Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007963.1 Hibiscus syriacus cultivar Beakdansim tig00110392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1627826
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:614807 original size:14 final size:15
Alignment explanation
Indices: 614771--614810 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
614761 AAACCGAAAC
* *
614771 TAAAATGTAATATTA
1 TAAAATGTATTAATA
614786 TAAAATGTATTAATA
1 TAAAATGTATTAATA
614801 T-AAATGTATT
1 TAAAATGTATT
614811 CATTAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (15 bp):
TAAAATGTATTAATA
Found at i:621552 original size:4 final size:4
Alignment explanation
Indices: 621531--621576 Score: 67
Period size: 4 Copynumber: 11.5 Consensus size: 4
621521 TTGCCCATCC
*
621531 CCCT CCCT CTCC- CTCT CCCT CCCT CCCT CCCT CCCT CCCT CCCT CC
1 CCCT CCCT C-CCT CCCT CCCT CCCT CCCT CCCT CCCT CCCT CCCT CC
621577 TATAAATACC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 1 0.03
4 35 0.92
5 2 0.05
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (4 bp):
CCCT
Found at i:621908 original size:20 final size:20
Alignment explanation
Indices: 621874--621922 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
621864 TTATTGTGAA
*
621874 TATTTT-ATTTTTTTAGTAT
1 TATTTTAATTTGTTTAGTAT
*
621893 TATTTTAATTTGTTTATTAT
1 TATTTTAATTTGTTTAGTAT
621913 T-TATTTAATT
1 TAT-TTTAATT
621923 AGTGGAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (20 bp):
TATTTTAATTTGTTTAGTAT
Found at i:625553 original size:2 final size:2
Alignment explanation
Indices: 625546--625571 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
625536 CTACTTATGT
625546 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
625572 ACTACACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:634461 original size:2 final size:2
Alignment explanation
Indices: 634454--634487 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
634444 ATTAATGAGC
**
634454 AG AG AG AG AG AG AG AG AG AG AG AG TC AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
634488 GCCTTGATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.47, T:0.03
Consensus pattern (2 bp):
AG
Found at i:635203 original size:31 final size:31
Alignment explanation
Indices: 635168--635229 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
635158 TTTTGAGTGA
635168 CTAATTTTTTATTATAGTTTTAGACTTTGTT
1 CTAATTTTTTATTATAGTTTTAGACTTTGTT
635199 CTAATTTTTTATTATAGTTTTAGACTTTGTT
1 CTAATTTTTTATTATAGTTTTAGACTTTGTT
635230 GTTGTCTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.06, G:0.10, T:0.61
Consensus pattern (31 bp):
CTAATTTTTTATTATAGTTTTAGACTTTGTT
Found at i:635495 original size:16 final size:17
Alignment explanation
Indices: 635474--635508 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
635464 ATACTACCTT
635474 ATGATTT-ATTTTTAAA
1 ATGATTTAATTTTTAAA
635490 ATGATTTAAATTTTTAAA
1 ATGATTT-AATTTTTAAA
635508 A
1 A
635509 AAATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
ATGATTTAATTTTTAAA
Found at i:635661 original size:60 final size:58
Alignment explanation
Indices: 635597--635761 Score: 163
Period size: 60 Copynumber: 2.7 Consensus size: 58
635587 ACTTTCATTC
* * *
635597 TAAAATGATTCTTAAATTTTTAAATATTTTAATTTTATC-CTCAAACTATTAATCTTGTTT
1 TAAAAT-ATTCTTAAATTTTTAAAT-TTTTAATTTCATCTC-CAAACTATAAATCTTATTT
* * *
635657 TAAAATATTCCTTAAAGTTTTGAAATTTTCAATTTCATCTCCAAACTATAAATTTTATTT
1 TAAAATATT-CTTAAA-TTTTTAAATTTTTAATTTCATCTCCAAACTATAAATCTTATTT
* * *
635717 T-AAATCAGTCTTCAAATTTTTGAATTTTCTAATTTCATATCCAAA
1 TAAAAT-ATTCTT-AAATTTTTAAATTTT-TAATTTCATCTCCAAA
635762 TTCATCCAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
59 20 0.23
60 59 0.67
61 9 0.10
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.48
Consensus pattern (58 bp):
TAAAATATTCTTAAATTTTTAAATTTTTAATTTCATCTCCAAACTATAAATCTTATTT
Found at i:636384 original size:25 final size:25
Alignment explanation
Indices: 636337--636384 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
636327 GTACAATAAA
* *
636337 TAATTTTTTAATTAATAATATATGT
1 TAATTTTTTAAATAATAAAATATGT
636362 TAATTTTATTAAATAA-AAAATAT
1 TAATTTT-TTAAATAATAAAATAT
636385 TTCAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TAATTTTTTAAATAATAAAATATGT
Found at i:637633 original size:62 final size:60
Alignment explanation
Indices: 637519--637643 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 60
637509 CTAGTTGTTG
637519 CATGTCAGTCCATCCCATTGCCATGTTTTTAAGTGGGAATTTTAGAAGCTTCAGTCATAA
1 CATGTCAGTCCATCCCATTGCCATGTTTTTAAGTGGGAATTTTAGAAGCTTCAGTCATAA
637579 CATGTCAGTCCATCCCATTGCCATGTTGTTTTAAGTGGGAATTTTAGAAGCTTCAGTCATAA
1 CATGTCAGTCCATCCCATTGCCATG-T-TTTTAAGTGGGAATTTTAGAAGCTTCAGTCATAA
637641 CAT
1 CAT
637644 ATGGTCTTCG
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
60 25 0.40
61 1 0.02
62 37 0.59
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (60 bp):
CATGTCAGTCCATCCCATTGCCATGTTTTTAAGTGGGAATTTTAGAAGCTTCAGTCATAA
Found at i:641063 original size:35 final size:34
Alignment explanation
Indices: 641017--641128 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 34
641007 AAAACAATCC
*
641017 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
641052 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCCAAAATAAT
* * *
641087 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
641122 T-AATTTC
1 TCAATTTC
641129 TGTCTTTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
34 6 0.09
35 58 0.83
36 6 0.09
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.34
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:642235 original size:35 final size:34
Alignment explanation
Indices: 642187--642298 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 34
642177 ATTCCTCCTT
* *
642187 AAATTGAAATATTTTAGAATTTGGGTTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGG-TTTAGAATG
*
642222 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTT-GGGTTTAGAATG
* *
642257 AAATTGAATTACTTTGGAATTTGGGGTTTAGAATA
1 AAATTGAATTATTTTGGAATTT-GGGTTTAGAATG
642292 AAATTGA
1 AAATTGA
642299 GGAATGTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 66 0.96
36 3 0.04
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (34 bp):
AAATTGAATTATTTTGGAATTTGGGTTTAGAATG
Found at i:642834 original size:26 final size:25
Alignment explanation
Indices: 642751--642823 Score: 109
Period size: 25 Copynumber: 3.1 Consensus size: 25
642741 TTATGTATAT
642751 AAATAAA-TATTA-TTT--ATTAAA
1 AAATAAATTATTATTTTAAATTAAA
*
642772 AAATAAATTATAATTTTAAATTAAA
1 AAATAAATTATTATTTTAAATTAAA
642797 AAATAAATTATTATTTTAAATTAAA
1 AAATAAATTATTATTTTAAATTAAA
642822 AA
1 AA
642824 GTTGATTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.15
22 4 0.09
23 3 0.07
25 32 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AAATAAATTATTATTTTAAATTAAA
Found at i:644844 original size:33 final size:33
Alignment explanation
Indices: 644802--644868 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
644792 GCCCCGATTA
*
644802 GCGTCTGTTTAGCTGATCTTACACATTTATTTT
1 GCGTCTGTTTAGATGATCTTACACATTTATTTT
*
644835 GCGTCTGTTTAGATGGTCTTACACATTTATTTT
1 GCGTCTGTTTAGATGATCTTACACATTTATTTT
644868 G
1 G
644869 TATACTGTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.48
Consensus pattern (33 bp):
GCGTCTGTTTAGATGATCTTACACATTTATTTT
Found at i:653516 original size:20 final size:20
Alignment explanation
Indices: 653480--653517 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
653470 AATCCTATTC
**
653480 CTGGTAATCTTTTATTCCTA
1 CTGGTAATCTTACATTCCTA
653500 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
653518 GTGAACTAAA
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:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCTA
Found at i:665105 original size:17 final size:17
Alignment explanation
Indices: 665085--665119 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
665075 TGATAATGGT
665085 AAAAGAAAATAGAATTA
1 AAAAGAAAATAGAATTA
* *
665102 AAAATAAATTAGAATTA
1 AAAAGAAAATAGAATTA
665119 A
1 A
665120 TTTTTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (17 bp):
AAAAGAAAATAGAATTA
Found at i:665243 original size:13 final size:13
Alignment explanation
Indices: 665225--665250 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
665215 TGATTATAGT
665225 ATATTTTATTAAA
1 ATATTTTATTAAA
665238 ATATTTTATTAAA
1 ATATTTTATTAAA
665251 TTACTGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTTTATTAAA
Found at i:671115 original size:58 final size:59
Alignment explanation
Indices: 671019--671130 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 59
671009 ATTCAATTTG
* * ****
671019 CTTTCTTCATCTGCAATATAAAATCAGACTTTTTCCT-GGCCAGGAATAGAAATGACCC
1 CTTTCTTCATCTGCAAGATAAAAGCAGACTAACCCCTGGGCCAGGAATAGAAATGACCC
* *
671077 CTTTCTTCATCTGCAAGATTAAAGCAGACTAACCCCTGGGCCAGGAATTGAAAT
1 CTTTCTTCATCTGCAAGATAAAAGCAGACTAACCCCTGGGCCAGGAATAGAAAT
671131 TACTCAATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
58 30 0.67
59 15 0.33
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (59 bp):
CTTTCTTCATCTGCAAGATAAAAGCAGACTAACCCCTGGGCCAGGAATAGAAATGACCC
Found at i:673109 original size:21 final size:21
Alignment explanation
Indices: 673085--673126 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
673075 TTATTTTTTC
673085 AATAAAAATTAATATTATTAT
1 AATAAAAATTAATATTATTAT
* *
673106 AATAACACTTAATATTATTAT
1 AATAAAAATTAATATTATTAT
673127 TATTTTAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
AATAAAAATTAATATTATTAT
Found at i:674802 original size:16 final size:16
Alignment explanation
Indices: 674773--674812 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
674763 TTTAATTATC
* *
674773 ATTATATAATTAAAAT
1 ATTATATAAATAAAAA
*
674789 ATTATTTAAATAAAAA
1 ATTATATAAATAAAAA
674805 ATTATATA
1 ATTATATA
674813 TATTTGTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTATATAAATAAAAA
Found at i:675853 original size:16 final size:16
Alignment explanation
