Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 33 of 345
Found at i:9396005 original size:20 final size:20
Alignment explanation
Indices: 9395958--9395998 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9395948 ATAATTTAAT
**
9395958 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
*
9395978 AACTAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
9395998 A
1 A
9395999 TAAAAAACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:9396042 original size:9 final size:9
Alignment explanation
Indices: 9396024--9396082 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
9396014 TTTATACAAA
*
9396024 TAATTTGGT
1 TAATTCGGT
9396033 TAATTCGGT
1 TAATTCGGT
* *
9396042 TAATTTGGG
1 TAATTCGGT
*
9396051 TAATTTGGT
1 TAATTCGGT
*
9396060 TAATTCGAT
1 TAATTCGGT
9396069 TAATTCGGT
1 TAATTCGGT
9396078 TAATT
1 TAATT
9396083 TTATACTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.49
Consensus pattern (9 bp):
TAATTCGGT
Found at i:9396047 original size:18 final size:18
Alignment explanation
Indices: 9396024--9396083 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
9396014 TTTATACAAA
9396024 TAATTTGGTTAATTCGGT
1 TAATTTGGTTAATTCGGT
* *
9396042 TAATTTGGGTAATTTGGT
1 TAATTTGGTTAATTCGGT
* *
9396060 TAATTCGATTAATTCGGT
1 TAATTTGGTTAATTCGGT
9396078 TAATTT
1 TAATTT
9396084 TATACTTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (18 bp):
TAATTTGGTTAATTCGGT
Found at i:9396062 original size:27 final size:27
Alignment explanation
Indices: 9396024--9396083 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
9396014 TTTATACAAA
* *
9396024 TAATTTGGTTAATTCGGTTAATTTGGG
1 TAATTTGGTTAATTCGATTAATTCGGG
*
9396051 TAATTTGGTTAATTCGATTAATTCGGT
1 TAATTTGGTTAATTCGATTAATTCGGG
9396078 TAATTT
1 TAATTT
9396084 TATACTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (27 bp):
TAATTTGGTTAATTCGATTAATTCGGG
Found at i:9399756 original size:31 final size:31
Alignment explanation
Indices: 9399721--9399797 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
9399711 TATTATATAC
** **
9399721 TTTTATCATTTTAGTAACTTTTGTTTCATAA
1 TTTTATCATTTTAGTAACCATCATTTCATAA
*
9399752 TTTTATCATTTTAATAACCATCATTTCATAA
1 TTTTATCATTTTAGTAACCATCATTTCATAA
9399783 TTTTATCATTTTAGT
1 TTTTATCATTTTAGT
9399798 CGTCCGCCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.56
Consensus pattern (31 bp):
TTTTATCATTTTAGTAACCATCATTTCATAA
Found at i:9400169 original size:4 final size:4
Alignment explanation
Indices: 9400160--9400195 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
9400150 TTGATTCTAA
*
9400160 AAAT AAAT AAAT AAAT AAAT GAAAT AAAT AGAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAA
9400196 ATGGTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:9400184 original size:17 final size:16
Alignment explanation
Indices: 9400160--9400195 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
9400150 TTGATTCTAA
9400160 AAATAAATAAATAAAT
1 AAATAAATAAATAAAT
*
9400176 AAATGAAATAAATAGAT
1 AAAT-AAATAAATAAAT
9400193 AAA
1 AAA
9400196 ATGGTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (16 bp):
AAATAAATAAATAAAT
Found at i:9400197 original size:13 final size:13
Alignment explanation
Indices: 9400160--9400197 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
9400150 TTGATTCTAA
9400160 AAATAAAT-AAAT
1 AAATAAATAAAAT
*
9400172 AAATAAATGAAAT
1 AAATAAATAAAAT
*
9400185 AAATAGATAAAAT
1 AAATAAATAAAAT
9400198 GGTTTTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:9406404 original size:138 final size:138
Alignment explanation
Indices: 9406251--9406525 Score: 525
Period size: 138 Copynumber: 2.0 Consensus size: 138
9406241 AAATGCATAC
9406251 AAATTATAAAAAAAATTATAAATAAATGAATACCCATTTCTAGGGTAAACTATAGAATTAG-CTA
1 AAATTATAAAAAAAATTATAAATAAATGAATACCCATTTCTAGGGTAAACTATAGAATTAGTC-A
9406315 ACCAACTATTAGCATGTTTCTATTTAAGCCACCTAATTATAAAATTTTACAATTTAGTCACTAAC
65 ACCAACTATTAGCATGTTTCTATTTAAGCCACCTAATTATAAAATTTTACAATTTAGTCACTAAC
9406380 ATTTCAGGA
130 ATTTCAGGA
9406389 AAATTATAAAAAAAATTATAAATAAATGAATACCCATTTCTAGGGTAAACTATAGAATTAGTCAA
1 AAATTATAAAAAAAATTATAAATAAATGAATACCCATTTCTAGGGTAAACTATAGAATTAGTCAA
*
9406454 CCAACTATTAGCATGTTTCTGTTTAAGCCACCTAATTATAAAATTTTACAATTTAGTCACTAACA
66 CCAACTATTAGCATGTTTCTATTTAAGCCACCTAATTATAAAATTTTACAATTTAGTCACTAACA
9406519 TTTCAGG
131 TTTCAGG
9406526 TCATTTCTAT
Statistics
Matches: 135, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
138 134 0.99
139 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (138 bp):
AAATTATAAAAAAAATTATAAATAAATGAATACCCATTTCTAGGGTAAACTATAGAATTAGTCAA
CCAACTATTAGCATGTTTCTATTTAAGCCACCTAATTATAAAATTTTACAATTTAGTCACTAACA
TTTCAGGA
Found at i:9406974 original size:17 final size:17
Alignment explanation
Indices: 9406952--9406984 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9406942 AATATATCTC
*
9406952 TAAAAAATTAAAAATAT
1 TAAAAAATAAAAAATAT
9406969 TAAAAAATAAAAAATA
1 TAAAAAATAAAAAATA
9406985 AATCTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAAAATAAAAAATAT
Found at i:9407516 original size:19 final size:19
Alignment explanation
Indices: 9407488--9407527 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
9407478 TTTATAAACT
*
9407488 TTTTTTAAATTTTTTTTTA
1 TTTTTAAAATTTTTTTTTA
9407507 TTTTTAAAATTTTTTTTTA
1 TTTTTAAAATTTTTTTTTA
9407526 TT
1 TT
9407528 AATTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTAAAATTTTTTTTTA
Found at i:9409422 original size:40 final size:40
Alignment explanation
Indices: 9409377--9409468 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 40
9409367 GTCTATATTT
* * * *
9409377 TTGCACTTCGGTGCACTTGTTTACATTTCGGTGTCCTTAA
1 TTGCACTTCGGTGCACCTGTTTACACTTCAGTGTCCATAA
** * * **
9409417 TTGCACCCCGGTGCCCCTGTTTACACTTCAGTGTTCATGT
1 TTGCACTTCGGTGCACCTGTTTACACTTCAGTGTCCATAA
9409457 TTGCACTTCGGT
1 TTGCACTTCGGT
9409469 ACCCCTTTTA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.39
Consensus pattern (40 bp):
TTGCACTTCGGTGCACCTGTTTACACTTCAGTGTCCATAA
Found at i:9411786 original size:59 final size:59
Alignment explanation
Indices: 9411706--9411823 Score: 191
Period size: 59 Copynumber: 2.0 Consensus size: 59
9411696 AGATGGAAGA
9411706 AACCCTCCTCACATTGCAGCCATGAAAGAGTTGATTCAAGCCAGACCCTAGGCAGCACG
1 AACCCTCCTCACATTGCAGCCATGAAAGAGTTGATTCAAGCCAGACCCTAGGCAGCACG
* * * * *
9411765 AACCCTCTTCACATTGTAGCCATGAAAGAGTTTATTCATGCCAGACCCTGGGCAGCACG
1 AACCCTCCTCACATTGCAGCCATGAAAGAGTTGATTCAAGCCAGACCCTAGGCAGCACG
9411824 GTTGCCGATG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (59 bp):
AACCCTCCTCACATTGCAGCCATGAAAGAGTTGATTCAAGCCAGACCCTAGGCAGCACG
Found at i:9424965 original size:5 final size:5
Alignment explanation
Indices: 9424955--9424981 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
9424945 TGTGTTTTTA
9424955 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
9424982 TACAAATTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:9429383 original size:5 final size:5
Alignment explanation
Indices: 9429373--9429404 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
9429363 TATGTTTTTA
9429373 TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TT
9429405 CACAGGTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:9434771 original size:23 final size:23
Alignment explanation
Indices: 9434745--9434817 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
9434735 AAATTATGAT
9434745 AAAGATGAGTAAGACCATAGCTA
1 AAAGATGAGTAAGACCATAGCTA
* * *
9434768 AAAGATG-TTATGA-CATCATGATA
1 AAAGATGAGTAAGACCAT-A-GCTA
* *
9434791 GAAG-TTAGTAAGACCATAGCTA
1 AAAGATGAGTAAGACCATAGCTA
9434813 AAAGA
1 AAAGA
9434818 CACTATGACA
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
21 3 0.08
22 12 0.33
23 18 0.50
24 3 0.08
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.22
Consensus pattern (23 bp):
AAAGATGAGTAAGACCATAGCTA
Found at i:9434801 original size:45 final size:46
Alignment explanation
Indices: 9434706--9434817 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 46
9434696 CGCCAAAATA
* * *
9434706 AGTAAGACCATAACTGAAAGATGTTTATGAAATTATGATAAAGATG
1 AGTAAGACCATAGCTAAAAGATGTTTATGAAATCATGATAAAGATG
* *
9434752 AGTAAGACCATAGCTAAAAGATG-TTATGACATCATGATAGAAG-TT
1 AGTAAGACCATAGCTAAAAGATGTTTATGAAATCATGATA-AAGATG
9434797 AGTAAGACCATAGCTAAAAGA
1 AGTAAGACCATAGCTAAAAGA
9434818 CACTATGACA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
45 36 0.60
46 24 0.40
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.25
Consensus pattern (46 bp):
AGTAAGACCATAGCTAAAAGATGTTTATGAAATCATGATAAAGATG
Found at i:9434865 original size:27 final size:27
Alignment explanation
Indices: 9434833--9434893 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
