Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 224 of 250
Found at i:68965637 original size:56 final size:56
Alignment explanation
Indices: 68965520--68965650 Score: 140
Period size: 56 Copynumber: 2.3 Consensus size: 56
68965510 TTTTTTATGC
* * * *
68965520 ATTTTATAATTTTTTATTATTTTTATAAAAATTCACAATTTTTTTTATATTTTCATG
1 ATTTTATAATTTTTT-TTATTTTTATAAAAATTCACAAATTTTTATAAATTTTCATA
* * *
68965577 ATTTTATAATTTTTTTTATTTTTATTAAAATTTA-ATAATTTTTATAAATTTATTA-A
1 ATTTTATAATTTTTTTTATTTTTATAAAAATTCACA-AATTTTTATAAATTT-TCATA
68965633 ATTTTTTATAATTTTTTT
1 A--TTTTATAATTTTTTT
68965651 GTTAAATGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
55 1 0.02
56 30 0.48
57 17 0.27
58 15 0.24
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (56 bp):
ATTTTATAATTTTTTTTATTTTTATAAAAATTCACAAATTTTTATAAATTTTCATA
Found at i:68965878 original size:22 final size:23
Alignment explanation
Indices: 68965850--68965895 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
68965840 CTTTTTTTAT
68965850 GCTTTTTTTT-TTAAGTTTGAAA
1 GCTTTTTTTTATTAAGTTTGAAA
* *
68965872 GCTTTTTTTTATTCATTTTGAAA
1 GCTTTTTTTTATTAAGTTTGAAA
68965895 G
1 G
68965896 TTTAAATACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.22, C:0.07, G:0.13, T:0.59
Consensus pattern (23 bp):
GCTTTTTTTTATTAAGTTTGAAA
Found at i:68972823 original size:21 final size:21
Alignment explanation
Indices: 68972797--68972837 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
68972787 AGACGAGCAA
* *
68972797 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
68972818 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
68972838 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:68984605 original size:29 final size:30
Alignment explanation
Indices: 68984565--68984639 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 30
68984555 AGTAAATTAA
68984565 TTTAATAA-AAAATTAATA-AG-AACTTAAAT
1 TTTAA-AATAAAATTAATATAGAAAC-TAAAT
*
68984594 TTTAAAATAAAA-AAATATAGAAACTAAAT
1 TTTAAAATAAAATTAATATAGAAACTAAAT
68984623 TTCTAAAAGTAAAATTA
1 TT-TAAAA-TAAAATTA
68984640 TTAATGATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 6 0.16
29 18 0.47
30 8 0.21
31 5 0.13
32 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (30 bp):
TTTAAAATAAAATTAATATAGAAACTAAAT
Found at i:68991794 original size:3 final size:3
Alignment explanation
Indices: 68991781--68991833 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
68991771 CAAACAAGTA
*
68991781 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
68991829 AAT AA
1 AAT AA
68991834 AAGTTACAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:68994482 original size:21 final size:21
Alignment explanation
Indices: 68994456--68994496 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
68994446 ATCTGCTCAA
* *
68994456 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
68994477 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
68994497 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:68997574 original size:12 final size:13
Alignment explanation
Indices: 68997552--68997583 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
68997542 AAATAATAAT
68997552 ATTTATTTTTATA
1 ATTTATTTTTATA
68997565 ATTT-TTTTTATA
1 ATTTATTTTTATA
68997577 ATTTATT
1 ATTTATT
68997584 GTAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTATTTTTATA
Found at i:69003353 original size:22 final size:23
Alignment explanation
Indices: 69003302--69003360 Score: 93
Period size: 23 Copynumber: 2.5 Consensus size: 23
69003292 ATATTAAAAT
69003302 GAAAAAATTATATTTTTACCATC
1 GAAAAAATTATATTTTTACCATC
69003325 GAAAAAATTATATTTTTACCATC
1 GAAAAAATTATATTTTTACCATC
69003348 -ATAAAAATATATA
1 GA-AAAAAT-TATA
69003361 ATTTAACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
22 1 0.03
23 29 0.85
24 4 0.12
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.37
Consensus pattern (23 bp):
GAAAAAATTATATTTTTACCATC
Found at i:69005222 original size:129 final size:132
Alignment explanation
Indices: 69004925--69005263 Score: 312
Period size: 129 Copynumber: 2.6 Consensus size: 132
69004915 TTCCGGAGAG
* * * * * * *
69004925 ATATTCGATTATTTTGGACAAACGGGAGATCGCAGCCCAGCACGATAGGGCACTATTCCCCGAAC
1 ATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAACACGATAGGGCACGATTCCCCAAAC
* * * ** *
69004990 TGCCAAACATCGAACACTTCTTTCGTTTTAAAAGGTTTTTAGAAAACGTGAATGAAATTTCGAAG
66 TGCCAAACATCGAACACTCCTTTCGTATTAAAAGGTTTTTAGAAAACATGAATGAAACCTCAAAG
*
69005055 GA
131 AA
* * * * * * * *
69005057 ATCTTCGATTGTTTAGAACAAATGAAAAAGCACAACCCAACACGATAGGGCACGA-TCCTCAAA-
1 ATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAACACGATAGGGCACGATTCCCCAAAC
* *
69005120 TCGCCAAACATCGAACA-TCCTTT-GTATTGAAAGGTTTTTA-ATAAACATGAGTGAAAACCT-A
66 T-GCCAAACATCGAACACTCCTTTCGTATTAAAAGGTTTTTAGA-AAACATGAATG-AAACCTCA
69005181 AAGAA
128 AAGAA
* * * * * * * *
69005186 ATATTCGATTATTTTGAACAAACGAGAAATTGCAACCTAACATGTTAGGGCACTATTCCACGAAT
1 ATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAACACGATAGGGCACGATTCCCCAAAC
*
69005251 TGCCAAATATCGA
66 TGCCAAACATCGA
69005264 GTCTCGTCTT
Statistics
Matches: 163, Mismatches: 39, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
128 1 0.01
129 71 0.44
130 27 0.17
131 22 0.13
132 42 0.26
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (132 bp):
ATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAACACGATAGGGCACGATTCCCCAAAC
TGCCAAACATCGAACACTCCTTTCGTATTAAAAGGTTTTTAGAAAACATGAATGAAACCTCAAAG
AA
Found at i:69005618 original size:26 final size:26
Alignment explanation
Indices: 69005568--69005664 Score: 76
Period size: 29 Copynumber: 3.7 Consensus size: 26
69005558 TGATATAATA
69005568 AGTATAATAAATAATAATGTAAAAAAAAT
1 AGTATAATAAATAATAA-G--AAAAAAAT
*
69005597 AGTATAATAAATAATAAGAAAATAAT
1 AGTATAATAAATAATAAGAAAAAAAT
* *
69005623 --TTTAA-AAATGATATA-AAAAAAAT
1 AGTATAATAAATAATA-AGAAAAAAAT
*
69005646 AGTAATAATAGATTAATAA
1 AGT-ATAATA-AATAATAA
69005665 TAATACCAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
23 14 0.25
24 5 0.09
25 1 0.02
26 10 0.18
27 2 0.04
28 6 0.11
29 17 0.31
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (26 bp):
AGTATAATAAATAATAAGAAAAAAAT
Found at i:69010128 original size:21 final size:21
Alignment explanation
Indices: 69010102--69010142 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
69010092 ATCTGCTCAA
* *
69010102 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
69010123 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
69010143 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:69023944 original size:14 final size:14
Alignment explanation
Indices: 69023925--69023954 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
69023915 TATCATATTA
69023925 ATCTATAATACTAT
1 ATCTATAATACTAT
69023939 ATCTATAATACTAT
1 ATCTATAATACTAT
69023953 AT
1 AT
69023955 TTATTAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
ATCTATAATACTAT
Found at i:69030136 original size:21 final size:21
Alignment explanation
Indices: 69030086--69030136 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
69030076 TATTATTTAA
* *
69030086 AATATTTTAAAATTGTAAAAG
1 AATATTTAAAAATTATAAAAG
* *
69030107 AGT-TATTAAAAATTATAAAAT
1 AATAT-TTAAAAATTATAAAAG
69030128 AATATTTAA
1 AATATTTAA
69030137 CTTTTGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (21 bp):
AATATTTAAAAATTATAAAAG
Found at i:69030188 original size:19 final size:19
Alignment explanation
Indices: 69030158--69030208 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
69030148 TTTGAAAATT
69030158 TTATTAAAAAATT-CAAATAA
1 TTATT-AAAAATTGCAAA-AA
*
69030178 TTATTAAAAATTGTAAAAA
1 TTATTAAAAATTGCAAAAA
*
69030197 TTATTTAAAATT
1 TTATTAAAAATT
69030209 TGTGAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
TTATTAAAAATTGCAAAAA
Found at i:69030204 original size:20 final size:21
Alignment explanation
Indices: 69030158--69030211 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
69030148 TTTGAAAATT
* *
69030158 TTATTAAAAAATT-CAAATAA
1 TTATTTAAAAATTGTAAATAA
69030178 TTA-TTAAAAATTGTAAA-AA
1 TTATTTAAAAATTGTAAATAA
*
69030197 TTATTTAAAATTTGT
1 TTATTTAAAAATTGT
69030212 GAATTGGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
TTATTTAAAAATTGTAAATAA
Found at i:69030472 original size:19 final size:19
Alignment explanation
Indices: 69030438--69030500 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
69030428 TTTTGTTAAT
69030438 TATTTACAACTTTTAATAA
1 TATTTACAACTTTTAATAA
*
69030457 GTATTTACTA-TTTTAATAA
1 -TATTTACAACTTTTAATAA
* *
69030476 TATTTAAAAATTTTAAATAA
1 TATTTACAACTTTT-AATAA
69030496 TATTT
1 TATTT
69030501 TATTATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 7 0.18
19 13 0.34
20 18 0.47
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (19 bp):
TATTTACAACTTTTAATAA
Found at i:69030490 original size:38 final size:40
Alignment explanation
Indices: 69030438--69030515 Score: 99
Period size: 38 Copynumber: 2.0 Consensus size: 40
69030428 TTTTGTTAAT
* *
69030438 TATTTACAACTTTT-AATAAGTA-TTTACTA-TTTTAATAA
1 TATTTAAAAATTTTAAATAA-TATTTTACTATTTTTAATAA
*
69030476 TATTTAAAAATTTTAAATAATATTTTATTATTTTTAATAA
1 TATTTAAAAATTTTAAATAATATTTTACTATTTTTAATAA
69030516 ACTTTTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 14 0.41
39 11 0.32
40 9 0.26
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (40 bp):
TATTTAAAAATTTTAAATAATATTTTACTATTTTTAATAA
Found at i:69030508 original size:20 final size:19
Alignment explanation
Indices: 69030448--69030515 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
69030438 TATTTACAAC
*
69030448 TTTTAATAAGTA-TTTACTA
1 TTTTAATAA-TATTTTAATA
* *
69030467 TTTTAATAATATTTAAAAA
1 TTTTAATAATATTTTAATA
*
69030486 TTTTAAATAATATTTTATTA
1 TTTT-AATAATATTTTAATA
69030506 TTTTTAATAA
1 -TTTTAATAA
69030516 ACTTTTTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 2 0.05
19 17 0.43
20 17 0.43
21 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (19 bp):
TTTTAATAATATTTTAATA
Found at i:69030569 original size:18 final size:20
Alignment explanation
Indices: 69030537--69030582 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
69030527 TTTAAAAACG
*
69030537 TTTTAAAAATATTT-A-TTT
1 TTTTACAAATATTTAAGTTT
69030555 TTTTGACAAAT-TTTAAGTTT
1 TTTT-ACAAATATTTAAGTTT
69030575 TTTTACAA
1 TTTTACAA
69030583 TTATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 7 0.29
19 10 0.42