Indices: 675832--675874 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
675822 TCTAAAATAC
675832 GAGTAAAAAATATAAA
1 GAGTAAAAAATATAAA
675848 GAGTAAAAAATATAAA
1 GAGTAAAAAATATAAA
675864 GAGTAAAAAAT
1 GAGTAAAAAAT
675875 TCACTGACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (16 bp):
GAGTAAAAAATATAAA
Found at i:676153 original size:2 final size:2
Alignment explanation
Indices: 676146--676231 Score: 163
Period size: 2 Copynumber: 43.0 Consensus size: 2
676136 ATTCTTGATG
*
676146 TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
676188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
676230 TA
1 TA
676232 CAACATGCAC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:678517 original size:18 final size:18
Alignment explanation
Indices: 678494--678528 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
678484 CCACATAGAA
*
678494 ATGTCCAGAAGGGCCACT
1 ATGTCCAGAAGGACCACT
*
678512 ATGTCCTGAAGGACCAC
1 ATGTCCAGAAGGACCAC
678529 ATATCACATA
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:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (18 bp):
ATGTCCAGAAGGACCACT
Found at i:678548 original size:26 final size:26
Alignment explanation
Indices: 678511--678580 Score: 122
Period size: 26 Copynumber: 2.7 Consensus size: 26
678501 GAAGGGCCAC
*
678511 TATGTCCTGAAGGACCACATATCACA
1 TATGTCCCGAAGGACCACATATCACA
678537 TATGTCCCGAAGGACCACATATCACA
1 TATGTCCCGAAGGACCACATATCACA
*
678563 TATATCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
678581 TTCTTAAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (26 bp):
TATGTCCCGAAGGACCACATATCACA
Found at i:678694 original size:23 final size:23
Alignment explanation
Indices: 678663--678706 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
678653 ATTACATATA
*
678663 TGTCCCGAAGGACCATGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
*
678686 TGTCTCGAAGGACCACGTAGA
1 TGTCCCGAAGGACCACGTAGA
678707 CCCTCGACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAT
Found at i:691717 original size:26 final size:26
Alignment explanation
Indices: 691686--691754 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
691676 CCACGTAGAA
*
691686 ATGTCCAGAAGGACCACATATCACAT
1 ATGTCCCGAAGGACCACATATCACAT
691712 ATGTCCCGAAGGACCACATATCACAT
1 ATGTCCCGAAGGACCACATATCACAT
691738 ATGTCCCGAAGGACCAC
1 ATGTCCCGAAGGACCAC
691755 TCCTTAAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17
Consensus pattern (26 bp):
ATGTCCCGAAGGACCACATATCACAT
Found at i:694482 original size:16 final size:17
Alignment explanation
Indices: 694450--694482 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
694440 TATAATATTT
694450 ACTAT-TTATTTTAAAA
1 ACTATATTATTTTAAAA
694466 ACTATATTATTTTAAAA
1 ACTATATTATTTTAAAA
694483 TATACTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
ACTATATTATTTTAAAA
Found at i:694535 original size:32 final size:30
Alignment explanation
Indices: 694468--694535 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 30
694458 TTTTAAAAAC
694468 TATATTATTTTAAAATATACTACATAATATT
1 TATATTATTTTAAAATATACTA-ATAATATT
694499 TATATCTATTTTAAAAACTATACT-AT-ATATT
1 TATAT-TATTTT-AAAA-TATACTAATAATATT
694530 ATATAT
1 -TATAT
694536 AATATAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
31 10 0.30
32 13 0.39
33 4 0.12
34 6 0.18
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (30 bp):
TATATTATTTTAAAATATACTAATAATATT
Found at i:696947 original size:19 final size:20
Alignment explanation
Indices: 696901--696938 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
696891 AAGTAAATTA
696901 ATAAAAATGAAATATTTAAT
1 ATAAAAATGAAATATTTAAT
696921 ATAAAAAT-AAATATTTAA
1 ATAAAAATGAAATATTTAA
696939 ATTATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
ATAAAAATGAAATATTTAAT
Found at i:698641 original size:22 final size:22
Alignment explanation
Indices: 698613--698674 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
698603 TAAGTTTTAC
*
698613 TGCTTTCGAATAGAAAAATAAT
1 TGCTTTCGAATAGGAAAATAAT
698635 TGCTTTCGAATAGGAAAATAAT
1 TGCTTTCGAATAGGAAAATAAT
*
698657 AGCTTTCGAATAGGAAAA
1 TGCTTTCGAATAGGAAAA
698675 CAAATGGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.29
Consensus pattern (22 bp):
TGCTTTCGAATAGGAAAATAAT
Found at i:699670 original size:20 final size:20
Alignment explanation
Indices: 699619--699671 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
699609 ACAGAGGTTC
699619 AGTGGCGTTTTTTTTTCCTAT
1 AGTGGCG-TTTTTTTTCCTAT
** *
699640 AACGGCCTTTTTTTTCCTAT
1 AGTGGCGTTTTTTTTCCTAT
699660 AGTGGCGTTTTT
1 AGTGGCGTTTTT
699672 AAACGCCGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.11, C:0.17, G:0.19, T:0.53
Consensus pattern (20 bp):
AGTGGCGTTTTTTTTCCTAT
Found at i:699906 original size:43 final size:43
Alignment explanation
Indices: 699808--700113 Score: 172
Period size: 43 Copynumber: 7.1 Consensus size: 43
699798 GTTTTTTTTA
* * * ** *
699808 AAACGCCGCAAAAAGTCTATAGCTATAGCGGC-ATTTTGGAAC
1 AAACGCCGCAAAAGGTATAAATATATAGCGGCGTTTTTGGAAC
* *
699850 AAACGCCGCAAAAGGTCA-AAATATATATCTGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGT-ATAAATATATAGCGGCGTTTTTGGAAC
* * * * * *
699893 ACATGTCGTAAAAGGTATAGATATATAGCGGCGTTTTTTGTATAC
1 AAACGCCGCAAAAGGTATAAATATATAGCGGCG-TTTTTGGA-AC
* * * * * *
699938 ATACACCGCAAAAGGTCAT--ATATATAGCGACATTTTTAGAAT
1 AAACGCCGCAAAAGGT-ATAAATATATAGCGGCGTTTTTGGAAC
* * * * * *
699980 AAACGCCGCAAAATGTTTAGATCTATAGCGACGTTTTTGGAAT
1 AAACGCCGCAAAAGGTATAAATATATAGCGGCGTTTTTGGAAC
* * * * * * *
700023 AAACGCCACAAAATGTATAGATATATAACGACGTTTTTTTGAAT
1 AAACGCCGCAAAAGGTATAAATATATAGCGGCG-TTTTTGGAAC
* ** * * * *
700067 AATCGCCGCAAATTGTTTATATTTATAGCGGCG-TTTTGGAAT
1 AAACGCCGCAAAAGGTATAAATATATAGCGGCGTTTTTGGAAC
700109 AAACG
1 AAACG
700114 ACAGTATTGA
Statistics
Matches: 207, Mismatches: 48, Indels: 18
0.76 0.18 0.07
Matches are distributed among these distances:
41 1 0.00
42 51 0.25
43 88 0.43
44 52 0.25
45 13 0.06
46 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTATAAATATATAGCGGCGTTTTTGGAAC
Found at i:700001 original size:87 final size:86
Alignment explanation
Indices: 699910--700112 Score: 223
Period size: 87 Copynumber: 2.3 Consensus size: 86
699900 GTAAAAGGTA
* * * *
699910 TAGATATATAGCGGCGTTTTTTGTATACATACACCGCAAAAGGTCAT-ATATATAGCGAC-ATTT
1 TAGATATATAGCGGCGTTTTTGGAATA-A-ACACCACAAAAGGT-ATAATATATAACGACGATTT
699973 TTAGAATAAACGCCGCAAAATGTT
63 TTAGAATAAACGCCGCAAAATGTT
* * * * *
699997 TAGATCTATAGCGACGTTTTTGGAATAAACGCCACAAAATGTATAGATATATAACGACGTTTTTT
1 TAGATATATAGCGGCGTTTTTGGAATAAACACCACAAAAGGTATA-ATATATAACGACGATTTTT
* * *
700062 TGAATAATCGCCGCAAATTGTT
65 AGAATAAACGCCGCAAAATGTT
* *
700084 TATATTTATAGCGGCG-TTTTGGAATAAAC
1 TAGATATATAGCGGCGTTTTTGGAATAAAC
700113 GACAGTATTG
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
84 2 0.02
85 11 0.11
86 25 0.26
87 60 0.61
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (86 bp):
TAGATATATAGCGGCGTTTTTGGAATAAACACCACAAAAGGTATAATATATAACGACGATTTTTA
GAATAAACGCCGCAAAATGTT
Found at i:700102 original size:44 final size:44
Alignment explanation
Indices: 699910--700103 Score: 180
Period size: 43 Copynumber: 4.5 Consensus size: 44
699900 GTAAAAGGTA
* * * *
699910 TAGATATATAGCGGCGTTTTTT-GTATACATACACCGCAAAA-GGT
1 TAGATATATAGCGACGTTTTTTAGAATA-A-ACGCCGCAAAATGTT
* * *
699954 CATATATATAGCGAC-ATTTTTAGAATAAACGCCGCAAAATGTT
1 TAGATATATAGCGACGTTTTTTAGAATAAACGCCGCAAAATGTT
* * * *
699997 TAGATCTATAGCGACG-TTTTTGGAATAAACGCCACAAAATGTA
1 TAGATATATAGCGACGTTTTTTAGAATAAACGCCGCAAAATGTT
* * * *
700040 TAGATATATAACGACGTTTTTTTGAATAATCGCCGCAAATTGTT
1 TAGATATATAGCGACGTTTTTTAGAATAAACGCCGCAAAATGTT
* * *
700084 TATATTTATAGCGGCGTTTT
1 TAGATATATAGCGACGTTTT
700104 GGAATAAACG
Statistics
Matches: 122, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
42 10 0.08
43 58 0.48
44 54 0.44
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (44 bp):
TAGATATATAGCGACGTTTTTTAGAATAAACGCCGCAAAATGTT
Found at i:701116 original size:40 final size:40
Alignment explanation
Indices: 701001--701122 Score: 208
Period size: 40 Copynumber: 3.0 Consensus size: 40
700991 TACAATGTAG
*
701001 CATAATATAATTAATTTTCGTTAGTATGTACATGGAGATA
1 CATAATATAATTAATTTTCGTTAGTATGTACATGGGGATA
701041 CATAATATAATTAATTTTCGTTAGTATGTACATGGGGATA
1 CATAATATAATTAATTTTCGTTAGTATGTACATGGGGATA
* * *
701081 CATAATATAAGTAATTTTCGTTAGTATGTGCATGGGAATA
1 CATAATATAATTAATTTTCGTTAGTATGTACATGGGGATA
701121 CA
1 CA
701123 AATCAGTATG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
CATAATATAATTAATTTTCGTTAGTATGTACATGGGGATA
Found at i:708224 original size:43 final size:44
Alignment explanation
Indices: 708132--708225 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 44
708122 TTCTTGTTTT
* *
708132 GAACGGCGTGAATGGGGGTGACTGAAGGCGCGACGCAAGGAACC
1 GAACGGCGTGAATAGGGGCGACTGAAGGCGCGACGCAAGGAACC
* *
708176 G-ACGGCGTGAATAGTGGCGACTGAAGGCGCGACGCAAGTAA-C
1 GAACGGCGTGAATAGGGGCGACTGAAGGCGCGACGCAAGGAACC
708218 GAACGGCG
1 GAACGGCG
708226 GCAATGGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 2 0.04
43 42 0.93
44 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.41, T:0.10
Consensus pattern (44 bp):
GAACGGCGTGAATAGGGGCGACTGAAGGCGCGACGCAAGGAACC
Found at i:709307 original size:82 final size:81
Alignment explanation
Indices: 709125--709481 Score: 242
Period size: 82 Copynumber: 4.4 Consensus size: 81
709115 TACTTATAAT
* * * * * *
709125 TTGCGACGTTTGTAAAAAAACGACGCTAAAGTAATACTCTGTTGCGACGTTTTT-TGAAAAA-AT
1 TTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGC-TTTTTCTGAAAAACA-
* * * * *
709188 GCTACTATAGATTAATCATT
64 -CCACAATAGA-TAAACCTA
* * * * * *
709208 TTGCAGCGTTTAT-TAAAAGCGCCGCTAAAGTACTAATCTATTCCGGCATTTTTCTGAAAAACGC
1 TTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGC-TTTTTCTGAAAAACAC
*
709272 CACAATAGATAAATCTA
65 CACAATAGATAAACCTA
* ** * * * **
709289 TTGCGGCATTTGTATAAAAATACCGCAAAAGTACTTCTCTATTGTGG-TGTTTTCT-AAACAATT
1 TTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGCT-TTTTCTGAAA-AACA
* *