9434823 TGACATCCTT
*
9434833 TGATAGTCCA-TCGGGACAATAAACACA
1 TGATAGTCCACT-GGGACAATAAAAACA
* *
9434860 TTATAGTCCACTGTGACAATAAAAACA
1 TGATAGTCCACTGGGACAATAAAAACA
9434887 TGATAGT
1 TGATAGT
9434894 TCGCCGAGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (27 bp):
TGATAGTCCACTGGGACAATAAAAACA
Found at i:9443645 original size:13 final size:12
Alignment explanation
Indices: 9443620--9443660 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
9443610 GAGATTTTGC
*
9443620 TTTCGTTTTTTT
1 TTTCCTTTTTTT
9443632 TTTCCTTTTCTTT
1 TTTCCTTTT-TTT
*
9443645 TTTCCTCTTTTT
1 TTTCCTTTTTTT
9443657 TTTC
1 TTTC
9443661 TTTGAAGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTCCTTTTTTT
Found at i:9444436 original size:27 final size:27
Alignment explanation
Indices: 9444406--9444461 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
9444396 ATCAGTAATT
* *
9444406 TTGTAAAAAAATTAGCAATTTACAATG
1 TTGTAAAAAAATCAACAATTTACAATG
* * *
9444433 TTGTAAGAATATCAATAATTTACAATG
1 TTGTAAAAAAATCAACAATTTACAATG
9444460 TT
1 TT
9444462 ATAAGAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.38
Consensus pattern (27 bp):
TTGTAAAAAAATCAACAATTTACAATG
Found at i:9446029 original size:19 final size:18
Alignment explanation
Indices: 9445989--9446057 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 18
9445979 ACATTGCAAT
*
9445989 ATTT-TAAAAGATTCAGTAA
1 ATTTGTAAAA-ATTTAGT-A
9446008 ATTTGTAAGAAATTTAGTA
1 ATTTGTAA-AAATTTAGTA
* *
9446027 ATTTGTCAAAAGTTTTGTA
1 ATTTGT-AAAAATTTAGTA
9446046 ATTTAGTAAAAA
1 ATTT-GTAAAAA
9446058 ATACACTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 27 0.64
20 13 0.31
21 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.41
Consensus pattern (18 bp):
ATTTGTAAAAATTTAGTA
Found at i:9450291 original size:26 final size:26
Alignment explanation
Indices: 9450255--9450338 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
9450245 CATGAAATTC
9450255 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9450281 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9450307 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9450333 TTATCA
1 TTATCA
9450339 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9451377 original size:21 final size:21
Alignment explanation
Indices: 9451344--9451392 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
9451334 AGCATCACGT
* *
9451344 GTTAAGCTAAAATTATTATGG
1 GTTAAGCCAAAATTACTATGG
* *
9451365 GTTAAGCCGAAATTGCTATGG
1 GTTAAGCCAAAATTACTATGG
*
9451386 GTAAAGC
1 GTTAAGC
9451393 ATAATTATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (21 bp):
GTTAAGCCAAAATTACTATGG
Found at i:9452507 original size:20 final size:20
Alignment explanation
Indices: 9452484--9452521 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9452474 ATATATATAC
*
9452484 AATATAAAAATATATAAAAG
1 AATATAAAAATAAATAAAAG
*
9452504 AATATAAATATAAATAAA
1 AATATAAAAATAAATAAA
9452522 GTGAGTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
AATATAAAAATAAATAAAAG
Found at i:9452582 original size:12 final size:13
Alignment explanation
Indices: 9452564--9452612 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
9452554 AAAAAATATG
9452564 ATATTTAATAATA
1 ATATTTAATAATA
9452577 AT-TTTAA-AATA
1 ATATTTAATAATA
*
9452588 GTATTTAATATATA
1 ATATTTAATA-ATA
*
9452602 ATATATAATAA
1 ATATTTAATAA
9452613 CAAAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 5 0.17
12 10 0.33
13 4 0.13
14 11 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:9452611 original size:24 final size:24
Alignment explanation
Indices: 9452556--9452609 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
9452546 CTTATAATAA
*
9452556 AAAATATGATATTTAATAATAATTTT
1 AAAATA-G-TATTTAATAATAATTAT
9452582 AAAATAGTATTTAATATATAATATAT
1 AAAATAGTATTTAATA-ATAAT-TAT
9452608 AA
1 AA
9452610 TAACAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 9 0.36
25 6 0.24
26 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
AAAATAGTATTTAATAATAATTAT
Found at i:9452773 original size:21 final size:23
Alignment explanation
Indices: 9452715--9452773 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
9452705 AATTTATATT
*
9452715 TATA-ATGAAATAA-TTATATAA
1 TATATATGAAATAAGTTATAGAA
*
9452736 TATATATAAATATAAGTT-TAGAA
1 TATATATGAA-ATAAGTTATAGAA
9452759 TA-ATATGAAATAAGT
1 TATATATGAAATAAGT
9452774 AATTAATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 10 0.31
22 10 0.31
23 10 0.31
24 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.37
Consensus pattern (23 bp):
TATATATGAAATAAGTTATAGAA
Found at i:9452949 original size:12 final size:14
Alignment explanation
Indices: 9452911--9452952 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
9452901 AATTTTTAAT
*
9452911 GATAACAATATATA
1 GATAAAAATATATA
9452925 GATAAAAATATATA
1 GATAAAAATATATA
9452939 GATAAAAATATATA
1 GATAAAAATATATA
9452953 ATAGTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (14 bp):
GATAAAAATATATA
Found at i:9452951 original size:16 final size:15
Alignment explanation
Indices: 9452917--9452963 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 15
9452907 TAATGATAAC
9452917 AATATATAGAT-AAA
1 AATATATAGATAAAA
9452931 AATATATAGATAAAA
1 AATATATAGATAAAA
9452946 ATATATAATAGTATAAAA
1 A-ATAT-ATAG-ATAAAA
9452964 TGACATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.38
15 4 0.14
16 4 0.14
17 4 0.14
18 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (15 bp):
AATATATAGATAAAA
Found at i:9453032 original size:20 final size:19
Alignment explanation
Indices: 9452931--9453083 Score: 118
Period size: 20 Copynumber: 7.7 Consensus size: 19
9452921 TATAGATAAA
*
9452931 AATATATAGATAAAAATATAT
1 AATATATA-A-AATAATATAT
9452952 AATAGTATAAAATGACATA-AT
1 AATA-TATAAAAT-A-ATATAT
*
9452973 -A-ATATAAATTAA-ATAT
1 AATATATAAAATAATATAT
* *
9452989 AATATATAATATAAAAGTAT
1 AATATATAAAATAATA-TAT
*
9453009 -ATATGTGAAAATAATATAT
1 AATATAT-AAAATAATATAT
9453028 AATATATATAAATAATATGAAT
1 AATATATA-AAATAATAT--AT
9453050 AATATATAAAATAATTATAT
1 AATATATAAAATAA-TATAT
*
9453070 AATATATAATATAA
1 AATATATAAAATAA
9453084 AAATAAAAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 29
0.74 0.06 0.20
Matches are distributed among these distances:
15 1 0.01
16 3 0.03
17 2 0.02
18 16 0.15
19 11 0.10
20 42 0.39
21 14 0.13
22 20 0.18
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (19 bp):
AATATATAAAATAATATAT
Found at i:9453036 original size:9 final size:9
Alignment explanation
Indices: 9453022--9453077 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
9453012 TGTGAAAATA
9453022 ATATATAAT
1 ATATATAAT
9453031 ATATATAA-
1 ATATATAAT
9453039 ATAATATGAAT
1 AT-ATAT-AAT
9453050 A-ATAT-AT
1 ATATATAAT
*
9453057 A-AAATAAT
1 ATATATAAT
9453065 -TATATAAT
1 ATATATAAT
9453073 ATATA
1 ATATA
9453078 ATATAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
7 6 0.15
8 10 0.26
9 20 0.51
10 2 0.05
11 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (9 bp):
ATATATAAT
Found at i:9453071 original size:29 final size:29
Alignment explanation
Indices: 9453018--9453089 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
9453008 TATATGTGAA
*
9453018 AATAATATATAATAT-ATATAAATAATAT
1 AATAATATATAAAATAATATAAATAATAT
*
9453046 GAATAATATATAAAATAAT-TATATAATAT
1 -AATAATATATAAAATAATATAAATAATAT
9453075 -ATAATATA-AAAATAA
1 AATAATATATAAAATAA
9453090 AAATAAAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.17
27 8 0.20
29 23 0.57
30 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (29 bp):
AATAATATATAAAATAATATAAATAATAT
Found at i:9457521 original size:39 final size:39
Alignment explanation
Indices: 9457431--9457521 Score: 96
Period size: 39 Copynumber: 2.3 Consensus size: 39
9457421 TAATTAACCG
* * * *
9457431 AATATAATAATTATAATTACCATAATTATAATAATGTTTG
1 AATA-AATAATTACAATTACAATAATTATAATAATGATTC
*
9457471 ACTGAAA-AATTACAATTACAATAATTATAATAAT-ATTC
1 AAT-AAATAATTACAATTACAATAATTATAATAATGATTC
9457509 AATACAATAATTA
1 AATA-AATAATTA
9457522 TAATAAGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
37 1 0.02
38 6 0.14
39 30 0.71
40 4 0.10
41 1 0.02
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (39 bp):
AATAAATAATTACAATTACAATAATTATAATAATGATTC
Found at i:9464669 original size:47 final size:46
Alignment explanation
Indices: 9464601--9464728 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 46
9464591 ACATCTCATA
* * * *
9464601 GCCGATGCATGTCCCAAACATGTCTTACAGTAGCTCTCGT-CTCAAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAT--ATG
* * *
9464647 GCCGACTTCATGTCCTAGACATGATCTTACACTTGCTCTCATAATATG
1 GCCGA-TGCATGTCCCAGACATG-TCTTACACTAGCTCTCATAATATG