20 7 0.29
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTACAAATATTTAAGTTT
Found at i:69032466 original size:15 final size:14
Alignment explanation
Indices: 69032431--69032472 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
69032421 TATCAAAATT
69032431 AATTAAA-ATATAAA
1 AATTAAATAT-TAAA
*
69032445 AATTAAATTTTAAA
1 AATTAAATATTAAA
69032459 AATATAAATATTAA
1 AAT-TAAATATTAA
69032473 CACATTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTAAATATTAAA
Found at i:69038812 original size:22 final size:22
Alignment explanation
Indices: 69038784--69038828 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
69038774 TGTTTTCTTC
69038784 TTCAAAAGCCATAAAGTTCAGA
1 TTCAAAAGCCATAAAGTTCAGA
*
69038806 TTCAAAAGCCATGAAGTTCAGA
1 TTCAAAAGCCATAAAGTTCAGA
69038828 T
1 T
69038829 ACCAAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (22 bp):
TTCAAAAGCCATAAAGTTCAGA
Found at i:69040840 original size:29 final size:30
Alignment explanation
Indices: 69040795--69040875 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 30
69040785 AAATTTAATC
*
69040795 AAATTAAAATACTATGTATAAAAT-TACATA
1 AAATTAAAAT-TTATGTATAAAATATACATA
* *
69040825 AAATTAAAATTTATGTATAGCATTATACATA
1 AAATTAAAATTTATGTATA-AAATATACATA
* * *
69040856 AAATCAAAATTCATGGATAA
1 AAATTAAAATTTATGTATAA
69040876 TTTTGATATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.19
30 12 0.29
31 22 0.52
ACGTcount: A:0.53, C:0.07, G:0.06, T:0.33
Consensus pattern (30 bp):
AAATTAAAATTTATGTATAAAATATACATA
Found at i:69042570 original size:20 final size:20
Alignment explanation
Indices: 69042541--69042578 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
69042531 GGTAGATTTT
*
69042541 TTGATGTGTTTAGATAATGA
1 TTGATATGTTTAGATAATGA
*
69042561 TTGATATGTTTAGTTAAT
1 TTGATATGTTTAGATAAT
69042579 TTATTTTGTG
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:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (20 bp):
TTGATATGTTTAGATAATGA
Found at i:69047421 original size:47 final size:47
Alignment explanation
Indices: 69047312--69047422 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
69047302 CCGGGATAAG
* * *
69047312 CACATAGTGCTTTATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
* * *
69047359 CACAAAGTACTTCATCGGAACAAATCCAGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTA-TAGTA
69047406 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
69047423 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
Found at i:69048195 original size:4 final size:4
Alignment explanation
Indices: 69048186--69048265 Score: 61
Period size: 4 Copynumber: 18.8 Consensus size: 4
69048176 CCCTTTTCTA
* ** * *
69048186 TTTC TTTC TTTC TTTC CTTC TTTC TTTC TCAC GTTTGC TCTC TGTAAC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC T-T-TC
*
69048234 ATTTC TATC TTTC TTTC TTTC TTTC TTTC TTT
1 -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
69048266 TTAACTTACT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
4 51 0.86
5 4 0.07
6 3 0.05
7 1 0.02
ACGTcount: A:0.06, C:0.26, G:0.04, T:0.64
Consensus pattern (4 bp):
TTTC
Found at i:69049201 original size:106 final size:106
Alignment explanation
Indices: 69049016--69049229 Score: 410
Period size: 106 Copynumber: 2.0 Consensus size: 106
69049006 AATAACTTCG
*
69049016 TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAATG
1 TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
69049081 TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCAA
66 TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCAA
*
69049122 TAAGGCCTAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
1 TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
69049187 TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCAA
66 TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCAA
69049228 TA
1 TA
69049230 TCTCGTCGTT
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (106 bp):
TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCAA
Found at i:69053983 original size:39 final size:38
Alignment explanation
Indices: 69053940--69054044 Score: 167
Period size: 39 Copynumber: 2.7 Consensus size: 38
69053930 AGCACGTAGC
* *
69053940 CTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAG
1 CTGCGGATCTCATGTCCGGATATATTTCTAGCATATAG
69053978 TCTGCGGATCTCATGTCCGGATATATTTCTAGCATATAG
1 -CTGCGGATCTCATGTCCGGATATATTTCTAGCATATAG
69054017 CTTGCGGATCTCATGTCCGGATAT-TTTC
1 C-TGCGGATCTCATGTCCGGATATATTTC
69054045 AATCTCATCC
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
38 5 0.08
39 58 0.92
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (38 bp):
CTGCGGATCTCATGTCCGGATATATTTCTAGCATATAG
Found at i:69057875 original size:47 final size:47
Alignment explanation
Indices: 69057797--69057970 Score: 161
Period size: 47 Copynumber: 3.8 Consensus size: 47
69057787 CCGGGATAAG
* * *
69057797 CACATAGTGCTTCATTGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
* *
69057844 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTA-TAGTA
* * * *
69057891 CACATAGT-GTCTCATC-G-ACTCAATGTCGGAA---T---ATTATAGTA
1 CACAAAGTACT-TCATCGGAAC-AAAT-CCGGAACTTTAACATTATAGTA
69057932 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
69057971 GTAGTCGACA
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
40 2 0.02
41 21 0.21
42 5 0.05
43 2 0.02
44 2 0.02
45 2 0.02
46 5 0.05
47 57 0.58
48 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.26
Consensus pattern (47 bp):
CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
Found at i:69057952 original size:88 final size:88
Alignment explanation
Indices: 69057835--69058012 Score: 356
Period size: 88 Copynumber: 2.0 Consensus size: 88
69057825 GAACTTTAAC
69057835 ATTATAGTACACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCGACACATAGTG
1 ATTATAGTACACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCGACACATAGTG
69057900 TCTCATCGACTCAATGTCGGAAT
66 TCTCATCGACTCAATGTCGGAAT
69057923 ATTATAGTACACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCGACACATAGTG
1 ATTATAGTACACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCGACACATAGTG
69057988 TCTCATCGACTCAATGTCGGAAT
66 TCTCATCGACTCAATGTCGGAAT
69058011 AT
1 AT
69058013 CCCAATACTT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (88 bp):
ATTATAGTACACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCGACACATAGTG
TCTCATCGACTCAATGTCGGAAT
Found at i:69058009 original size:47 final size:47
Alignment explanation
Indices: 69057870--69058009 Score: 138
Period size: 47 Copynumber: 3.1 Consensus size: 47
69057860 GGAACAAATC
69057870 CGGAACTTTAACAGTAGTCGACACATAGTGTCTCATCGACTCAATGT
1 CGGAACTTTAACAGTAGTCGACACATAGTGTCTCATCGACTCAATGT
* * * *
69057917 CGGAA-TATT---A-TAGT--ACACAAAGT-ACTTCATCGGAAC-AAAT-C
1 CGGAACT-TTAACAGTAGTCGACACATAGTGTC-TCATC-G-ACTCAATGT
69057958 CGGAACTTTAACAGTAGTCGACACATAGTGTCTCATCGACTCAATGT
1 CGGAACTTTAACAGTAGTCGACACATAGTGTCTCATCGACTCAATGT
69058005 CGGAA
1 CGGAA
69058010 TATCCCAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 28
0.66 0.07 0.26
Matches are distributed among these distances:
40 1 0.01
41 20 0.28
42 5 0.07
43 6 0.08
44 2 0.03
45 6 0.08
46 5 0.07
47 25 0.35
48 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (47 bp):
CGGAACTTTAACAGTAGTCGACACATAGTGTCTCATCGACTCAATGT
Found at i:69058768 original size:4 final size:4
Alignment explanation
Indices: 69058759--69058838 Score: 61
Period size: 4 Copynumber: 18.8 Consensus size: 4
69058749 CCCTTTTCTA
* ** * *
69058759 TTTC TTTC TTTC TTTC CTTC TTTC TTTC TCAC GTTTGC TCTC TGTAAC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC T-T-TC
*
69058807 ATTTC TATC TTTC TTTC TTTC TTTC TTTC TTT
1 -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
69058839 TTAACTTACT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
4 51 0.86
5 4 0.07
6 3 0.05
7 1 0.02
ACGTcount: A:0.06, C:0.26, G:0.04, T:0.64
Consensus pattern (4 bp):
TTTC
Found at i:69062282 original size:14 final size:15
Alignment explanation
Indices: 69062257--69062285 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
69062247 TTTCCAATTC
69062257 TTTTTTGCTTTCTCA
1 TTTTTTGCTTTCTCA
69062272 TTTTTTG-TTTCTCA
1 TTTTTTGCTTTCTCA
69062286 ATCCGATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTTTTGCTTTCTCA
Found at i:69065359 original size:14 final size:14
Alignment explanation
Indices: 69065340--69065368 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
69065330 AGCAGATGGT
69065340 TAAGACTTTTAGAC
1 TAAGACTTTTAGAC
69065354 TAAGACTTTTAGAC
1 TAAGACTTTTAGAC
69065368 T
1 T
69065369 TTAGATGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (14 bp):
TAAGACTTTTAGAC
Found at i:69066258 original size:28 final size:30
Alignment explanation
Indices: 69066226--69066290 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 30
69066216 TAATTTAGAA
* *
69066226 ATAAAAAATTCAAAAAAT-T-TTAAGAAAT
1 ATAAAAAATCCAAAAAATATGTTAAAAAAT
69066254 ATAAAAAATCCAAAAAATATGTTAAAAAAT
1 ATAAAAAATCCAAAAAATATGTTAAAAAAT
*
69066284 ATTAAAA
1 ATAAAAA
69066291 TTAGAGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 17 0.53
29 1 0.03
30 14 0.44
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (30 bp):
ATAAAAAATCCAAAAAATATGTTAAAAAAT
Found at i:69066319 original size:19 final size:19
Alignment explanation
Indices: 69066277--69066320 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
69066267 AAAATATGTT
*
69066277 AAAAAATATTAAAATTAGA
1 AAAAAATATTAAAATTACA
*
69066296 GAAAAAT-TATAAAATTACA
1 AAAAAATAT-TAAAATTACA
69066315 AAAAAA
1 AAAAAA
69066321 ACAATATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (19 bp):
AAAAAATATTAAAATTACA
Found at i:69071435 original size:3 final size:3
Alignment explanation
Indices: 69071427--69071459 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
69071417 GTGAAAATAG
69071427 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
69071460 TACTTTACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:69083153 original size:29 final size:28
Alignment explanation
Indices: 69083120--69083189 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
69083110 TTTGATTTTG
* * *
69083120 GTTTAAAGTTTTAGAGTTTGGTGACTTTC
1 GTTTAAAGTTTT-GAATTTGGGGACTTTA
* *
69083149 GTTTAAGGTTGTTGAATTTGGGGATTTTA
1 GTTTAAAGTT-TTGAATTTGGGGACTTTA
*
69083178 GTTTAAATTTTT
1 GTTTAAAGTTTT
69083190 TTTTATTTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