709352 CCACCATAGATGAACCCTA
64 CCACAATAGAT-AAACCTA
* * * * *
709371 TTACGGCGTTTGTATAAAAACGTCGCTAAAGTATTACTCTATTGCTGCGTTTGT-TGAAAAAACA
1 TTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGC-TTTTTCTG-AAAAACA
* *
709435 CCACTATAGATAAACCAA
64 CCACAATAGATAAACCTA
* *
709453 TTGCGGCGTTT-TTTACAAACGCCGCTAAA
1 TTGCGGCGTTTGTATAAAAACGCCGCTAAA
709482 TTTACCATTT
Statistics
Matches: 209, Mismatches: 55, Indels: 22
0.73 0.19 0.08
Matches are distributed among these distances:
80 4 0.02
81 47 0.22
82 122 0.58
83 32 0.15
84 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (81 bp):
TTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGCTTTTTCTGAAAAACACC
ACAATAGATAAACCTA
Found at i:711933 original size:41 final size:41
Alignment explanation
Indices: 711874--712065 Score: 330
Period size: 41 Copynumber: 4.7 Consensus size: 41
711864 GCCAAATTGT
* *
711874 ATATCAAATAGGTAATATACTTCTACCTGGATATCCTTTGC
1 ATATCAAATAGGTAATATACTTCAACCTGCATATCCTTTGC
* *
711915 ACATCAAATGGGTAATATACTTCAACCTGCATATCCTTTGC
1 ATATCAAATAGGTAATATACTTCAACCTGCATATCCTTTGC
* *
711956 ATATCAAATGGGTAATATACTTCAACCTGCATATCCTTGGC
1 ATATCAAATAGGTAATATACTTCAACCTGCATATCCTTTGC
711997 ATATCAAATAGGTAATATACTTCAACCTGCATATCCTTTGC
1 ATATCAAATAGGTAATATACTTCAACCTGCATATCCTTTGC
712038 ATATCAAATAGGTAATATACTTCAACCT
1 ATATCAAATAGGTAATATACTTCAACCT
712066 CACTACAAGA
Statistics
Matches: 143, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 143 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (41 bp):
ATATCAAATAGGTAATATACTTCAACCTGCATATCCTTTGC
Found at i:716368 original size:82 final size:83
Alignment explanation
Indices: 716250--716451 Score: 291
Period size: 82 Copynumber: 2.4 Consensus size: 83
716240 CCATTATGTC
* * * * *
716250 GGCTCCCTTTTGCTGTATGCTTAGGGTAAG-TCATACAAACTTACGAACTTAAGGTTACAGGCCC
1 GGCTTCCTTTTGTTGTGTGCTTAGGGTAAGCT-ATACAAACTTACGAACTTAAGGATACAAGCCC
716314 CAAAGCCTATCCTTAAGTT
65 CAAAGCCTATCCTTAAGTT
* *
716333 GGCTTCC-TTTGTTGTGTGCTTAGGGTAAGCTATACAGACTTACGGACTTAAGGATACAAGCCCC
1 GGCTTCCTTTTGTTGTGTGCTTAGGGTAAGCTATACAAACTTACGAACTTAAGGATACAAGCCCC
*
716397 AAAGCCTATCCTTAGGTT
66 AAAGCCTATCCTTAAGTT
*
716415 GGCTTCCTTTTTGTTGTGTGCTTAAGGTAAGCTATAC
1 GGCTTCC-TTTTGTTGTGTGCTTAGGGTAAGCTATAC
716452 GGACGCAGTT
Statistics
Matches: 107, Mismatches: 9, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
82 73 0.68
83 7 0.07
84 27 0.25
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (83 bp):
GGCTTCCTTTTGTTGTGTGCTTAGGGTAAGCTATACAAACTTACGAACTTAAGGATACAAGCCCC
AAAGCCTATCCTTAAGTT
Found at i:718774 original size:21 final size:20
Alignment explanation
Indices: 718748--718788 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
718738 ATGTGAAATT
718748 TGTCCCGAAGGACCTCATGTA
1 TGTCCCGAAGGACCT-ATGTA
718769 TGTCCCGAAGGACCTATGTA
1 TGTCCCGAAGGACCTATGTA
718789 ACCCCCAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (20 bp):
TGTCCCGAAGGACCTATGTA
Found at i:719428 original size:2 final size:2
Alignment explanation
Indices: 719421--719474 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
719411 ACATTGTATC
719421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
719463 AT AT AT AT AT AT
1 AT AT AT AT AT AT
719475 TCACCTAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:722124 original size:27 final size:27
Alignment explanation
Indices: 722086--722144 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
722076 TTTGTTTCAC
722086 AAACTGATCACCAATGTATCCATTCTT
1 AAACTGATCACCAATGTATCCATTCTT
*
722113 AAACTGATCACCAATGTATCTATTCTT
1 AAACTGATCACCAATGTATCCATTCTT
722140 AAACT
1 AAACT
722145 CTTCTGAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (27 bp):
AAACTGATCACCAATGTATCCATTCTT
Found at i:722615 original size:20 final size:19
Alignment explanation
Indices: 722590--722628 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
722580 ATTTAGAATT
*
722590 AACTTAACAACACTTCACTC
1 AACTTAACAA-ACTGCACTC
*
722610 AACTTATCAAACTGCACTC
1 AACTTAACAAACTGCACTC
722629 TTATCCATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.33, G:0.03, T:0.26
Consensus pattern (19 bp):
AACTTAACAAACTGCACTC
Found at i:723892 original size:22 final size:22
Alignment explanation
Indices: 723864--723907 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
723854 GGATATCATG
* *
723864 TATGTCCCGAATGACCTATGTA
1 TATGTCCCAAAGGACCTATGTA
723886 TATGTCCCAAAGGACCTATGTA
1 TATGTCCCAAAGGACCTATGTA
723908 ACCCTCGACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (22 bp):
TATGTCCCAAAGGACCTATGTA
Found at i:725179 original size:14 final size:14
Alignment explanation
Indices: 725160--725190 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
725150 TCAGTACCGA
725160 TATCATTCTTTAAG
1 TATCATTCTTTAAG
725174 TATCATTCTTTAAG
1 TATCATTCTTTAAG
725188 TAT
1 TAT
725191 TGATACTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (14 bp):
TATCATTCTTTAAG
Found at i:732392 original size:95 final size:95
Alignment explanation
Indices: 732225--732397 Score: 328
Period size: 95 Copynumber: 1.8 Consensus size: 95
732215 GACTGCCTCA
*
732225 TGGAAAGGCATTAGACATGCATTGCATTTTGGCGCAGTAGTTGAAAGTACTGCTTAGCATAGACA
1 TGGAAAGGCATTAGACATGCATTGCATTTTGGCACAGTAGTTGAAAGTACTGCTTAGCATAGACA
732290 AAAAGTTCTCTGTCCTATACTGCTTAGCAC
66 AAAAGTTCTCTGTCCTATACTGCTTAGCAC
732320 TGGAAAGGCATTAGACATGCATTGCATTTTGGCACAGTAGTTGAAAGTACTGCTTAGCATAGACA
1 TGGAAAGGCATTAGACATGCATTGCATTTTGGCACAGTAGTTGAAAGTACTGCTTAGCATAGACA
*
732385 AATAGTTCTCTGT
66 AAAAGTTCTCTGT
732398 GTTTTACTAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 76 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (95 bp):
TGGAAAGGCATTAGACATGCATTGCATTTTGGCACAGTAGTTGAAAGTACTGCTTAGCATAGACA
AAAAGTTCTCTGTCCTATACTGCTTAGCAC
Found at i:734773 original size:12 final size:12
Alignment explanation
Indices: 734756--734780 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
734746 TGATAATATC
734756 ATATCAATTCAT
1 ATATCAATTCAT
734768 ATATCAATTCAT
1 ATATCAATTCAT
734780 A
1 A
734781 CATACTCATG
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATCAATTCAT
Found at i:735115 original size:21 final size:20
Alignment explanation
Indices: 735089--735151 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
735079 ATGTGAAATT
735089 TGTCCCGAAAGACCTCATGTA
1 TGTCCCGAAAGACCT-ATGTA
*
735110 TGTCCCGAATGACCTATGTATA
1 TGTCCCGAAAGACCTATG--TA
735132 TGTCCC-AAAGGACCTATGTA
1 TGTCCCGAAA-GACCTATGTA
735152 ACCCTCTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 5 0.14
21 16 0.43
22 16 0.43
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (20 bp):
TGTCCCGAAAGACCTATGTA
Found at i:735136 original size:22 final size:22
Alignment explanation
Indices: 735089--735151 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
735079 ATGTGAAATT
735089 TGTCCCGAAAGACCTCATG--TA
1 TGTCCCGAAAGACCT-ATGTATA
*
735110 TGTCCCGAATGACCTATGTATA
1 TGTCCCGAAAGACCTATGTATA
735132 TGTCCC-AAAGGACCTATGTA
1 TGTCCCGAAA-GACCTATGTA
735152 ACCCTCTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
20 3 0.08
21 16 0.43
22 18 0.49
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (22 bp):
TGTCCCGAAAGACCTATGTATA
Found at i:736957 original size:31 final size:31
Alignment explanation
Indices: 736919--737105 Score: 254
Period size: 31 Copynumber: 6.0 Consensus size: 31
736909 CCCGAAGGAC
* *
736919 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
736950 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
* *
736981 CAGTCCGTATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
737012 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
737043 CAGTCCATATG-TCCAGAAGAACATAGGTAAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAAA
*
737074 CAGTTCATATG-TCCAGAAGAACATAGGTAAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAAA
737105 C
1 C
737106 CCTCGACCCT
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.01
31 138 0.98
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:737016 original size:62 final size:62
Alignment explanation
Indices: 736919--737105 Score: 288
Period size: 62 Copynumber: 3.0 Consensus size: 62
736909 CCCGAAGGAC
* *
736919 CAGTCCATA-GATTCCGAAGAACCTAGGTAATCAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATG-TTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
*
736981 CAGTCCGTATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
* * *
737043 CAGTCCATATG-TCCAGAAGAACATAGGTAAACAGTTCATATGTCCAGAAGAACATAGGTAAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
737105 C
1 C
737106 CCTCGACCCT
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
61 3 0.03
62 112 0.97
63 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (62 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:737956 original size:21 final size:21
Alignment explanation
Indices: 737926--737970 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
737916 ATTCTGTCGT
* *
737926 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
737947 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
737968 TTG
1 TTG
737971 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:740931 original size:31 final size:31
Alignment explanation
Indices: 740893--741079 Score: 263
Period size: 31 Copynumber: 6.0 Consensus size: 31
740883 CCCGAAGGAC
* *
740893 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
740924 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
* *
740955 CAGTCCGTATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
740986 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
741017 CAGTCCATATG-TCCAGAAGAACATAGGTAAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAAA
741048 CAGTCCATATG-TCCAGAAGAACATAGGTAAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAAA
741079 C
1 C
741080 CCTCGACCCT
Statistics
Matches: 142, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
30 2 0.01
31 139 0.98
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:740990 original size:62 final size:62
Alignment explanation
