTCCCAGACATGTCTTACACTGGCTAACATCATTGAGG
* * **
96571330 CCGAGGCATGTCCCAGACATGTCTTACGCTGGC--AC-TCACCTTTACA
1 CCGAGGCATGTCCCAGACATGTCTTACACTGGCTAACATCA--TTGAGG
* * * * * *
96571376 CCGATGCCATGTCTCAGACGTAGTCTTACACGGGCTATCATGA-TGAGG
1 CCGA-GGCATGTCCCAGACAT-GTCTTACACTGGCTAACATCATTGAGG
* * * *
96571424 CTGATGCATGTGCCAGACACGTCTTACACT
1 CCGAGGCATGTCCCAGACATGTCTTACACT
96571454 AGCCCTCGTC
Statistics
Matches: 94, Mismatches: 23, Indels: 15
0.71 0.17 0.11
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 16 0.17
47 54 0.57
48 16 0.17
50 1 0.01
51 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (47 bp):
CCGAGGCATGTCCCAGACATGTCTTACACTGGCTAACATCATTGAGG
Found at i:96571474 original size:94 final size:93
Alignment explanation
Indices: 96571283--96571497 Score: 225
Period size: 94 Copynumber: 2.3 Consensus size: 93
96571273 TGTATCGTAC
*
96571283 CCGATGCATGTCCCAGACATGTCTTACACTGGCTAACATCATTGAGGCCGAGGCATGTCCCAGAC
1 CCGATGCATGTCCCAGACATGTCTTACACGGGCTAACATCATTGAGGCCGAGGCATGTCCCAGAC
* * * **
96571348 ATGTCTTACGCTGGCACTCACCTTTACA
66 ACGTCTTACACTAGCACTCACCTCAACA
* * * * * * *
96571376 CCGATGCCATGTCTCAGACGTAGTCTTACACGGGCTATCATGA-TGAGGCTGATGCATGTGCCAG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACGGGCTAACATCATTGAGGCCGAGGCATGTCCCAG
* ** **
96571440 ACACGTCTTACACTAGCCCTCGTCTCAATG
64 ACACGTCTTACACTAGCACTCACCTCAACA
96571470 CCGATGTCATGTCCCAGACATGGTCTTA
1 CCGATG-CATGTCCCAGACAT-GTCTTA
96571498 TGCTGGCTCT
Statistics
Matches: 98, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
93 6 0.06
94 74 0.76
95 18 0.18
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (93 bp):
CCGATGCATGTCCCAGACATGTCTTACACGGGCTAACATCATTGAGGCCGAGGCATGTCCCAGAC
ACGTCTTACACTAGCACTCACCTCAACA
Found at i:96572887 original size:24 final size:24
Alignment explanation
Indices: 96572858--96572914 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
96572848 CACGTTTGTG
* *
96572858 AACACTCAACAAGA-ATGTTCCTGA
1 AACACTAAACAA-ACATGTTCCTAA
96572882 AACACTAAACAAACATGTTCCTAA
1 AACACTAAACAAACATGTTCCTAA
96572906 AACACTAAA
1 AACACTAAA
96572915 TGAATCGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.49, C:0.25, G:0.07, T:0.19
Consensus pattern (24 bp):
AACACTAAACAAACATGTTCCTAA
Found at i:96592100 original size:13 final size:13
Alignment explanation
Indices: 96592082--96592115 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
96592072 AACCACCCGG
96592082 CCGTGTCACACGA
1 CCGTGTCACACGA
96592095 CCGTGTCACACGA
1 CCGTGTCACACGA
96592108 CCGTGTCA
1 CCGTGTCA
96592116 TCTTTTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (13 bp):
CCGTGTCACACGA
Found at i:96592644 original size:5 final size:5
Alignment explanation
Indices: 96592625--96592680 Score: 60
Period size: 5 Copynumber: 11.2 Consensus size: 5
96592615 TCCCCTGTTC
* * * *
96592625 TTTAT TTT-C TTTAT TTTAT TTTAT TATTAT TTTAT TTCAT TTTAT CTTAG
1 TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT
96592675 TTTAT T
1 TTTAT T
96592681 GATTTACTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 3 0.07
5 33 0.80
6 5 0.12
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:96592656 original size:16 final size:15
Alignment explanation
Indices: 96592625--96592680 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
96592615 TCCCCTGTTC
*
96592625 TTTATTTT-CTTTAT
1 TTTATTTTATTTTAT
96592639 TTTATTTTATTATTAT
1 TTTATTTTATT-TTAT
*
96592655 TTTATTTCATTTTAT
1 TTTATTTTATTTTAT
* *
96592670 CTTAGTTTATT
1 TTTATTTTATT
96592681 GATTTACTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 8 0.23
15 13 0.37
16 14 0.40
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTTTATTTTAT
Found at i:96594422 original size:12 final size:12
Alignment explanation
Indices: 96594383--96594434 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
96594373 TTTATCATTC
*
96594383 ATTTTTAATTTTA
1 ATTTTT-ATTTTT
*
96594396 ATTTTAATTTCTT
1 ATTTTTATTT-TT
*
96594409 ATTTTTAGTTTT
1 ATTTTTATTTTT
*
96594421 ATTTCTATTTTT
1 ATTTTTATTTTT
96594433 AT
1 AT
96594435 GTCTATTGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 18 0.56
13 14 0.44
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:96594424 original size:19 final size:19
Alignment explanation
Indices: 96594391--96594433 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
96594381 TCATTTTTAA
96594391 TTTTAATTTTAATTTCTTAT
1 TTTTAATTTTAATTTC-TAT
*
96594411 TTTTAGTTTT-ATTTCTAT
1 TTTTAATTTTAATTTCTAT
96594429 TTTTA
1 TTTTA
96594434 TGTCTATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 5 0.23
20 9 0.41
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTAATTTTAATTTCTAT
Found at i:96598414 original size:2 final size:2
Alignment explanation
Indices: 96598407--96598439 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
96598397 GAGACTAGTC
96598407 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96598440 CATGTCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96601791 original size:23 final size:25
Alignment explanation
Indices: 96601744--96601794 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
96601734 GGTATTATAG
*
96601744 AAAAAAAATTGAGTTTATTTTCAAT
1 AAAAAAAATTGAGTTTATTTACAAT
96601769 AAAAAAAATTGAG-TT-TTTACAAT
1 AAAAAAAATTGAGTTTATTTACAAT
96601792 AAA
1 AAA
96601795 TTGATTATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 10 0.40
24 2 0.08
25 13 0.52
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (25 bp):
AAAAAAAATTGAGTTTATTTACAAT
Found at i:96602650 original size:10 final size:9
Alignment explanation
Indices: 96602635--96602689 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 9
96602625 TAATTCTAGG
96602635 ATTTATTTT
1 ATTTATTTT
96602644 CATTTATCTTT
1 -ATTTAT-TTT
96602655 ATTTATATTT
1 ATTTAT-TTT
* *
96602665 AATTATATT
1 ATTTATTTT
96602674 ATTTATTTGT
1 ATTTATTT-T
96602684 ATTTAT
1 ATTTAT
96602690 CTTTTAGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
9 8 0.21
10 27 0.71
11 3 0.08
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTTATTTT
Found at i:96602657 original size:39 final size:39
Alignment explanation
Indices: 96602613--96602693 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
96602603 ATTAAGGATT
*
96602613 TTTATTTAGATTTAATTCTAGGATTTATTT-TCATTTATC
1 TTTATTTAGATTTAATTATAGGATTTATTTGT-ATTTATC
* **
96602652 TTTATTTATATTTAATTATATTATTTATTTGTATTTATC
1 TTTATTTAGATTTAATTATAGGATTTATTTGTATTTATC
96602691 TTT
1 TTT
96602694 TAGAATTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 36 0.97
40 1 0.03
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (39 bp):
TTTATTTAGATTTAATTATAGGATTTATTTGTATTTATC
Found at i:96605103 original size:21 final size:21
Alignment explanation
Indices: 96605062--96605103 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
96605052 TAAACTCTTA
*
96605062 ATTTCCAAAGAAAGACGAAGG
1 ATTTCCAAAGAAAAACGAAGG
*
96605083 ATTTCCAACA-AAAAACTAAGG
1 ATTTCCAA-AGAAAAACGAAGG
96605104 CATCCATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (21 bp):
ATTTCCAAAGAAAAACGAAGG
Found at i:96609067 original size:6 final size:6
Alignment explanation
Indices: 96609056--96609101 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
96609046 AGGCAACCCA
96609056 ATTTTT ATTTTT ATTTTT A-TTTT ATCTTATT A-TTTT ATTATTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT AT-TT-TT ATTTTT ATT-TTT ATT
96609102 ATTTTCAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 8 0.23
6 16 0.46
7 8 0.23
8 3 0.09
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:96609359 original size:15 final size:15
Alignment explanation
Indices: 96609341--96609370 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
96609331 GATGCTGATT
96609341 TGGTTGTTGCTGCCC
1 TGGTTGTTGCTGCCC
96609356 TGGTTGTTGCTGCCC
1 TGGTTGTTGCTGCCC
96609371 ATATAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.27, G:0.33, T:0.40
Consensus pattern (15 bp):
TGGTTGTTGCTGCCC
Found at i:96610717 original size:10 final size:10
Alignment explanation
Indices: 96610701--96610757 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
96610691 TTAATTCTAG
96610701 TATTTAT-TT
1 TATTTATATT
96610710 TCATTTATATT
1 T-ATTTATATT
96610721 TATTTATATT
1 TATTTATATT
* *
96610731 TAATTATCTT
1 TATTTATATT
96610741 TATTTAT-TT
1 TATTTATATT
96610750 GTATTTAT
1 -TATTTAT
96610758 CTTTTAGAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
9 3 0.07
10 36 0.86
11 3 0.07
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (10 bp):
TATTTATATT
Found at i:96610757 original size:20 final size:19
Alignment explanation
Indices: 96610701--96610761 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
96610691 TTAATTCTAG
*
96610701 TATTTATTTTCATTTATATT