28 2 0.06
29 29 0.88
30 2 0.06
ACGTcount: A:0.21, C:0.03, G:0.24, T:0.51
Consensus pattern (28 bp):
GTTTAAAGTTTTGAATTTGGGGACTTTA
Found at i:69083939 original size:39 final size:39
Alignment explanation
Indices: 69083877--69084016 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
69083867 ATCGTGATCT
* * *
69083877 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
69083916 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * *
69083955 AAAGCCCGAAGGCTAACTGAAGCACGCAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
69083994 GAAGCCCGAGGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
69084017 TCATCAGAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:69083975 original size:19 final size:19
Alignment explanation
Indices: 69083917--69084014 Score: 78
Period size: 19 Copynumber: 5.1 Consensus size: 19
69083907 TGCTAAACGG
69083917 AAGCCCGAAGGCTAACT-A
1 AAGCCCGAAGGCTAACTGA
*
69083935 AAGCACAC-AAGTGCTAAATGA
1 AAGC-C-CGAAG-GCTAACTGA
69083956 AAGCCCGAAGGCTAACTG-
1 AAGCCCGAAGGCTAACTGA
* *
69083974 AAGCACGCAAGTGCTAAACAG-
1 AAGCCCG-AAG-GCT-AACTGA
*
69083995 AAGCCCGAGGGCTAACTGA
1 AAGCCCGAAGGCTAACTGA
69084014 A
1 A
69084015 GCTCATCAGA
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
18 14 0.22
19 19 0.30
20 16 0.25
21 15 0.23
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.11
Consensus pattern (19 bp):
AAGCCCGAAGGCTAACTGA
Found at i:69083998 original size:21 final size:20
Alignment explanation
Indices: 69083904--69083998 Score: 58
Period size: 18 Copynumber: 4.8 Consensus size: 20
69083894 TGAAGCACAT
* *
69083904 AAGTGCTAAACGGAAGCCCG
1 AAGTGCTAAACAGAAGCACG
*
69083924 AAG-GCT-AACTA-AAGCACAC
1 AAGTGCTAAAC-AGAAGCAC-G
* *
69083943 AAGTGCTAAA-TGAAAGCCCG
1 AAGTGCTAAACAG-AAGCACG
*
69083963 AAG-GCT-AACTGAAGCACG
1 AAGTGCTAAACAGAAGCACG
69083981 CAAGTGCTAAACAGAAGC
1 -AAGTGCTAAACAGAAGC
69083999 CCGAGGGCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 19
0.68 0.10 0.23
Matches are distributed among these distances:
18 16 0.28
19 14 0.25
20 12 0.21
21 15 0.26
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTGCTAAACAGAAGCACG
Found at i:69087094 original size:26 final size:26
Alignment explanation
Indices: 69087058--69087111 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
69087048 TTTAAATACG
69087058 TGAATGCCTATGATAAATCTTGAACA
1 TGAATGCCTATGATAAATCTTGAACA
69087084 TGAATGCCTATGATAAATCTTGAACA
1 TGAATGCCTATGATAAATCTTGAACA
69087110 TG
1 TG
69087112 CTAGTAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (26 bp):
TGAATGCCTATGATAAATCTTGAACA
Found at i:69088160 original size:46 final size:46
Alignment explanation
Indices: 69088102--69088285 Score: 305
Period size: 46 Copynumber: 4.0 Consensus size: 46
69088092 TTTCTGTCAT
* * *
69088102 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
69088148 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
69088194 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
69088240 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
69088286 AGAGCCCACT
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:69090362 original size:17 final size:17
Alignment explanation
Indices: 69090340--69090373 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
69090330 AATTTTTTCC
*
69090340 TTTTTCCTTCTTTCTTT
1 TTTTTCCTTCCTTCTTT
69090357 TTTTTCCTTCCTTCTTT
1 TTTTTCCTTCCTTCTTT
69090374 CTTTCCCCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTCCTTCCTTCTTT
Found at i:69097136 original size:29 final size:28
Alignment explanation
Indices: 69097083--69097142 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
69097073 TAATTTTTAA
* *
69097083 ATTTTTAAAAATACAAAATTATAAAACT
1 ATTTTTAAAAATAAAAAATCATAAAACT
*
69097111 ATTTTTAAAAATAAAAAATCATTAAAATT
1 ATTTTTAAAAATAAAAAATCA-TAAAACT
69097140 ATT
1 ATT
69097143 AAAAATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (28 bp):
ATTTTTAAAAATAAAAAATCATAAAACT
Found at i:69097511 original size:3 final size:3
Alignment explanation
Indices: 69097503--69097530 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
69097493 ATAGTTTTGA
69097503 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
69097531 AATTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:69110097 original size:23 final size:24
Alignment explanation
Indices: 69110062--69110108 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
69110052 TTTTTTAATT
*
69110062 AAATTTGATATTAATTTTCTTTAA
1 AAATTCGATATTAATTTTCTTTAA
* *
69110086 AAATTCGA-ATTACTTTTTTTTAA
1 AAATTCGATATTAATTTTCTTTAA
69110109 CAAAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.53
Consensus pattern (24 bp):
AAATTCGATATTAATTTTCTTTAA
Found at i:69110220 original size:34 final size:34
Alignment explanation
Indices: 69110182--69110248 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
69110172 CATATAATTC
69110182 ATATTAACATGACACTAAATATTTTATATACCAT
1 ATATTAACATGACACTAAATATTTTATATACCAT
69110216 ATATTAACATGACACTAAATATTTTATATACCA
1 ATATTAACATGACACTAAATATTTTATATACCA
69110249 CGTCAACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (34 bp):
ATATTAACATGACACTAAATATTTTATATACCAT
Found at i:69116345 original size:6 final size:6
Alignment explanation
Indices: 69116330--69116393 Score: 101
Period size: 6 Copynumber: 10.7 Consensus size: 6
69116320 ATAATTTAAA
* * *
69116330 ACATTT ACATAC ACATAT ACATAT ACATAT ACCTAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
69116378 ACATAT ACATAT ACAT
1 ACATAT ACATAT ACAT
69116394 GCATATATGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:69118870 original size:15 final size:15
Alignment explanation
Indices: 69118850--69118879 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
69118840 TAATAAATTT
69118850 AAATAAAAATATAAA
1 AAATAAAAATATAAA
*
69118865 AAATAAACATATAAA
1 AAATAAAAATATAAA
69118880 TCGACATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAAAAATATAAA
Found at i:69122395 original size:46 final size:46
Alignment explanation
Indices: 69122343--69122616 Score: 370
Period size: 46 Copynumber: 6.0 Consensus size: 46
69122333 AGTGTGCTTT
* **
69122343 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
69122389 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
69122435 CTGATATGAAATGAATAAGACCATGGTTGAAAAATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
69122481 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
69122527 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
69122573 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
69122617 TCATATCAAA
Statistics
Matches: 209, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 208 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:69128562 original size:12 final size:12
Alignment explanation
Indices: 69128545--69128573 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
69128535 AAGCTACATG
69128545 TTAAAACTAAAA
1 TTAAAACTAAAA
69128557 TTAAAACTAAAA
1 TTAAAACTAAAA
69128569 TTAAA
1 TTAAA
69128574 TGATGTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAAAACTAAAA
Found at i:69134709 original size:15 final size:15
Alignment explanation
Indices: 69134689--69134718 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
69134679 AAGGAAAATG
69134689 TTAACTCCGTTTAAT
1 TTAACTCCGTTTAAT
69134704 TTAACTCCGTTTAAT
1 TTAACTCCGTTTAAT
69134719 CTTCAGAAAC
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:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
TTAACTCCGTTTAAT
Found at i:69136294 original size:17 final size:18
Alignment explanation
Indices: 69136268--69136302 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
69136258 TGTTTCTTAA
69136268 ATATAATTTTAAA-AAAC
1 ATATAATTTTAAATAAAC
*
69136285 ATATATTTTTAAATAAAC
1 ATATAATTTTAAATAAAC
69136303 GAGTATAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATAATTTTAAATAAAC
Found at i:69137979 original size:22 final size:23
Alignment explanation
Indices: 69137937--69137981 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
69137927 ATTAGTTTTA
*
69137937 AGAGTTCTAATTTATTGTTAAAT
1 AGAGTTCTAATTTATAGTTAAAT
69137960 AGAGTT-TAA-TTATAGATTAAAT
1 AGAGTTCTAATTTATAG-TTAAAT
69137982 TATTTGTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 9 0.45
23 6 0.30
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.44
Consensus pattern (23 bp):
AGAGTTCTAATTTATAGTTAAAT
Found at i:69140028 original size:70 final size:70
Alignment explanation
Indices: 69139944--69140084 Score: 219
Period size: 70 Copynumber: 2.0 Consensus size: 70
69139934 TGTTATATCT
* * *
69139944 CATCAATATTTCATCTAGTACATACAATTGGTTTCAATTTAACTAGACACATGTGCATGCCATTC
1 CATCAATACTTCATCTAGTACATAAAATTGGTTTCAATTTAACTAGACACATGTGCAAGCCATTC
69140009 TAAAA
66 TAAAA
* * * *
69140014 CATCAATACTTCATCTAGTATATAAAATTGGTTTTAGTTTAACTAGACGCATGTGCAAGCCATTC
1 CATCAATACTTCATCTAGTACATAAAATTGGTTTCAATTTAACTAGACACATGTGCAAGCCATTC
69140079 TAAAA
66 TAAAA
69140084 C
1 C
69140085 TAGATTAAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (70 bp):
CATCAATACTTCATCTAGTACATAAAATTGGTTTCAATTTAACTAGACACATGTGCAAGCCATTC
TAAAA
Found at i:69140102 original size:33 final size:33
Alignment explanation
Indices: 69140060--69140126 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
69140050 GTTTAACTAG
69140060 ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
1 ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
69140093 ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
1 ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
69140126 A
1 A
69140127 AGCGTATTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (33 bp):
ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
Found at i:69147764 original size:48 final size:48
Alignment explanation
Indices: 69147693--69147789 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
69147683 CAGTCAGTAG
69147693 ATAATTTATCACCTGACACATGTTCAAGAATAACTGTATTGTAAGAGC
1 ATAATTTATCACCTGACACATGTTCAAGAATAACTGTATTGTAAGAGC
69147741 ATAATTTATCACCTGACACATGTTCAAGAATAACTGTATTGTAAGAGC
1 ATAATTTATCACCTGACACATGTTCAAGAATAACTGTATTGTAAGAGC
69147789 A
1 A
69147790 ATGTAAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (48 bp):
ATAATTTATCACCTGACACATGTTCAAGAATAACTGTATTGTAAGAGC
Found at i:69163701 original size:5 final size:6
Alignment explanation
Indices: 69163665--69163728 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