Indices: 740893--741079 Score: 297
Period size: 62 Copynumber: 3.0 Consensus size: 62
740883 CCCGAAGGAC
* *
740893 CAGTCCATA-GATTCCGAAGAACCTAGGTAATCAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATG-TTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
*
740955 CAGTCCGTATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
741017 CAGTCCATATG-TCCAGAAGAACATAGGTAAACAGTCCATATGTCCAGAAGAACATAGGTAAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
741079 C
1 C
741080 CCTCGACCCT
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
61 3 0.03
62 113 0.97
63 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (62 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:741283 original size:23 final size:24
Alignment explanation
Indices: 741257--741303 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
741247 ATATACTTGT
*
741257 TTTCACATATATA-TTTCATATCA
1 TTTCACATATAAACTTTCATATCA
741280 TTTCACATATAAACTTTCATATCA
1 TTTCACATATAAACTTTCATATCA
741304 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATAAACTTTCATATCA
Found at i:741934 original size:21 final size:21
Alignment explanation
Indices: 741904--741948 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
741894 ATTCTGTCGT
* *
741904 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
741925 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
741946 TTG
1 TTG
741949 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:742750 original size:17 final size:17
Alignment explanation
Indices: 742728--742765 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
742718 ATACTACTCT
742728 TCTATGGTATCAATACC
1 TCTATGGTATCAATACC
742745 TCTATGGTATCAATACC
1 TCTATGGTATCAATACC
742762 TCTA
1 TCTA
742766 CTCGGTACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (17 bp):
TCTATGGTATCAATACC
Found at i:742779 original size:19 final size:17
Alignment explanation
Indices: 742728--742780 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
742718 ATACTACTCT
*
742728 TCTATGGTATCAATACC
1 TCTATGGTACCAATACC
*
742745 TCTATGGTATCAATACC
1 TCTATGGTACCAATACC
*
742762 TCTACTCGGTACCGATACC
1 TCTA-T-GGTACCAATACC
742781 CTTTTTGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 21 0.66
18 1 0.03
19 10 0.31
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.32
Consensus pattern (17 bp):
TCTATGGTACCAATACC
Found at i:745345 original size:16 final size:16
Alignment explanation
Indices: 745324--745380 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 16
745314 TAACCGGTTT
745324 CGGTTTTAAAAAAAAC
1 CGGTTTTAAAAAAAAC
* *
745340 CGGTTTTTTAAAAAAAT
1 CGG-TTTTAAAAAAAAC
*
745357 CGGTTAT-AAAAAAAC
1 CGGTTTTAAAAAAAAC
*
745372 CGATTTTAA
1 CGGTTTTAA
745381 TACTCCAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 12 0.36
16 7 0.21
17 14 0.42
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (16 bp):
CGGTTTTAAAAAAAAC
Found at i:745573 original size:21 final size:21
Alignment explanation
Indices: 745549--745601 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
745539 ACACTTAGGG
745549 AACCGATTCCCTATGAGAGGA
1 AACCGATTCCCTATGAGAGGA
*
745570 AACCGATTCCCTATGAGAGGG
1 AACCGATTCCCTATGAGAGGA
*
745591 TACCGATTCCC
1 AACCGATTCCC
745602 CCACGCTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (21 bp):
AACCGATTCCCTATGAGAGGA
Found at i:745818 original size:13 final size:13
Alignment explanation
Indices: 745797--745851 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
745787 AAGTTTGATA
*
745797 AATTCAAATACTT
1 AATTGAAATACTT
745810 AATTGAAATACTT
1 AATTGAAATACTT
* *
745823 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
745837 AATTGAAATACTT
1 AATTGAAATACTT
745850 AA
1 AA
745852 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:745933 original size:32 final size:33
Alignment explanation
Indices: 745837--745935 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
745827 AACTCAACAT
* * *
745837 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
745870 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
745903 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
745935 A
1 A
745936 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:745954 original size:21 final size:21
Alignment explanation
Indices: 745930--745969 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
745920 ACTTCAAGTT
745930 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
745951 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
745970 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:749858 original size:414 final size:411
Alignment explanation
Indices: 748978--749773 Score: 1075
Period size: 414 Copynumber: 1.9 Consensus size: 411
748968 TTATTTTTGT
* * * *
748978 TGATAGTATAATTTTTCATAATGATTAAAATATATAACTACAAAAATAATTGATTACAAAAAACT
1 TGATACTAAAATTTCTCATAATGATTAAAATATATAAGTA-AAAAATAATTGATTACAAAAAACT
* * *
749043 TAATTTTATTATCTAATGTGATAATTTTTTCTATAATAATAATAATTATAAATTATAATTACGAA
65 TAATTTTATTATCTAATGTGATAATTTTTTC-ATAATAACAATAACTATAAATTATAATTACAAA
* * *
749108 ACTTATCAATATAAACTTTTGAAACAAAAAAGTGGAGAAAAATATTTATCACAATATATGTTATC
129 AATTATCAATATAAACTTTTGAAACAAAAAAGTGGAGAAAAATAGTTATCACAATATATGCTATC
* * *
749173 ACTATAATTAAAATTTATAACTACAAGTATAATTTGCCAAAAAATGTGAATATCATTATTTTTTG
194 ACTATAATTAAAATTTATAACTACAAATATAATTTGCCAAAAAACGTGAATAACATTATTTTTTG
*
749238 TGACAATTTTTTTTGTAATAATTATAAACACTTATAGTTACGAAAATTGTTACTATATGATTTTT
259 TGACAATGTTTTTTGTAATAATTATAAACACTTATAGTTACGAAAATTGTTACTATATGATTTTT
* * ***
749303 TGGCACAAAAAATATGTAGAAAAATCTTTATGACAATATATTGTGTTACTATATAACATTTTTTA
324 TGGCACAAAAAATATGAAGAAAAATCTTTATGACAATATATTGTGTCAC-ATATAACATTTAAAA
*
749368 CACTAAAAAATAGGGAGAAATGGTTA
388 CACTAAAAAACA--GAGAAATGGTTA
* * * *
749394 TGATAGTATAATTTTTCATAATGATTAAAATATATAAGTACAAAAATAATTTATTACAAAAAACT
1 TGATACTAAAATTTCTCATAATGATTAAAATATATAAGTA-AAAAATAATTGATTACAAAAAACT
* * *
749459 TGAATTTTATTATTTGATGTGATAATTTTTTC-T-ATAACAATAACTATAAATTATAATTATAAA
65 T-AATTTTATTATCTAATGTGATAATTTTTTCATAATAACAATAACTATAAATTATAATTACAAA
* *
749522 AATT-TCAATAT-AACTTTTGAAACAAAAAAAGTTGAGAAAAAATAGTTATGACAATATATGCTA
129 AATTATCAATATAAACTTTTGAAAC-AAAAAAGTGGAG-AAAAATAGTTATCACAATATATGCTA
* *
749585 TCACTATAGTTAAAATTTATAACTACAAATATAATTTGTCACAAAAACGTGAATAACATTATTTT
192 TCACTATAATTAAAATTTATAACTACAAATATAATTTGCCA-AAAAACGTGAATAACATTATTTT
* *
749650 TTTTGACAATGTTTTTTGTAATAATTATTAACACTTATAGTTAC-AAAATT-TATCACTATATGG
256 TTGTGACAATGTTTTTTGTAATAATTATAAACACTTATAGTTACGAAAATTGT-T-ACTATAT-G
* * ** *
749713 CTTTTTTGGCGCAAAAAAATATGAAGGGAAATCTTTATGACAATATATTTTGTCAC-TATAA
318 ATTTTTTGGCAC-AAAAAATATGAAGAAAAATCTTTATGACAATATATTGTGTCACATATAA
749774 TTAAAACATA
Statistics
Matches: 344, Mismatches: 28, Indels: 17
0.88 0.07 0.04
Matches are distributed among these distances:
412 12 0.03
413 19 0.06
414 97 0.28
415 75 0.22
416 75 0.22
417 66 0.19
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (411 bp):
TGATACTAAAATTTCTCATAATGATTAAAATATATAAGTAAAAAATAATTGATTACAAAAAACTT
AATTTTATTATCTAATGTGATAATTTTTTCATAATAACAATAACTATAAATTATAATTACAAAAA
TTATCAATATAAACTTTTGAAACAAAAAAGTGGAGAAAAATAGTTATCACAATATATGCTATCAC
TATAATTAAAATTTATAACTACAAATATAATTTGCCAAAAAACGTGAATAACATTATTTTTTGTG
ACAATGTTTTTTGTAATAATTATAAACACTTATAGTTACGAAAATTGTTACTATATGATTTTTTG
GCACAAAAAATATGAAGAAAAATCTTTATGACAATATATTGTGTCACATATAACATTTAAAACAC
TAAAAAACAGAGAAATGGTTA
Found at i:749890 original size:180 final size:180
Alignment explanation
Indices: 749567--749891 Score: 393
Period size: 180 Copynumber: 1.8 Consensus size: 180
749557 GAAAAAATAG
* ** * *
749567 TTATGACAATATATGCTATCACTATAGTTAAAATTTATAACTACAAATATAATTTGTCACAAAAA
1 TTATGACAATATATGCTATCACTATAATTAAAACATATAACGACAAAAATAATTTGTCACAAAAA
* * * * *
749632 CGTGAATAACATTATTTTTTTTGACAATGTTTTTTGTAATAATTATTAACACTTATAGTTACAAA
66 CGTGAATAACATTATTTGTTGTGACAATCTTTTTTGTAACAATAATTAACACTTATAGTTACAAA
**
749697 ATTTATCACTATATGGCTTTTTTGGCGCAAAAAAATATGAAGGGAAATCT
131 ACATATCACTATATGGCTTTTTTGGCGCAAAAAAATATGAAGGGAAATCT
** * ** * *
749747 TTATGACAATATATTTTGTCACTATAATTAAAACATATAACGACAAAAATTGTTTTTTACTAAAA
1 TTATGACAATATATGCTATCACTATAATTAAAACATATAACGACAAAAATAATTTGTCAC-AAAA
* ** *
749812 ACTTGAATCTCATTATTTGTTGTGACAA-CTTTTTTGTAACAATAATTATA-GCTTATAGTTACA
65 ACGTGAATAACATTATTTGTTGTGACAATCTTTTTTGTAACAATAATTA-ACACTTATAGTTACA
* *
749875 AAACATGTTACTATATG
129 AAACATATCACTATATG
749892 ATTTTGTTTT
Statistics
Matches: 118, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
180 90 0.76
181 28 0.24
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (180 bp):
TTATGACAATATATGCTATCACTATAATTAAAACATATAACGACAAAAATAATTTGTCACAAAAA
CGTGAATAACATTATTTGTTGTGACAATCTTTTTTGTAACAATAATTAACACTTATAGTTACAAA
ACATATCACTATATGGCTTTTTTGGCGCAAAAAAATATGAAGGGAAATCT
Found at i:753397 original size:95 final size:95
Alignment explanation
Indices: 753274--753448 Score: 332
Period size: 95 Copynumber: 1.8 Consensus size: 95
753264 AGACTGCCTC
*
753274 ATGGAAAGGCATTAGACATGCATTGCATTTTGGCGCAGTAGTTGAAAGTACTGCTTAGCATAGAC
1 ATGGAAAGGCATTAGACATGCATTGCATTTTGGCACAGTAGTTGAAAGTACTGCTTAGCATAGAC
753339 AAAAAGTTCTCTGTGCTATACTGCTTAGCA
66 AAAAAGTTCTCTGTGCTATACTGCTTAGCA
753369 ATGGAAAGGCATTAGACATGCATTGCATTTTGGCACAGTAGTTGAAAGTACTGCTTAGCATAGAC
1 ATGGAAAGGCATTAGACATGCATTGCATTTTGGCACAGTAGTTGAAAGTACTGCTTAGCATAGAC
*
753434 AAATAGTTCTCTGTG
66 AAAAAGTTCTCTGTG
753449 TTTTACTAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
95 78 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (95 bp):
ATGGAAAGGCATTAGACATGCATTGCATTTTGGCACAGTAGTTGAAAGTACTGCTTAGCATAGAC
AAAAAGTTCTCTGTGCTATACTGCTTAGCA
Found at i:754942 original size:84 final size:84
Alignment explanation
Indices: 754778--755031 Score: 456
Period size: 84 Copynumber: 3.0 Consensus size: 84
754768 GGACACCAAC
*
754778 CATTGCACTT-ACTCAGTCAAGGATCGAGTTTCCGGAAAAAAGTTCCGAGTCTTCATCAGCAAAT
1 CATTGCA-TTCACTCAGCCAAGGATCGAGTTTCCGG-AAAAAGTT-CGAGTCTTCATCAGCAAAT
754842 GGCATGGCTACAAGGTGCTAAA
63 GGCATGGCTACAAGGTGCTAAA
754864 CATTGCATTCACTCAGCCAAGGATCGAGTTTCCGGAAAAAGTTCGAGTCTTCATCAGCAAATGGC