1 TATTTATTTT-ATTTATCTT
*
96610721 TATTTATATTTAATTATCTT
1 TATTTAT-TTTATTTATCTT
96610741 TATTTATTTGTATTTATCTT
1 TATTTATTT-TATTTATCTT
96610761 T
1 T
96610762 TAGAATTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 2 0.06
20 31 0.86
21 3 0.08
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (19 bp):
TATTTATTTTATTTATCTT
Found at i:96613746 original size:40 final size:39
Alignment explanation
Indices: 96613616--96613767 Score: 119
Period size: 40 Copynumber: 3.8 Consensus size: 39
96613606 AAATTGAATG
* * * *
96613616 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGA-CCCGAAGGC-ATTGTGC-GAGACACT
* * ***
96613656 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGACACT
* *
96613696 ATATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGACACT
* *
96613736 CTATCCGGGCTAAGACCCAAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
96613768 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
39 3 0.03
40 84 0.93
41 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGACACT
Found at i:96613781 original size:40 final size:40
Alignment explanation
Indices: 96613654--96613783 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
96613644 ATGCTGGAAA
* * * *
96613654 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
96613694 CTATATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
* *
96613734 TTCTATCCGGGCTAAGACCCAAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
96613774 TTATATCCGG
1 TTATATCCGG
96613784 TTATATTCCG
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 2 0.03
40 68 0.97
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:96615533 original size:27 final size:27
Alignment explanation
Indices: 96615492--96615545 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
96615482 TAATAATGTC
*
96615492 GAAAGCACCCTTAATTTTATCACTATT
1 GAAAGCACCCCTAATTTTATCACTATT
96615519 GAAAGCACCCCTAATTTTATCACTATT
1 GAAAGCACCCCTAATTTTATCACTATT
96615546 AAGGGTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.35
Consensus pattern (27 bp):
GAAAGCACCCCTAATTTTATCACTATT
Found at i:96618335 original size:20 final size:20
Alignment explanation
Indices: 96618310--96618356 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
96618300 TAACCTTTTA
96618310 AAACCATTAAAATTTCATTT
1 AAACCATTAAAATTTCATTT
96618330 AAACCATTAAAATTTCATTT
1 AAACCATTAAAATTTCATTT
96618350 AAACCAT
1 AAACCAT
96618357 GTCCATGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (20 bp):
AAACCATTAAAATTTCATTT
Found at i:96624324 original size:12 final size:12
Alignment explanation
Indices: 96624309--96624333 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96624299 TAAACCAAGC
96624309 TATAAATATTTT
1 TATAAATATTTT
96624321 TATAAATATTTT
1 TATAAATATTTT
96624333 T
1 T
96624334 GGAGTGTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATAAATATTTT
Found at i:96626331 original size:20 final size:20
Alignment explanation
Indices: 96626288--96626329 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
96626278 TAAAGAAAGT
96626288 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAGTAATG
96626308 AAATGCAAAT-GAAAGTAA-G
1 AAATGC-AATGGAAAGTAATG
96626327 AAA
1 AAA
96626330 ATTTGGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATGCAATGGAAAGTAATG
Found at i:96629830 original size:40 final size:40
Alignment explanation
Indices: 96629771--96629912 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
96629761 AAATTGAATG
* *
96629771 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGACAATTATGCTAGAAACT
* * * ***
96629811 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
96629851 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
96629891 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
96629913 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.03
40 82 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:96629913 original size:40 final size:39
Alignment explanation
Indices: 96629810--96629938 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
96629800 TGCTGGAAAT
* * *
96629810 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
96629850 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
96629890 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
96629930 TATATCCGG
1 TATATCCGG
96629939 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:96637833 original size:40 final size:40
Alignment explanation
Indices: 96637767--96637933 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
96637757 AAATTGAATG
* * *
96637767 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
96637806 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
96637846 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
96637886 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
96637926 ATATCCGG
1 ATATCCGG
96637934 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:96641182 original size:36 final size:37
Alignment explanation
Indices: 96641114--96641226 Score: 212
Period size: 36 Copynumber: 3.1 Consensus size: 37
96641104 TATAAAAGAA
96641114 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
96641151 GTCTTACCCGGTCATAATCT-CACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
96641187 GTCTTACCC-GTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
96641223 GTCT
1 GTCT
96641227 CGCCCGGAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
35 10 0.13
36 45 0.60
37 20 0.27
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:96641392 original size:49 final size:49
Alignment explanation
Indices: 96641337--96641602 Score: 462
Period size: 49 Copynumber: 5.4 Consensus size: 49
96641327 TTACATTGGT
*
96641337 CATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
* *
96641386 CATTAGGCCTCATCACACATACATACACTTTCACGTTCATCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
96641435 CATTAGGCCTCATCACATATACATACACTTTCACGTTCA-CACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
* *
96641483 CATTAGGCCTCATCACATATACATACACTTTCACGTTCATCACATCGGT
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
*
96641532 CATTAGGCCTCATCACATATACATACACTTTCATGTTCACCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
96641581 CATTAGGCTCTCATCACATATA
1 CATTAGGC-CTCATCACATATA
96641603 TGTATATCAT
Statistics
Matches: 207, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
48 48 0.23
49 146 0.71
50 13 0.06
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.28
Consensus pattern (49 bp):
CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
Found at i:96641513 original size:97 final size:98
Alignment explanation
Indices: 96641337--96641602 Score: 480
Period size: 97 Copynumber: 2.7 Consensus size: 98
96641327 TTACATTGGT
*
96641337 CATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCAC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGCCATTAGGCCTCATCAC
*
96641402 ACATACATACACTTTCACGTTCATCACATCGGC
66 ATATACATACACTTTCACGTTCATCACATCGGC
96641435 CATTAGGCCTCATCACATATACATACACTTTCACGTTCA-CACATCGGCCATTAGGCCTCATCAC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGCCATTAGGCCTCATCAC
*
96641499 ATATACATACACTTTCACGTTCATCACATCGGT
66 ATATACATACACTTTCACGTTCATCACATCGGC
*
96641532 CATTAGGCCTCATCACATATACATACACTTTCATGTTCACCACATCGGCCATTAGGCTCTCATCA
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGCCATTAGGC-CTCATCA
96641597 CATATA
65 CATATA
96641603 TGTATATCAT
Statistics
Matches: 162, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
97 94 0.58
98 55 0.34
99 13 0.08
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.28
Consensus pattern (98 bp):
CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGCCATTAGGCCTCATCAC
ATATACATACACTTTCACGTTCATCACATCGGC
Found at i:96641543 original size:146 final size:147
Alignment explanation
Indices: 96641337--96641602 Score: 471
Period size: 146 Copynumber: 1.8 Consensus size: 147
96641327 TTACATTGGT
96641337 CATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCAC
1 CATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCAC
*
96641402 ACATACATACACTTTCACGTTCATCACATCGGCCATTAGGC-CTCATCACATATACATACACTTT
66 ACATACATACACTTTCACGTTCACCACATCGGCCATTAGGCTCTCATCACATATACATACACTTT
96641466 CACGTTCACACATCGGC
131 CACGTTCACACATCGGC
* * *
96641483 CATTAGGCCTCATCACATATACATACACTTTCACGTTCATCACATCGGTCATTAGGCCTCATCAC
1 CATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCAC
* *
96641548 ATATACATACACTTTCATGTTCACCACATCGGCCATTAGGCTCTCATCACATATA
66 ACATACATACACTTTCACGTTCACCACATCGGCCATTAGGCTCTCATCACATATA
96641603 TGTATATCAT
Statistics
Matches: 113, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
146 100 0.88
147 13 0.12