9464695 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
9464729 ATACAAATGA
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
46 16 0.24
47 31 0.46
48 20 0.29
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATATG
Found at i:9475539 original size:46 final size:47
Alignment explanation
Indices: 9475451--9475658 Score: 193
Period size: 46 Copynumber: 4.5 Consensus size: 47
9475441 GTGTCAATGC
** *
9475451 CATGTCCCAGACATGGTCTTACATTGA--C-ACATCTC-ATAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACGGACTCTACATCTCGA-GGCCGATG
9475496 CATGTCCCAGACATGTCTTACACGGACT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACGGACTCTACATCTCGAGGCCGATG
* * * *
9475542 CATGTCCCAGACATGTCTTACAC-TAGCTCTA-GTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACGGA-CTCTACATCTCGAGGCCGATG
* *
9475588 CCATGTCCCAGACATGGTCTTACACTGG-CTCT-CATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACAC-GGACTCTACAT-CTCGAGGCCGATG
*
9475636 CATGTCTCAGACATGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
9475659 TAGCACACAA
Statistics
Matches: 137, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 60 0.44
47 30 0.22
48 21 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACGGACTCTACATCTCGAGGCCGATG
Found at i:9475640 original size:47 final size:46
Alignment explanation
Indices: 9475257--9475659 Score: 201
Period size: 47 Copynumber: 8.6 Consensus size: 46
9475247 GTGTAATGCT
* *
9475257 GATGCCATGTCCCAGATATAGTCTTACACTGGCTCATCTATCAA-GTG--
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTC-TC-AT-AATGTGCC
* * * * * * *
9475304 AATGCCATGTCCCAAACATGGTCTTATACTGACACATC-TCAT-AGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGCC
* * * * ** *
9475350 GATGCATGTCCTAGACATGGTCGTACACTAGCTCTCACATATCCAAGTC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGCC
* * * * *
9475399 GATGACATGTCTCAGACATGGTCTTACACTGACACTC-TATACGTGTC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGCC
* * * * * *
9475446 AATGCCATGTCCCAGACATGGTCTTACATTGACACATC-TCAT-AGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGCC
* *
9475492 GATGCATGTCCCAGACAT-GTCTTACAC-GGACT-TACAT-CTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGG-CTCT-CATAAT-G-TGCC
*
9475538 GATGCATGTCCCAGACAT-GTCTTACACTAGCTCT-AGTCTCAA--TGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTCTCA---T-AATGTGCC
9475584 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GCC
*
9475632 GATGCATGTCTCAGACAT-GTCTTACACT
1 GATGCATGTCCCAGACATGGTCTTACACT
9475660 AGCACACAAA
Statistics
Matches: 278, Mismatches: 49, Indels: 59
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 14 0.05
45 41 0.15
46 60 0.22
47 96 0.35
48 26 0.09
49 11 0.04
50 26 0.09
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCC
Found at i:9487128 original size:27 final size:27
Alignment explanation
Indices: 9487091--9487207 Score: 137
Period size: 28 Copynumber: 4.3 Consensus size: 27
9487081 AGCATGGCTG
*
9487091 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGACAGAGCCA
* *
9487117 CCAGATACAGATAATTGTGACAGGGCCA
1 CCAGA-ACAGATATTTGTGACAGAGCCA
* *
9487145 CCAGAAATAGATATTTGTGGCAGAGCCA
1 CCAG-AACAGATATTTGTGACAGAGCCA
* * *
9487173 CCATAACAAATATTTGTGGCAGAGCCA
1 CCAGAACAGATATTTGTGACAGAGCCA
9487200 CCAGAACA
1 CCAGAACA
9487208 CTTCCTCCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.06
27 35 0.45
28 37 0.47
29 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGACAGAGCCA
Found at i:9487200 original size:55 final size:55
Alignment explanation
Indices: 9487098--9487205 Score: 137
Period size: 55 Copynumber: 2.0 Consensus size: 55
9487088 CTGCCAGAAC
* * *
9487098 AGATATTGTGACAGAGTCACCAGATACAGATAATTGTGACAGGGCCACCAGAAAT
1 AGATATTGTGACAGAGCCACCAGATACAAATAATTGTGACAGAGCCACCAGAAAT
* * * *
9487153 AGATATTTGTGGCAGAGCCACCATA-ACAAATATTTGTGGCAGAGCCACCAGAA
1 AGATA-TTGTGACAGAGCCACCAGATACAAATAATTGTGACAGAGCCACCAGAA
9487206 CACTTCCTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 29 0.64
56 16 0.36
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.20
Consensus pattern (55 bp):
AGATATTGTGACAGAGCCACCAGATACAAATAATTGTGACAGAGCCACCAGAAAT
Found at i:9489504 original size:20 final size:20
Alignment explanation
Indices: 9489455--9489507 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
9489445 AGATAGGGGC
* * *
9489455 ACATGCCCGTGTAGCTTGGG
1 ACATGCCCGTGTGGCCTGGA
* *
9489475 ACACGTCCGTGTGGCCTGGA
1 ACATGCCCGTGTGGCCTGGA
9489495 ACATGCCCGTGTG
1 ACATGCCCGTGTG
9489508 CTGCAGCCGT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.28, G:0.34, T:0.23
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:9490335 original size:46 final size:50
Alignment explanation
Indices: 9490278--9490461 Score: 155
Period size: 53 Copynumber: 3.7 Consensus size: 50
9490268 ACACATCACA
* * * * *
9490278 CACCGAAGCCATAGCCCTGCCATGGTCTTACACGG-ATTACA-TAT-CAT
1 CACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATACAT
* *
9490325 -ACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATCACAT
1 CACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTAT-ACAT
* * *
9490375 CACACTGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CGCGAATCATA-TT
1 CAC-C-GATGCCATAGCCCAGCTATGGTCTTATAC-GGAATCAC--ATTATACAT
* *
9490428 GTACCGATGCCATAGCCCGGCTATGGTCTTATAC
1 -CACCGATGCCATAGCCCAGCTATGGTCTTATAC
9490462 AGAAACATAT
Statistics
Matches: 112, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
46 28 0.25
47 5 0.04
48 3 0.03
50 3 0.03
51 2 0.02
52 29 0.26
53 31 0.28
54 7 0.06
55 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (50 bp):
CACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATACAT
Found at i:9510807 original size:343 final size:343
Alignment explanation
Indices: 9510107--9510987 Score: 1261
Period size: 343 Copynumber: 2.6 Consensus size: 343
9510097 CAATTTAGAT
* *
9510107 ATGAAAAGTTTATCACAGAAAGGTTACGTCGAATCATGACTTCTTGTAACTTGGGTAGCAATGAT
1 ATGAAAAGTTTATCACAAAAAGGTTATGTCGAATCATGACTTCTTGTAACTTGGGTAGCAATGAT
* * * * * *
9510172 GCATTGCTAGACACCACTCATTACTTGTAACATTATAAATGTTCTAGTATTACTACCAACATTAA
66 GAATTGCTAGACGCCACTCATTACTTGAAACATTAGAAATGTTCTAGTATTACTACCAACGTTAC
* * ** *
9510237 AAGAACCTACAGGGTCACACCCTATGGTTAAAGCAAACAGACTTCACACCAATAGAATAACCATG
131 AAGAACCTACAAGGTCACACCCTATGGTTAAAGCGAACAGACTTCACACCAATAGAATGGCCATA
* * *
9510302 CTCAAATAAGTTGATATAATATATCACACTTATTTTTTTTTCATTGTAGTCTACTCAAAATATCA
196 CTCAAATAAGTTGATATAAGATATCACACTAATTTTTTTTTCATTGTAGTATACTCAAAATATCA
* *
9510367 AAAAATATGAGATTGGACTATACAAATGTGACTATACCATGGCTATTTCCAATTTAGACATAAAG
261 AAAAATATAAGATTGGACTATACAAATGTGACTATACCATGACTATTTCCAATTTAGACATAAAG
* *
9510432 GATAAAATGATATAATAC
326 GATAAAAGGATATAATAA
* * *
9510450 ATGAAAAGTTTATCACAAAAAGGTTATGCCAAATCATGACTTCTTGTAACTTGGGTAGGAATGAT
1 ATGAAAAGTTTATCACAAAAAGGTTATGTCGAATCATGACTTCTTGTAACTTGGGTAGCAATGAT
* *
9510515 GAATTGCTAGACGCCACTCATTACTTGAAACATTAGAAATGTTATAGTTTTACTACCAACGTTAC
66 GAATTGCTAGACGCCACTCATTACTTGAAACATTAGAAATGTTCTAGTATTACTACCAACGTTAC
*
9510580 AAGAACCTACAAGGTCACACCCTATGGTTAAAGCGAACAGACTTCACACCAATATAATGGCCATA
131 AAGAACCTACAAGGTCACACCCTATGGTTAAAGCGAACAGACTTCACACCAATAGAATGGCCATA
* *
9510645 CTCAAATAAGTTGATATAAGATA-C-CA-TAACTTTTTTGTTT-ATTGTAGTATATTCAGAATAT
196 CTCAAATAAGTTGATATAAGATATCACACTAA-TTTTTT-TTTCATTGTAGTATACTCAAAATAT
* * * * *
9510706 TAAGAAATATAAGATTGGACTATACAAGTGTGACTATACCATGACTTGTTTCCAATTTAGATATA
259 CAAAAAATATAAGATTGGACTATACAAATGTGACTATACCATGAC-TATTTCCAATTTAGACATA
* *
9510771 AATGATAAAAGGATATTATAAA
323 AAGGATAAAAGGATATAAT-AA
9510793 ATGAAATA-TTTATCACAAAAAGGTTATGTCGAATCACT-ACTTCTTGTAACTTGGGTAGCAATG
1 ATGAAA-AGTTTATCACAAAAAGGTTATGTCGAATCA-TGACTTCTTGTAACTTGGGTAGCAATG
* * *
9510856 ATGTATTGCTAGACGCCACTCATTGCTTGAAACATTAGAAATGTTCTAGTATTACTACCAATGTT
64 ATGAATTGCTAGACGCCACTCATTACTTGAAACATTAGAAATGTTCTAGTATTACTACCAACGTT
* * * ** * *
9510921 ACAAGAACCTACAAGATCATACCTTATGGTTAAAAAGAATAGACTTCACACCAATAGAATGGGCA
129 ACAAGAACCTACAAGGTCACACCCTATGGTTAAAGCGAACAGACTTCACACCAATAGAATGGCCA
9510986 TA
194 TA
9510988 TACCATCCCA
Statistics
Matches: 481, Mismatches: 51, Indels: 12
0.88 0.09 0.02
Matches are distributed among these distances:
340 2 0.00
341 66 0.14
342 37 0.08
343 374 0.78
344 2 0.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (343 bp):
ATGAAAAGTTTATCACAAAAAGGTTATGTCGAATCATGACTTCTTGTAACTTGGGTAGCAATGAT
GAATTGCTAGACGCCACTCATTACTTGAAACATTAGAAATGTTCTAGTATTACTACCAACGTTAC
AAGAACCTACAAGGTCACACCCTATGGTTAAAGCGAACAGACTTCACACCAATAGAATGGCCATA
CTCAAATAAGTTGATATAAGATATCACACTAATTTTTTTTTCATTGTAGTATACTCAAAATATCA
AAAAATATAAGATTGGACTATACAAATGTGACTATACCATGACTATTTCCAATTTAGACATAAAG
GATAAAAGGATATAATAA