1 CATTGCATTCACTCAGCCAAGGATCGAGTTTCCGGAAAAAGTTCGAGTCTTCATCAGCAAATGGC
754929 ATGGCTACAAGGTGCTAAA
66 ATGGCTACAAGGTGCTAAA
754948 CATTGCATTCACTCAGCCAAGGATCGAGTTTCCGGAAAAAGTTCGAGTCTTCATCAGCAAATGGC
1 CATTGCATTCACTCAGCCAAGGATCGAGTTTCCGGAAAAAGTTCGAGTCTTCATCAGCAAATGGC
*
755013 ATGGCTACAAGGTGATAAA
66 ATGGCTACAAGGTGCTAAA
755032 TATTATCGCG
Statistics
Matches: 165, Mismatches: 2, Indels: 4
0.96 0.01 0.02
Matches are distributed among these distances:
84 124 0.75
85 10 0.06
86 31 0.19
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (84 bp):
CATTGCATTCACTCAGCCAAGGATCGAGTTTCCGGAAAAAGTTCGAGTCTTCATCAGCAAATGGC
ATGGCTACAAGGTGCTAAA
Found at i:757140 original size:86 final size:86
Alignment explanation
Indices: 756984--757158 Score: 291
Period size: 86 Copynumber: 2.0 Consensus size: 86
756974 AATGGATACC
* *
756984 AAACATTGCATTTACTCAGCCAAGGATCGAGTTTCTGGAAAATAATTCCGAGTCTTCATCAGCAA
1 AAACATTGCATTCACTCAGCCAAGGATCGAGTTTCCGGAAAATAATTCCGAGTCTTCATCAGCAA
757049 ATGGCATGGCTACAAGGTGCT
66 ATGGCATGGCTACAAGGTGCT
*
757070 AAACATTGCGCATTCACTCAGCCAAGGATCGAGTTTCCGGAAAA-AGTT-CGAGTCTTCATCAGC
1 AAACATT--GCATTCACTCAGCCAAGGATCGAGTTTCCGGAAAATAATTCCGAGTCTTCATCAGC
757133 AAATGGCATGGCTACAAGGTGCT
64 AAATGGCATGGCTACAAGGTGCT
757156 AAA
1 AAA
757159 TATTATCGCG
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
86 48 0.57
87 3 0.04
88 33 0.39
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (86 bp):
AAACATTGCATTCACTCAGCCAAGGATCGAGTTTCCGGAAAATAATTCCGAGTCTTCATCAGCAA
ATGGCATGGCTACAAGGTGCT
Found at i:759326 original size:85 final size:86
Alignment explanation
Indices: 759176--759349 Score: 287
Period size: 85 Copynumber: 2.0 Consensus size: 86
759166 TATGAATACC
* * * * **
759176 AAACATTGCATTTACTCGGCCAAGGATCGAGTTTCTGGAGAAAAGTTCCGAGTCTTCATCAGCAA
1 AAACATTGCATTCACTCAGCCAAGGATCGAATTTCCGGAGAAAAGTTAAGAGTCTTCATCAGCAA
759241 ATGGCATGGCTACAAGGTGCT
66 ATGGCATGGCTACAAGGTGCT
759262 AAACATTGCATTCACTCAGCCAAGGATCGAATTTCCGGA-AAAAGTTAAGAGTCTTCATCAGCAA
1 AAACATTGCATTCACTCAGCCAAGGATCGAATTTCCGGAGAAAAGTTAAGAGTCTTCATCAGCAA
759326 ATGGCATGGCTACAAGGTGCT
66 ATGGCATGGCTACAAGGTGCT
759347 AAA
1 AAA
759350 TATTATCGCG
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 47 0.57
86 35 0.43
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (86 bp):
AAACATTGCATTCACTCAGCCAAGGATCGAATTTCCGGAGAAAAGTTAAGAGTCTTCATCAGCAA
ATGGCATGGCTACAAGGTGCT
Found at i:763974 original size:2 final size:2
Alignment explanation
Indices: 763967--764248 Score: 199
Period size: 2 Copynumber: 151.5 Consensus size: 2
763957 ATTATAAGAA
* *
763967 AT AT AT AT AT AT A- AT GT AT AT AT A- AT AA AT AT AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
764005 AT AT AA AT A- AT AT -T AT TT ACT AT A- AT AGT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT
* *
764045 AT AT AT AT AT AT -T AT A- AT AT AA AA AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
764084 -T AT AT AT A- AT AT ACT AT A- AT AT AT A- AA AT ACT AT AA AT A-
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT
*
764123 AT AA AT AT AT AT ACT AT AT AT A- AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
764164 AT A- AT A- AT AT ACT AT AT A- AT AT A- AT AT AT -T AT AT ACT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
*
764203 AT AA AT AT -T AT AT A- AT AT AT A- AT AT AT ACT AT A- AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
764241 A- AT AT AT A
1 AT AT AT AT A
764249 CCATATAATA
Statistics
Matches: 226, Mismatches: 17, Indels: 74
0.71 0.05 0.23
Matches are distributed among these distances:
1 29 0.13
2 181 0.80
3 16 0.07
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (2 bp):
AT
Found at i:764004 original size:7 final size:7
Alignment explanation
Indices: 763933--764259 Score: 192
Period size: 7 Copynumber: 46.7 Consensus size: 7
763923 TAAAATAATA
*
763933 AATAAAT
1 AATATAT
763940 AATATA-
1 AATATAT
763946 AATATTAT
1 AATA-TAT
763954 AATATTAT
1 AATA-TAT
*
763962 AAGAAATAT
1 -A-ATATAT
763971 ATATATAT
1 A-ATATAT
*
763979 AATGTAT
1 AATATAT
763986 -ATATAAT
1 AATAT-AT
763993 AAATATAT
1 -AATATAT
764001 AATAATAT
1 AAT-ATAT
764009 AA-ATAAT
1 AATAT-AT
* *
764016 ATTATTT
1 AATATAT
*
764023 ACTATAAT
1 AATAT-AT
*
764031 AGTATAT
1 AATATAT
764038 AATATAT
1 AATATAT
764045 -ATATAT
1 AATATAT
764051 ATATATTAT
1 A-ATA-TAT
764060 AATATA-
1 AATATAT
*
764066 AAAATAT
1 AATATAT
764073 -ATATAT
1 AATATAT
764079 AATAT-T
1 AATATAT
764085 -ATATAT
1 AATATAT
764091 AATATACT
1 AATATA-T
764099 -ATA-AT
1 AATATAT
*
764104 -ATATAA
1 AATATAT
764110 AATACTAT
1 AATA-TAT
764118 AA-ATAAT
1 AATAT-AT
764125 AA-ATAT
1 AATATAT
764131 -ATATACT
1 AATATA-T
764138 -ATATAT
1 AATATAT
764144 AATATAT
1 AATATAT
764151 AATATAT
1 AATATAT
764158 ATATATAT
1 A-ATATAT
764166 AATAATAT
1 AAT-ATAT
*
764174 ACTATAT
1 AATATAT
764181 AATATAAT
1 AATAT-AT
764189 ATATTATAT
1 A-A-TATAT
*
764198 ACTATAT
1 AATATAT
764205 AA-ATAT
1 AATATAT
764211 --TATAT
1 AATATAT
764216 AATATAT
1 AATATAT
764223 AATATAT
1 AATATAT
*
764230 -A-CTAT
1 AATATAT
764235 AAT-TAT
1 AATATAT
764241 AATATAT
1 AATATAT
**
764248 ACCATAT
1 AATATAT
764255 AATAT
1 AATAT
764260 GACATAATAT
Statistics
Matches: 258, Mismatches: 25, Indels: 74
0.72 0.07 0.21
Matches are distributed among these distances:
5 16 0.06
6 48 0.19
7 116 0.45
8 57 0.22
9 16 0.06
10 5 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:764095 original size:78 final size:78
Alignment explanation
Indices: 763941--764246 Score: 159
Period size: 85 Copynumber: 3.8 Consensus size: 78
763931 TAAATAAATA
* *
763941 ATATA-AATATTATAATATTATAAGAA-ATAT-ATATATATA-ATGTATATATAATAAATATATA
1 ATATATAATATTAT-ATA-TATAATAATATATAATATATATATATATATATAT-AT-AATATA-A
764002 ATAATATA-A-ATAATATT
61 A-AATATATATATAATATT
* * * *
764019 ATTTACTATAATAGTATATAATATATATATATATATATTATAATATAAAAATATATATATAATAT
1 A--TA-TATAATATTATAT-ATATA-ATA-ATATATAATAT-ATATATATATATATATATAATAT
* * * *
764084 -TATATATA-ATATACTATA
59 AAAAATATATATATAATATT
* *
764102 ATATATAA-AATACTATAAATAATAAATATATATACTATATATAATATATAATATATATATATAT
1 ATATATAATATTA-TATATATAAT-AATATATA-A-TATATAT-ATATAT-ATATATATA-ATAT
* *
764166 AATAATATACTATATAATATA
59 AAAAATATA-TATATAATATT
* *
764187 ATATATTATA-TACTATATA-AATATTATATAATATATA-ATATATACTATAATTATAATATA
1 ATATATAATATTA-TATATATAATAATATATAATATATATATATATA-TAT-A-TATAATATA
764247 TACCATATAA
Statistics
Matches: 181, Mismatches: 21, Indels: 50
0.72 0.08 0.20
Matches are distributed among these distances:
78 11 0.06
79 21 0.12
80 23 0.13
81 29 0.16
82 21 0.12
83 21 0.12
84 7 0.04
85 32 0.18
86 8 0.04
87 8 0.04
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (78 bp):
ATATATAATATTATATATATAATAATATATAATATATATATATATATATATATAATATAAAAATA
TATATATAATATT
Found at i:764255 original size:97 final size:94
Alignment explanation
Indices: 763927--764281 Score: 301
Period size: 94 Copynumber: 3.9 Consensus size: 94
763917 TGGACCTAAA
* * * *
763927 ATAATAAATAAATAATATA-AATATTATAATAT-TA-TA-AGA-AATATATATATATAATGTATA
1 ATAATATATAAATATTATATAATA-TATAATATATACTATATATAATATATA-ATAT-ATATATA
763987 TATAATAA-ATATATAATAATATAAATAATATTAT
63 TATAATAATATATAT-ATAATAT-AAT-ATATTAT
*
764021 -T--TACTAT-AATAGTATATAATATAT-ATATATA-TATATTATAATATA-AA-A-ATATATAT
1 ATAATA-TATAAATATTATATAATATATAATATATACTATA-TATAATATATAATATATATATAT
* *
764077 ATAAT-AT-TATATATAATATACTATAATAT
64 ATAATAATATATATATAATATAATATATTAT
* * *
764106 ATAA-A-AT-ACTA-TAAATAATAAAT-ATATATACTATATATAATATATAATATATATATATAT
1 ATAATATATAAATATTATATAATATATAATATATACTATATATAATATATAATATATATATATAT
764166 AATAATATACTATATAATATAATATATTAT
66 AATAATATA-TATATAATATAATATATTAT
* **
764196 ATACTATATAAATATTATATAATATATAATATATACTATAATTATAATATATACCATATA-ATAT
1 ATAATATATAAATATTATATAATATATAATATATACTAT-A-TATAATATATAATATATATATAT
*
764260 GA-CATAATATA-ATATAATATAA
64 -ATAATAATATATATATAATATAA
764282 CAGAAACCCG
Statistics
Matches: 218, Mismatches: 18, Indels: 50
0.76 0.06 0.17
Matches are distributed among these distances:
84 26 0.12
85 17 0.08
86 4 0.02
87 21 0.10
88 8 0.04
89 14 0.06
90 25 0.11
91 19 0.09
92 10 0.05
93 6 0.03
94 27 0.12
95 11 0.05
96 13 0.06
97 17 0.08
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (94 bp):
ATAATATATAAATATTATATAATATATAATATATACTATATATAATATATAATATATATATATAT
AATAATATATATATAATATAATATATTAT
Found at i:772630 original size:23 final size:23
Alignment explanation
Indices: 772597--772652 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
772587 GAACATATAT
*
772597 GTGGTCCTTCGGGATAATTCTAC
1 GTGGTCCTTCGGGACAATTCTAC
* *
772620 GTGGTCTTTCGGGACATTTCTAC
1 GTGGTCCTTCGGGACAATTCTAC
*
772643 GTTGTCCTTC
1 GTGGTCCTTC
772653 AGGAAATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.12, C:0.23, G:0.25, T:0.39
Consensus pattern (23 bp):
GTGGTCCTTCGGGACAATTCTAC
Found at i:776540 original size:21 final size:21
Alignment explanation
Indices: 776506--776564 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
776496 GTTTCTACGC
* * *
776506 GGTCCTTTGAGACATATATGT
1 GGTCCTTCGGGACATATAGGT
*
776527 GGTCCTTCGGGACAATTCTAGGT
1 GGTCCTTCGGGAC-A-TATAGGT
776550 GGTCCTTCGGGACAT
1 GGTCCTTCGGGACAT
776565 TTCTACGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 12 0.38
22 2 0.06
23 18 0.56
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (21 bp):
GGTCCTTCGGGACATATAGGT
Found at i:776554 original size:23 final size:23
Alignment explanation
Indices: 776525--776604 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
776515 AGACATATAT
*
776525 GTGGTCCTTCGGGACAATTCTAG
1 GTGGTCCTTCGGGACAATTCTAC
*
776548 GTGGTCCTTCGGGACATTTCTAC
1 GTGGTCCTTCGGGACAATTCTAC
* * *
776571 GTAGTCATTCGGGAC-ATTCTAT
1 GTGGTCCTTCGGGACAATTCTAC
*
776593 GTGGTACTTCGG
1 GTGGTCCTTCGG
776605 TGCAATTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
22 14 0.29
23 34 0.71
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (23 bp):
GTGGTCCTTCGGGACAATTCTAC
Found at i:780607 original size:12 final size:12
Alignment explanation