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.28
Consensus pattern (147 bp):
CATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCAC
ACATACATACACTTTCACGTTCACCACATCGGCCATTAGGCTCTCATCACATATACATACACTTT
CACGTTCACACATCGGC
Found at i:96645122 original size:29 final size:29
Alignment explanation
Indices: 96645086--96645214 Score: 222
Period size: 29 Copynumber: 4.4 Consensus size: 29
96645076 TGTTGAAAAA
*
96645086 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
96645115 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
* *
96645144 TTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
96645173 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
96645202 CTCGCACACATAG
1 CTCGCACACATAG
96645215 CTCGGTTAAC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 96 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACTGAT
Found at i:96645239 original size:87 final size:84
Alignment explanation
Indices: 96645086--96645247 Score: 202
Period size: 87 Copynumber: 1.9 Consensus size: 84
96645076 TGTTGAAAAA
*
96645086 CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACTGATTTCGCAC
1 CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAG-GCCTCAATTACGGATTT--CAC
*
96645151 ACATAGTGCCTCGATTACTGAT
63 ACACAGTGCCTCGATTACTGAT
* * **
96645173 CTCGCACACATAGTGCCTCGATTACTGATCTCGCACACATA-G-CTCGGTTAACGGAATTTGCAC
1 CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGGCCTCAATT-ACGG-ATTT-CAC
96645236 ACACAGTGCCTC
63 ACACAGTGCCTC
96645248 TAATCATTCG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
84 5 0.07
85 19 0.28
86 4 0.06
87 39 0.58
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (84 bp):
CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGGCCTCAATTACGGATTTCACACA
CAGTGCCTCGATTACTGAT
Found at i:96647313 original size:37 final size:37
Alignment explanation
Indices: 96647263--96647340 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
96647253 TATAAAAGAA
96647263 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
96647300 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
96647337 GTCT
1 GTCT
96647341 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:96647509 original size:49 final size:49
Alignment explanation
Indices: 96647450--96647666 Score: 389
Period size: 49 Copynumber: 4.4 Consensus size: 49
96647440 TTACATTGGT
*
96647450 CATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
* *
96647499 CATTAGGCCTCATCACACATACATACACTTTCACGTTCATCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
* *
96647548 CATTAGGCCTCATCACATATACATACACTTTCACGTTCATCACATCGGT
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
96647597 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
96647646 CATTAGGCCTCATCACATATA
1 CATTAGGCCTCATCACATATA
96647667 TATGTATATC
Statistics
Matches: 161, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 161 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.28
Consensus pattern (49 bp):
CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
Found at i:96651196 original size:29 final size:29
Alignment explanation
Indices: 96651160--96651291 Score: 228
Period size: 29 Copynumber: 4.6 Consensus size: 29
96651150 TGTTGAAAAA
*
96651160 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
96651189 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
* *
96651218 TTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
96651247 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
96651276 CTCGCACACATAGTGC
1 CTCGCACACATAGTGC
96651292 TCGGTTAACG
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 99 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACTGAT
Found at i:96651312 original size:58 final size:58
Alignment explanation
Indices: 96651160--96651323 Score: 215
Period size: 58 Copynumber: 2.8 Consensus size: 58
96651150 TGTTGAAAAA
* * *
96651160 CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACGGATCTCGCACACATAGTGCCTCAATTACTGAT
* * *
96651218 TTCGCACACATAGTGCCTCGATTACTGATCTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACGGATCTCGCACACATAGTGCCTCAATTACTGAT
* * *
96651276 CTCGCACACATAGTG-CTCGGTTAACGGAAT-TTGCACACACAGTGCCTC
1 CTCGCACACATAGTGCCTCGATT-ACGG-ATCTCGCACACATAGTGCCTC
96651324 TAATCATTCG
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
57 6 0.06
58 87 0.92
59 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (58 bp):
CTCGCACACATAGTGCCTCGATTACGGATCTCGCACACATAGTGCCTCAATTACTGAT
Found at i:96651312 original size:87 final size:87
Alignment explanation
Indices: 96651160--96651323 Score: 242
Period size: 87 Copynumber: 1.9 Consensus size: 87
96651150 TGTTGAAAAA
*
96651160 CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACTGATTTCGCAC
1 CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACGGATTTCGCAC
*
96651225 ACATAGTGCCTCGATTACTGAT
66 ACACAGTGCCTCGATTACTGAT
* * **
96651247 CTCGCACACATAGTGCCTCGATTACTGATCTCGCACACATAGTG-CTCGGTTAACGGAATTT-GC
1 CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCAATT-ACGG-ATTTCGC
96651310 ACACACAGTGCCTC
64 ACACACAGTGCCTC
96651324 TAATCATTCG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 5 0.07
87 60 0.87
88 4 0.06
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (87 bp):
CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACGGATTTCGCAC
ACACAGTGCCTCGATTACTGAT
Found at i:96653453 original size:37 final size:37
Alignment explanation
Indices: 96653333--96653446 Score: 221
Period size: 37 Copynumber: 3.1 Consensus size: 37
96653323 TATAAAAGAA
96653333 GTCTTACCCGGTCATAATCT-CACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
96653369 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
96653406 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
96653443 GTCT
1 GTCT
96653447 CGCCCGGAAC
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
36 20 0.26
37 57 0.74
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:96653612 original size:49 final size:49
Alignment explanation
Indices: 96653557--96653818 Score: 479
Period size: 49 Copynumber: 5.3 Consensus size: 49
96653547 TTACATTGGT
*
96653557 CATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
* *
96653606 CATTAGGCCTCATCACACATACATACACTTTCACGTTCATCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
96653655 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
* *
96653704 CATTAGGCCTCATCACATATACATACACTTTCACGTTCATCACATCGGT
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
96653753 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
96653802 CATTAGGCCTCATCACA
1 CATTAGGCCTCATCACA
96653819 CATATATGTA
Statistics
Matches: 204, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 204 1.00
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.27
Consensus pattern (49 bp):
CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
Found at i:96657802 original size:40 final size:39
Alignment explanation
Indices: 96657757--96657964 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
96657747 CGGAATACAA
*
96657757 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
96657797 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
96657837 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * ** * * *
96657877 CCAGATGTAGTCGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
96657917 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
96657957 CCGGATAT
1 CCGGATAT
96657965 CATTCAATTG
Statistics
Matches: 138, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:96657897 original size:80 final size:80
Alignment explanation
Indices: 96657757--96657963 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
96657747 CGGAATACAA
* * * *
96657757 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTAGCACAAATG
*
96657822 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * *
96657837 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGAT-GTAGTCG-CTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATAG-A-ACGACTAGCACAAA
*
96657900 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
** * ** * * *
96657917 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATA
96657964 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.01
80 103 0.97
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:96663383 original size:137 final size:137
Alignment explanation
Indices: 96663121--96663667 Score: 692
Period size: 137 Copynumber: 4.1 Consensus size: 137
96663111 TTGATAAATG
** * * * *
96663121 AATTATATTCTTTTGAAAAGAATATTAATTTACATGTCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTACAAAAGAATATTAATTTACATATATTTTATATTTTGACCGAAATCAATTAA
* *
96663186 TATAACTGTTTACATTAATAAATT-TGGTAAAATATATACAATTAATAATTTT-TATGAATCAAA
