Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007950.1 Hibiscus syriacus cultivar Beakdansim tig00110372_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: 1941792
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:635361 original size:12 final size:12
Alignment explanation
Indices: 635344--635368 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
635334 CCGACGGTTC
635344 TATTTTAACTAT
1 TATTTTAACTAT
635356 TATTTTAACTAT
1 TATTTTAACTAT
635368 T
1 T
635369 TTTAACTCTT
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:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTTAACTAT
Found at i:637586 original size:30 final size:30
Alignment explanation
Indices: 637520--637586 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
637510 ACAGAGCCGA
* * *
637520 CGGTTCAAACCGATTTTGCCGGTTCCCAGC
1 CGGTTCAAACCGATTCTACCGGTTCCCAAC
** * *
637550 TAGTTCACACCGATTCTACTGGTTCCCAAC
1 CGGTTCAAACCGATTCTACCGGTTCCCAAC
637580 CGGTTCA
1 CGGTTCA
637587 TTGCAGAATT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.28
Consensus pattern (30 bp):
CGGTTCAAACCGATTCTACCGGTTCCCAAC
Found at i:643756 original size:12 final size:12
Alignment explanation
Indices: 643739--643764 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
643729 CCCCATTTCC
643739 CTCCATCTGTTG
1 CTCCATCTGTTG
643751 CTCCATCTGTTG
1 CTCCATCTGTTG
643763 CT
1 CT
643765 GGAGTTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.35, G:0.15, T:0.42
Consensus pattern (12 bp):
CTCCATCTGTTG
Found at i:644533 original size:21 final size:21
Alignment explanation
Indices: 644500--644563 Score: 56
Period size: 23 Copynumber: 2.9 Consensus size: 21
644490 TATTTAATTT
** *
644500 TTTTAAAAATAAATACAAATA
1 TTTTAAATTTAAATAAAAATA
644521 TTTTAAATTTAAACATAAAAATA
1 TTTTAAATTT-AA-ATAAAAATA
**
644544 TTAAAAATTTAAATATAAAA
1 TTTTAAATTTAAATA-AAAA
644564 ATACCATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 11 0.31
22 8 0.23
23 16 0.46
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (21 bp):
TTTTAAATTTAAATAAAAATA
Found at i:644542 original size:23 final size:23
Alignment explanation
Indices: 644516--644566 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
644506 AAATAAATAC
**
644516 AAATATTTTAAATTTAAACATAA
1 AAATATTAAAAATTTAAACATAA
*
644539 AAATATTAAAAATTTAAATATAA
1 AAATATTAAAAATTTAAACATAA
644562 AAATA
1 AAATA
644567 CCATTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATATTAAAAATTTAAACATAA
Found at i:644840 original size:20 final size:20
Alignment explanation
Indices: 644817--644856 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
644807 TATTTTAATC
644817 ATATATTTATTAAT-TCATAA
1 ATATATTT-TTAATATCATAA
*
644837 ATATCTTTTTAATATCATAA
1 ATATATTTTTAATATCATAA
644857 CATACTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTTTTAATATCATAA
Found at i:645093 original size:24 final size:23
Alignment explanation
Indices: 645062--645111 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
645052 GGTTTAACAT
*
645062 ATATTTGTGAAATTTTAAATTAAA
1 ATATTTGT-AAATTTTAAAATAAA
**
645086 ATATTTGTATTTTTTAAAATAAA
1 ATATTTGTAAATTTTAAAATAAA
645109 ATA
1 ATA
645112 AACCATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (23 bp):
ATATTTGTAAATTTTAAAATAAA
Found at i:646443 original size:16 final size:16
Alignment explanation
Indices: 646422--646453 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
646412 AGAAATGAAG
*
646422 CCTTCAGATCAATTCC
1 CCTTCAAATCAATTCC
646438 CCTTCAAATCAATTCC
1 CCTTCAAATCAATTCC
646454 ACGAATTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.38, G:0.03, T:0.31
Consensus pattern (16 bp):
CCTTCAAATCAATTCC
Found at i:648726 original size:16 final size:15
Alignment explanation
Indices: 648705--648734 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