69163655 CAACCCAATC
* * *
69163665 ATAAAA ATTAAAA AT-AAT TTAATAA ATAAAA ATAAAA ATTTAAAA CTAAAA
1 ATAAAA A-TAAAA ATAAAA ATAA-AA ATAAAA ATAAAA A--TAAAA ATAAAA
69163716 ATAAAA ATAAAA A
1 ATAAAA ATAAAA A
69163729 ACATATAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
5 3 0.06
6 29 0.62
7 10 0.21
8 5 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (6 bp):
ATAAAA
Found at i:69163716 original size:20 final size:21
Alignment explanation
Indices: 69163680--69163723 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
69163670 AATTAAAAAT
69163680 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
*
69163701 AATTTAA-AACTAAAAATAAA
1 AATTTAATAAATAAAAATAAA
69163721 AAT
1 AAT
69163724 AAAAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:69163729 original size:20 final size:20
Alignment explanation
Indices: 69163691--69163730 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
69163681 ATTTAATAAA
**
69163691 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
69163711 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
69163731 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:69163805 original size:9 final size:9
Alignment explanation
Indices: 69163748--69163804 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
69163738 TTTATACAAA
69163748 TAATTCGGT
1 TAATTCGGT
69163757 TAATTCGGT
1 TAATTCGGT
*
69163766 TAATTTGG-
1 TAATTCGGT
**
69163774 TAATTAAG-
1 TAATTCGGT
*
69163782 TAATTCGGG
1 TAATTCGGT
*
69163791 TAATTTGGT
1 TAATTCGGT
69163800 TAATT
1 TAATT
69163805 TTATATTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
8 12 0.30
9 28 0.70
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:69164632 original size:11 final size:11
Alignment explanation
Indices: 69164618--69164653 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
69164608 ATATCCAAAC
69164618 AATAATAATAA
1 AATAATAATAA
*
69164629 AATAATAGTAA
1 AATAATAATAA
*
69164640 AATAATAATGA
1 AATAATAATAA
69164651 AAT
1 AAT
69164654 GGTAGCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (11 bp):
AATAATAATAA
Found at i:69164663 original size:22 final size:22
Alignment explanation
Indices: 69164618--69164665 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
69164608 ATATCCAAAC
*
69164618 AATAATAATAAAATAATAGTAA
1 AATAATAATAAAATAATAGCAA
* **
69164640 AATAATAATGAAATGGTAGCAA
1 AATAATAATAAAATAATAGCAA
69164662 AATA
1 AATA
69164666 GTGAGAAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.25
Consensus pattern (22 bp):
AATAATAATAAAATAATAGCAA
Found at i:69169673 original size:17 final size:17
Alignment explanation
Indices: 69169651--69169685 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
69169641 AAACTGTCGA
69169651 GAAGTTATTCAAGGAAT
1 GAAGTTATTCAAGGAAT
69169668 GAAGTTATTCAAGGAAT
1 GAAGTTATTCAAGGAAT
69169685 G
1 G
69169686 TAATTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.29
Consensus pattern (17 bp):
GAAGTTATTCAAGGAAT
Found at i:69169800 original size:630 final size:614
Alignment explanation
Indices: 69168098--69171109 Score: 3390
Period size: 630 Copynumber: 4.8 Consensus size: 614
69168088 ACATCTTAGA
* * * * *
69168098 CAGAATCTCCCTATAGTTTATTCTAATAGCACAGTATATCATCACAATTATGCCCTACAAAATAA
1 CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
* * * ** * ** * * *
69168163 CAATATAGAATACGAAAAATTTAAGGAGGCTCGGCAAATTATGCCTACATCCTCAAACAATACCC
66 AAATAAAGAACAC-AAAAATTTATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACCA
*
69168228 AATATATTTCATTA-AAAATGATATAAGTGGGATTTTGCTATTTCAACAATTCAAGATACTAGTA
130 AATATATTTCATTACAAAA-GATAAAAGTGGGA--TT-C-A-TT-----A-T-----TACT--T-
* * * *
69168292 CCTTT-T-TTTTTGGAAACTTTGCCATAACCATCTTCCCACGTGAATGGAGCTACAGAAGGACTA
175 --TTTCTATTTTTGGAAACTTTGCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGG-CTC
* * * *
69168355 AATTAATGCACTTTCAGGATGTCCTTTGTTTTAGGAGCATAATGAAAC-T-GTCGAAAAGTTATT
237 AATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGCATAACGAAACTTCGTCGAGAAGTTATT
* * * *
69168418 CAAGAAATGTAATTTTGTTAGGTAATTTGGTTTTGATGCCATCTGTCACTCAAATTGGATAAGTT
302 CAAGGAATGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTT
** * *
69168483 ACATCACATGACGTTA-TTGCAAAATCTACAGGGTTGACTTGATACAGTTGATGCTATTAGTGA-
367 ACGCCACATGACGTTACTT-CAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGAC
* * * *
69168546 ACAGATCACAAGTTCTTACTTATCTTATTGTCGGCTTATAAATCTTTTGGAAAGTTAAAAATGAA
431 ACAGATCACGAGTTCTTACCTATCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAA
* ** *
69168611 AAGATATTTAATCATATCACTCATAATCCTATTAGCATTGAATTAATAAGCTTTCAACGAACATT
496 AAGATATTTAATCATATCACTCATAATCCTATTAGCAGTGAATTAATAATATTTCAACGACCATT
* * *
69168676 CTAAATGCCTTTAATCATACTAAATATGAATGTTTTAAA-CCTAACCTCCTATA-
561 CTAAATGCCTTCAATCAGACTAAATCTGAATGTTTTAAAGCCTAACCTCCTA-AG
* * * *
69168729 CAGAATCTCCTTATAATTTATTCTAATAACACAATATATCATCACAATTGTACCCTACAAAATAG
1 CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
* ** *
69168794 CAATACTGAACACGAAAAATTTAAT-AAGGCTCGACAAATTACACCTACGTCATCAAACAATA--
66 AAATAAAGAACAC-AAAAATTT-ATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACC
** * *
69168856 GTA-ATATCTCATTACAAAAGATAAAGTGAGATTGTGTTATTTCAACAATTCAAGATATTGGTAC
129 AAATATATTTCATTACAAAAGATAAA---AG--TG-G-GA-TT---C-A-T-----TA-T--TAC
* * * *
69168920 TTTTT-TATTTTTGGAAACTTTGTCATAATCATCTTCCTACATGAATGAAGCTACAGAAGGACTC
173 TTTTTCTATTTTTGGAAACTTTGCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGG-CTC
* *
69168984 AATTAATGCACTTTCATAATGTCCTTTATGTTAGGAGCATAACGAAA-TT-GTCGAGAAGTTATT
237 AATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGCATAACGAAACTTCGTCGAGAAGTTATT
* * * *
69169047 CAAGGAATGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTATCACTTAGAGTCGATGAGTT
302 CAAGGAATGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTT
* * * * * *
69169112 ACGCCACATAACGTTGCTTCAAAATTTATAGGGTTGACTTGATATAATTGATGCTATTAATAACA
367 ACGCCACATGACGTTACTTCAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACA
*
69169177 CAGATCACGAGTTCTCTACCTATCTTATTGTCAGCTTATGAATCATTTGGAAAGTTAAAAATGAA
432 CAGATCACGAGTTCT-TACCTATCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAA
* *
69169242 ATGATATTTAATCATATCTCTCATAATCCTATTAGCAGTGAATTAATAATATTTCAACGACCATT
496 AAGATATTTAATCATATCACTCATAATCCTATTAGCAGTGAATTAATAATATTTCAACGACCATT
* * **
69169307 CTCAATGTCTTCAATCAGACTAAATCTGAATGTTTTAAAGCCTAACCTTTTAAG
561 CTAAATGCCTTCAATCAGACTAAATCTGAATGTTTTAAAGCCTAACCTCCTAAG
* * * * *
69169361 TAGATTCCCCCTATAATTTATTCTAATAGCACAACATATCATCACAATTGTGCACTACAAAATAA
1 CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
* *
69169426 AAATAAAGAACACAAGAAATTTATTGAGGCTCGACAAATTACACCTGCGTCATCAAACAATACCA
66 AAATAAAGAACACAA-AAATTTATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACCA
* *
69169491 AATATATTTGATTACAAAAGATAAAAGTGGGATTC-TTA-TACTTTTTCTATTTTTGGAAATTTT
130 AATATATTTCATTACAAAAGATAAAAGTGGGATTCATTATTACTTTTTCTATTTTTGGAAACTTT
* *
69169554 GCCATAATCGTCTTCCCACATGAATGGAGGTACAAAATGGCTCAATTAATGCACTTTCAGAATGT
195 GCCATAATCATCTTCCCACATGAATGGAGCTACAAAA-GGCTCAATTAATGCACTTTCAGAATGT
*
69169619 CCTTTGTGTCAGGAGCATAACGAAACTGTCGAGAAGTTATTCAAGGAATGAAGTTATTCAAGGAA
259 CCTTTGTGTTAGGAGCATAACGAAACT-TC-----G----TC---G-A-GAAGTTATTCAAGGAA
* * *
69169684 TGTAATTTTGTTAGATAGTATGGTTTGGATGCCATCTGTCACTCAGATTGGATGAGTTACGCCAC
309 TGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTTACGCCAC
*
69169749 ATGACATTACTTCAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCA
374 ATGACGTTACTTCAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCA
* *
69169814 CGAGTTCTCTACCTATCTTATTGTCAGCTTATGAATCATTTGGAAAGTTAAAAATGAAATGATAT
439 CGAGTTCT-TACCTATCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAAAAGATAT
* * * *
69169879 TTAATCTTATCACTCATAATCCTATTAACAGT-AGATTAATAATATTTCAATGACCATTCTCAAT
503 TTAATCATATCACTCATAATCCTATTAGCAGTGA-ATTAATAATATTTCAACGACCATTCTAAAT
*
69169943 GCCTTCAATCAGACCAAATCTGAATGTTTTAAAGCCTAACCTCCTAAG
567 GCCTTCAATCAGACTAAATCTGAATGTTTTAAAGCCTAACCTCCTAAG
* *
69169991 CAGATTCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTGCCCTACAAAATAA
1 CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
* * * * *
69170056 CAATAAAAAACATAAAAACTTTATCGAGGCTCGAAAAATTACACCTGCGTCATCAAACAATACCA
66 AAATAAAGAACACAAAAA-TTTATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACCA
* * *
69170121 AATATATTTCATTCCAAAAGATATAAGTGGGATTC-TT-GTACTTTTTCTATTTTTGGAAACTTT
130 AATATATTTCATTACAAAAGATAAAAGTGGGATTCATTATTACTTTTTCTATTTTTGGAAACTTT
* * *
69170184 GCCATAATCATCTTCCCACATGAATGGAGCTATAGAATGGCTCAATTAATACACTTTCAGAATGT
195 GCCATAATCATCTTCCCACATGAATGGAGCTACA-AAAGGCTCAATTAATGCACTTTCAGAATGT
* * *
69170249 CCTTTGTGTTAGAAGCATAACGAAAC--CGTCGAGAAGTTATTCAAGGAATGTAATTTTGCTAGA
259 CCTTTGTGTTAGGAGCATAACGAAACTTCGTCGAGAAGTTATTCAAGGAATGTAATTTTGTTAGG
* * * *
69170312 TAGTTTGGTTTGGATGCCACCTGTCACTCAGATTGGGTGAGTTACGCCACATGACATTACTTCAA
324 TAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTTACGCCACATGACGTTACTTCAA
* * * * *
69170377 AATCTATAGGGTTGACTTGATACAATTAATGTTGTTAGTGACACAGATCACGAGTTATTTACTTA
389 AATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTT-CTTACCTA
* * *
69170442 TCTTATTGTCGGATTATGGATCATTGGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTC
453 TCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTC
* * *
69170507 ATAATCCTATTAGCACTGAATTAATAAGT-TTTCAATGACCATTCTAAATGCCTTCAATTAGACT
518 ATAATCCTATTAGCAGTGAATTAATAA-TATTTCAACGACCATTCTAAATGCCTTCAATCAGACT
* * *
69170571 AAATCT-AGTGTTTTAAAACCTAACATCCT-AG
582 AAATCTGAATGTTTTAAAGCCTAACCTCCTAAG
* * *
69170602 ATAGAATCTCCCTATAATTTATTCTAATAGCACAAAATATCATCACAATTGTACCCTACAAAA-A
1 -CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATA
* * ** * *
69170666 AACAATAATGAACATGAAAAATTTGA-CGAGGCTCGACAAATTATGCATACGTCATTAAACAATA
65 AA-AATAAAGAACA-CAAAAATTT-ATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATA
*
69170730 CCAAATATATTTCTTTACAAAAGATAAAAGTGGGATTCTGTTATTTCAAAAATTCAAGATACTAG
127 CCAAATATATTTCATTACAAAAGATAAAAGTGGGATTC----A-TT-----A-T-----TACT--
* * * * *
69170795 TACTTT-TTTTTTTGGAAACTTTGTCACAATCATTTTCCAACATGAATGGAGCTACAAAAGGCTC
174 T--TTTCTATTTTTGGAAACTTTGCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGGCTC
* *
69170859 AATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGTATAATGAAAC-T-GTCGAGAAGTTATT
237 AATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGCATAACGAAACTTCGTCGAGAAGTTATT