Indices: 780590--780619 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
780580 AGTAAAATAG
780590 AAATAATAATCA
1 AAATAATAATCA
*
780602 AAATAATAATGA
1 AAATAATAATCA
780614 AAATAA
1 AAATAA
780620 AAAATCCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (12 bp):
AAATAATAATCA
Found at i:782549 original size:21 final size:21
Alignment explanation
Indices: 782523--782566 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
782513 TTTCTGGGCT
* *
782523 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
782544 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
782565 AG
1 AG
782567 CGAACAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:782636 original size:22 final size:22
Alignment explanation
Indices: 782593--782636 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
782583 GAATGTCATG
*
782593 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
* *
782615 GGGAACCGATTCCCCTAAAGGA
1 GGGAACCGATACCCCCAAAGGA
782637 AAATTGTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:786011 original size:9 final size:8
Alignment explanation
Indices: 785977--786301 Score: 126
Period size: 9 Copynumber: 39.0 Consensus size: 8
785967 AACCTAAAAT
*
785977 AATAAATA
1 AATATATA
* *
785985 AATAAATT
1 AATATATA
785993 AATAATATA
1 AAT-ATATA
786002 AATATGAT-
1 AATAT-ATA
786010 AATATTATA
1 AATA-TATA
*
786019 AGTA-ATA
1 AATATATA
*
786026 TATATAATA
1 AATAT-ATA
786035 AATATAT-
1 AATATATA
786042 AATATAT-
1 AATATATA
786049 AATAATACTA
1 AAT-ATA-TA
*
786059 TATACTATA
1 AATA-TATA
*
786068 ATAGTACATA
1 A-A-TATATA
786078 ATATATATA
1 A-ATATATA
*
786087 TAATATAACA
1 -AATAT-ATA
786097 AATATATA
1 AATATATA
*
786105 TA-ATAT-
1 AATATATA
*
786111 ACTATATA
1 AATATATA
786119 AATATAT-
1 AATATATA
786126 AATATAT-
1 AATATATA
786133 -A-ATATA
1 AATATATA
786139 AATATTATA
1 AATA-TATA
*
786148 TATATATA
1 AATATATA
786156 TAATACTATA
1 -AATA-TATA
786166 AATA-ATTA
1 AATATA-TA
786174 ATATATATTA
1 A-ATATA-TA
786184 TAATATATA
1 -AATATATA
786193 TAATATAT-
1 -AATATATA
786201 AATATAATA
1 AATAT-ATA
*
786210 ATTA-ATA
1 AATATATA
*
786217 ATTA-AT-
1 AATATATA
786223 AATATATA
1 AATATATA
786231 TAATATAATA
1 -AATAT-ATA
*
786241 TATATTATA
1 AATA-TATA
*
786250 TACTATATA
1 -AATATATA
786259 AATATTATA
1 AATA-TATA
786268 TAATATATAA
1 -AATATAT-A
786278 AATATACTA
1 AATATA-TA
786287 TAAT-TAT-
1 -AATATATA
786294 AATATATA
1 AATATATA
786302 CCATATAATA
Statistics
Matches: 251, Mismatches: 25, Indels: 82
0.70 0.07 0.23
Matches are distributed among these distances:
5 4 0.02
6 7 0.03
7 51 0.20
8 46 0.18
9 98 0.39
10 42 0.17
11 3 0.01
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (8 bp):
AATATATA
Found at i:786026 original size:12 final size:13
Alignment explanation
Indices: 785995--786245 Score: 92
Period size: 12 Copynumber: 19.8 Consensus size: 13
785985 AATAAATTAA
* *
785995 TAATATAAATATG
1 TAATATATATAAG
786008 ATAATAT-TATAAG
1 -TAATATATATAAG
786021 TAATATATATAA-
1 TAATATATATAAG
786033 TAA-ATATATAA-
1 TAATATATATAAG
786044 T-ATATA-ATAA-
1 TAATATATATAAG
*
786054 TACTATATACT-A-
1 TAATATATA-TAAG
* *
786066 TAATAGTACATAATA
1 TAATA-TATATAA-G
*
786081 TATATATAATATAAC
1 TA-ATAT-ATATAAG
*
786096 AAATATATATAA-
1 TAATATATATAAG
*
786108 T-ATACTATATAAA
1 TAATA-TATATAAG
786121 TATATAATATATAA-
1 TA-AT-ATATATAAG
* *
786135 T-ATAAATATTA-
1 TAATATATATAAG
786146 TATATATATATAA-
1 TA-ATATATATAAG
* * *
786159 TACTATAAATAAT
1 TAATATATATAAG
*
786172 TAATATATATTA-
1 TAATATATATAAG
786184 TAATATATATAA-
1 TAATATATATAAG
*
786196 TATATAATATAATAAT
1 TA-AT-ATAT-ATAAG
786212 TAATA-AT-TAA-
1 TAATATATATAAG
*
786222 TAATATATATAATA
1 TAATATATATAA-G
786236 TAATATATAT
1 TAATATATAT
786246 TATATACTAT
Statistics
Matches: 191, Mismatches: 19, Indels: 54
0.72 0.07 0.20
Matches are distributed among these distances:
10 11 0.06
11 31 0.16
12 49 0.26
13 44 0.23
14 26 0.14
15 19 0.10
16 11 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (13 bp):
TAATATATATAAG
Found at i:786030 original size:2 final size:2
Alignment explanation
Indices: 786023--786301 Score: 155
Period size: 2 Copynumber: 154.5 Consensus size: 2
786013 ATTATAAGTA
*
786023 AT AT AT AT A- AT AA AT AT AT A- AT AT AT A- AT A- AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * *
786062 ACT AT A- AT AGT AC AT A- AT AT AT AT AT A- AT AT A- AC AA AT AT
1 A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
786102 AT AT A- AT AT ACT AT AT AA AT AT AT A- AT AT AT A- AT AT AA AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
786142 AT -T AT AT AT AT AT AT A- AT ACT AT AA AT A- AT -T A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
786180 AT -T AT A- AT AT AT AT A- AT AT AT A- AT AT A- AT A- AT -T A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
786214 AT A- AT -T A- AT A- AT AT AT AT A- AT AT A- AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
786249 AT ACT AT AT AA AT AT -T AT AT A- AT AT AT A- AA AT AT ACT AT A-
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
786289 AT -T AT A- AT AT AT A
1 AT AT AT AT AT AT AT A
786302 CCATATAATA
Statistics
Matches: 218, Mismatches: 15, Indels: 88
0.68 0.05 0.27
Matches are distributed among these distances:
1 37 0.17
2 167 0.77
3 14 0.06
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:786048 original size:18 final size:18
Alignment explanation
Indices: 785981--786297 Score: 168
Period size: 19 Copynumber: 17.2 Consensus size: 18
785971 TAAAATAATA
*
785981 AATAAATAAATTAATA-AT
1 AATAAATATA-TAATATAT
785999 -ATAAATATGATAATAT-T
1 AATAAATAT-ATAATATAT
*
786016 -ATAAGTA-AT-ATATAT
1 AATAAATATATAATATAT
786031 AATAAATATATAATATAT
1 AATAAATATATAATATAT
786049 AATAATACTATATACTATAATAGT
1 AATAA-A-TATATA--AT-ATA-T
786073 ACAT-AATATATATATAATAT
1 A-ATAAATATATA-AT-ATAT
*
786093 AACAAATATATATAATATACT
1 AA-TAA-ATATATAATATA-T
786114 ATATAAATATATAATATAT
1 A-ATAAATATATAATATAT
*
786133 AATATAA-ATATTATATAT
1 AATA-AATATATAATATAT
* *
786151 -ATATATA-ATACTATA-
1 AATAAATATATAATATAT
*
786166 AATAATTA-AT-ATATAT
1 AATAAATATATAATATAT
*
786182 TATAATATATATAATATAT
1 AATAA-ATATATAATATAT
786201 AATATAATA-ATTAATA-ATT
1 AATA-AATATA-TAATATA-T
786220 AATAATATATATAATATA-
1 AATAA-ATATATAATATAT
* *
786238 ATATATATTATATACTATAT
1 A-ATA-AATATATAATATAT
*
786258 AA-ATATTATATAATATAT
1 AATA-AATATATAATATAT
786276 AA-AATATACTATAAT-TAT
1 AATAA-ATA-TATAATATAT
786294 AATA
1 AATA
786298 TATACCATAT
Statistics
Matches: 243, Mismatches: 19, Indels: 73
0.73 0.06 0.22
Matches are distributed among these distances:
14 4 0.02
15 7 0.03
16 24 0.10
17 28 0.12
18 56 0.23
19 57 0.23
20 28 0.12
21 14 0.06
22 16 0.07
23 4 0.02
24 3 0.01
25 2 0.01
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (18 bp):
AATAAATATATAATATAT
Found at i:786243 original size:7 final size:7
Alignment explanation
Indices: 785994--786312 Score: 214
Period size: 7 Copynumber: 46.0 Consensus size: 7
785984 AAATAAATTA
785994 ATAATAT
1 ATAATAT
786001 A-AATAT
1 ATAATAT
786007 GATAATATT
1 -ATAATA-T
786016 ATAAGTA-
1 ATAA-TAT
786023 ATATATAT
1 ATA-ATAT
786031 AATAAATAT
1 -AT-AATAT
786040 ATAATAT
1 ATAATAT
786047 ATAATA-
1 ATAATAT
*
786053 ATACTAT
1 ATAATAT
*
786060 ATACTAT
1 ATAATAT
* *
786067 AATAGTAC
1 -ATAATAT
786075 ATAATAT
1 ATAATAT
786082 ATATATAAT
1 ATA-AT-AT
* *
786091 ATAACAA
1 ATAATAT
786098 AT-ATAT
1 ATAATAT
786104 ATAATAT
1 ATAATAT
786111 ACT-ATAT
1 A-TAATAT
786118 A-AATAT
1 ATAATAT
786124 ATAATAT
1 ATAATAT
786131 ATAATAT
1 ATAATAT
786138 A-AATAT
1 ATAATAT
786144 -T-ATAT
1 ATAATAT
786149 AT-ATAT
1 ATAATAT
786155 ATAATACT
1 ATAATA-T
786163 ATAA-AT
1 ATAATAT
786169 AATTAATAT
1 -A-TAATAT
*
786178 ATATTAT
1 ATAATAT
786185 A-ATATAT
1 ATA-ATAT
786192 ATAATAT
1 ATAATAT
786199 ATAATAT
1 ATAATAT
786206 AATAAT-T
1 -ATAATAT
786213 AATAAT-T
1 -ATAATAT
786220 AATAATAT
1 -ATAATAT
786228 AT-ATAAT
1 ATAAT-AT
786235 ATAATAT
1 ATAATAT
*
786242 ATATTAT
1 ATAATAT
*
786249 ATACTAT
1 ATAATAT
786256 ATAA-AT
1 ATAATAT
786262 AT--TAT
1 ATAATAT
786267 ATAATAT
1 ATAATAT
786274 ATAA-A-
1 ATAATAT
786279 AT-ATACT
1 ATAATA-T
786286 ATAAT-T
1 ATAATAT
786292 ATAATAT
1 ATAATAT
**
786299 ATACCAT
1 ATAATAT
786306 ATAATAT
1 ATAATAT
786313 GACATAATAT
Statistics
Matches: 257, Mismatches: 18, Indels: 74
0.74 0.05 0.21
Matches are distributed among these distances:
4 1 0.00
5 11 0.04
6 46 0.18
7 142 0.55
8 40 0.16
9 16 0.06
10 1 0.00
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (7 bp):
ATAATAT
Found at i:786328 original size:20 final size:19
Alignment explanation
Indices: 786013--786329 Score: 111
Period size: 20 Copynumber: 17.1 Consensus size: 19
786003 ATATGATAAT
786013 ATTATAAGTAATATA-TATA
1 ATTATAA-TAATATACTATA
*
786032 A-TA-AAT-ATATAATAT-
1 ATTATAATAATATACTATA
*
786047 ATAATAATACTATATACTATA
1 ATTATAATA--ATATACTATA
786068 A-TAGTACATAATATA-TATA
1 ATTA-TA-ATAATATACTATA
* *
786087 TAATATAACAAATATA-TATA
1 -ATTATAA-TAATATACTATA
786107 ATATACTATATAA-ATA-TATA
1 AT-TA-TA-ATAATATACTATA
*
786127 A-TAT-ATAATATA-AAT-
1 ATTATAATAATATACTATA
786142 ATTAT-AT-ATATA-TATA
1 ATTATAATAATATACTATA
*
786158 ATACTATAAATAAT-TAATATA
1 AT--TAT-AATAATATACTATA
*
786179 TATTATAATATATATAATATA
1 -ATTATAATA-ATATACTATA
*
786200 TAATATAATAAT-TA--ATA
1 -ATTATAATAATATACTATA
786217 A-T-TAATAATATA-TATA
1 ATTATAATAATATACTATA
*
786233 A-TATAAT-ATATATTATA
1 ATTATAATAATATACTATA
*
786250 TACTAT-ATAAATATTA-TATA
1 -ATTATAAT-AATA-TACTATA
786270 ATATATAA-AATATACTATA
1 AT-TATAATAATATACTATA
786289 ATTATAAT-ATATACCATATA
1 ATTATAATAATATA-C-TATA
786309 A-TATGACATAATATACTATA
1 ATTAT-A-ATAATATACTATA
786329 A
1 A
786330 CAGAAATCCT
Statistics
Matches: 243, Mismatches: 10, Indels: 89
0.71 0.03 0.26
Matches are distributed among these distances:
14 7 0.03
15 21 0.09
16 28 0.12
17 17 0.07
18 22 0.09
19 31 0.13
20 69 0.28
21 37 0.15
22 11 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (19 bp):
ATTATAATAATATACTATA
Found at i:792009 original size:13 final size:13
Alignment explanation