66 TATAA-TGTTTATATTAATAAATTCT-ATAAAATATATACAATTAAT-ATTTTGTATGAATCAAA
96663249 TTCATATATT
128 TTCATATATT
* *
96663259 AATTATATTCTTTAC-AAAGAATATTAATTTACATGTATTTTATATTTTGACCAAAATCAATTAA
1 AATTATATTCTTTACAAAAGAATATTAATTTACATATATTTTATATTTTGACCGAAATCAATTAA
*
96663323 TATAATTGTTTATATTAATAAATTCTATAAAATATATACAATTAATATTTTGTCTGAATCAAATT
66 TATAA-TGTTTATATTAATAAATTCTATAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
96663388 CATACATT
130 CATATATT
* * *
96663396 AATTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACCG------A--AA
1 AATTATATTCTTTACAAAAGAATATTAATTTACATATATTTTATATTTTGACCGAAATCAATTAA
* *
96663453 T-T-A-GTTTATATTAATAAATTC-AGTAAAATATATGCAATTAATGTTTTGTATGAATCAAATT
66 TATAATGTTTATATTAATAAATTCTA-TAAAATATATACAATTAATATTTTGTATGAATCAAATT
96663514 CATATATT
130 CATATATT
* ** * *
96663522 AATTATATTATTCCCAAAAGAATATTAATTTACATATATTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTACAAAAGAATATTAATTTACATATATTTTATATTTTGACCGAAATCAATTAA
*** * *
96663587 TATAAATGTTTATATTAATAAATTCGGCAAAATATATACAATTAATATTTTGTATCAATGAAATT
66 TAT-AATGTTTATATTAATAAATTCTATAAAATATATACAATTAATATTTTGTATGAATCAAATT
96663652 CATATATT
130 CATATATT
96663660 AATTATAT
1 AATTATAT
96663668 CTATGTTCTC
Statistics
Matches: 361, Mismatches: 31, Indels: 34
0.85 0.07 0.08
Matches are distributed among these distances:
125 1 0.00
126 109 0.30
128 1 0.00
129 1 0.00
130 3 0.01
132 2 0.01
134 3 0.01
135 1 0.00
136 5 0.01
137 120 0.33
138 115 0.32
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (137 bp):
AATTATATTCTTTACAAAAGAATATTAATTTACATATATTTTATATTTTGACCGAAATCAATTAA
TATAATGTTTATATTAATAAATTCTATAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATT
Found at i:96663558 original size:126 final size:128
Alignment explanation
Indices: 96663193--96663667 Score: 528
Period size: 126 Copynumber: 3.6 Consensus size: 128
96663183 TAATATAACT
* **
96663193 GTTTACATTAATAAATTTGGTAAAATATATACAATTAATAATTTT-TATGAATCAAATTCATATA
1 GTTTATATTAATAAATTCAGTAAAATATATACAATTAAT-ATTTTGTATGAATCAAATTCATATA
* ** * *
96663257 TTAATTATATTCTTTAC-AAAGAATATTAATTTACATGTATTTTATATTTTGACCAAAATCAATT
65 TTAATTATATTATTCCCAAAAGAATATTAATTTACATATATTTTATATTTTGACC-----GAA-T
96663321 AATATAA
124 AAT-T-A
*
96663328 TTGTTTATATTAATAAATTCTA-TAAAATATATACAATTAATATTTTGTCTGAATCAAATTCATA
1 --GTTTATATTAATAAATTC-AGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATA
* * * * *
96663392 CATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACCG-A-AATT
63 TATTAATTATATTATTCCCAAAAGAATATTAATTTACATATATTTTATATTTTGACCGAATAATT
96663455 A
128 A
* *
96663456 GTTTATATTAATAAATTCAGTAAAATATATGCAATTAATGTTTTGTATGAATCAAATTCATATAT
1 GTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATAT
*
96663521 TAATTATATTATTCCCAAAAGAATATTAATTTACATATATTTTATATTTTGACTGAAATTAATTA
66 TAATTATATTATTCCCAAAAGAATATTAATTTACATATATTTTATATTTTGACCG-----AA-TA
96663586 ATATAAA
125 AT-T--A
* * * *
96663593 TGTTTATATTAATAAATTCGGCAAAATATATACAATTAATATTTTGTATCAATGAAATTCATATA
1 -GTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATA
96663658 TTAATTATAT
65 TTAATTATAT
96663668 CTATGTTCTC
Statistics
Matches: 297, Mismatches: 25, Indels: 31
0.84 0.07 0.09
Matches are distributed among these distances:
125 1 0.00
126 109 0.37
128 1 0.00
129 1 0.00
130 3 0.01
132 2 0.01
134 3 0.01
135 1 0.00
136 5 0.02
137 69 0.23
138 102 0.34
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (128 bp):
GTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATAT
TAATTATATTATTCCCAAAAGAATATTAATTTACATATATTTTATATTTTGACCGAATAATTA
Found at i:96663606 original size:264 final size:263
Alignment explanation
Indices: 96663193--96663667 Score: 745
Period size: 264 Copynumber: 1.8 Consensus size: 263
96663183 TAATATAACT
**
96663193 GTTTACATTAATAAATTTGGTAAAATATATACAATTAATAATTTTTATGAATCAAATTCATATAT
1 GTTTACATTAATAAATTCAGTAAAATATATACAATTAATAATTTTTATGAATCAAATTCATATAT
* * *
96663258 TAATTATATTCTTTACAAAGAATATTAATTTACATGTATTTTATATTTTGACCAAAATCAATTAA
66 TAATTATATTATTCACAAAGAATATTAATTTACATATATTTTATATTTTGACCAAAATCAATTAA
* * * * *
96663323 TATAATTGTTTATATTAATAAATTCTATAAAATATATACAATTAATATTTTGTCTGAATCAAATT
131 TATAAATGTTTATATTAATAAATTCGACAAAATATATACAATTAATATTTTGTATCAATCAAATT
96663388 CATACATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACCGAAA
196 CATACATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACCGAAA
96663453 TTA
261 TTA
* * *
96663456 GTTTATATTAATAAATTCAGTAAAATATATGCAATTAAT-GTTTTGTATGAATCAAATTCATATA
1 GTTTACATTAATAAATTCAGTAAAATATATACAATTAATAATTTT-TATGAATCAAATTCATATA
* ** *
96663520 TTAATTATATTATTCCCAAAAGAATATTAATTTACATATATTTTATATTTTGACTGAAATTAATT
65 TTAATTATATTATTCAC-AAAGAATATTAATTTACATATATTTTATATTTTGACCAAAATCAATT
* *
96663585 AATATAAATGTTTATATTAATAAATTCGGCAAAATATATACAATTAATATTTTGTATCAATGAAA
129 AATATAAATGTTTATATTAATAAATTCGACAAAATATATACAATTAATATTTTGTATCAATCAAA
*
96663650 TTCATATATTAATTATAT
194 TTCATACATTAATTATAT
96663668 CTATGTTCTC
Statistics
Matches: 190, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
262 4 0.02
263 68 0.36
264 118 0.62
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (263 bp):
GTTTACATTAATAAATTCAGTAAAATATATACAATTAATAATTTTTATGAATCAAATTCATATAT
TAATTATATTATTCACAAAGAATATTAATTTACATATATTTTATATTTTGACCAAAATCAATTAA
TATAAATGTTTATATTAATAAATTCGACAAAATATATACAATTAATATTTTGTATCAATCAAATT
CATACATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACCGAAA
TTA
Found at i:96667599 original size:40 final size:40
Alignment explanation
Indices: 96667516--96667666 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
96667506 AAATTGAATG
* * * ** *
96667516 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCACT
* * *
96667556 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-CGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTC-ACT
* *
96667596 ATATCCGGGCTAAGACCAGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCACT
* *
96667636 CTATCCGGGCTAAGACCCGAAGGCATTTGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTG
96667667 GACATGCTTA
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
39 3 0.03
40 84 0.93
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCACT
Found at i:96669677 original size:15 final size:15
Alignment explanation
Indices: 96669658--96669693 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
96669648 AACCTAACCC
*
96669658 AAAAAAAAAAACAAAG
1 AAAAAAAAGAA-AAAG
96669674 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
96669689 AAAAA
1 AAAAA
96669694 CTTACCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:96669705 original size:18 final size:18
Alignment explanation
Indices: 96669684--96669728 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
96669674 AAAAAAAAGA
*
96669684 AAAAGAAAAACTTA-CCCC
1 AAAA-AAAAACTAACCCCC
*
96669702 AAAAAAAACCTAACCCCC
1 AAAAAAAAACTAACCCCC
96669720 AAAAAAAAA
1 AAAAAAAAA
96669729 GAAGAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.64, C:0.27, G:0.02, T:0.07
Consensus pattern (18 bp):
AAAAAAAAACTAACCCCC
Found at i:96670552 original size:11 final size:11
Alignment explanation
Indices: 96670534--96670563 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
96670524 GTGTATATTG
96670534 TATATATTATA
1 TATATATTATA
*
96670545 TTTATATTATA
1 TATATATTATA
96670556 TATATATT
1 TATATATT
96670564 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:96683490 original size:70 final size:69
Alignment explanation
Indices: 96683315--96683524 Score: 279
Period size: 69 Copynumber: 3.0 Consensus size: 69
96683305 GAATTAAGCC
* *
96683315 TTTTAA-TTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTG
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACGCTG
96683379 AGGTA
65 AGGTA
* * *
96683384 TTTTCAATTTTGTGTTTT---AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGT
1 TTTT-AATTTT-TGTTTTCAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGGCACGC
96683446 TGAGGTA
63 TGAGGTA
96683453 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGA-AGTGAGTTGA-CCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTC-GGGCACGCT
96683516 GAGGTA
64 GAGGTA
96683522 TTT
1 TTT
96683525 CCAATTTCTG
Statistics
Matches: 124, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
67 6 0.05
68 39 0.31
69 40 0.32
70 30 0.24
71 7 0.06
72 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (69 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACGCTGA
GGTA
Found at i:96683531 original size:70 final size:69
Alignment explanation
Indices: 96683321--96683531 Score: 270
Period size: 68 Copynumber: 3.0 Consensus size: 69
96683311 AGCCTTTTAA
* *
96683321 TTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATT
1 TTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTA-T
96683386 TTCAAT
64 TTCAAT
* * *
96683392 TTTGTGTTTT---AATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTA
1 TTT-TGTTTTCAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTC-GGGCACGCTGAGGTA
*
96683453 TTTTAAT
63 TTTCAAT
96683460 TTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGA-CCTCGGGGCACGCTGAGGTATT
1 TTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATT
96683524 TCCAAT
65 T-CAAT
96683530 TT
1 TT
96683532 CTGCTTTTTA
Statistics
Matches: 121, Mismatches: 11, Indels: 17
0.81 0.07 0.11
Matches are distributed among these distances:
67 7 0.06
68 40 0.33
69 31 0.26
70 32 0.26
71 9 0.07
72 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (69 bp):
TTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTT
CAAT
Found at i:96683736 original size:73 final size:71
Alignment explanation
Indices: 96683558--96683764 Score: 265
Period size: 73 Copynumber: 2.9 Consensus size: 71
96683548 GTTTTCCAAG
* * * *
96683558 AAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTAT
*
96683623 GTTTCA
66 GTATCA
* * *
96683629 AAAAGCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTAATTTCAATTCCT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATT--T
96683694 AT-TAAAT-A
64 ATGT--ATCA
* * *
96683702 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTT
96683765 CTACTTTTAA
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
71 56 0.47
72 1 0.01
73 60 0.51
74 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (71 bp):
AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTAT
GTATCA
Found at i:96683910 original size:231 final size:230
Alignment explanation
Indices: 96683332--96683921 Score: 836
Period size: 231 Copynumber: 2.6 Consensus size: 230
96683322 TTTGTTTTTC
* * * * * *
96683332 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTT-T
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
** * * *
96683395 GTGTT--TTAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTT
66 GT-TTCAAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAGGGCACGCTGAGGTAATTT
* ** * * * *
96683456 TAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGACCTCGGGGCACGCTGAGGT
129 CAATTCCTATTATAAAAATCAACTCATATTGCGAGAAGTGAGTTGACCTCAGGGCACGCTGAGGT
*
96683521 ATTTCCAATTTCTGCTTTTTAATTCATGTTTTCCAAG
194 ATTTCCAATTTCTACTTTTTAATTCATGTTTTCCAAG
*
96683558 AAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
* * * * *
96683623 GTTTCAAAAAGCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTAATTTCA
66 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCA
96683688 ATTCCTATTAAATAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGG
131 ATTCCTATT--ATAAAAATCAACTCATATTGCGAGAAGTGAGTTGA-CCTCAGGGCACGCTGAGG
*
96683753 TATTTTCAATTTCTAC-TTTTAATTCATGTTTTCCAAG
193 TATTTCCAATTTCTACTTTTTAATTCATGTTTTCCAAG
96683790 AAAATCAGCTCATATTGCGAGAGGTG-GTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
96683854 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
66 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCA
96683919 ATT
131 ATT
96683922 TCTGCTTTTT
Statistics
Matches: 322, Mismatches: 33, Indels: 13
0.88 0.09 0.04
Matches are distributed among these distances:
226 34 0.11
227 23 0.07
228 3 0.01
229 40 0.12
230 12 0.04
231 100 0.31
232 79 0.25
233 31 0.10
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (230 bp):
AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCA
ATTCCTATTATAAAAATCAACTCATATTGCGAGAAGTGAGTTGACCTCAGGGCACGCTGAGGTAT
TTCCAATTTCTACTTTTTAATTCATGTTTTCCAAG
Found at i:96683918 original size:71 final size:70
Alignment explanation
Indices: 96683790--96683922 Score: 203
Period size: 71 Copynumber: 1.9 Consensus size: 70
96683780 GTTTTCCAAG
* * *
96683790 AAAATCAGCTCATATTGCGAGAGGTGGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATG
1 AAAATCAACTCATATTGCGAGAAGTGGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATG
96683855 TTTCA
66 TTTCA
* * *
96683860 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTG-GTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
96683923 CTGCTTTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
70 24 0.43
71 32 0.57
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATG
TTTCA
Found at i:96684058 original size:159 final size:158
Alignment explanation
Indices: 96683629--96684237 Score: 983
Period size: 157 Copynumber: 3.8 Consensus size: 158
96683619 TTATGTTTCA
* ** * * *
96683629 AAAAGCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTAATTTCAATTCCT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT--T
*
96683694 AT-TAAAT-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
64 ATGT--TTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
*
96683757 TTCAATTTCTACTTTTAATTCATGTTTTCCAAG
127 TTCAATTTCTACTTTTAGTTCATG-TTTCCAAG
96683790 AAAATCAGCTCATATTGCGAGAGGTG-GTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
96683854 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
66 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
*
96683919 ATTTCTGCTTTTTAGTTCATGTTTCCAAG
131 ATTTCTAC-TTTTAGTTCATGTTTCCAAG
96683948 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
96684013 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
66 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
*
96684078 ATTTCTTCTTTTAGTTCATGTTT-CAAG
131 ATTTCTACTTTTAGTTCATGTTTCCAAG
* * *
96684105 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTAATTTCAATTCAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
* ** *
96684170 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCA
66 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
96684235 ATT
131 ATT
96684238 CCCATTAAAT
Statistics
Matches: 427, Mismatches: 17, Indels: 12
0.94 0.04 0.03
Matches are distributed among these distances:
157 131 0.31
158 119 0.28
159 122 0.29
160 30 0.07
161 25 0.06
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (158 bp):
AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
ATTTCTACTTTTAGTTCATGTTTCCAAG
Found at i:96684069 original size:71 final size:71
Alignment explanation
Indices: 96683948--96684081 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
96683938 TGTTTCCAAG
* * *
96683948 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
96684013 GTTTCA
66 GTTTCA
* * *
96684019 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
96684082 CTTCTTTTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:96684164 original size:86 final size:84
Alignment explanation
Indices: 96684011--96684166 Score: 240
Period size: 86 Copynumber: 1.8 Consensus size: 84
96684001 ATTTCAATTT
* * *
96684011 ATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
1 ATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
96684076 CAATTTCTTCTTTTAGTTC
66 CAATTTCTTCTTTTAGTTC
* * *
96684095 ATGTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTAAT
1 ATGTTTC-A-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAAT
96684160 TTCAATT
64 TTCAATT
96684167 CATGTTTCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
84 7 0.11
85 1 0.02
86 56 0.88
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (84 bp):
ATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
CAATTTCTTCTTTTAGTTC
Found at i:96684169 original size:390 final size:375
Alignment explanation
Indices: 96683332--96684314 Score: 1198
Period size: 390 Copynumber: 2.6 Consensus size: 375
96683322 TTTGTTTTTC
* * * *
96683332 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATT-TT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGGGGTAATTTCAATTCAT
* *
96683395 GTGTTT---TAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTT
66 GT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
* * *
96683456 TAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGA-CCTCGGGGCACGCTGAGG
130 CAATTTATG-TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGG
* *
96683520 TATTTCCAATTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGTGAGAGGTGA
194 TATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGA
*
96683585 GTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAAAGCAGCTCATATTGCGAG
259 GTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAAAGCAACTCATATTGCGAG
* * *
96683650 AGGTGAGTTGAGCCTCGGGGCATGCTGAGGTAATTTCAATTCCTATTAAATA
324 AAGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTCCTATTAAATA
* *
96683702 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG-GG----GT-AA-TT-T
*
96683767 ACTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTG-GTTGAGCCTCAAGAC
58 -C----AATTCATGTTTT-C-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