* * * *
69170922 CAATGAATGTAATTTTGCTAGGTAGTTTGGTTTTGATGCCATCTATCACTCAAATTGGATGAGTT
302 CAAGGAATGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTT
* * ** * * * *
69170987 ACGTCACATGATGTTACCGCAAAATCTACAAGGTTAACTTGATACAATT-AGTGCTATTGGTGAC
367 ACGCCACATGACGTTACTTCAAAATCTATAGGGTTGACTTGATACAATTGA-TGCTATTAGTGAC
*
69171051 ACAGATCACGAGTTATTACCTTATCTTATTGTCGGCTTAT-AGATCATTTGGAAAGTTAA
431 ACAGATCACGAGTTCTTACC-TATCTTATTGTCGGCTTATGA-ATCATTTGGAAAGTTAA
69171110 TAATCTTTCA
Statistics
Matches: 2078, Mismatches: 219, Indels: 167
0.84 0.09 0.07
Matches are distributed among these distances:
611 4 0.00
612 164 0.08
613 369 0.18
614 7 0.00
615 2 0.00
616 2 0.00
618 4 0.00
621 2 0.00
622 1 0.00
624 1 0.00
625 2 0.00
627 3 0.00
628 21 0.01
629 225 0.11
630 579 0.28
631 261 0.13
632 343 0.17
633 51 0.02
634 8 0.00
635 21 0.01
636 7 0.00
641 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (614 bp):
CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
AAATAAAGAACACAAAAATTTATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACCAA
ATATATTTCATTACAAAAGATAAAAGTGGGATTCATTATTACTTTTTCTATTTTTGGAAACTTTG
CCATAATCATCTTCCCACATGAATGGAGCTACAAAAGGCTCAATTAATGCACTTTCAGAATGTCC
TTTGTGTTAGGAGCATAACGAAACTTCGTCGAGAAGTTATTCAAGGAATGTAATTTTGTTAGGTA
GTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTTACGCCACATGACGTTACTTCAAAA
TCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTTACCTATCT
TATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCATA
ATCCTATTAGCAGTGAATTAATAATATTTCAACGACCATTCTAAATGCCTTCAATCAGACTAAAT
CTGAATGTTTTAAAGCCTAACCTCCTAAG
Found at i:69180988 original size:18 final size:18
Alignment explanation
Indices: 69180970--69181052 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
69180960 TTTTTAGAAT
69180970 TTTTTTAAATTTTAT-AA
1 TTTTTTAAATTTTATAAA
* *
69180987 TTTTTTAAAATATATAAA
1 TTTTTTAAATTTTATAAA
* ** *
69181005 ATTTAGAATTTTTATAAA
1 TTTTTTAAATTTTATAAA
* *
69181023 TATTTTGAATTTTA-AAA
1 TTTTTTAAATTTTATAAA
69181040 TTTATTTTAAATT
1 -TT-TTTTAAATT
69181053 ATTCTGTAAT
Statistics
Matches: 47, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
17 16 0.34
18 23 0.49
19 8 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTTTAAATTTTATAAA
Found at i:69181002 original size:17 final size:17
Alignment explanation
Indices: 69180970--69181003 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
69180960 TTTTTAGAAT
* *
69180970 TTTTTTAAATTTTATAA
1 TTTTTTAAAATATATAA
69180987 TTTTTTAAAATATATAA
1 TTTTTTAAAATATATAA
69181004 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTTAAAATATATAA
Found at i:69181027 original size:19 final size:18
Alignment explanation
Indices: 69180999--69181035 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
69180989 TTTTAAAATA
69180999 TATAAAATTTAGAATTTT
1 TATAAAATTTAGAATTTT
*
69181017 TATAAATATTTTGAATTTT
1 TATAAA-ATTTAGAATTTT
69181036 AAAATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TATAAAATTTAGAATTTT
Found at i:69182723 original size:8 final size:9
Alignment explanation
Indices: 69182702--69182726 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
69182692 TTGAAAGTTA
69182702 AAAAATTTT
1 AAAAATTTT
69182711 AAAAATTTT
1 AAAAATTTT
69182720 AAAAATT
1 AAAAATT
69182727 GGTAGACCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:69195524 original size:27 final size:27
Alignment explanation
Indices: 69195453--69195518 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
69195443 AGAGCCATTA
69195453 ATCGAGAAGCTCATGAGAAAGCCTTTT
1 ATCGAGAAGCTCATGAGAAAGCCTTTT
*
69195480 ATCAAGAAGCTCATGAGAAAGCCTTTT
1 ATCGAGAAGCTCATGAGAAAGCCTTTT
*
69195507 ATCGGGAAGCTC
1 ATCGAGAAGCTC
69195519 CGGAGAGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
ATCGAGAAGCTCATGAGAAAGCCTTTT
Found at i:69195662 original size:25 final size:25
Alignment explanation
Indices: 69195403--69195675 Score: 132
Period size: 25 Copynumber: 10.8 Consensus size: 25
69195393 GCAAGCCAAA
* * *
69195403 TATCGAGAAGCTCATGCGAGCC-AA
1 TATCGGGAAGCTCATGAGAGCCTAT
* * *
69195427 TATCGAGTAGCTCCA-AAGAGCC-AT
1 TATCGGGAAGCT-CATGAGAGCCTAT
* *
69195451 TAATCGAGAAGCTCATGAGAAAGCCTTT
1 T-ATCGGGAAGCTCATGAG--AGCCTAT
** *
69195479 TATCAAGAAGCTCATGAGAAAGCCTTT
1 TATCGGGAAGCTCATGAG--AGCCTAT
**
69195506 TATCGGGAAGCTCCGGAGAG-CTAAT
1 TATCGGGAAGCTCATGAGAGCCT-AT
*
69195531 TATTGGGAAGCTCAT-ACGAGCC-AT
1 TATCGGGAAGCTCATGA-GAGCCTAT
* * * *
69195555 AAACGGGAAGCTTAAGAGAGCC-AT
1 TATCGGGAAGCTCATGAGAGCCTAT
**
69195579 TAATCGGGAAGCTTGTGAGAGCC-AT
1 T-ATCGGGAAGCTCATGAGAGCCTAT
* * *
69195604 ATAACGGGATGCTCATGAGAG-CTAAA
1 -TATCGGGAAGCTCATGAGAGCCT-AT
* *
69195630 TAACGGGAAGCTCGTGAGAGCCTAT
1 TATCGGGAAGCTCATGAGAGCCTAT
* * *
69195655 TATTGGGATGCTCATAAGAGC
1 TATCGGGAAGCTCATGAGAGC
69195676 TGTGATGTGT
Statistics
Matches: 196, Mismatches: 38, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
24 43 0.22
25 103 0.53
26 5 0.03
27 43 0.22
28 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (25 bp):
TATCGGGAAGCTCATGAGAGCCTAT
Found at i:69198777 original size:13 final size:14
Alignment explanation
Indices: 69198756--69198784 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
69198746 TGAAAAATGA
69198756 ATTAGAAAATATTT
1 ATTAGAAAATATTT
69198770 ATTA-AAAATATTT
1 ATTAGAAAATATTT
69198783 AT
1 AT
69198785 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:69211289 original size:13 final size:14
Alignment explanation
Indices: 69211273--69211308 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
69211263 CAATCTCATA
69211273 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
69211286 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
69211299 TCTC-ATTTCA
1 TCTCAATTTCA
69211309 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:69211298 original size:18 final size:19
Alignment explanation
Indices: 69211260--69211300 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
69211250 TGGTTCATGT
69211260 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
69211279 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
69211297 TTTC
1 TTTC
69211301 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:69211493 original size:23 final size:22
Alignment explanation
Indices: 69211462--69211527 Score: 89
Period size: 21 Copynumber: 3.0 Consensus size: 22
69211452 CCTGATCAGT
69211462 ATACGACACATAAAGTGCCTAA
1 ATACGACACATAAAGTGCCTAA
** *
69211484 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCT-AA
69211506 ATACGACACATAAAGTGCCTAA
1 ATACGACACATAAAGTGCCTAA
69211528 TCGGTAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 15 0.42
22 6 0.17
23 15 0.42
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.15
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTAA
Found at i:69211923 original size:15 final size:15
Alignment explanation
Indices: 69211898--69211955 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
69211888 TCATATATAT
69211898 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
69211914 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
69211929 AATAATTTCAATCAA
1 TATAAATTCAATCAA
69211944 TATAAATTCAAT
1 TATAAATTCAAT
69211956 AAAACAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:69211940 original size:30 final size:28
Alignment explanation
Indices: 69211901--69211959 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
69211891 TATATATTAT
69211901 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
69211930 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
69211959 A
1 A
69211960 CAGATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:69212968 original size:13 final size:13
Alignment explanation
Indices: 69212950--69212977 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
69212940 CCTCTTTTTA
69212950 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
69212963 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
69212976 TT
1 TT
69212978 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:69228202 original size:68 final size:68
Alignment explanation
Indices: 69228092--69228224 Score: 230
Period size: 68 Copynumber: 2.0 Consensus size: 68
69228082 TACTATTGAT
* * *
69228092 AGAGTTACGGTGATAGAGTGGATGATATTCGACAAAAGTGACTTAATGACAAAAATATTATATGA
1 AGAGTTACGATGATAGAATGGATGATATTCGACAAAAATGACTTAATGACAAAAATATTATATGA
69228157 TGA
66 TGA
*
69228160 AGAGTTACGATGATAGAATGGATGATATTCGATAAAAATGACTTAATGACAAAAATATTATATGA
1 AGAGTTACGATGATAGAATGGATGATATTCGACAAAAATGACTTAATGACAAAAATATTATATGA
69228225 CGGACGTGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.29
Consensus pattern (68 bp):
AGAGTTACGATGATAGAATGGATGATATTCGACAAAAATGACTTAATGACAAAAATATTATATGA
TGA
Found at i:69230219 original size:15 final size:16
Alignment explanation
Indices: 69230192--69230222 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
69230182 TAGTCATTAA
69230192 TATTTATATATTTTTT
1 TATTTATATATTTTTT
69230208 TATTTA-ATATTTTTT
1 TATTTATATATTTTTT
69230223 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTATATATTTTTT
Found at i:69233196 original size:72 final size:71
Alignment explanation
Indices: 69233116--69233257 Score: 230
Period size: 72 Copynumber: 2.0 Consensus size: 71
69233106 TGGTAACAAT
69233116 TGACGAGATTCTGATTTTTAAATTAGAAAAGCGAAACGATTTAAGTACAAAGATAAAATTTAATA
1 TGACGAGATTCTGATTTTTAAATTAGAAAAGCGAAACGATTTAAGTACAAAGATAAAATTTAA-A
69233181 ATTTTAA
65 ATTTTAA
* * * * *
69233188 TGACGAGATTTTGATTTTTAAATTAGAAAAGCGAAAGGGTTTAAGTATAAAGATAAAATTTTAAA
1 TGACGAGATTCTGATTTTTAAATTAGAAAAGCGAAACGATTTAAGTACAAAGATAAAATTTAAAA
69233253 TTTTA
66 TTTTA
69233258 TCTAAGTATA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 7 0.11
72 58 0.89
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.35
Consensus pattern (71 bp):
TGACGAGATTCTGATTTTTAAATTAGAAAAGCGAAACGATTTAAGTACAAAGATAAAATTTAAAA
TTTTAA
Found at i:69234621 original size:401 final size:393
Alignment explanation
Indices: 69233591--69237797 Score: 1826
Period size: 404 Copynumber: 10.5 Consensus size: 393
69233581 TGGAGCTTGT
* * * * *
69233591 GTTTTAACCATTTAAGTAGAGAGACTAAATTTTAAATCTTATCTAATTATAATAACCAATAATAT
1 GTTTTAACCATTTAAGTATAAAGACTAAATTTTAAATCTTTTCTAAGTATAAT-A-CAATAACAT
* *
69233656 AGTTTTTTTTATAATAATAAAAGAAACGACAAATAACATGTTTTAACCAAGTTAAAA-AAAATTA
64 A-TTTTTTTTATAATAACAAAAGAAACGCCAAATAACATGTTTTAACCAA---AAAATAAAATTA
* ** * *