Indices: 791991--792016 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
791981 TTACAAATAA
791991 GAAGACATATTTT
1 GAAGACATATTTT
792004 GAAGACATATTTT
1 GAAGACATATTTT
792017 TACAAGTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
GAAGACATATTTT
Found at i:794025 original size:2 final size:2
Alignment explanation
Indices: 794018--794042 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
794008 TTAATAGATC
794018 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
794043 AAAGATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:795526 original size:3 final size:3
Alignment explanation
Indices: 795518--795576 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
795508 TTAATCCTTT
*
795518 TTA TTA TTA TTTA TT- TTA TTA TT- TTA TCT- TT- TTA TT- TTA ATA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
795560 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
795577 TTTGTTTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
2 9 0.19
3 35 0.73
4 4 0.08
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:795552 original size:13 final size:13
Alignment explanation
Indices: 795521--795573 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
795511 ATCCTTTTTA
795521 TTATTA-TTTATT
1 TTATTATTTTATT
795533 TTATTATTTTATCT
1 TTATTATTTTAT-T
*
795547 TT-TTATTTTAATA
1 TTATTATTTT-ATT
795560 TTATTATTATTATT
1 TTATTATT-TTATT
795574 ATTTTTGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 6 0.18
13 14 0.41
14 12 0.35
15 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTATTTTATT
Found at i:795617 original size:2 final size:2
Alignment explanation
Indices: 795605--795637 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
795595 AAAGATATTG
*
795605 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
795638 TTCTTAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:795865 original size:14 final size:14
Alignment explanation
Indices: 795842--795872 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
795832 TTGTTTTATG
*
795842 TTATTTTTATTTTT
1 TTATTATTATTTTT
795856 TTATTATTATTTTT
1 TTATTATTATTTTT
795870 TTA
1 TTA
795873 CCTTTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTATTATTATTTTT
Found at i:795870 original size:22 final size:22
Alignment explanation
Indices: 795845--795890 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
795835 TTTTATGTTA
*
795845 TTTTTA-TTTTTTTATTATTATT
1 TTTTTACTTTTTATATT-TTATT
795867 TTTTTACCTTTTTATATTTTATT
1 TTTTTA-CTTTTTATATTTTATT
795890 T
1 T
795891 CCTTTCTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 6 0.29
24 9 0.43
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTACTTTTTATATTTTATT
Found at i:796034 original size:16 final size:18
Alignment explanation
Indices: 796013--796052 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
796003 TATCTTTGCC
796013 TTATTTTGATT-TT-TCT
1 TTATTTTGATTATTCTCT
*
796029 TTATTTTTATTATTCTCT
1 TTATTTTGATTATTCTCT
796047 TTATTT
1 TTATTT
796053 CATACGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 2 0.10
18 9 0.43
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (18 bp):
TTATTTTGATTATTCTCT
Found at i:798647 original size:17 final size:18
Alignment explanation
Indices: 798591--798647 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 18
798581 TCCTTTAATT
*
798591 TAATAAAAATATTTATTAT
1 TAATAAAAATA-TTATTAA
*
798610 TAATAATTAAATATTAGTAA
1 TAATAA--AAATATTATTAA
798630 TAATAAAAATA-TATTAA
1 TAATAAAAATATTATTAA
798647 T
1 T
798648 CTTATAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 6 0.18
20 11 0.33
21 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TAATAAAAATATTATTAA
Found at i:798871 original size:2 final size:2
Alignment explanation
Indices: 798864--798897 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
798854 TAATAAAATG
798864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
798898 TAATCATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:799180 original size:13 final size:12
Alignment explanation
Indices: 799160--799195 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
799150 TGTTTTGAAT
799160 TTTTTAAAAATA
1 TTTTTAAAAATA
799172 TTATTTAAAAATA
1 TT-TTTAAAAATA
799185 TTTTTATAAAA
1 TTTTTA-AAAA
799196 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTTTAAAAATA
Found at i:801829 original size:10 final size:10
Alignment explanation
Indices: 801814--801848 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
801804 TTCATCACAC
801814 CAAATTCTCT
1 CAAATTCTCT
801824 CAAATTCTCT
1 CAAATTCTCT
* *
801834 TAATTTCTCT
1 CAAATTCTCT
801844 CAAAT
1 CAAAT
801849 GCTTTTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:801911 original size:25 final size:25
Alignment explanation
Indices: 801871--801938 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 25
801861 TCTTCTAAGG
*
801871 TATATTTTATTATATTTTTAATATTT
1 TATATTTAATT-TATTTTTAATATTT
801897 TATATTTAATTTA--TTTAATATTT
1 TATATTTAATTTATTTTTAATATTT
801920 TACTTATTTAATTT-TTTTT
1 TA--TATTTAATTTATTTTT
801939 GCAAATATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
23 12 0.32
25 12 0.32
26 13 0.35
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (25 bp):
TATATTTAATTTATTTTTAATATTT
Found at i:801926 original size:16 final size:16
Alignment explanation
Indices: 801892--801935 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
801882 ATATTTTTAA
* * *
801892 TATTTTATATTTAATT
1 TATTTAATATTTTACT
801908 TATTTAATATTTTACT
1 TATTTAATATTTTACT
801924 TATTTAAT-TTTT
1 TATTTAATATTTT
801936 TTTGCAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTAATATTTTACT
Found at i:819868 original size:14 final size:14
Alignment explanation
Indices: 819869--819909 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
819859 CTAGAATGCA
819869 AATGTATATTCCAG
1 AATGTATATTCCAG
819883 AATGTATATTCCAG
1 AATGTATATTCCAG
*
819897 AATGCATATTCCA
1 AATGTATATTCCA
819910 ATATTCTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (14 bp):
AATGTATATTCCAG
Found at i:819877 original size:20 final size:20
Alignment explanation
Indices: 819849--819886 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
819839 ACACGTTAAC
*
819849 AATGCATATTCTAGAATGCA
1 AATGCATATTCCAGAATGCA
*
819869 AATGTATATTCCAGAATG
1 AATGCATATTCCAGAATG
819887 TATATTCCAG
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:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (20 bp):
AATGCATATTCCAGAATGCA
Found at i:820061 original size:35 final size:35
Alignment explanation
Indices: 820012--820125 Score: 167
Period size: 35 Copynumber: 3.3 Consensus size: 35
820002 TAGTAAATCA
*
820012 TCCGTTCTAGTTGAATCGAAAGTGCGATGCTTCCT
1 TCCGTTCTAATTGAATCGAAAGTGCGATGCTTCCT
*
820047 TCCGTTCGAATTGAATCGAAAGTGCGATGCTTCCT
1 TCCGTTCTAATTGAATCGAAAGTGCGATGCTTCCT
** *
820082 TCCGTTCTTCTTGAATCGAAAGTGCGATGCCTCCCT
1 TCCGTTCTAATTGAATCGAAAGTGCGATG-CTTCCT
820118 T-CGTTCTA
1 TCCGTTCTA
820126 CTATAGACGA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
35 65 0.92
36 6 0.08
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (35 bp):
TCCGTTCTAATTGAATCGAAAGTGCGATGCTTCCT
Found at i:822976 original size:2 final size:2
Alignment explanation
Indices: 822923--822957 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
822913 CCGCCCCGAT
822923 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
822958 TTTATATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:825868 original size:14 final size:14
Alignment explanation
Indices: 825814--825872 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
825804 GATTATGTTA
* **
825814 AACATAAATGAATA
1 AACATAAACGAACG
* *
825828 AACATAACCAAACG
1 AACATAAACGAACG
825842 AACATAAACGAACG
1 AACATAAACGAACG
*
825856 AACATAAATGAACG
1 AACATAAACGAACG
825870 AAC
1 AAC
825873 GAGACTTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.59, C:0.19, G:0.10, T:0.12
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:829182 original size:30 final size:30
Alignment explanation
Indices: 829146--829207 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
829136 CATATCGCGG
*
829146 AGACATATTATTTCCATACCTTTATCACAT
1 AGACATATCATTTCCATACCTTTATCACAT
829176 AGACATATCATTTCCATACCTTTATCACAT
1 AGACATATCATTTCCATACCTTTATCACAT
829206 AG
1 AG
829208 CTCATATAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (30 bp):
AGACATATCATTTCCATACCTTTATCACAT
Found at i:832517 original size:26 final size:25
Alignment explanation
Indices: 832452--832529 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
832442 ACTTTATACG
*
832452 TTTT-TATA-TATATTTTTTCTTAATA
1 TTTTATATATTATATTTTTACTT--TA
*
832477 TTTTAT-T-TT-TGTTTTTA-TTTA
1 TTTTATATATTATATTTTTACTTTA
832498 TTTATATATATTATATTTTTACTTTA
1 TTT-TATATATTATATTTTTACTTTA
832524 TTTTAT
1 TTTTAT
832530 TTTTTCTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
21 5 0.12
22 3 0.07
23 3 0.07
24 8 0.19
25 16 0.37
26 8 0.19
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (25 bp):
TTTTATATATTATATTTTTACTTTA
Found at i:832597 original size:37 final size:35
Alignment explanation
Indices: 832525--832618 Score: 95
Period size: 36 Copynumber: 2.6 Consensus size: 35
832515 TTTACTTTAT
*
832525 TTTATTTTTTCTATT-TTTT-CTTAATATCATGTATATC
1 TTTATTTTTT-TATTGTTTTACTTAATAT-A--TATATA
832562 TTTATTTTTTTACTTGTTTTACTTAATAT-TATATA
1 TTTATTTTTTTA-TTGTTTTACTTAATATATATATA
832597 TTTATTATTTTTATTTGTTTTA
1 TTTATT-TTTTTA-TTGTTTTA
832619 GTAAATACTA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
35 11 0.22
36 16 0.31
37 12 0.24
38 4 0.08
39 8 0.16
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.68
Consensus pattern (35 bp):
TTTATTTTTTTATTGTTTTACTTAATATATATATA
Found at i:835826 original size:13 final size:13
Alignment explanation
Indices: 835808--835852 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
835798 CAAAAGGAGA
*
835808 AAAAAATAAAAAT
1 AAAAAATAAAAAG
835821 AAAAAATAAAAAG
1 AAAAAATAAAAAG
*
835834 AAAAAAGAAAAAG
1 AAAAAATAAAAAG
835847 AAAAAA
1 AAAAAA
835853 ACAAAGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAAAATAAAAAG
Found at i:835862 original size:19 final size:18
Alignment explanation
Indices: 835808--835874 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 18
835798 CAAAAGGAGA
* *
835808 AAAAAATAAAAATAAAAAAT
1 AAAAAA-AAAAA-GAAAAAG
835828 AAAAAGAAAAAAGAAAAAG
1 AAAAA-AAAAAAGAAAAAG
* *
835847 AAAAAAACAAAGGAAAATTG
1 AAAAAAA-AAAAGAAAA-AG
835867 AAAAAAAA
1 AAAAAAAA
835875 GACAATATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.05
19 19 0.47
20 18 0.45
21 1 0.03
ACGTcount: A:0.82, C:0.01, G:0.09, T:0.07
Consensus pattern (18 bp):
AAAAAAAAAAAGAAAAAG
Found at i:837576 original size:37 final size:38
Alignment explanation
Indices: 837521--837595 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
837511 GAAGATTTTA
* * *
837521 TCTCGCTTGAGATAGTTTCCCTTGAAACA-AAATATTG
1 TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
*
837558 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTG
1 TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
837596 AAAACATTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
37 26 0.79
38 7 0.21
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (38 bp):
TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
Found at i:837660 original size:37 final size:37
Alignment explanation
Indices: 837602--837688 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
837592 ATTGAAAACA
* * * **
837602 TTTCCCTTTAAAC-GAATTTTGTCTCTCTTGAGATTG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
837638 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
837675 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
837689 TAAACATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 12 0.27
37 32 0.73
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:837691 original size:102 final size:102
Alignment explanation
Indices: 837515--837891 Score: 470
Period size: 102 Copynumber: 3.7 Consensus size: 102
837505 TAAAAAGAAG
* * *
837515 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* *
837580 TGAAACATAAACATTGAAAACATTTCCCTTTAAACGA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
*
837617 ATTTTGTCTCTCTTGAGATTGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* *
837682 TGAAACATAAACATTGAAATCATTTCCCTTGAAATAA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
* *
837719 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
** * ** ***
837783 TGAAACA-AATTATTTGAATATGTTTTATTTGAAACAA
66 TGAAACATAAACA-TTGAAAACATTTCCCTTGAAACAA
** * * ** * * * *
837820 ATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
837885 TAAAACA
66 TGAAACA
837892 AATTTCGTCT
Statistics
Matches: 242, Mismatches: 31, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
100 3 0.01
101 78 0.32
102 161 0.67
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
Found at i:837733 original size:21 final size:21
Alignment explanation
Indices: 837709--837770 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
837699 AATCATTTCC
837709 CTTGAAATAAATTTTGTCTCT
1 CTTGAAATAAATTTTGTCTCT
* *
837730 CTTGAGAT--A-GTT-TC-C-
1 CTTGAAATAAATTTTGTCTCT
*
837745 CTTGAAACAAATTTTGTCTCT
1 CTTGAAATAAATTTTGTCTCT
837766 CTTGA
1 CTTGA
837771 GACAGTTTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
15 6 0.20
16 1 0.03
17 3 0.10
18 4 0.13
19 3 0.10
20 1 0.03
21 12 0.40
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (21 bp):
CTTGAAATAAATTTTGTCTCT
Found at i:837751 original size:36 final size:36
Alignment explanation
Indices: 837704--837936 Score: 221
Period size: 36 Copynumber: 6.6 Consensus size: 36
837694 ATTGAAATCA
* *
837704 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
837740 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
837776 TTTCCCTTGAAACAAA-----T-TAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA-G
*** ** *
837805 TTTTATTTGAAACAAATTTCATCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
** * *
837841 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* * *
837878 TTTCTCTTAAAACAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
837914 TTTCCCTTGAAACCAAATCTTTG
1 TTTCCCTTGAAA-CAAAT-TTTG
837937 AATTTATTTC
Statistics
Matches: 160, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
28 2 0.01
29 18 0.11
30 2 0.01
31 1 0.01
34 1 0.01
35 1 0.01
36 96 0.60
37 36 0.22
38 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:837837 original size:203 final size:204
Alignment explanation
Indices: 837515--837891 Score: 490
Period size: 203 Copynumber: 1.9 Consensus size: 204
837505 TAAAAAGAAG
*
837515 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCCCT
* * ** * **
837580 TGAAACATAAACATTGAAAACATTTCCCTTTAAACGAATTTTGTCTCTCTTGAGATTGTTTCCCT
66 TGAAACATAAACATTGAAAACATTTCCATTTAAACAAATTTCATCTCCCTTGAGACAGTTTCCCT
*
837645 TGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAATCATTTCCC
131 TGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACATAAACATTGAAATCATTTCCC
837710 TTGAAATAA
196 TTGAAATAA
* * * *
837719 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCCCT
** * ** * *
837783 TGAAACA-AATTATTTGAATATGTTT-TATTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCT
66 TGAAACATAAACA-TTGAAAACATTTCCATTT-AAACAAATTTCATCTCCCTTGAGACAGTTTCC
* * * * *
837846 TTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACA
129 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACA
837892 AATTTCGTCT
Statistics
Matches: 146, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
202 6 0.04
203 108 0.74
204 32 0.22
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (204 bp):
ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCCCT
TGAAACATAAACATTGAAAACATTTCCATTTAAACAAATTTCATCTCCCTTGAGACAGTTTCCCT
TGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACATAAACATTGAAATCATTTCCC
TTGAAATAA
Found at i:837862 original size:138 final size:138
Alignment explanation
Indices: 837720--837983 Score: 386
Period size: 138 Copynumber: 1.9 Consensus size: 138
837710 TTGAAATAAA
* * *
837720 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG
* * ** *
837785 AAA-CAAATTATTTGAATATGTTTTATTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTT
66 AAACCAAA-TATTTGAATATATTTCACCTAAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTT
837849 GGAACTAAG
130 GGAACTAAG
*
837858 TTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG
* * * **
837923 AAACCAAATCTTTGAATTTATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCT
66 AAACCAAATATTTGAATATATTTCACCTAAAACAAATTTCATCTCCCTTGAGACAGTTTCT
837984 CTTGAAACAA
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
138 107 0.96
139 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.41
Consensus pattern (138 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG
AAACCAAATATTTGAATATATTTCACCTAAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTG
GAACTAAG
Found at i:837881 original size:37 final size:36
Alignment explanation
Indices: 837814--837931 Score: 137
Period size: 37 Copynumber: 3.2 Consensus size: 36
837804 GTTTTATTTG
* * * *
837814 AAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTG
1 AAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTA
* * *
837850 GAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTA
1 AAAC-AAATTTCGTCTCTCTTGAGACAGTTTCTCTTA
*
837887 AAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGA
1 AAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTT-A
*
837924 AACCAAAT
1 AAACAAAT
837932 CTTTGAATTT
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
36 31 0.46
37 37 0.54
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (36 bp):
AAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTA
Found at i:838910 original size:110 final size:107
Alignment explanation
Indices: 838712--838969 Score: 315
Period size: 110 Copynumber: 2.4 Consensus size: 107
838702 GCTTCCTAGT
* *
838712 TTCAGAGCCAATTTCAACTTCACAGC-AAGGGATATTGGACTCAAGACAACACAAGCTCAACTTC
1 TTCAGAGCCAATTTCAACTTCACAACGAA-GGATATTGGACTCGAGACAACACAAGCTCAACTTC
* * * *
838776 ACAACGAATGGGAGACTGATTGTCAACAAACAACTTTTCAGTTTC
65 ACAACGAAGGGGAGACTGACTGTCAACAAACAA-TTTCCA-ATTC
* * *
838821 ATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCGAGACAACACGAGCTCAACTTC
1 -TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTC
** * * *
838886 ACAGTGAAGGGGCGGCTGGCTGTCAACAAACAATTTCCAATTC
65 ACAACGAAGGGGAGACTGACTGTCAACAAACAATTTCCAATTC
* *
838929 --CAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACTCG
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCG
838970 GAACAATACT
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
105 37 0.29
108 3 0.02
109 5 0.04
110 82 0.64
111 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (107 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCA
CAACGAAGGGGAGACTGACTGTCAACAAACAATTTCCAATTC
Found at i:840365 original size:14 final size:14
Alignment explanation
Indices: 840339--840387 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
840329 ATATTCCTCT
840339 TTTAT-TTAT-TTA
1 TTTATATTATATTA
840351 TTTATATTATATTA
1 TTTATATTATATTA
*
840365 TTTTTATTATATATA
1 TTTATATTATAT-TA
840380 TCTTATAT
1 T-TTATAT
840388 CATTATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 5 0.16
13 4 0.13
14 14 0.45
15 3 0.10
16 5 0.16
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATATTATATTA
Found at i:840369 original size:28 final size:29
Alignment explanation
Indices: 840296--840387 Score: 75
Period size: 28 Copynumber: 3.2 Consensus size: 29
840286 CTCCTATATA
*
840296 TATATT-TAATTATATTTAATTTATTTATT
1 TATATTAT-ATTATATTTTATTTATTTATT
** *
840325 TACTA-TAT-TCCTCTTTTATTTATTTATT
1 TA-TATTATATTATATTTTATTTATTTATT
*
840353 TATATTATATTAT-TTTTATTATATATATCT
1 TATATTATATTATATTTTATT-TATTTAT-T
840383 TATAT
1 TATAT
840388 CATTATATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
27 2 0.04
28 28 0.56
29 11 0.22
30 9 0.18
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (29 bp):
TATATTATATTATATTTTATTTATTTATT
Done.