Found at i:9511112 original size:17 final size:17
Alignment explanation
Indices: 9511092--9511127 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9511082 AATAGTATTG
9511092 CCTGGCGGACAAAATAA
1 CCTGGCGGACAAAATAA
* *
9511109 CCTGGCGGATAGAATAA
1 CCTGGCGGACAAAATAA
9511126 CC
1 CC
9511128 GGGTGAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (17 bp):
CCTGGCGGACAAAATAA
Found at i:9514153 original size:23 final size:23
Alignment explanation
Indices: 9514071--9514157 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
9514061 CCTGATCAGT
*
9514071 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
9514093 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
9514113 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
9514136 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
9514158 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:9523121 original size:47 final size:44
Alignment explanation
Indices: 9523051--9523221 Score: 146
Period size: 47 Copynumber: 3.7 Consensus size: 44
9523041 TCTTGTGTGC
** * *
9523051 CAGTGTAAGACACGTCTGCGACATGCATCGACCACATTATGAGTG
1 CAGTGTAAGACGTGTCTGGGACATGCATCG-CCACATGATGAGTG
* * * *
9523096 TCAGTATAAGACCGTGTCTGGGACATGGCATCGGCATAGAGATGAGTG
1 -CAGTGTAAGA-CGTGTCTGGGACAT-GCATCGCCACA-TGATGAGTG
* *
9523144 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGA-TAG
1 C-AGTGTAAGACGTGTCTGGGACATGCATC-GCCAC-ATGATGAGT-G
*
9523191 CCAGCGTAAGACGTGTCTGGGACATGCATCG
1 -CAGTGTAAGACGTGTCTGGGACATGCATCG
9523222 GCTAAGAGTC
Statistics
Matches: 101, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
46 16 0.16
47 62 0.61
48 23 0.23
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (44 bp):
CAGTGTAAGACGTGTCTGGGACATGCATCGCCACATGATGAGTG
Found at i:9523213 original size:94 final size:91
Alignment explanation
Indices: 9523047--9523264 Score: 246
Period size: 94 Copynumber: 2.4 Consensus size: 91
9523037 AATTTCTTGT
* * * * * *
9523047 GTGCCAGTGTAAGACACGTCTGCGACATGCATCGACCACATTATGAGTGTCAGTATAAGACCGTG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGTGCCAGCATAAGACCGTG
9523112 TCTGGGACATGGCATCGGC-ATAGAGATGA
66 TCTGGGACAT-GCATCGGCTA-AGAG-T-A
* * *
9523141 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGA-TAGCCAGCGTAAGA-CG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATGATGAGT-GCCAGCATAAGACCG
*
9523204 TGTCTGGGACATGCATCGGCTAAGAGTC
64 TGTCTGGGACATGCATCGGCTAAGAGTA
*
9523232 GTGCTAGTGTAAAACATGT-TCGGGACATGCATC
1 GTGCTAGTGTAAGACATGTCT-GGGACATGCATC
9523265 AGCACGTATA
Statistics
Matches: 109, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
90 1 0.01
91 30 0.28
92 1 0.01
93 12 0.11
94 50 0.46
95 15 0.14
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (91 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGTGCCAGCATAAGACCGTG
TCTGGGACATGCATCGGCTAAGAGTA
Found at i:9523222 original size:47 final size:46
Alignment explanation
Indices: 9523102--9523223 Score: 156
Period size: 47 Copynumber: 2.6 Consensus size: 46
9523092 AGTGTCAGTA
* *
9523102 TAAGACCGTGTCTGGGACATGGCATCGGCATAGAGATGAGTGCTAGTG
1 TAAGA-CGTGTCTGGGACAT-GCATCGGCATAGAGATGAGTGCCAGCG
* * *
9523150 TAAGACATGTCTGGGACATGCATCGGCCTCGATGATGA-TAGCCAGCG
1 TAAGACGTGTCTGGGACATGCATCGGCATAGA-GATGAGT-GCCAGCG
9523197 TAAGACGTGTCTGGGACATGCATCGGC
1 TAAGACGTGTCTGGGACATGCATCGGC
9523224 TAAGAGTCGT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 12 0.18
47 49 0.74
48 5 0.08
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (46 bp):
TAAGACGTGTCTGGGACATGCATCGGCATAGAGATGAGTGCCAGCG
Found at i:9524210 original size:55 final size:55
Alignment explanation
Indices: 9524126--9524251 Score: 157
Period size: 55 Copynumber: 2.3 Consensus size: 55
9524116 GCACTTAAAA
* * * *
9524126 TTTT-AAGTCAGT-TTAGTATACGGGTAGGCCACATGGGCGTGTGTCATGGCCGTG
1 TTTTAAAGTCAGTGTT-GTACACGGGCAGGCCACACGAGCGTGTGTCATGGCCGTG
* * *
9524180 TTTTAAAGTCAGTGTTGTACATGGGCAGGCCATACGAGTGTGTGTCATGGCCGTG
1 TTTTAAAGTCAGTGTTGTACACGGGCAGGCCACACGAGCGTGTGTCATGGCCGTG
*
9524235 TTTTAAAATCAGTGTTG
1 TTTTAAAGTCAGTGTTG
9524252 CATACAGGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
54 4 0.06
55 56 0.90
56 2 0.03
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.33
Consensus pattern (55 bp):
TTTTAAAGTCAGTGTTGTACACGGGCAGGCCACACGAGCGTGTGTCATGGCCGTG
Found at i:9529277 original size:39 final size:39
Alignment explanation
Indices: 9529223--9529299 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
9529213 TTTGTGCCGG
*
9529223 TAGACTCATAACTGATAATGTGTTGTTGACGTATGAGGC
1 TAGACTCATAACTGATAATATGTTGTTGACGTATGAGGC
*
9529262 TAGACTCATAACTGATAATATGTTGTTGGCGTATGAGG
1 TAGACTCATAACTGATAATATGTTGTTGACGTATGAGG
9529300 TTCTCCATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (39 bp):
TAGACTCATAACTGATAATATGTTGTTGACGTATGAGGC
Found at i:9532761 original size:26 final size:26
Alignment explanation
Indices: 9532705--9532755 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
9532695 TTGGCATTTA
9532705 TTTTTGTCATTGATATTAGCTGCAGG
1 TTTTTGTCATTGATATTAGCTGCAGG
*
9532731 TTTTTGTCATTGGTATTAGCTGCAG
1 TTTTTGTCATTGATATTAGCTGCAG
9532756 TATTTTACGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (26 bp):
TTTTTGTCATTGATATTAGCTGCAGG
Found at i:9537404 original size:120 final size:120
Alignment explanation
Indices: 9537074--9537815 Score: 1432
Period size: 120 Copynumber: 6.2 Consensus size: 120
9537064 TTTTCAAGTT
9537074 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
9537139 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATT-AA
66 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
9537193 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
9537258 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
9537313 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
9537378 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
9537433 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
9537498 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
9537553 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
9537618 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
* *
9537673 TTATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
9537738 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
9537793 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
9537816 TAAATATGAT
Statistics
Matches: 616, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
119 117 0.19
120 499 0.81
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
Found at i:9537655 original size:38 final size:39
Alignment explanation
Indices: 9537613--9537782 Score: 109
Period size: 38 Copynumber: 4.3 Consensus size: 39
9537603 ATGATTTGAG
*
9537613 TAAATTA-ATATAAGAATATTAATTATTAAGAATTTTAT
1 TAAATTATATATAAGAATATTAATTATTAAGAATTTCAT
* * * *
9537651 TAAATTATATATTTTAATTAA-ATTATATTTAATAATAATTAT-GT
1 TAAATTATATA---TAA-GAATATTA-A-TTATTAAGAATT-TCAT
* * * * * * * *
9537695 TAATTTATATTTTACAGTA-TCATATATTATG-ATTTCAG
1 TAAATTATATATAAGAATATTAAT-TATTAAGAATTTCAT
9537733 TAAATTA-ATATAAGAATATTAATTATTAAGAATTTCAT
1 TAAATTATATATAAGAATATTAATTATTAAGAATTTCAT
9537771 TAAATTATATAT
1 TAAATTATATAT
9537783 TTTAATTAAA
Statistics
Matches: 95, Mismatches: 23, Indels: 27
0.66 0.16 0.19
Matches are distributed among these distances:
37 14 0.15
38 33 0.35
39 12 0.13
40 2 0.02
41 3 0.03
42 7 0.07
43 3 0.03
44 20 0.21
45 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (39 bp):
TAAATTATATATAAGAATATTAATTATTAAGAATTTCAT
Found at i:9537672 original size:18 final size:17
Alignment explanation
Indices: 9537644--9537678 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
9537634 ATTATTAAGA
9537644 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
9537661 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
9537679 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:9538059 original size:16 final size:16
Alignment explanation
Indices: 9538034--9538102 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
9538024 GATTAGCTAT
*
9538034 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
9538050 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
9538067 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
9538083 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
9538099 TACA
1 TACA
9538103 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:9538077 original size:33 final size:32
Alignment explanation
Indices: 9538034--9538102 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
9538024 GATTAGCTAT
9538034 TACACATCTAATCCAATACACCTCTAATCCCAA
1 TACACATCTAATCCAATACACCTCTAAT-CCAA
* *
9538067 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACATCTAATCCAATACACCTCTAATCCAA