69233720 ATAATGGTAGAGAACACATATTGGATTGCGTGTCATTTGATAAATGATTTTTAATTACCATTTTT
125 ATAATGGTA-TGAACACGGATTGGATTGAGTGTCATTTGATAAATGA-TTATAATTACCATTTTT
* * * *
69233785 AG-CAATCTATTTAAAACTATTAGTCGTTACTCTAAACTACCATAAGGTAAATATCATATCATAG
188 AGTC-ATCTA-TTAAAACTAATAGTCGTTACTCTAGACTACCATAAGGT-AATACCAAATCATAG
* * * * *
69233849 ACTTTCTTCTTGTAAGAT-TCAATTATAGTCAATCTCATGTGAGAGAAGTCTAATTAACATGTCA
250 TCTTTATTCATGTAAGATGTCAATTATAGTCAAACTCATGTGAGAGTAGTCTAA-TAACATGTCA
* * * * ** *
69233913 AGTATGTAAATCTTGATGAAAATACCAATAATTTT-GCTCATGGGGTGGTGTTTTTTAAACTAGA
314 AGT-TTTAAATTTTGATGAAAATACTAATAATTTTAG-TGATGGACTGATGTTTTTTAAACTAGA
**
69233977 AAAGCAATAGGGCTTCT
377 AAAGCAATAGGGCTTAA
* * * * ** * * *
69233994 GTTTTAGCCATTTATGTATATAGATTAAAACTTAAAT-TTTATCTAAG---AA-CCAAAAAGATA
1 GTTTTAACCATTTAAGTATAAAGACTAAATTTTAAATCTTT-TCTAAGTATAATACAATAACATA
** * * * **
69234054 TTTTTTTTATAATAATGAAAGGAACGGCTAAA-AACATGTTTTAACCAAATAAAAATAACATTCG
65 TTTTTTTTATAATAACAAAAGAAAC-GCCAAATAACATGTTTTAACC--A-AAAAATAAAATTAA
* * *
69234118 TAATGGTAATGATATCCAATGCGGATTGGGTTGAGTGTTATTTGATAAATGAATTGTAATTACCA
126 TAATGGT-ATGA-A--C-A--CGGATTGGATTGAGTGTCATTTGATAAATG-ATTATAATTACCA
* * * * *
69234183 TTTCTAGTCATCTATTAAAAGCTAATAGCCTTTACTCTAGACTACCATGAGGCTAATAGCAAATC
183 TTTTTAGTCATCTATTAAAA-CTAATAGTCGTTACTCTAGACTACCATAAGG-TAATACCAAATC
* * *
69234248 ATAGTCTTTATTCATGTAAGATGTCAATTATAATCAACCTCATGTGAGAGTAGTCTAATCAATAT
246 ATAGTCTTTATTCATGTAAGATGTCAATTATAGTCAAACTCATGTGAGAGTAGTCTAAT-AACAT
* * *
69234313 GTTAAGTTTTCAAATTTTGATGAAAATATTAATAATTTTAGTGATGAGACT-ATGATTTTTTTAA
310 GTCAAGTTTT-AAATTTTGATGAAAATACTAATAATTTTAGTGATG-GACTGATG-TTTTTTAAA
* * ** *
69234377 TTAGAAGAGTGATATGGCTTAA
372 CTAGAAAAGCAATAGGGCTTAA
*
69234399 GTTTTAACCATTTAAGTATAAAAACTAAATTTTAAATCTTTTCTAAGTATAATGACAGATAACA-
1 GTTTTAACCATTTAAGTATAAAGACTAAATTTTAAATCTTTTCTAAGTATAAT-ACA-ATAACAT
* ** **
69234463 ATTTTTTTTAGAATAACAAAAGAAATTCCAAATTGCATGTTTTAACCAAAAAATAAAATTAATAA
64 ATTTTTTTTATAATAACAAAAGAAACGCCAAATAACATGTTTTAACCAAAAAATAAAATTAATAA
* * * *
69234528 TGGTATCGAACACGGATTGGTTTGAGTGTCATTTGATAAATGATCTATAACTATCATTTTTTGTC
129 TGGTAT-GAACACGGATTGGATTGAGTGTCATTTGATAAATGAT-TATAATTACCATTTTTAGTC
* * *
69234593 ATCTATTAAAATCCAATAGTCGTTACTCTAGACTACCATAAGGTTAATACCACATCATCGTCTTT
192 ATCTATTAAAA-CTAATAGTCGTTACTCTAGACTACCATAAGG-TAATACCAAATCATAGTCTTT
* * *
69234658 CA-TCATGTAATATGCCAATTATAGTAAAACTCATGTGAGAGTAGTCTAATAACATGTCAAGTTT
255 -ATTCATGTAAGATGTCAATTATAGTCAAACTCATGTGAGAGTAGTCTAATAACATGTCAAGTTT
* * * * * * *
69234722 GAAAATTTTAATGTAAATACTAATAATTTTATTGATGGGGATGTGAGAGGGCATATGTTTTAGCC
319 -TAAATTTTGATGAAAATACTAATAATTTTAGTGAT--GGA-CT--GA-TG--T-T-TTTTA--A
* ** * * *
69234787 ATTTTAATA--TATA--GATTAA
371 ACTAGAAAAGCAATAGGGCTTAA
* * * * ** * * * * * *
69234806 ATTTTAAATCTTATCTAAGTAT-AAGCACCAACA--ACACATTTTTTATAA-TAACAAAAGAAAT
1 GTTTT-AA-C-CATTTAAGTATAAAG-ACTAA-ATTTTAAATCTTTTCTAAGT-ATAATA-CAAT
* * * * * * ** * **** *** *
69234867 GAC-TAATAATATGTT-T--TAAC-CAAGTAA----AAATAACAT-TAATGA-TGGTAGCGAACA
59 AACAT-AT-TTTTTTTATAATAACAAAAGAAACGCCAAATAACATGTTTTAACCAAAAAATAAAA
* * ** * * * * * * ** **
69234921 -CAA-ATTGGGT-TG-A-GTGTCATTTGA-TAAATG--ATATG-T-AATTACCATTTTTAGCCA-
122 TTAATAAT-GGTATGAACACG-GATTGGATTGAGTGTCATTTGATAAATGATTATAATTA-CCAT
* * * * * * *
69234975 ---T-CT-A-CTA--AAAGCTAATAGTTGTTACTCTAGATTACCATAACGTTAATAACATATCAT
184 TTTTAGTCATCTATTAAAACTAATAGTCGTTACTCTAGACTACCATAA-GGTAATACCAAATCAT
* * * * *
69235032 GGTTTTTCTTCATGTTAGATGTCAATTATAGTCAACCTCATGTGAGAGTAGTCTAATAAACATGT
248 AGTCTTTATTCATGTAAGATGTCAATTATAGTCAAACTCATGTGAGAGTAGTCTAAT-AACATGT
* * * * *
69235097 CAAGTTTTTATATCTTGATGAAAATACCAATAATTTT--T-A--AACT-A-G-----AAAAGC--
312 CAAG-TTTTAAATTTTGATGAAAATACTAATAATTTTAGTGATGGACTGATGTTTTTTAAA-CTA
* * * * *
69235148 GAAATGGC-TTA-TGTTTTA
375 GAAA-AGCAATAGGGCTTAA
* ** * * ** * * * *
69235166 GCCATTTAAGTA-TTATA-TACTAAA-ATTTAAATCTT--ATCTAAGTATATGGACCAATA-ACA
1 G--TTTTAACCATTTA-AGTA-TAAAGA-CTAAATTTTAAATCT-TTTCTAAGTA-TAATACA-A
* * * * * * ** * ** **
69235225 T---AT-TTTTTTATAATAACGAAAGAAAAAAATAATAG-TATGTTTTAACCA-ATTAAAAATAA
58 TAACATATTTTTT-TTATAA--TAA-CAAAAGA-AA-CGCCA---AATAA-CATGTTTTAACCAA
* *** * * * *
69235284 CATCAATAATGGTAACCAA-----TG--CA--AATTGGGTTGAGTGTCATTTGATAAATGATATG
113 -A-AAATAAAATTAA-TAATGGTATGAACACGGATTGGATTGAGTGTCATTTGATAAATGAT-TA
* * * * *
69235340 TAATTACCATTTTTAGCCATGTATTAAAAGCTAATAGTAGTTACTCTAGACTACCATATTGTTAA
174 TAATTACCATTTTTAGTCATCTATTAAAA-CTAATAGTCGTTACTCTAGACTACCATA-AGGTAA
** * * * * * *
69235405 TATTATATCATAGTCTTTCTTCATGTTAGATGTCAAATATAGTCAATCTCATGTGAGAGTAGGCT
237 TACCAAATCATAGTCTTTATTCATGTAAGATGTCAATTATAGTCAAACTCATGTGAGAGTAGTCT
** * * * * *
69235470 AATTAACATGTCAAGTTCGAAAATTTTGATGAAAATACCAATACTTTTACTCATGGGA-TG-TGA
302 AA-TAACATGTCAAGTT-TTAAATTTTGATGAAAATACTAATAATTTTAGTGAT-GGACTGATGT
* * *
69235533 TTTTTAAACGAGAAAAGCAAGAGGGCTTAT
364 TTTTTAAACTAGAAAAGCAATAGGGCTTAA
* * * * * * * * *
69235563 GTTTTAGCCATTTAAGTTTATAGACTAAAGTTCAAGTATTATCTAAGTATAAAGATCAATAACAT
1 GTTTTAACCATTTAAGTATAAAGACTAAATTTTAAATCTTTTCTAAGTAT-AATA-CAATAACAT
* * ** * * * *
69235628 GTATTTTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAACCAAATAAAAATAACATCA
64 AT-TTTTTTTATAATAACAAAAGAAACGCCAAATAACATGTTTTAACC--A-AAAAATAAAATTA
* ** * * * * * *
69235693 CTAATGGTA-GCCAATGCGTAATGGGTTGAGTGTCATTTGTTAAATGATCTGTAAATACCATTTT
125 ATAATGGTATG--AACACGGATTGGATTGAGTGTCATTTGATAAATGAT-TATAATTACCATTTT
* * * * * *
69235757 TAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACAATCATAAGGTTAATATCATATCAGAG
187 TAGTCATCTATTAAAA-CTAATAGTCGTTACTCTAGACTACCATAAGG-TAATACCAAATCATAG
*
69235822 TCTTTCTTCATGTAAGATGTCAATTATAGTCAAACTCATGTGAGAGTAGTCTAAATAACATGTCA
250 TCTTTATTCATGTAAGATGTCAATTATAGTCAAACTCATGTGAGAGTAGTCT-AATAACATGTCA
* * * * * * * * * *
69235887 AGTTTGTAAATATCGACGAAAAAACCAATAATTTTACTCATGGGGCT-ATGATTTTTAAACTACA
314 AGTTT-TAAATTTTGATGAAAATACTAATAATTTTAGTGAT-GGACTGATGTTTTTTAAACTAGA
* * *
69235951 AAAGCAAGAGGGTTTAT
377 AAAGCAATAGGGCTTAA
* * * * * *
69235968 GTTTTAGCCATTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTATAAAGACGAATAAC--
1 GTTTTAACCATTTAAGTATAAAGACTAAATTTTAAATCTTTTCTAAGTAT-AATAC-AATAACAT
** ** * * * *
69236031 A-TTTTTTTATAATAATGAAAGAAACAACTAATATCGTGTTTTAACCAAATAAAAATAACATTAA
64 ATTTTTTTTATAATAACAAAAGAAACGCCAAATAACATGTTTTAACC--A-AAAAATAAAATTAA
** * * * * * * *
69236095 TAATGGTAGTCTACGCTGACTGGGTTAAGTGTCATTTG-TAAAATAATCTGTAATTACCATTTTT
126 TAATGGTA-TGAACACGGATTGGATTGAGTGTCATTTGAT-AAATGAT-TATAATTACCATTTTT
* * * ** **
69236159 AGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAACGTTAATATTATGTCATAGT
188 AGTCATCTATTAAAA-CTAATAGTCGTTACTCTAGACTACCATAA-GGTAATACCAAATCATAGT
* * * *
69236224 CTTTCTTCATGTAAGATGTCAATTATAGTCAATCTCATGTGAGAGTAGGCCAATTAACATGTCAA
251 CTTTATTCATGTAAGATGTCAATTATAGTCAAACTCATGTGAGAGTAGTCTAA-TAACATGTCAA
* * * * *
69236289 ATTTGAAATTTTTGATGAAAATACTAATAATTTTACTCATGGGA-TG-TGATTTTTAAA-TGAGA
315 GTTTTAAA-TTTTGATGAAAATACTAATAATTTTAGTGAT-GGACTGATGTTTTTTAAACT-AGA
* *
69236351 AAA--AACGAGGGAGAACTTAT
377 AAAGCAA-TA-GG-G--CTTAA
* * * * * *
69236371 GTTTTAGCCATTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTATAAAGACCAATAACAT
1 GTTTTAACCATTTAAGTATAAAGACTAAATTTTAAATCTTTTCTAAGTAT-AATA-CAATAACAT
* * ** * ** * * *
69236436 ATATTTTTCTATAATAACCAAAGAAACAACTAATTGCATGATTTAACCAATAAAAAAAACATCAA
64 AT-TTTTTTTATAATAACAAAAGAAACGCCAAATAACATGTTTTAACCAA-AAAATAAA-ATTAA
** * * * * * *
69236501 TAATGGTAACCAACGCAGATTGGGTTGAGTGTCATTTGATAAATAATCTGTAATTATCATTTTTA
126 TAATGGT-ATGAACACGGATTGGATTGAGTGTCATTTGATAAATGAT-TATAATTACCATTTTTA
* * * * * * *
69236566 GCCATCTATTAAAAGCTAATAGCCGTTACTTTAGACTACCATAATGTTAATATCATATCATAGTT
189 GTCATCTATTAAAA-CTAATAGTCGTTACTCTAGACTACCATAA-GGTAATACCAAATCATAGTC
* * * * * *
69236631 TTTCTTCATGTAAGATGTTAATTATAGTC-AACCCAATGTGAGAGTAGTTTAATTAAGATGTAAA
252 TTTATTCATGTAAGATGTCAATTATAGTCAAACTC-ATGTGAGAGTAGTCTAA-TAACATGTCAA
* * * * * * * *
69236695 CTTTTTAAATTTTGATGAAAATACCAATAATTTTACTGATGGGGCT-TTGATTTTTAAATTAGTA
315 -GTTTTAAATTTTGATGAAAATACTAATAATTTTAGTGAT-GGACTGATGTTTTTTAAACTAGAA
* *
69236759 AAGCGATAGGGCTTAT
378 AAGCAATAGGGCTTAA
* * *
69236775 GTTTTAGCCATTTAAGTATATAGACTAAATTTTAAATCTTATT-TAAGTATAAATAGCAATAATA
1 GTTTTAACCATTTAAGTATAAAGACTAAATTTTAAATCTT-TTCTAAGTAT-AATA-CAATAACA
* * ** * * *
69236839 TA-TATATTGGTAATAACAAAAAAAAAACAACAACAACTAATAGCATGTTTTAA-CAAAAAA-AA
63 TATTTTTTTTATAATAAC--AAAAGAAAC-GC--C-A--AATAACATGTTTTAACCAAAAAATAA
* * * * * *
69236901 TACATCAATAATTGTAGGCAACGCGGATTGGGTTGAGTGTCATTT-ATTAAATGATCTGTAATTA
120 -A-ATTAATAATGGTATG-AACACGGATTGGATTGAGTGTCATTTGA-TAAATGAT-TATAATTA
* ** * * *
69236965 CCATTTTCTAGCCATCTATTAAAAGCTAATAACCGTTACTCTAGACTACCAAAATGTTAATATCA
180 CCATTTT-TAGTCATCTATTAAAA-CTAATAGTCGTTACTCTAGACTACCATAA-GGTAATACCA
* * *
69237030 TATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGT-TAACTTCATGTGAGAGTAGTCTAATT
242 AATCATAGTCTTTATTCATGTAAGATGTCAATTATAGTCAAAC-TCATGTGAGAGTAGTCTAA-T
* * * * **
69237094 AACATGTCCAGTTTTTAAATTTTGACT-AAAATACTAATAATTTTACTAAAAAGG-CTG-TGACT
305 AACATGTCAAG-TTTTAAATTTTGA-TGAAAATACTAATAATTTTAGT--GATGGACTGATGTTT
* * ** * *
69237156 TTTAAATTAGTAAAGTGAGA-GGCCTAA
366 TTTAAACTAGAAAAGCAATAGGGCTTAA
* * * * * *
69237183 TGTTTTAACTATTTAAGTATGAAGACTAAATTTTAAATCTTATCTAATTATAATGACCGATGACA
1 -GTTTTAACCATTTAAGTATAAAGACTAAATTTTAAATCTTTTCTAAGTATAAT-A-CAATAACA
* **** * * *
69237248 TATTTTTTTTTATAATAACGAAAGAAACAATTAATAACATGTTTTAACCAAGTAAAAGGAACATG
63 TA-TTTTTTTTATAATAACAAAAGAAACGCCAAATAACATGTTTTAACCAA--AAAA-TAAAATT
* ** * * * * * *
69237313 AAAAATGACATCAAACACGAATT-CAGTCGAGTGTCATTTGATTAATGATCTGTAATTACCATTT
124 AATAATGGTAT-GAACACGGATTGGA-TTGAGTGTCATTTGATAAATGAT-TATAATTACCATTT
* * ** *
69237377 TTAGCCATCTATTAAAAGCTTATAGTCGTTACTCTAGACTACCATAAGGTTAATAGTATATCATA
186 TTAGTCATCTATTAAAA-CTAATAGTCGTTACTCTAGACTACCATAAGG-TAATACCAAATCATA
* * * * *
69237442 GTCTTTCTTCATGTAAGATGTCAATTATAGTCAAACTCATGTGAGTGCAATCTAATTAACAAGTC
249 GTCTTTATTCATGTAAGATGTCAATTATAGTCAAACTCATGTGAGAGTAGTCTAA-TAACATGTC
* * * * * *
69237507 AAGTTTGTAAATCTTGATGAAAATACTAATAATTTTACTGATGGGGCTG-TGATTTTTAAACAAC
313 AAGTTT-TAAATTTTGATGAAAATACTAATAATTTTAGTGAT-GGACTGATGTTTTTTAAACTAG
** * *
69237571 AAAAGTGAGAGGGCTTAT
376 AAAAGCAATAGGGCTTAA
* * * * * * * *
69237589 GTTTTAGCCATTTAAGTATAGAGACTTAATTTTTAATATTATCTAAGTATAAAGATCAATAATAT
1 GTTTTAACCATTTAAGTATAAAGACTAAATTTTAAATCTTTTCTAAGTAT-AATA-CAATAACAT
* * * * * * *