96683831 ACGTTGAGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
115 ACGTTGAGGTAATTTCAATTTATGTTTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
*
96683896 CAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAGTTCATG-TTTCCAAGAAAATCAGCTCA
179 CAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCA
*
96683960 TATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAAATC
244 TATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAAAGC
*
96684025 AACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTTCTTTT
309 AACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAA-TTC--C---T
**
96684090 AGTTCATGTTTCAA
368 A-TT-A--AAT--A
* * *
96684104 GAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTAATTTCAATTCA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGGGGTAATTTCAATTCA
* * *** * *
96684169 TG-TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTT
65 TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
* * *
96684233 CAATTCCCAT-TAAATCTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGCGGCACGC
130 CAATT--TATGT--TTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG-GGCACGC
* *
96684296 TAAGGTATTTTCAAATTCT
189 TGAGGTATTTTCAATTTCT
96684315 ATCTTAAAGA
Statistics
Matches: 528, Mismatches: 42, Indels: 66
0.83 0.07 0.10
Matches are distributed among these distances:
370 35 0.07
371 10 0.02
372 1 0.00
376 1 0.00
377 1 0.00
378 2 0.00
379 1 0.00
380 1 0.00
384 7 0.01
385 3 0.01
386 24 0.05
387 30 0.06
388 2 0.00
389 35 0.07
390 267 0.51
391 47 0.09
393 1 0.00
394 1 0.00
395 1 0.00
396 4 0.01
397 4 0.01
398 2 0.00
400 1 0.00
402 3 0.01
403 44 0.08
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (375 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGGGGTAATTTCAATTCAT
GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
AATTTATGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTA
TTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGT
TGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAAAGCAACTCATATTGCGAGAA
GTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTCCTATTAAATA
Found at i:96684229 original size:71 final size:70
Alignment explanation
Indices: 96684105--96684354 Score: 259
Period size: 74 Copynumber: 3.5 Consensus size: 70
96684095 ATGTTTCAAG
* ** * * *
96684105 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTAATTTCAATTCAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGAGGCACGCTGAGGTAATTTCAATTCAT
96684170 GTTTCA
66 -TTTCA
* *
96684176 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATTCCC
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGAGGCACGCTGAGGTAATTTCAATT--C
* *
96684241 ATTAAATCT
64 ATT--TTCA
* * *
96684250 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGAGGCACGCTGAGGTAATTTC-AATTC-
*
96684315 ATCTT-A
64 ATTTTCA
* * * *
96684321 AAGAGTCAATTCATATTACGAGAGGTGAGTTGAG
1 AA-AATCAACTCATATTGCGAGAAGTGAGTTGAG
96684355 TCTTTTAATT
Statistics
Matches: 151, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
71 56 0.37
72 29 0.19
73 4 0.03
74 58 0.38
75 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGAGGCACGCTGAGGTAATTTCAATTCAT
TTTCA
Found at i:96685258 original size:16 final size:16
Alignment explanation
Indices: 96685239--96685274 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
96685229 AACCTAACCC
96685239 AAAAAAAAA-AACAAAG
1 AAAAAAAAAGAA-AAAG
96685255 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
96685271 AAAA
1 AAAA
96685275 CTTACCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:96686128 original size:14 final size:14
Alignment explanation
Indices: 96686109--96686141 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
96686099 ATCATATGTG
96686109 TATATTGTATATAT-
1 TATATT-TATATATA
96686123 TATATTTATATATA
1 TATATTTATATATA
96686137 TATAT
1 TATAT
96686142 ATTCTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TATATTTATATATA
Found at i:96694298 original size:21 final size:21
Alignment explanation
Indices: 96694269--96694320 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
96694259 GGTTAGTCCG
*
96694269 TCCGGTGACGCCCTTACCTAT
1 TCCGATGACGCCCTTACCTAT
96694290 TCCGATGACGCCCTTACCTAT
1 TCCGATGACGCCCTTACCTAT
96694311 TCCGATGACG
1 TCCGATGACG
96694321 GTTACGGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.37, G:0.19, T:0.27
Consensus pattern (21 bp):
TCCGATGACGCCCTTACCTAT
Found at i:96706453 original size:22 final size:21
Alignment explanation
Indices: 96706423--96706488 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
96706413 TACAAATTAA
96706423 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
96706445 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
96706466 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
96706485 ATCT
1 ATCT
96706489 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:96706475 original size:19 final size:19
Alignment explanation
Indices: 96706440--96706537 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
96706430 AGATTACAAG
96706440 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
96706461 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
96706480 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
96706497 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
96706516 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
96706535 ATC
1 ATC
96706538 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:96706504 original size:36 final size:37
Alignment explanation
Indices: 96706440--96706537 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
96706430 AGATTACAAG
96706440 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
*
96706480 ATCATATCTAAGATTG-TATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
96706516 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
96706538 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:96719632 original size:2 final size:2
Alignment explanation
Indices: 96719625--96719662 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
96719615 CTAATACGTC
96719625 AT 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 AT
96719663 TAGATTATAG
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):
AT
Found at i:96721353 original size:25 final size:24
Alignment explanation
Indices: 96721299--96721356 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
96721289 TTAAAAATAT
**
96721299 ATTAAATATTAGAAATTTATAAAAA
1 ATTAAATA-TAGAAACCTATAAAAA
96721324 A--AAATATAGGAAACCTATAAAAA
1 ATTAAATATA-GAAACCTATAAAAA
96721347 ATTAAATATA
1 ATTAAATATA
96721357 TTAAAAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 2 0.07
23 18 0.64
25 8 0.29
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (24 bp):
ATTAAATATAGAAACCTATAAAAA
Found at i:96721653 original size:18 final size:18
Alignment explanation
Indices: 96721630--96721691 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
96721620 TTTAGTAATT
96721630 TTTTTTATAAAATTTATA
1 TTTTTTATAAAATTTATA
*
96721648 TTTTTT-TATAAATTCTACA
1 TTTTTTATA-AAATT-TATA
* * *
96721667 -TTTTTATGATATTCATA
1 TTTTTTATAAAATTTATA
96721684 TTTTTTAT
1 TTTTTTAT
96721692 GATTTTCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 4 0.11
18 27 0.77
19 4 0.11
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTTTATAAAATTTATA
Found at i:96721669 original size:19 final size:19
Alignment explanation
Indices: 96721629--96721671 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
96721619 CTTTAGTAAT
*
96721629 TTTTTTTATAAAATTTATA
1 TTTTTTTATAAAATTTACA
96721648 TTTTTTTAT-AAATTCTACA
1 TTTTTTTATAAAATT-TACA
96721667 TTTTT
1 TTTTT
96721672 ATGATATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTTTATAAAATTTACA
Found at i:96721692 original size:18 final size:17
Alignment explanation
Indices: 96721649--96721705 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
96721639 AAATTTATAT
*
96721649 TTTTTTAT-AAATTCTA
1 TTTTTTATGATATTCTA
*
96721665 CATTTTTATGATATTCATA
1 -TTTTTTATGATATTC-TA
*
96721684 TTTTTTATGATTTTCTA
1 TTTTTTATGATATTCTA
96721701 TTTTT
1 TTTTT
96721706 AGTTTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 14 0.41
18 18 0.53
19 2 0.06
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTTTTATGATATTCTA
Found at i:96721722 original size:25 final size:25
Alignment explanation
Indices: 96721684--96721731 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
96721674 GATATTCATA
* *
96721684 TTTTTTATGATTTTCTATTTTTAGT
1 TTTTTTATGATTTTATATATTTAGT
96721709 TTTTTTA-GATTTTTATATATTTA
1 TTTTTTATGA-TTTTATATATTTA
96721732 AAAAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.71