9538099 TACA
1 TACA
9538103 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACATCTAATCCAATACACCTCTAATCCAA
Found at i:9543713 original size:59 final size:59
Alignment explanation
Indices: 9543611--9543740 Score: 163
Period size: 59 Copynumber: 2.2 Consensus size: 59
9543601 AGTATTCTAA
* * * *
9543611 GAATCGAACCCAAAAGAGTCGGCGATTTAATGATTTATTCTCGACAAGCATGCAATGAAG
1 GAATCGAA-CTAAAAGAGTCAGCGATTTAATAATTCATTCTCGACAAGCATGCAATGAAG
* *
9543671 GAATCGAACTAAAATGAGTCAGC-ATTTAATAATTCCTTCTCGACAAGCATGGAATGAAG
1 GAATCGAACTAAAA-GAGTCAGCGATTTAATAATTCATTCTCGACAAGCATGCAATGAAG
* *
9543730 GAGTCTAACTA
1 GAATCGAACTA
9543741 GCTACTCACT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
59 46 0.75
60 15 0.25
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (59 bp):
GAATCGAACTAAAAGAGTCAGCGATTTAATAATTCATTCTCGACAAGCATGCAATGAAG
Found at i:9544574 original size:32 final size:30
Alignment explanation
Indices: 9544538--9544596 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
9544528 CTAAACCCCA
9544538 AAAAATGA-AAAAGAAAACCGTAAAACTAAGCT
1 AAAAA-GATAAAAGAAAACC-T-AAACTAAGCT
*
9544570 AAAAAGATGAAAGAAAACCTAAACTAA
1 AAAAAGATAAAAGAAAACCTAAACTAA
9544597 AGCTCTCCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 7 0.28
31 3 0.12
32 15 0.60
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.12
Consensus pattern (30 bp):
AAAAAGATAAAAGAAAACCTAAACTAAGCT
Found at i:9546026 original size:31 final size:32
Alignment explanation
Indices: 9545970--9546029 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
9545960 AACAGTCCAT
*
9545970 TGACTTAAAATAAAAACTTTCAAATAGTTTAG
1 TGACTTAAAATAAAAACTTTAAAATAGTTTAG
* *
9546002 TGACTT-AAATGAATACTTTAAAATAGTT
1 TGACTTAAAATAAAAACTTTAAAATAGTT
9546030 CAATAACCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (32 bp):
TGACTTAAAATAAAAACTTTAAAATAGTTTAG
Found at i:9552167 original size:189 final size:188
Alignment explanation
Indices: 9551843--9552222 Score: 715
Period size: 189 Copynumber: 2.0 Consensus size: 188
9551833 AAACTCTATA
* *
9551843 CTTTCGATTCATTCATCATATTCACTTTTTATATCGATTTTATAGTGTTTCTGAAAATTATGAGG
1 CTTTCGATTCATTCATCATATTCACTTTTTATATCGATTCTATAGTGTTTCTGAAAACTATGAGG
9551908 AACCAATCCCTCTATGGAGGAATAGCGAGTGAAGGTATGAGCTATTAACCCTAGGCTTGATGACC
66 AACCAATCCCTCTATGGAGGAATAGCGAGTGAAGGTATGAGCTATTAACCCTAGGCTTGATGACC
9551973 CTAGGAAGTCATCAAGGTGGGAATTAACCCATAATTGGTATGGCTTATTCGTGAACAC
131 CTAGGAAGTCATCAAGGTGGGAATTAACCCATAATTGGTATGGCTTATTCGTGAACAC
9552031 CTTTACGATTCATTCATCATATTCACTTTTTATATCGATTCTATAGTGTTTCTGAAAACTATGAG
1 CTTT-CGATTCATTCATCATATTCACTTTTTATATCGATTCTATAGTGTTTCTGAAAACTATGAG
* *
9552096 GAACCAATCCCTCTATGGAGGATTAGGGAGTGAAGGTATGAGCTATTAACCCTAGGCTTGATGAC
65 GAACCAATCCCTCTATGGAGGAATAGCGAGTGAAGGTATGAGCTATTAACCCTAGGCTTGATGAC
9552161 CCTAGGAAGTCATCAAGGTGGGAATTAACCCATAATTGGTATGGCTTATTCGTGAACAC
130 CCTAGGAAGTCATCAAGGTGGGAATTAACCCATAATTGGTATGGCTTATTCGTGAACAC
9552220 CTT
1 CTT
9552223 CACCCTAAGC
Statistics
Matches: 187, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
188 4 0.02
189 183 0.98
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (188 bp):
CTTTCGATTCATTCATCATATTCACTTTTTATATCGATTCTATAGTGTTTCTGAAAACTATGAGG
AACCAATCCCTCTATGGAGGAATAGCGAGTGAAGGTATGAGCTATTAACCCTAGGCTTGATGACC
CTAGGAAGTCATCAAGGTGGGAATTAACCCATAATTGGTATGGCTTATTCGTGAACAC
Found at i:9559250 original size:31 final size:32
Alignment explanation
Indices: 9559215--9559274 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
9559205 ATGGTTATTG
*
9559215 AACTATTTTAAAGTATTCA-TTTAAGTCACTA
1 AACTATTTGAAAGTATTCATTTTAAGTCACTA
* *
9559246 AACTATTTGAAAGTTTTTATTTTAAGTCA
1 AACTATTTGAAAGTATTCATTTTAAGTCA
9559275 ATGGACTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (32 bp):
AACTATTTGAAAGTATTCATTTTAAGTCACTA
Found at i:9564289 original size:22 final size:21
Alignment explanation
Indices: 9564254--9564297 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
9564244 AAAGGATATC
9564254 TACAAATTAAATCTCCAAGAT
1 TACAAATTAAATCTCCAAGAT
* *
9564275 TACAAGATTATATCTTCAAGAT
1 TACAA-ATTAAATCTCCAAGAT
9564297 T
1 T
9564298 GCATATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (21 bp):
TACAAATTAAATCTCCAAGAT
Found at i:9564316 original size:19 final size:19
Alignment explanation
Indices: 9564292--9564342 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
9564282 TTATATCTTC
9564292 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
9564311 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
*
9564330 AAAATTGCATATC
1 AAGATTGCATATC
9564343 CTTAAAGGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:9567809 original size:25 final size:25
Alignment explanation
Indices: 9567775--9567838 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
9567765 GGAGGAGAGC
9567775 TTTAGTTTAGGTTTTCTTTCATCTA
1 TTTAGTTTAGGTTTTCTTTCATCTA
*
9567800 TTTAGTTTAGGTTTTCTTTCATCTC
1 TTTAGTTTAGGTTTTCTTTCATCTA
*
9567825 TTTAGCTTA-GTTTT
1 TTTAGTTTAGGTTTT
9567839 AAGGTTTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
24 5 0.14
25 32 0.86
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.61
Consensus pattern (25 bp):
TTTAGTTTAGGTTTTCTTTCATCTA
Found at i:9572637 original size:17 final size:17
Alignment explanation
Indices: 9572592--9572640 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
9572582 TATGATAATG
* *
9572592 TAATATATTTATTTATTT
1 TAAT-TATTTATTAAGTT
*
9572610 TAAATTTTTTATTAAGTT
1 T-AATTATTTATTAAGTT
9572628 TAATTATTTATTA
1 TAATTATTTATTA
9572641 TGTTCTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 11 0.42
18 12 0.46
19 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TAATTATTTATTAAGTT
Found at i:9572660 original size:36 final size:36
Alignment explanation
Indices: 9572592--9572677 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 36
9572582 TATGATAATG
* *
9572592 TAATATATTTATTTATTTTAAATTTTTTATTAAGTT
1 TAATATATTTATTTATTTTAAATTTATAATTAAGTT
*
9572628 TAAT-TATTTA-TTATGTTCTAAATTTATAATTAA-TA
1 TAATATATTTATTTAT-TT-TAAATTTATAATTAAGTT
*
9572663 TAAAATTATTTATTT
1 TAATA-TATTTATTT
9572678 CTCATGTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
34 4 0.10
35 12 0.29
36 17 0.41
37 6 0.15
38 2 0.05
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (36 bp):
TAATATATTTATTTATTTTAAATTTATAATTAAGTT
Found at i:9574978 original size:3 final size:3
Alignment explanation
Indices: 9574970--9575007 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
9574960 TTGTTAGGGA
9574970 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT A
9575008 GTAATAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9579517 original size:35 final size:35
Alignment explanation
Indices: 9579473--9579639 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
9579463 TTCTCATTGA
** *
9579473 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
9579508 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
* *
9579548 AATACCATACCTACATTTCACAGCTTAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
9579583 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
9579618 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
9579640 CTTTTCCATG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 86 0.75
39 3 0.03
40 26 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:9579556 original size:75 final size:73
Alignment explanation
Indices: 9579468--9579639 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
9579458 GGTTTTTCTC
** * * **
9579468 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
9579532 TCAGTATGG
65 TCAGTATGG
* *
9579541 ATTTGATAATACCATACCTACATTTCACAGCTTAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
9579606 CTCAGTATGG
64 CTCAGTATGG
9579616 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
9579640 CTTTTCCATG
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:9585650 original size:40 final size:40
Alignment explanation
Indices: 9585556--9585700 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
9585546 TACTCGAATG
*
9585556 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
9585597 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
9585637 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
9585677 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
9585701 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:9592384 original size:38 final size:38
Alignment explanation
Indices: 9592341--9592416 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
9592331 TTCATCCTTT
9592341 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
9592379 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