69237654 ATATTTTTTATAATAACAAAAGAAA-GAACTAATAGCATGTTTTAAACAAATAAAAATAACATCA
64 ATTTTTTTTATAATAACAAAAGAAACG-CCAAATAACATGTTTT-AAC-CA-AAAAATAAAATTA
* * * *
69237718 ATAATGGTA-GCAAACGCGGATTGGGTTGAGTGTCAGTTGATAAATGATCTGTAATTACCATTTT
125 ATAATGGTATG--AACACGGATTGGATTGAGTGTCATTTGATAAATGAT-TATAATTACCATTTT
**
69237782 TACCCATCTATTAAAA
187 TAGTCATCTATTAAAA
69237798 GCTACTAGCC
Statistics
Matches: 2988, Mismatches: 561, Indels: 509
0.74 0.14 0.13
Matches are distributed among these distances:
354 2 0.00
355 2 0.00
356 1 0.00
357 3 0.00
358 11 0.00
359 15 0.01
360 13 0.00
361 2 0.00
362 5 0.00
363 2 0.00
367 1 0.00
369 5 0.00
370 7 0.00
371 6 0.00
372 7 0.00
373 1 0.00
374 10 0.00
375 7 0.00
377 1 0.00
378 1 0.00
379 1 0.00
380 2 0.00
381 88 0.03
382 38 0.01
383 8 0.00
384 130 0.04
385 2 0.00
386 2 0.00
387 2 0.00
389 1 0.00
390 6 0.00
391 6 0.00
392 1 0.00
393 6 0.00
394 9 0.00
395 30 0.01
396 66 0.02
397 38 0.01
398 14 0.00
399 11 0.00
400 78 0.03
401 410 0.14
402 34 0.01
403 221 0.07
404 457 0.15
405 389 0.13
406 282 0.09
407 107 0.04
408 90 0.03
409 265 0.09
410 69 0.02
411 23 0.01
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (393 bp):
GTTTTAACCATTTAAGTATAAAGACTAAATTTTAAATCTTTTCTAAGTATAATACAATAACATAT
TTTTTTTATAATAACAAAAGAAACGCCAAATAACATGTTTTAACCAAAAAATAAAATTAATAATG
GTATGAACACGGATTGGATTGAGTGTCATTTGATAAATGATTATAATTACCATTTTTAGTCATCT
ATTAAAACTAATAGTCGTTACTCTAGACTACCATAAGGTAATACCAAATCATAGTCTTTATTCAT
GTAAGATGTCAATTATAGTCAAACTCATGTGAGAGTAGTCTAATAACATGTCAAGTTTTAAATTT
TGATGAAAATACTAATAATTTTAGTGATGGACTGATGTTTTTTAAACTAGAAAAGCAATAGGGCT
TAA
Found at i:69239989 original size:29 final size:30
Alignment explanation
Indices: 69239930--69239987 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
69239920 TCCGAGCCTT
*
69239930 GGGGCAAAAATATAATTATGTAAAAGTTTA
1 GGGGCAAAAATATAATTATGAAAAAGTTTA
* * *
69239960 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATATAATTATGAAAAAGTT
69239988 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATATAATTATGAAAAAGTTTA
Found at i:69240218 original size:13 final size:13
Alignment explanation
Indices: 69240200--69240230 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
69240190 TTCCAGCAAC
69240200 TATGAATTTATTT
1 TATGAATTTATTT
69240213 TATGAATTTATTT
1 TATGAATTTATTT
*
69240226 GATGA
1 TATGA
69240231 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:69240400 original size:50 final size:50
Alignment explanation
Indices: 69240325--69240567 Score: 378
Period size: 50 Copynumber: 4.8 Consensus size: 50
69240315 ATTTGGGTAA
69240325 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
69240375 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
69240425 AGAGGTCCCATGTAAGACCATGTATGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
69240475 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
69240525 AGAACATCCCATGTAAGACCATGTCTGGGGCATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
69240568 TGTTATTATC
Statistics
Matches: 176, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 143 0.81
51 33 0.19
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:69250463 original size:31 final size:31
Alignment explanation
Indices: 69250425--69250487 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
69250415 AATTGTACCA
* *
69250425 AATCAAAGTTTACCTTTAAAATTACACATTG
1 AATCAAAGTTTACATATAAAATTACACATTG
69250456 AATCAAAGTTTACATATAAAATTACACATTG
1 AATCAAAGTTTACATATAAAATTACACATTG
69250487 A
1 A
69250488 GTTTTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (31 bp):
AATCAAAGTTTACATATAAAATTACACATTG
Found at i:69250937 original size:19 final size:20
Alignment explanation
Indices: 69250903--69250946 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
69250893 TTTTTTTAAA
*
69250903 GTTATAAATTTTTATAAGTT
1 GTTATAAATATTTATAAGTT
69250923 GTTAT-AATATTTATAAGTT
1 GTTATAAATATTTATAAGTT
*
69250942 TTTAT
1 GTTAT
69250947 GAATGTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (20 bp):
GTTATAAATATTTATAAGTT
Found at i:69250955 original size:19 final size:19
Alignment explanation
Indices: 69250914--69250955 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
69250904 TTATAAATTT
*
69250914 TTATAAGTTGTTATAATAT
1 TTATAAGTTGTTATAATAG
*
69250933 TTATAAGTTTTTATGAAT-G
1 TTATAAGTTGTTAT-AATAG
69250952 TTAT
1 TTAT
69250956 TTTTAGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (19 bp):
TTATAAGTTGTTATAATAG
Found at i:69251062 original size:23 final size:24
Alignment explanation
Indices: 69251030--69251077 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
69251020 TATAATCTTT
69251030 ATAAGTTTATATAATTTT-TTTTAA
1 ATAAGTTTATA-AATTTTATTTTAA
*
69251054 ATAA-TTTATAATTTTTATTTTAA
1 ATAAGTTTATAAATTTTATTTTAA
69251077 A
1 A
69251078 AAATACATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
ATAAGTTTATAAATTTTATTTTAA
Found at i:69252224 original size:44 final size:46
Alignment explanation
Indices: 69252128--69252227 Score: 143
Period size: 47 Copynumber: 2.2 Consensus size: 46
69252118 GCCTAAAATG
69252128 TTGGACTC-TAACTTGAATTGGGCCTGATTAAAAAGTATTTAGACATT
1 TTGGA-TCATAACTTGAATTGGGCCTGATT-AAAAGTATTTAGACATT
* *
69252175 TTGGATCATAACTTGAATTGGGCCTGA-T-ATAGTATTTAGCCATT
1 TTGGATCATAACTTGAATTGGGCCTGATTAAAAGTATTTAGACATT
69252219 TTGGATCAT
1 TTGGATCAT
69252228 TTGACTCTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
44 23 0.46
46 3 0.06
47 24 0.48
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (46 bp):
TTGGATCATAACTTGAATTGGGCCTGATTAAAAGTATTTAGACATT
Found at i:69252625 original size:29 final size:30
Alignment explanation
Indices: 69252577--69252636 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
69252567 TAATTGGATC
*
69252577 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAATTTCAAGTATAAAATTGCACA
* *
69252607 AAATCAAAGTTT-AAGTATACAATTGCACA
1 AAATCAAAATTTCAAGTATAAAATTGCACA
69252636 A
1 A
69252637 TAAACCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.28
Consensus pattern (30 bp):
AAATCAAAATTTCAAGTATAAAATTGCACA
Found at i:69263435 original size:28 final size:28
Alignment explanation
Indices: 69263359--69263440 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
69263349 ATATATTACT
* ** *
69263359 GTTATGAGACTTTTCCTATAAGTTATGA
1 GTTATGAGACTTTTCCTATACGCCATAA
* * * *
69263387 GTTATAAAACTCTTCCTATACCCCATAA
1 GTTATGAGACTTTTCCTATACGCCATAA
69263415 GTTATGAGACTTTTCCTATACGCCAT
1 GTTATGAGACTTTTCCTATACGCCAT
69263441 TAATATGGGA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (28 bp):
GTTATGAGACTTTTCCTATACGCCATAA
Found at i:69268823 original size:28 final size:28
Alignment explanation
Indices: 69268783--69268845 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
69268773 GTCATTATCA
69268783 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
69268811 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
69268839 ACCCCAT
1 ACCCCAT
69268846 TAATATAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:69269989 original size:14 final size:14
Alignment explanation
Indices: 69269970--69270001 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
69269960 AAAAGCACTC
69269970 ATATAAGATTATAT
1 ATATAAGATTATAT
69269984 ATATAAGATTATAT
1 ATATAAGATTATAT
69269998 ATAT
1 ATAT
69270002 GATTCATAAA
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:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
ATATAAGATTATAT
Found at i:69271851 original size:16 final size:16
Alignment explanation
Indices: 69271817--69271854 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
69271807 AAATTTTGAG
69271817 TTTTTGTCAAAAACGTA
1 TTTTTGTCAAAAAC-TA
69271834 TTTTATGTCAAAAA-TA
1 TTTT-TGTCAAAAACTA
69271850 TTTTT
1 TTTTT
69271855 TAGAAACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 6 0.30
17 4 0.20
18 9 0.45
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (16 bp):
TTTTTGTCAAAAACTA
Found at i:69274217 original size:28 final size:27
Alignment explanation
Indices: 69274152--69274222 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
69274142 ATTTAATTAC
*
69274152 CGTGTTATTATTTTTTCTTTTTAACTTT
1 CGTG-TATTATTTTTTCTTATTAACTTT
* *
69274180 CTTGTCATTATTTTTTCTTATT-AGTTAT
1 CGTGT-ATTATTTTTTCTTATTAACTT-T
69274208 CGTGCTATTATTTTT
1 CGTG-TATTATTTTT
69274223 CACATTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 4 0.11
28 31 0.86
29 1 0.03
ACGTcount: A:0.15, C:0.11, G:0.08, T:0.65
Consensus pattern (27 bp):
CGTGTATTATTTTTTCTTATTAACTTT
Found at i:69275489 original size:20 final size:20
Alignment explanation
Indices: 69275466--69275517 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
69275456 AAATCCAAAT
69275466 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
* *
69275486 TAAAATCCTTAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
69275506 TAAGAATACTGA
1 TAA-AATACTGA
69275518 TGTGGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:69276388 original size:20 final size:20
Alignment explanation
Indices: 69276355--69276409 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
69276345 TTTATTATTT
69276355 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
69276377 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
69276397 ATTATTATTATTA
1 ATTATTATTATTA
69276410 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 22 0.73
21 3 0.10
22 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:69276388 original size:38 final size:35
Alignment explanation
Indices: 69276301--69276390 Score: 85
Period size: 38 Copynumber: 2.5 Consensus size: 35
69276291 TGTAAATATA
*
69276301 TATAATTTA-ATTATTAATTACTTTTTTATTTAAG
1 TATAATTTATATTATTAATTACTTTTTTATTAAAG
* * * *
69276335 TAT-ATTGATATTTATTATTTATTATTATTCTATTAAAT
1 TATAATTTATA-TTATTAATTACT-TT-TT-TATTAAAG
69276373 TATAATTTATATTATTAA
1 TATAATTTATATTATTAA
69276391 ATTATGATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
33 4 0.09
34 4 0.09
35 10 0.23
36 2 0.05
37 2 0.05
38 15 0.35
39 6 0.14
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (35 bp):
TATAATTTATATTATTAATTACTTTTTTATTAAAG
Found at i:69276394 original size:25 final size:26
Alignment explanation
Indices: 69276346--69276412 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
69276336 ATATTGATAT
* **
69276346 TTATTATTTATTATTATTCTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
*
69276372 TTATAATTTA-TATTATTAAATTATGA
1 TTATAATTTATTATTATTAAATTA-AA