Consensus pattern (25 bp):
TTTTTTATGATTTTATATATTTAGT
Found at i:96728518 original size:49 final size:49
Alignment explanation
Indices: 96728453--96728563 Score: 199
Period size: 49 Copynumber: 2.3 Consensus size: 49
96728443 GACTCGTTCC
96728453 CCCTC-CCCCAGC-GACTACTTTTCCAATGGCTAATTAAAATATTCGTTG
1 CCCTCGCCCCA-CAGACTACTTTTCCAATGGCTAATTAAAATATTCGTTG
96728501 CCCTCGCCCCACAGACTACTTTTCCAATGGCTAATTAAAATATTCGTTG
1 CCCTCGCCCCACAGACTACTTTTCCAATGGCTAATTAAAATATTCGTTG
96728550 CCCTCGCCCCACAG
1 CCCTCGCCCCACAG
96728564 TAAAAAAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
48 6 0.10
49 55 0.90
ACGTcount: A:0.24, C:0.35, G:0.13, T:0.28
Consensus pattern (49 bp):
CCCTCGCCCCACAGACTACTTTTCCAATGGCTAATTAAAATATTCGTTG
Found at i:96730857 original size:32 final size:31
Alignment explanation
Indices: 96730817--96730906 Score: 92
Period size: 32 Copynumber: 2.8 Consensus size: 31
96730807 CATACCAAGT
*
96730817 TAGTATTTGTTATCATTTCACAAAATTAAA-A
1 TAGTATTTGTTAT-ATTTCACAAAATGAAAGA
* * *
96730848 TAGTAATTTGTTAATATTTCAAAAAAAGAAAGC
1 TAGT-ATTTGTT-ATATTTCACAAAATGAAAGA
*
96730881 TAATATTTGTTATTATTTCACAAAAT
1 TAGTATTTGTTA-TATTTCACAAAAT
96730907 CACACGTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
31 5 0.10
32 38 0.79
33 5 0.10
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (31 bp):
TAGTATTTGTTATATTTCACAAAATGAAAGA
Found at i:96739521 original size:33 final size:33
Alignment explanation
Indices: 96739452--96739575 Score: 122
Period size: 33 Copynumber: 3.8 Consensus size: 33
96739442 ATAGACCTTT
* * * * * *
96739452 CCTTTTCTAGTTGTACACCCGAGGTGCACATTC
1 CCTTTTCAAGTGGTACACACAAAGTGCACATAC
* **
96739485 CCTTTTCAAGTGGTACACACAAATTTTACATAC
1 CCTTTTCAAGTGGTACACACAAAGTGCACATAC
* * * *
96739518 CCTTTTCAATTTGAACACACAAAGTGCACATAG
1 CCTTTTCAAGTGGTACACACAAAGTGCACATAC
*
96739551 CCTTTTCAAGTGGTATACACAAAGT
1 CCTTTTCAAGTGGTACACACAAAGT
96739576 ATACCTTTCT
Statistics
Matches: 71, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTGCACATAC
Found at i:96739623 original size:33 final size:33
Alignment explanation
Indices: 96739485--96739625 Score: 122
Period size: 33 Copynumber: 4.3 Consensus size: 33
96739475 GTGCACATTC
* * * * *
96739485 CCTTTTCAAGTGGTACACACAAATTTTACATAC
1 CCTTTTCAAGTGGTATACACAAAGTATACCTAA
* * * * ** * *
96739518 CCTTTTCAATTTGAACACACAAAGTGCACATAG
1 CCTTTTCAAGTGGTATACACAAAGTATACCTAA
**
96739551 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTAA
*
96739584 CTTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTTCA-AGTGGTATACACAAAGTATACCTAA
96739617 CCTTTTCAA
1 CCTTTTCAA
96739626 ATTGTACCAT
Statistics
Matches: 87, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
32 1 0.01
33 85 0.98
34 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (33 bp):
CCTTTTCAAGTGGTATACACAAAGTATACCTAA
Found at i:96739866 original size:27 final size:27
Alignment explanation
Indices: 96739835--96739889 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
96739825 TAAATCACAA
96739835 ATCAAGATTGATTTATTACATGTACAT
1 ATCAAGATTGATTTATTACATGTACAT
*
96739862 ATCAAGGTTGATTTATTACATGTACAT
1 ATCAAGATTGATTTATTACATGTACAT
96739889 A
1 A
96739890 CCAATTACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (27 bp):
ATCAAGATTGATTTATTACATGTACAT
Found at i:96742189 original size:53 final size:53
Alignment explanation
Indices: 96742048--96742198 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
96742038 ACAAGTGTGC
* **
96742048 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
96742101 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
96742154 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
96742199 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:96749705 original size:53 final size:53
Alignment explanation
Indices: 96749564--96749714 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
96749554 ACAAGTGTGC
* **
96749564 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
96749617 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
96749670 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
96749715 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:96751054 original size:13 final size:13
Alignment explanation
Indices: 96751036--96751061 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96751026 CACATAATTG
96751036 ATAAAAATTTTCA
1 ATAAAAATTTTCA
96751049 ATAAAAATTTTCA
1 ATAAAAATTTTCA
96751062 TGCAATATTC
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAAAAATTTTCA
Found at i:96753714 original size:16 final size:16
Alignment explanation
Indices: 96753693--96753724 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
96753683 ACACCGGAAC
96753693 GCCCTATGATGAGAAA
1 GCCCTATGATGAGAAA
96753709 GCCCTATGATGAGAAA
1 GCCCTATGATGAGAAA
96753725 CTAGGTCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (16 bp):
GCCCTATGATGAGAAA
Found at i:96757094 original size:33 final size:33
Alignment explanation
Indices: 96757045--96757159 Score: 133
Period size: 33 Copynumber: 3.5 Consensus size: 33
96757035 ATAGACCTTT
* * * *
96757045 CCTTTTCTAGTTGTACACCCGAGGTGCACATTC
1 CCTTTTCAAGTTGTACACACGAAGTGCACATAC
* * *
96757078 CCCTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGTTGTACACACGAAGTGCACATAC
* * *
96757111 CCTTTTCAAATTGTACACACAAAGTGCACATAG
1 CCTTTTCAAGTTGTACACACGAAGTGCACATAC
96757144 CCTTTTCAAG-TGTACA
1 CCTTTTCAAGTTGTACA
96757160 TATATAGTGT
Statistics
Matches: 68, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
32 6 0.09
33 62 0.91
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACACGAAGTGCACATAC
Found at i:96757183 original size:65 final size:66
Alignment explanation
Indices: 96757039--96757199 Score: 164
Period size: 66 Copynumber: 2.5 Consensus size: 66
96757029 TTTCCTATAG
* * * * *
96757039 ACCTTTCCTTTTCTAGTTGTACACCCGAGGTGCACATTCCCCTTTCAAGTGGTACACACGAAGTG
1 ACCTTTCCTTTTCAAGTTGTACACACAAAGTGCACATACCCCTTTCAAGTGGTACACACGAAGTG
96757104 T
66 T
* ** * * * * *
96757105 ACATACCCTTTTCAAATTGTACACACAAAGTGCACATAGCCTTTTCAAGT-GTACATA-TATAGT
1 ACCTTTCCTTTTCAAGTTGTACACACAAAGTGCACATACCCCTTTCAAGTGGTACACACGA-AGT
96757168 GT
65 GT
* *
96757170 ACCTTTCCTTTTCAAGTGGTATACACAAAG
1 ACCTTTCCTTTTCAAGTTGTACACACAAAG
96757200 CATACATTTC
Statistics
Matches: 75, Mismatches: 19, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
64 1 0.01
65 35 0.47
66 39 0.52
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (66 bp):
ACCTTTCCTTTTCAAGTTGTACACACAAAGTGCACATACCCCTTTCAAGTGGTACACACGAAGTG
T
Found at i:96757215 original size:33 final size:33
Alignment explanation
Indices: 96757173--96757237 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
96757163 ATAGTGTACC
96757173 TTTCCTTTTCA-AGTGGTATACACAAAGCATACA
1 TTTCCTTTTCATA-TGGTATACACAAAGCATACA
*
96757206 TTTCCTTTTCATATGGTATACACAAAGTATAC
1 TTTCCTTTTCATATGGTATACACAAAGCATAC
96757238 CTAACCTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (33 bp):
TTTCCTTTTCATATGGTATACACAAAGCATACA
Found at i:96757246 original size:33 final size:33
Alignment explanation
Indices: 96757176--96757247 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
96757166 GTGTACCTTT
**
96757176 CCTTTTCAAGTGGTATACACAAAGCATACATTT
1 CCTTTTCAAGTGGTATACACAAAGCATACATAA
* *
96757209 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTTCA-AGTGGTATACACAAAGCATACATAA
96757242 CCTTTT
1 CCTTTT
96757248 TCAAATTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (33 bp):
CCTTTTCAAGTGGTATACACAAAGCATACATAA
Found at i:96760699 original size:75 final size:73
Alignment explanation
Indices: 96760611--96760782 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
96760601 GGTTTTCCTC
*** * * **
96760611 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
96760675 TCAGTATGG
65 TCAGTATGG
*
96760684 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
96760749 CTCAGTATGG
64 CTCAGTATGG
96760759 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
96760783 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:96760780 original size:35 final size:35
Alignment explanation
Indices: 96760616--96760782 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
96760606 TCCTCATTGA
*** *
96760616 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
96760651 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
96760691 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
96760726 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
96760761 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
96760783 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:96768195 original size:75 final size:73
Alignment explanation
Indices: 96768107--96768278 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