9592417 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:9593699 original size:40 final size:40
Alignment explanation
Indices: 9593605--9593749 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
9593595 TACTCGAATG
*
9593605 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
9593646 ACATACGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
9593686 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
9593726 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
9593750 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 59 0.67
41 27 0.31
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:9609042 original size:11 final size:11
Alignment explanation
Indices: 9609026--9609057 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
9609016 GTTTTGTCCC
9609026 TTTTTGGCTCA
1 TTTTTGGCTCA
*
9609037 TTTTTGGCTCG
1 TTTTTGGCTCA
9609048 TTTTTGGCTC
1 TTTTTGGCTC
9609058 CTAGTGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.03, C:0.19, G:0.22, T:0.56
Consensus pattern (11 bp):
TTTTTGGCTCA
Found at i:9612804 original size:48 final size:48
Alignment explanation
Indices: 9612733--9612828 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
9612723 ACTAGAGAGT
9612733 TCAATTCACATTGTAAAATAGAATGCAAAAAAGAAAGAACCTATACAA
1 TCAATTCACATTGTAAAATAGAATGCAAAAAAGAAAGAACCTATACAA
9612781 TCAATTCACATTGTAAAATAGAATGCAAAAAAGAAAGAACCTATACAA
1 TCAATTCACATTGTAAAATAGAATGCAAAAAAGAAAGAACCTATACAA
9612829 AGTAAAAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (48 bp):
TCAATTCACATTGTAAAATAGAATGCAAAAAAGAAAGAACCTATACAA
Found at i:9617927 original size:25 final size:26
Alignment explanation
Indices: 9617897--9617951 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
9617887 AGACAAAATA
* *
9617897 TAATCCTAACTTCTTAACTTAAG-TC
1 TAATCCAAACTTCTAAACTTAAGTTC
*
9617922 TAATCCAAATTTCTAAACTTAAGTTC
1 TAATCCAAACTTCTAAACTTAAGTTC
9617948 TAAT
1 TAAT
9617952 TTTGGTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (26 bp):
TAATCCAAACTTCTAAACTTAAGTTC
Found at i:9618148 original size:14 final size:14
Alignment explanation
Indices: 9618129--9618160 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
9618119 AGGTCATTTA
9618129 GCCCAACCAAACTG
1 GCCCAACCAAACTG
9618143 GCCCAACCAAACTG
1 GCCCAACCAAACTG
9618157 GCCC
1 GCCC
9618161 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:9623266 original size:14 final size:14
Alignment explanation
Indices: 9623247--9623278 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
9623237 AGGTCATTTA
9623247 GCCCAACCAAACTG
1 GCCCAACCAAACTG
9623261 GCCCAACCAAACTG
1 GCCCAACCAAACTG
9623275 GCCC
1 GCCC
9623279 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:9624620 original size:22 final size:22
Alignment explanation
Indices: 9624572--9624617 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
9624562 TTTGTATGAC
*
9624572 ATTATAAGCATCATAATAATCT
1 ATTATAAGAATCATAATAATCT
9624594 ATTATAAGAAT-ATATATAAT-T
1 ATTATAAGAATCATA-ATAATCT
9624615 ATT
1 ATT
9624618 TATTTGTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
ATTATAAGAATCATAATAATCT
Found at i:9627757 original size:10 final size:10
Alignment explanation
Indices: 9627742--9627775 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
9627732 AATTTTAGCT
9627742 TTTATCTTTA
1 TTTATCTTTA
*
9627752 TTTATCCTTA
1 TTTATCTTTA
9627762 TTTATCTTTA
1 TTTATCTTTA
9627772 TTTA
1 TTTA
9627776 ATTGAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:9635404 original size:5 final size:5
Alignment explanation
Indices: 9635396--9635423 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9635386 TCAATCCAAT
9635396 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
9635424 CATCATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:9638627 original size:5 final size:6
Alignment explanation
Indices: 9638611--9638635 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9638601 TTAAATCTGC
9638611 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
9638636 TAGTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:9642436 original size:20 final size:20
Alignment explanation
Indices: 9642408--9642455 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
9642398 GAGCATAGGA
*
9642408 GAGCGAAAAAAACGAG-AAAC
1 GAGCCAAAAAAA-GAGAAAAC
* *
9642428 GAGCCAAAAACAGAGAAAAT
1 GAGCCAAAAAAAGAGAAAAC
9642448 GAGCCAAA
1 GAGCCAAA
9642456 GTACGAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.58, C:0.17, G:0.23, T:0.02
Consensus pattern (20 bp):
GAGCCAAAAAAAGAGAAAAC
Found at i:9642443 original size:19 final size:19
Alignment explanation
Indices: 9642415--9642455 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
9642405 GGAGAGCGAA
9642415 AAAAACGAG-AAACGAGCC
1 AAAAACGAGAAAACGAGCC
*
9642433 AAAAACAGAGAAAATGAGCC
1 AAAAAC-GAGAAAACGAGCC
9642453 AAA
1 AAA
9642456 GTACGAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 3 0.15
20 11 0.55
ACGTcount: A:0.61, C:0.17, G:0.20, T:0.02
Consensus pattern (19 bp):
AAAAACGAGAAAACGAGCC
Found at i:9649663 original size:5 final size:6
Alignment explanation
Indices: 9649650--9649690 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
9649640 ATAATTTAAT
9649650 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
9649691 ATATATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:9649684 original size:21 final size:22
Alignment explanation
Indices: 9649627--9649684 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
9649617 CAACCCAATC
*
9649627 ATAAAAATTACAAATAATTTAATAA
1 ATAAAAA-TA-AAA-AATCTAATAA
9649652 ATAAAAAT-AAAAATCTAA-AA
1 ATAAAAATAAAAAATCTAATAA
9649672 ATAAAAATAAAAA
1 ATAAAAATAAAAA
9649685 TAAAAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 10 0.32
21 10 0.32
22 3 0.10
24 1 0.03
25 7 0.23
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAAAATAAAAAATCTAATAA
Found at i:9649691 original size:20 final size:20
Alignment explanation
Indices: 9649650--9649691 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
9649640 ATAATTTAAT
**
9649650 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
9649670 AAATAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
9649690 AA
1 AA
9649692 TATATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:9649729 original size:9 final size:9
Alignment explanation
Indices: 9649717--9649759 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
9649707 AAATAATTTA
9649717 GTTAATTCG
1 GTTAATTCG
9649726 GTTAATTCG
1 GTTAATTCG
9649735 GTTAATTCG
1 GTTAATTCG
*
9649744 ATTAATTCG
1 GTTAATTCG
9649753 GTTAATT
1 GTTAATT
9649760 TTATACTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.47
Consensus pattern (9 bp):
GTTAATTCG
Found at i:9651162 original size:11 final size:11
Alignment explanation
Indices: 9651146--9651170 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9651136 AATTTAAAAC
9651146 TTTTTATTTTT
1 TTTTTATTTTT
9651157 TTTTTATTTTT
1 TTTTTATTTTT
9651168 TTT
1 TTT
9651171 CCAGGTATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:9654521 original size:12 final size:12
Alignment explanation
Indices: 9654504--9654529 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9654494 TAGAGTGGCT
9654504 TAATGAGCCATG
1 TAATGAGCCATG
9654516 TAATGAGCCATG
1 TAATGAGCCATG
9654528 TA
1 TA
9654530 CATAGGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (12 bp):
TAATGAGCCATG
Found at i:9656068 original size:63 final size:63
Alignment explanation
Indices: 9655985--9656146 Score: 182
Period size: 63 Copynumber: 2.6 Consensus size: 63
9655975 GCCACATGAC
* * * * * * *
9655985 CGTGTGT-TAGGCCGTGTGACTCAATGTTTGGCATTAAGGACCATATGGGCCAAGGAAACGGG
1 CGTGTGTCCAGGCCGTGTGACTCACTGTTTGCCATTAAGGACCACATGGACCAAGGAAACAGA
* * ** * *
9656047 CGTGTGTCCAGGCCGTATGACTTACTACTTGCCATTAAGGACCACATGGACCAGGGACACAGA
1 CGTGTGTCCAGGCCGTGTGACTCACTGTTTGCCATTAAGGACCACATGGACCAAGGAAACAGA
* *
9656110 TGTGTGTCCAGGCTGTGTGACTCACTGTTTGCCATTA
1 CGTGTGTCCAGGCCGTGTGACTCACTGTTTGCCATTA
9656147 CATGAGCCAG
Statistics
Matches: 80, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
62 7 0.09
63 73 0.91
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (63 bp):
CGTGTGTCCAGGCCGTGTGACTCACTGTTTGCCATTAAGGACCACATGGACCAAGGAAACAGA
Found at i:9659239 original size:21 final size:21
Alignment explanation
Indices: 9659202--9659248 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
9659192 AAGCCAGTTA
9659202 TAAAA-GTCCATAAACAGTCCT
1 TAAAATGTCCATAAACAG-CCT
*
9659223 TAAAATGTCCAT-TACAGCCT
1 TAAAATGTCCATAAACAGCCT
*
9659243 AAAAAT
1 TAAAAT
9659249 ATCAAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 9 0.39
22 6 0.26
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.26