*
69276398 TTATTA-TTATTATTA
1 TTATAATTTATTATTA
69276413 AAAATAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:69276708 original size:13 final size:14
Alignment explanation
Indices: 69276690--69276727 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
69276680 TTATAAAGTT
69276690 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
69276703 AATAAAAGAAATGA
1 AATAAAATAAAAGA
69276717 AATAAAATAAA
1 AATAAAATAAA
69276728 GTAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:69277128 original size:22 final size:22
Alignment explanation
Indices: 69277103--69277145 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
69277093 GTAGTTAGAC
69277103 GTGAGTTTGGTAAGAAATTGAT
1 GTGAGTTTGGTAAGAAATTGAT
69277125 GTGAGTTTGGTAAGAAATTGA
1 GTGAGTTTGGTAAGAAATTGA
69277146 GTAGTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (22 bp):
GTGAGTTTGGTAAGAAATTGAT
Found at i:69277876 original size:45 final size:45
Alignment explanation
Indices: 69277808--69277904 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
69277798 GCCGACTACT
* * *
69277808 GTTACTGTTACCGATTGGACACTTTGTGTGTGGAATACTGTTACC
1 GTTACTGTTACAGATTAGACACTTTGTATGTGGAATACTGTTACC
* *
69277853 GTTACTGTTACAGATTCAG-CACTTTGTATGTTGAATACTGTTACT
1 GTTACTGTTACAGATT-AGACACTTTGTATGTGGAATACTGTTACC
69277898 GTTACTG
1 GTTACTG
69277905 CTACTGCTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 45 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (45 bp):
GTTACTGTTACAGATTAGACACTTTGTATGTGGAATACTGTTACC
Found at i:69277919 original size:18 final size:18
Alignment explanation
Indices: 69277888--69277922 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69277878 GTATGTTGAA
* *
69277888 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
69277906 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
69277923 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:69283254 original size:14 final size:14
Alignment explanation
Indices: 69283235--69283284 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
69283225 CTCAAGCTTG
*
69283235 AGGTTTGAGATTTA
1 AGGTTTAAGATTTA
*
69283249 AGGTTTAAAATTTA
1 AGGTTTAAGATTTA
* *
69283263 AAGTTTAAGTTTTA
1 AGGTTTAAGATTTA
*
69283277 GGGTTTAA
1 AGGTTTAA
69283285 AGTTCAGGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
AGGTTTAAGATTTA
Found at i:69283573 original size:17 final size:17
Alignment explanation
Indices: 69283551--69283583 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
69283541 ACTTAAATTT
*
69283551 AAAATCTCGAAATTTTA
1 AAAATCTCAAAATTTTA
69283568 AAAATCTCAAAATTTT
1 AAAATCTCAAAATTTT
69283584 TTATTGTCCT
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:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (17 bp):
AAAATCTCAAAATTTTA
Found at i:69291824 original size:34 final size:34
Alignment explanation
Indices: 69291714--69291823 Score: 139
Period size: 34 Copynumber: 3.2 Consensus size: 34
69291704 ACACATAAAT
* * *
69291714 AATCGGTTCAAAAGAAGCAATATTCTAACATAAC
1 AATCGATTCAAAAGAAGTAATATTCCAACATAAC
* * *
69291748 AATCGATTCAAAAGAAATAATATTTCAACATGAC
1 AATCGATTCAAAAGAAGTAATATTCCAACATAAC
* * *
69291782 AATAGATTTAAAAGAAGTAGTATTCCAACATAAC
1 AATCGATTCAAAAGAAGTAATATTCCAACATAAC
69291816 AATCGATT
1 AATCGATT
69291824 TCAATTTATA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (34 bp):
AATCGATTCAAAAGAAGTAATATTCCAACATAAC
Found at i:69291850 original size:55 final size:55
Alignment explanation
Indices: 69291791--69291904 Score: 174
Period size: 55 Copynumber: 2.1 Consensus size: 55
69291781 CAATAGATTT
* ** *
69291791 AAAAGAAGTAGTATTCCAACATAACAATCGATTTCAATTTATAAACAATTAATTC
1 AAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATAAAAACAATTAATTC
* *
69291846 AAAAGAAGTAGTATTCCAATATAACAATCGATTTAAACATAAAAACAATTGATTC
1 AAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATAAAAACAATTAATTC
69291901 AAAA
1 AAAA
69291905 AAAGAAGAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (55 bp):
AAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATAAAAACAATTAATTC
Found at i:69291998 original size:55 final size:55
Alignment explanation
Indices: 69291937--69292044 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 55
69291927 ATAACAATCA
* ** **
69291937 ATTCAAAAGAAACAATATTTCAACATTACAATCGATTTAAACATTTAAATAATTT
1 ATTCAAAAGAAACAATATTCCAACAAGACAATCGATTTAAACATAAAAATAATTT
* * *
69291992 ATTCAAAAGAACCAATATTCCAATAAGATAATCGATTTAAACATAAAAATAAT
1 ATTCAAAAGAAACAATATTCCAACAAGACAATCGATTTAAACATAAAAATAAT
69292045 CAATCCGAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.31
Consensus pattern (55 bp):
ATTCAAAAGAAACAATATTCCAACAAGACAATCGATTTAAACATAAAAATAATTT
Found at i:69295439 original size:15 final size:14
Alignment explanation
Indices: 69295421--69295451 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
69295411 TTAATTTATT
69295421 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
69295436 TAATAATAATCTAA
1 TAATAATAATCTAA
69295450 TA
1 TA
69295452 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:69295462 original size:21 final size:20
Alignment explanation
Indices: 69295438--69295506 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
69295428 AATGCTAATA
69295438 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
69295459 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
69295478 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
69295499 ATAATAAT
1 ATAATAAT
69295507 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:69295518 original size:33 final size:32
Alignment explanation
Indices: 69295470--69295547 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 32
69295460 TAATGTTAAT
* *
69295470 TAATAATTATAATAATTTAATATAAAACC-ATAA
1 TAATAATCATTATAATTT-ATATAAAACCTA-AA
69295503 TAATAATCATTATAA--TATATAAAACCTAAA
1 TAATAATCATTATAATTTATATAAAACCTAAA
69295533 TAA-AATC-TT-TAATTT
1 TAATAATCATTATAATTT
69295548 TATTTCACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
27 3 0.08
28 2 0.05
29 5 0.12
30 15 0.38
31 2 0.05
33 13 0.32
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (32 bp):
TAATAATCATTATAATTTATATAAAACCTAAA
Found at i:69304195 original size:12 final size:12
Alignment explanation
Indices: 69304178--69304202 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69304168 GGTGTGCATT
69304178 CGGTTAACCGAC
1 CGGTTAACCGAC
69304190 CGGTTAACCGAC
1 CGGTTAACCGAC
69304202 C
1 C
69304203 CGAATTAGTA
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:69304378 original size:9 final size:9
Alignment explanation
Indices: 69304364--69304456 Score: 132
Period size: 9 Copynumber: 10.3 Consensus size: 9
69304354 TGGTTAAAAA
69304364 TTAACCGAT
1 TTAACCGAT
*
69304373 TTAACCGAC
1 TTAACCGAT
69304382 TTAACCGAT
1 TTAACCGAT
*
69304391 TTAACTGAT
1 TTAACCGAT
*
69304400 TTAACCGAC
1 TTAACCGAT
*
69304409 TTAACCAAT
1 TTAACCGAT
69304418 TTAACCGAT
1 TTAACCGAT
*
69304427 TTAACCGAC
1 TTAACCGAT
*
69304436 TTAACCGAC
1 TTAACCGAT
69304445 TTAACCGAT
1 TTAACCGAT
69304454 TTA
1 TTA
69304457 GTTCAACTGA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 74 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (9 bp):
TTAACCGAT
Found at i:69304394 original size:27 final size:27
Alignment explanation
Indices: 69304364--69304456 Score: 159
Period size: 27 Copynumber: 3.4 Consensus size: 27
69304354 TGGTTAAAAA
69304364 TTAACCGATTTAACCGACTTAACCGAT
1 TTAACCGATTTAACCGACTTAACCGAT
* *
69304391 TTAACTGATTTAACCGACTTAACCAAT
1 TTAACCGATTTAACCGACTTAACCGAT
*
69304418 TTAACCGATTTAACCGACTTAACCGAC
1 TTAACCGATTTAACCGACTTAACCGAT
69304445 TTAACCGATTTA
1 TTAACCGATTTA
69304457 GTTCAACTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (27 bp):
TTAACCGATTTAACCGACTTAACCGAT
Found at i:69305620 original size:15 final size:14
Alignment explanation
Indices: 69305591--69305624 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
69305581 AGAAAGAAAA
69305591 AAGAAAAACTAAAG
1 AAGAAAAACTAAAG
*
69305605 AAGAAAGAACTGAAG
1 AAGAAA-AACTAAAG
69305620 AAGAA
1 AAGAA
69305625 CTGAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.68, C:0.06, G:0.21, T:0.06
Consensus pattern (14 bp):
AAGAAAAACTAAAG
Found at i:69312972 original size:53 final size:53
Alignment explanation
Indices: 69312892--69313002 Score: 215
Period size: 53 Copynumber: 2.1 Consensus size: 53
69312882 AAGTTATCTT
69312892 GATACTGTCCTTTTCTATTTTACTTCTCTTGGGGTAGTCCTTTCACTTTTTTA
1 GATACTGTCCTTTTCTATTTTACTTCTCTTGGGGTAGTCCTTTCACTTTTTTA
69312945 GATACTGTCCTTTTCTATTTTACTTCTCTTGGGGTAGTCCTTTCACTTTTTTA
1 GATACTGTCCTTTTCTATTTTACTTCTCTTGGGGTAGTCCTTTCACTTTTTTA
69312998 G-TACT
1 GATACT
69313003 TGATATTGCA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 4 0.07
53 54 0.93
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.52
Consensus pattern (53 bp):
GATACTGTCCTTTTCTATTTTACTTCTCTTGGGGTAGTCCTTTCACTTTTTTA
Found at i:69330189 original size:24 final size:23
Alignment explanation
Indices: 69330137--69330190 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
69330127 ATGCTGAGGC
*
69330137 AATTTTAATATATTTATTCTTTA
1 AATTTTAATATATTTATTATTTA
69330160 AA-TTTAATTTATATTTA-TATTTA
1 AATTTTAA--TATATTTATTATTTA
69330183 AATTTTAA
1 AATTTTAA
69330191 GGAATCAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.19
23 9 0.33
24 13 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
AATTTTAATATATTTATTATTTA
Found at i:69336530 original size:32 final size:32
Alignment explanation
Indices: 69336494--69336559 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
69336484 TTAAAAAAAC
69336494 TTAACTCATAAATTAGTATCTAAATTATACTT
1 TTAACTCATAAATTAGTATCTAAATTATACTT
69336526 TTAACTCATAAATTAGTATCTAAATTATACTT
1 TTAACTCATAAATTAGTATCTAAATTATACTT
69336558 TT
1 TT
69336560 TTTTTCTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (32 bp):
TTAACTCATAAATTAGTATCTAAATTATACTT
Found at i:69337591 original size:26 final size:29
Alignment explanation
Indices: 69337538--69337594 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 29
69337528 AGAAATTATA
69337538 AAAAATATTATATATATTTTTTAAAATAG
1 AAAAATATTATATATATTTTTTAAAATAG
*
69337567 AAAAA-ATTAT-TATATTTTTT-GAATAG
1 AAAAATATTATATATATTTTTTAAAATAG
69337593 AA
1 AA
69337595 TATACCTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.26
27 10 0.37
28 5 0.19
29 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (29 bp):
AAAAATATTATATATATTTTTTAAAATAG
Done.