96768097 GGTTTTCCTC
*** * * **
96768107 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
96768171 TCAGTATGG
65 TCAGTATGG
*
96768180 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
96768245 CTCAGTATGG
64 CTCAGTATGG
96768255 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
96768279 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:96768276 original size:35 final size:35
Alignment explanation
Indices: 96768112--96768278 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
96768102 TCCTCATTGA
*** *
96768112 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
96768147 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
96768187 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
96768222 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
96768257 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
96768279 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:96771000 original size:5 final size:5
Alignment explanation
Indices: 96770990--96771014 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
96770980 AATTCCTATA
96770990 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
96771015 GGCTATCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:96775009 original size:2 final size:2
Alignment explanation
Indices: 96775002--96775035 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
96774992 GTGTTGCTGC
*
96775002 AT AT AT AT AT AT AT AT AT AT AT AGT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A
96775036 GGCATTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (2 bp):
AT
Found at i:96775228 original size:2 final size:2
Alignment explanation
Indices: 96775215--96775253 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
96775205 AGATTCAAAG
*
96775215 TA TA TA TT TA 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 TA TA TA TA TA T
96775254 TCATATCCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:96784678 original size:22 final size:21
Alignment explanation
Indices: 96784635--96784687 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
96784625 ATAATAATCA
*
96784635 TAAAATTATAAAATATTTTAAT
1 TAAAATT-TAAAATATTATAAT
96784657 TCAAAATTTAAAA-ATTAATAAT
1 T-AAAATTTAAAATATT-ATAAT
96784679 TAATAATTT
1 TAA-AATTT
96784688 TTTTCCAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.19
22 16 0.59
23 6 0.22
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAATTTAAAATATTATAAT
Found at i:96787390 original size:51 final size:50
Alignment explanation
Indices: 96787231--96787387 Score: 233
Period size: 51 Copynumber: 3.1 Consensus size: 50
96787221 ACTTCTGATC
* *
96787231 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* * *
96787282 AGTGACAAATGATAAGTGGTAGCTTATCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
* *
96787332 AGTGATAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
96787383 AGTGA
1 AGTGA
96787388 TAAATGTGAT
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 45 0.47
51 50 0.53
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:96789353 original size:30 final size:30
Alignment explanation
Indices: 96789317--96789406 Score: 137
Period size: 30 Copynumber: 3.0 Consensus size: 30
96789307 ATTTTTTTAA
96789317 TTTTTAATAATTTCCTATT-TTTTAAAATAC
1 TTTTTAATAATTTCCTATTATTTT-AAATAC
* *
96789347 TTTTTAAGAATTTCCTATTATTTTAAACAC
1 TTTTTAATAATTTCCTATTATTTTAAATAC
96789377 TTTTTAATAATTTCCTATTATTTTTAAATA
1 TTTTTAATAATTTCCTATTA-TTTTAAATA
96789407 AAAATGTTCA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
30 42 0.78
31 12 0.22
ACGTcount: A:0.33, C:0.10, G:0.01, T:0.56
Consensus pattern (30 bp):
TTTTTAATAATTTCCTATTATTTTAAATAC
Found at i:96793668 original size:12 final size:13
Alignment explanation
Indices: 96793640--96793673 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
96793630 ATTGTTTAAC
96793640 TAAAGAATTTGAT
1 TAAAGAATTTGAT
96793653 TAAAGAATTT-AT
1 TAAAGAATTTGAT
*
96793665 TAAAAAATT
1 TAAAGAATT
96793674 AATTTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (13 bp):
TAAAGAATTTGAT
Found at i:96796111 original size:24 final size:24
Alignment explanation
Indices: 96796079--96796129 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
96796069 TAAACGATCG
*
96796079 TTAGTTTGTATGGAGTCTTGAGAA
1 TTAGTTTGTATAGAGTCTTGAGAA
96796103 TTAGTTTGTATAGAGTCTTGAGAA
1 TTAGTTTGTATAGAGTCTTGAGAA
96796127 TTA
1 TTA
96796130 AGATTCACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.25, T:0.43
Consensus pattern (24 bp):
TTAGTTTGTATAGAGTCTTGAGAA
Found at i:96801457 original size:48 final size:48
Alignment explanation
Indices: 96801404--96801498 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
96801394 TGGTTAACTA
* * *
96801404 TTACTGAATAATAAAGATCAATTGATCGCTATTGAAAAATATTGACTG
1 TTACTGAATAATAAAGATAAATTAATCGATATTGAAAAATATTGACTG
* ** *
96801452 TTACTGAATGATATTGATAAATTAATTGATATTGAAAAATATTGACT
1 TTACTGAATAATAAAGATAAATTAATCGATATTGAAAAATATTGACT
96801499 AATATTGAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (48 bp):
TTACTGAATAATAAAGATAAATTAATCGATATTGAAAAATATTGACTG
Found at i:96807506 original size:75 final size:75
Alignment explanation
Indices: 96807364--96807517 Score: 186
Period size: 75 Copynumber: 2.1 Consensus size: 75
96807354 TGGTTTTGTA
* * ** * *
96807364 CACATTTTTATCATGGCTTAGCCATTATCACACACTTTGTCACATTGCCACAACTTAATTATGGT
1 CACATTTTTACCATGGCTTAGCCATGATCACACACTTAATCACATTACCACAACTTAACTATGGT
*
96807429 CTTGCACTTG
66 CTTACACTTG
* * *
96807439 CACATATTTTACCATGGCCTT-GCCATGATCACACAC-TAATCACATTATCATAGCTTAACTATG
1 CACAT-TTTTACCATGG-CTTAGCCATGATCACACACTTAATCACATTACCACAACTTAACTATG
96807502 GTCTTACACTTG
64 GTCTTACACTTG
96807514 CACA
1 CACA
96807518 CATATATAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
75 40 0.60
76 24 0.36
77 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (75 bp):
CACATTTTTACCATGGCTTAGCCATGATCACACACTTAATCACATTACCACAACTTAACTATGGT
CTTACACTTG
Found at i:96808521 original size:19 final size:17
Alignment explanation
Indices: 96808484--96808524 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
96808474 TATCTTATTA
*
96808484 AATTTTCCTTTATTTCC
1 AATTTTCCTTTATTCCC
96808501 AATTTTACCTCTTATTCCC
1 AATTTT-CCT-TTATTCCC
96808520 AATTT
1 AATTT
96808525 CTTTGTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 3 0.14
19 12 0.57
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTTTCCTTTATTCCC
Found at i:96809097 original size:34 final size:34
Alignment explanation
Indices: 96809050--96809119 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
96809040 TCTCTATATA
96809050 AAGACAGTATTGGGTCATTATTTACACACACTTT
1 AAGACAGTATTGGGTCATTATTTACACACACTTT
*
96809084 AAGACAGTCTTGGGTCATTATTTACACACACTTT
1 AAGACAGTATTGGGTCATTATTTACACACACTTT
96809118 AA
1 AA
96809120 TTCAAGAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (34 bp):
AAGACAGTATTGGGTCATTATTTACACACACTTT
Found at i:96817431 original size:37 final size:36
Alignment explanation
Indices: 96817369--96817444 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
96817359 GATAATTACT
*
96817369 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
96817406 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
96817442 TTA
1 TTA
96817445 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:96817540 original size:37 final size:36
Alignment explanation
Indices: 96817493--96817598 Score: 109
Period size: 37 Copynumber: 3.1 Consensus size: 36
96817483 ATTCCAAAAA
96817493 TAAAATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAAAATTATTTTAATAGTTTAATATTAAATTTAATT
* *
96817529 TAATAATTATTTTAATAGTATT-TTATT-AATTTAACAT
1 TAA-AATTATTTTAATAGT-TTAATATTAAATTTAA-TT
*
96817566 TAAAA-T-GTTT-ATA--TTAATATTAAATTTAATT
1 TAAAATTATTTTAATAGTTTAATATTAAATTTAATT
96817597 TA
1 TA
96817599 CTATTTATCT
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
30 2 0.03
31 7 0.12
32 7 0.12
33 3 0.05
34 3 0.05
35 1 0.02
36 12 0.20
37 23 0.38
38 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (36 bp):
TAAAATTATTTTAATAGTTTAATATTAAATTTAATT
Found at i:96817648 original size:62 final size:59
Alignment explanation
Indices: 96817579--96817695 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
96817569 AATGTTTATA
* * * *
96817579 TTAATATTAAATTTAATTTACTATTTATCTTGTAGATAAAAATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-TA-ATAAAAATTATATTAATTTAATAAGAT
*
96817641 TTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTAATAAAAATTATATTAATTTAATA
96817696 TTAAAGTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
60 2 0.04
61 1 0.02
62 27 0.54
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTAATAAAAATTATATTAATTTAATAAGAT
Done.