Consensus pattern (21 bp):
TAAAATGTCCATAAACAGCCT
Found at i:9661327 original size:43 final size:43
Alignment explanation
Indices: 9661201--9661362 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 43
9661191 TAATATCTAT
* *
9661201 TTTCGTGTAAGACCACGTCTGGGACGTTGGAATCGA-ATTATGA
1 TTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGA
* * * * *
9661244 TTTACATGTAAGACCATGTTTGGGACATTGGTATTG-TATTTGA
1 TTT-CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA
* **
9661287 TTTCGTGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTTGA
1 TTTCATGTAAGACCACGTCTGGGAC-GTTGGCATCGATATTTGA
* *
9661330 TTACATGTAGGACCACGTCTGGGACGTTGGCAT
1 TTTCATGTAAGACCACGTCTGGGACGTTGGCAT
9661363 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 26 0.27
43 42 0.43
44 29 0.30
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
TTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA
Found at i:9677401 original size:68 final size:68
Alignment explanation
Indices: 9677235--9677424 Score: 247
Period size: 68 Copynumber: 2.8 Consensus size: 68
9677225 GTAATATGAC
* * * * *
9677235 ATGCTTATAATAAATCAATACGGTAGCAATTAACATGCTTGTAGCAAATCAATA-GGTAGCAATC
1 ATGCTTATAATAGATCAATACGGTAGCAATTAATATGCTTATAACAAATCAATATGCTAGCAATC
9677299 AAT
66 AAT
* * * * * *
9677302 ATACTTATAACAGATCAATACAGTAGCAATTAATATGCTTATAACATATCAATATGCTAGTAATT
1 ATGCTTATAATAGATCAATACGGTAGCAATTAATATGCTTATAACAAATCAATATGCTAGCAATC
*
9677367 TAT
66 AAT
* *
9677370 ATGCTTAAAATAGATCAATATGGTAGCAATTAATATGCTTATAACAAATCAATAT
1 ATGCTTATAATAGATCAATACGGTAGCAATTAATATGCTTATAACAAATCAATAT
9677425 ATTAGCAAAA
Statistics
Matches: 104, Mismatches: 18, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
67 46 0.44
68 58 0.56
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (68 bp):
ATGCTTATAATAGATCAATACGGTAGCAATTAATATGCTTATAACAAATCAATATGCTAGCAATC
AAT
Found at i:9677432 original size:34 final size:34
Alignment explanation
Indices: 9677235--9677424 Score: 220
Period size: 34 Copynumber: 5.6 Consensus size: 34
9677225 GTAATATGAC
* * *
9677235 ATGCTTATAATAAATCAATACGGTAGCAATTAAC
1 ATGCTTATAACAAATCAATATGGTAGCAATTAAT
* * *
9677269 ATGCTTGTAGCAAATCAATA-GGTAGCAATCAAT
1 ATGCTTATAACAAATCAATATGGTAGCAATTAAT
* * **
9677302 ATACTTATAACAGATCAATACAGTAGCAATTAAT
1 ATGCTTATAACAAATCAATATGGTAGCAATTAAT
* * * *
9677336 ATGCTTATAACATATCAATATGCTAGTAATTTAT
1 ATGCTTATAACAAATCAATATGGTAGCAATTAAT
* * *
9677370 ATGCTTAAAATAGATCAATATGGTAGCAATTAAT
1 ATGCTTATAACAAATCAATATGGTAGCAATTAAT
9677404 ATGCTTATAACAAATCAATAT
1 ATGCTTATAACAAATCAATAT
9677425 ATTAGCAAAA
Statistics
Matches: 128, Mismatches: 27, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
33 27 0.21
34 101 0.79
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (34 bp):
ATGCTTATAACAAATCAATATGGTAGCAATTAAT
Found at i:9680173 original size:47 final size:46
Alignment explanation
Indices: 9680104--9680194 Score: 155
Period size: 47 Copynumber: 2.0 Consensus size: 46
9680094 CTCATAAAGC
* *
9680104 AAAGTGATTATATTGGTTAAATATCAAATCAAATCAAAATTAAAACA
1 AAAGTGATTATATTAGTCAAATATCAAATCAAATCAAAA-TAAAACA
9680151 AAAGTGATTATATTAGTCAAATATCAAATCAAATCAAAATAAAA
1 AAAGTGATTATATTAGTCAAATATCAAATCAAATCAAAATAAAA
9680195 TAATAAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
46 5 0.12
47 37 0.88
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.29
Consensus pattern (46 bp):
AAAGTGATTATATTAGTCAAATATCAAATCAAATCAAAATAAAACA
Found at i:9681877 original size:30 final size:29
Alignment explanation
Indices: 9681787--9681878 Score: 82
Period size: 30 Copynumber: 3.0 Consensus size: 29
9681777 ACACATCAAT
*
9681787 AATTCTTTGTATTTTTCATAAATTTT-AAATTT
1 AATTCTTT-TA-TTTT--TAAATTTTAAAATTC
*
9681819 AA-TCTCTTTATTTTT-ATTTTTAAGAATTC
1 AATTCT-TTTATTTTTAAATTTTAA-AATTC
9681848 AATTCTTTTACTTTTTAAATTTTAAAATTC
1 AATTCTTTTA-TTTTTAAATTTTAAAATTC
9681878 A
1 A
9681879 GTTCCAATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
27 5 0.10
28 2 0.04
29 10 0.20
30 18 0.35
31 12 0.24
32 4 0.08
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.58
Consensus pattern (29 bp):
AATTCTTTTATTTTTAAATTTTAAAATTC
Found at i:9690093 original size:6 final size:6
Alignment explanation
Indices: 9690082--9690121 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
9690072 AAAAAAGAAA
*
9690082 AAAAAT AGAAAT AGCAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT A--AAAAT AAAAAT AAAAAT AAAAAT AA
9690122 TAAAAGTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 25 0.83
8 5 0.17
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:9690105 original size:23 final size:23
Alignment explanation
Indices: 9690055--9690106 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
9690045 ATGATAATAG
9690055 TAAAAAAAATACGAAAGAAAAAA
1 TAAAAAAAATACGAAAGAAAAAA
* * *
9690078 GAAAAAAAATA-GAAATAGCAAAA
1 TAAAAAAAATACGAAAGA-AAAAA
9690101 TAAAAA
1 TAAAAA
9690107 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.77, C:0.04, G:0.10, T:0.10
Consensus pattern (23 bp):
TAAAAAAAATACGAAAGAAAAAA
Found at i:9690136 original size:19 final size:17
Alignment explanation
Indices: 9690102--9690168 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
9690092 ATAGCAAAAT
9690102 AAAAATAAAA-ATA-AA
1 AAAAATAAAATATATAA
* *
9690117 AATAATAAAAGTGTATAA
1 AAAAATAAAA-TATATAA
*
9690135 AAAATTAAAATATATAA
1 AAAAATAAAATATATAA
*
9690152 AAAATTTAAAA-ATATAA
1 AAAA-ATAAAATATATAA
9690169 GTATAAGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.21
17 18 0.42
18 16 0.37
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAAATAAAATATATAA
Found at i:9694161 original size:17 final size:17
Alignment explanation
Indices: 9694139--9694173 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9694129 CTAATTAAAA
*
9694139 ATATTAGGGCAAAAATT
1 ATATTAAGGCAAAAATT
*
9694156 ATATTAAGGCAAGAATT
1 ATATTAAGGCAAAAATT
9694173 A
1 A
9694174 AGAACACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.29
Consensus pattern (17 bp):
ATATTAAGGCAAAAATT
Found at i:9698957 original size:16 final size:16
Alignment explanation
Indices: 9698936--9698966 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9698926 TTCACTATTA
*
9698936 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
9698952 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
9698967 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:9701712 original size:4 final size:4
Alignment explanation
Indices: 9701703--9701730 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
9701693 GATTTATGCA
9701703 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
9701731 CAGTCAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:9703307 original size:37 final size:37
Alignment explanation
Indices: 9703261--9703372 Score: 105
Period size: 37 Copynumber: 3.2 Consensus size: 37
9703251 AAAAATAAAA
*
9703261 TTATTTTAATAGTTTAATATTAAATTCAATTTAATAT
1 TTATCTTAATAGTTTAATATTAAATTCAATTTAATAT
*
9703298 TTATCTTAATAG--T-AT-TT-TATT-AATTTAATA-
1 TTATCTTAATAGTTTAATATTAAATTCAATTTAATAT
***
9703328 TTAAAATAATTA-TATTAATATTAAATTCAATTTAATAT
1 TTATCTTAA-TAGT-TTAATATTAAATTCAATTTAATAT
9703366 TTATCTT
1 TTATCTT
9703373 GTAAATAAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
30 6 0.11
31 11 0.19
32 3 0.05
33 3 0.05
34 4 0.07
35 3 0.05
36 3 0.05
37 20 0.35
38 4 0.07
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (37 bp):
TTATCTTAATAGTTTAATATTAAATTCAATTTAATAT
Found at i:9705694 original size:45 final size:43
Alignment explanation
Indices: 9705645--9705849 Score: 209
Period size: 45 Copynumber: 4.6 Consensus size: 43
9705635 CCGAAGTGAG
**
9705645 GCCATAGTATCTTTCAACTATGGTCTTATTTGTATTGGTTTTAAT
1 GCCATAGTATCTTTCAACTATGGTCTTATTCAT-TTGG-TTTAAT
* * *
9705690 GCCATAGTATCTTTCAATTATGGTCTTATACATTTCCGGTATAAT
1 GCCATAGTATCTTTCAACTATGGTCTTATTCATTT--GGTTTAAT
*
9705735 GTCATAGTATCTTTCAACTATGG-CTTTATTCATTCTGGTTTAAT
1 GCCATAGTATCTTTCAACTATGGTC-TTATTCATT-TGGTTTAAT
* *
9705779 GTCATAGTATCTTTCAACTATGGTCTT-TCTCATTTCGGGTATAAT
1 GCCATAGTATCTTTCAACTATGGTCTTAT-TCATTT--GGTTTAAT
* *
9705824 GTCATGGTATCTTTCAACCT-TGGTCT
1 GCCATAGTATCTTTCAA-CTATGGTCT
9705850 ATCTCGTTTC
Statistics
Matches: 140, Mismatches: 11, Indels: 18
0.83 0.07 0.11
Matches are distributed among these distances:
43 2 0.01
44 40 0.29
45 93 0.66
46 5 0.04
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.45
Consensus pattern (43 bp):
GCCATAGTATCTTTCAACTATGGTCTTATTCATTTGGTTTAAT
Found at i:9705820 original size:89 final size:90
Alignment explanation
Indices: 9705647--9705849 Score: 272
Period size: 89 Copynumber: 2.3 Consensus size: 90
9705637 GAAGTGAGGC
** *
9705647 CATAGTATCTTTCAACTATGGTCTTATTTGTATTGGTTTTAATGCCATAGTATCTTTCAATTATG
1 CATAGTATCTTTCAACTATGGTCTTATTCATATTGGTTTTAATGCCATAGTATCTTTCAACTATG
9705712 GTCTTATACATTTCCGGTATAATGT
66 GTCTTATACATTTCCGGTATAATGT
*
9705737 CATAGTATCTTTCAACTATGG-CTTTATTCAT-TCTGG-TTTAATGTCATAGTATCTTTCAACTA
1 CATAGTATCTTTCAACTATGGTC-TTATTCATAT-TGGTTTTAATGCCATAGTATCTTTCAACTA
* *
9705799 TGGTCTT-TCTCATTTCGGGTATAATGT
64 TGGTCTTAT-ACATTTCCGGTATAATGT
*
9705826 CATGGTATCTTTCAACCT-TGGTCT
1 CATAGTATCTTTCAA-CTATGGTCT
9705850 ATCTCGTTTC
Statistics
Matches: 101, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
88 1 0.01
89 67 0.66
90 33 0.33
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.46
Consensus pattern (90 bp):
CATAGTATCTTTCAACTATGGTCTTATTCATATTGGTTTTAATGCCATAGTATCTTTCAACTATG
GTCTTATACATTTCCGGTATAATGT
Found at i:9707900 original size:22 final size:22
Alignment explanation
Indices: 9707875--9707916 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9707865 TTTTGCTTTG
*
9707875 TTTATTTTATTTTAACTTAACT
1 TTTATTTTAATTTAACTTAACT
*
9707897 TTTATTTTAATTTAATTTAA
1 TTTATTTTAATTTAACTTAA
9707917 TTTAAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTATTTTAATTTAACTTAACT
Found at i:9707901 original size:17 final size:17
Alignment explanation
Indices: 9707879--9707911 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9707869 GCTTTGTTTA
9707879 TTTTATTTTAACTTAAC
1 TTTTATTTTAACTTAAC
*
9707896 TTTTATTTTAATTTAA
1 TTTTATTTTAACTTAA
9707912 TTTAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTATTTTAACTTAAC
Found at i:9709508 original size:19 final size:19
Alignment explanation
Indices: 9709473--9709570 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
9709463 AGATTATAAG
9709473 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
9709494 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9709513 ATCATATCTAAGATT--AT
1 ATCATATCTAAGATTGCAT
9709530 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9709549 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9709568 ATC
1 ATC
9709571 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:9709580 original size:36 final size:38
Alignment explanation
Indices: 9709473--9709570 Score: 164
Period size: 36 Copynumber: 2.6 Consensus size: 38
9709463 AGATTATAAG
9709473 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTGCATATCATATCTAAGATTGCAT
9709513 ATCATATCTAAGATT--ATATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
9709549 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTGCATATC
9709571 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
39 1 0.02
40 8 0.14
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (38 bp):
ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
Found at i:9710982 original size:11 final size:11
Alignment explanation
Indices: 9710951--9710990 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
9710941 TTAGGTTAGG
9710951 TTTTCTTTCTC
1 TTTTCTTTCTC
*
9710962 TTTTCCTTCTC
1 TTTTCTTTCTC
*
9710973 TTTTTTTTCT-
1 TTTTCTTTCTC
9710983 TTTTCTTT
1 TTTTCTTT
9710991 TCATTTTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCTTTCTC
Found at i:9710997 original size:20 final size:20
Alignment explanation
Indices: 9710960--9710998 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9710950 GTTTTCTTTC
*
9710960 TCTTTTCCTTCTCTTTTTTT
1 TCTTTTCCTTCTCATTTTTT
* *
9710980 TCTTTTTCTTTTCATTTTT
1 TCTTTTCCTTCTCATTTTT
9710999 AGTTTAGGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (20 bp):
TCTTTTCCTTCTCATTTTTT
Found at i:9711041 original size:26 final size:26
Alignment explanation
Indices: 9710982--9711041 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
9710972 CTTTTTTTTC
* **
9710982 TTTTTCTTTTCATTTTTAGTTTAGGT
1 TTTTTCTTTTCATTTTTAGGTTAAAT
*
9711008 TTTCTCTTTTC-TTTTTAGGTTAAAT
1 TTTTTCTTTTCATTTTTAGGTTAAAT
9711033 TTTATTCTT
1 TTT-TTCTT
9711042 GTAGTTTTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.13, C:0.10, G:0.08, T:0.68
Consensus pattern (26 bp):
TTTTTCTTTTCATTTTTAGGTTAAAT
Found at i:9714347 original size:18 final size:18
Alignment explanation
Indices: 9714320--9714356 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9714310 CAAATGAATC
* *
9714320 ATTTCCATTTTCATTTTT
1 ATTTCAATTTCCATTTTT
9714338 ATTTCAATTTCCATTTTT
1 ATTTCAATTTCCATTTTT
9714356 A
1 A
9714357 GAAACCTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTCAATTTCCATTTTT
Found at i:9718338 original size:2 final size:2
Alignment explanation
Indices: 9718331--9718365 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9718321 TCTTACCCTT
9718331 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9718366 TGTCTTTCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9722745 original size:14 final size:14
Alignment explanation
Indices: 9722725--9722757 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9722715 TTTCAACTAG
9722725 ATCTACGGAGGACA
1 ATCTACGGAGGACA
*
9722739 TTCTACGGAGGACA
1 ATCTACGGAGGACA
9722753 ATCTA
1 ATCTA
9722758 GTAAGTCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (14 bp):
ATCTACGGAGGACA
Found at i:9723348 original size:5 final size:5
Alignment explanation
Indices: 9723338--9723376 Score: 69
Period size: 5 Copynumber: 7.6 Consensus size: 5
9723328 CTGTATGTTC
9723338 TTTAT TTTAT TTTATT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTT
9723377 CAAAAATTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:9731576 original size:28 final size:28
Alignment explanation
Indices: 9731545--9731603 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
9731535 TATGTTTTGG
*
9731545 TTTCAGATAAGTTTAACTTTACATCATA
1 TTTCAGAGAAGTTTAACTTTACATCATA
* *
9731573 TTTCTGAGAAGTTTAATTTTACATCATA
1 TTTCAGAGAAGTTTAACTTTACATCATA
9731601 TTT
1 TTT
9731604 ACTTTTGCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.47
Consensus pattern (28 bp):
TTTCAGAGAAGTTTAACTTTACATCATA
Found at i:9733051 original size:35 final size:35
Alignment explanation
Indices: 9733012--9733083 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
9733002 TTTTGATACT
9733012 ATTATGGTGCTAGTAAGCAAACTCTTAAAGTATGC
1 ATTATGGTGCTAGTAAGCAAACTCTTAAAGTATGC
*
9733047 ATTATGGTGCTAGTAAGCAAATTCTTAAAGTATGC
1 ATTATGGTGCTAGTAAGCAAACTCTTAAAGTATGC
9733082 AT
1 AT
9733084 ACTCCATTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (35 bp):
ATTATGGTGCTAGTAAGCAAACTCTTAAAGTATGC
Found at i:9739062 original size:21 final size:21
Alignment explanation
Indices: 9739038--9739088 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
9739028 TAATTCAATA
*
9739038 TTTAGGGTTTTGAGTTTAAAG
1 TTTAGGGTTTGGAGTTTAAAG
** *
9739059 TTTAATGTTTGGAGTTTAGAG
1 TTTAGGGTTTGGAGTTTAAAG
9739080 TTTAGGGTT
1 TTTAGGGTT
9739089 AAAATTTAAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (21 bp):
TTTAGGGTTTGGAGTTTAAAG
Found at i:9739331 original size:21 final size:20
Alignment explanation
Indices: 9739281--9739331 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
9739271 ACTCGGAACC
9739281 TTGAACTC-AAACCCAAACT
1 TTGAACTCTAAACCCAAACT
**
9739300 TTG-GGTCCTAAACCCTAAACT
1 TTGAACT-CTAAACCC-AAACT
9739321 TTGAACTCTAA
1 TTGAACTCTAA
9739332 TATTGAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
18 1 0.04
19 4 0.17
20 6 0.25
21 12 0.50
22 1 0.04
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (20 bp):
TTGAACTCTAAACCCAAACT
Found at i:9740386 original size:127 final size:127
Alignment explanation
Indices: 9740159--9740398 Score: 426
Period size: 127 Copynumber: 1.9 Consensus size: 127
9740149 GCTTTAGCCT
* *
9740159 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAAGGAACGATT
* *
9740224 CTTCGAATTCTTTAAATACCGAACATTGCCCTTATTTTGAAAATTTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTACCCTTATTTTGAAAAATTTTTGAGAGTGAACTGG
9740286 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAAGGAACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAAGGAACGATT
* *
9740351 CTTCGAATTCTTTAAATACCGAACATTATCTTTATTTTGAAAAATTTT
66 CTTCGAATTCTTTAAATACCGAACATTACCCTTATTTTGAAAAATTTT
9740399 GACAGAAGAT
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 107 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (127 bp):
TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAAGGAACGATT
CTTCGAATTCTTTAAATACCGAACATTACCCTTATTTTGAAAAATTTTTGAGAGTGAACTGG
Found at i:9740885 original size:14 final size:14
Alignment explanation
Indices: 9740866--9740896 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9740856 ATATATTTAC
*
9740866 ATAATAAATATATA
1 ATAATAAATAAATA
9740880 ATAATAAATAAATA
1 ATAATAAATAAATA
9740894 ATA
1 ATA
9740897 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Done.