648695 ATTAAGACTT
648705 TATTTATTTTGAGTTA
1 TATTTATTTT-AGTTA
648721 TATTTATTTTAGTT
1 TATTTATTTTAGTT
648735 TTTTCGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
TATTTATTTTAGTTA
Found at i:651135 original size:13 final size:13
Alignment explanation
Indices: 651117--651143 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
651107 ATTTAAGATT
651117 ACATTTGAGAATA
1 ACATTTGAGAATA
651130 ACATTTGAGAATA
1 ACATTTGAGAATA
651143 A
1 A
651144 TATTATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (13 bp):
ACATTTGAGAATA
Found at i:653011 original size:20 final size:20
Alignment explanation
Indices: 652986--653025 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
652976 GTTTACTTTA
652986 ATGGTCATCTCCTTGCTATG
1 ATGGTCATCTCCTTGCTATG
653006 ATGGTCATCTCCTTGCTATG
1 ATGGTCATCTCCTTGCTATG
653026 TCTGAAGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.40
Consensus pattern (20 bp):
ATGGTCATCTCCTTGCTATG
Found at i:662245 original size:2 final size:2
Alignment explanation
Indices: 662238--662264 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
662228 CGCTTTTACC
662238 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 T
662265 TTAAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:668765 original size:17 final size:16
Alignment explanation
Indices: 668745--668778 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
668735 TGAGGTTACT
668745 ATTTAAGTGAATAGTAA
1 ATTT-AGTGAATAGTAA
*
668762 ATTTTGTGAATAGTAA
1 ATTTAGTGAATAGTAA
668778 A
1 A
668779 ATTTGGTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (16 bp):
ATTTAGTGAATAGTAA
Found at i:668780 original size:17 final size:16
Alignment explanation
Indices: 668751--668783 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
668741 TACTATTTAA
668751 GTGAATAGTAAATTTT
1 GTGAATAGTAAATTTT
*
668767 GTGAATAGTAAAATTT
1 GTGAATAGTAAATTTT
668783 G
1 G
668784 GTCAGCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (16 bp):
GTGAATAGTAAATTTT
Found at i:672431 original size:24 final size:24
Alignment explanation
Indices: 672404--672456 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
672394 CTCCACAACT
672404 GAAGCAAAATATGTCGCTATTACG
1 GAAGCAAAATATGTCGCTATTACG
672428 GAAGCAAAATATGTCGCTATTACG
1 GAAGCAAAATATGTCGCTATTACG
672452 GAAGC
1 GAAGC
672457 CAGCAAGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (24 bp):
GAAGCAAAATATGTCGCTATTACG
Found at i:673552 original size:14 final size:14
Alignment explanation
Indices: 673533--673580 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
673523 CATTCGATAA
673533 TATGTTCATTCATT
1 TATGTTCATTCATT
* *
673547 TATGTTCGTTCGTT
1 TATGTTCATTCATT
* *
673561 TATGTGCTTTCATT
1 TATGTTCATTCATT
673575 TATGTT
1 TATGTT
673581 TAACCCATCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (14 bp):
TATGTTCATTCATT
Found at i:673769 original size:20 final size:20
Alignment explanation
Indices: 673744--673781 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
673734 AAAAAATATT
*
673744 TTCATTTATGTTCGTTTACG
1 TTCATTTATGTTCATTTACG
673764 TTCATTTATGTTCATTTA
1 TTCATTTATGTTCATTTA
673782 TTGTGTTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (20 bp):
TTCATTTATGTTCATTTACG
Found at i:674471 original size:13 final size:14
Alignment explanation
Indices: 674447--674475 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
674437 AATCAATGCC
674447 TCAACTCTCAAAAT
1 TCAACTCTCAAAAT
674461 TCAAC-CTCAAAAT
1 TCAACTCTCAAAAT
674474 TC
1 TC
674476 TTTAATTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (14 bp):
TCAACTCTCAAAAT
Found at i:677691 original size:54 final size:54
Alignment explanation
Indices: 677632--677742 Score: 170
Period size: 54 Copynumber: 2.0 Consensus size: 54
677622 GTTTACATGG
* * *
677632 CAGTTAATAAAATTGATATAATTAC-ATTTGATCTTCAATACTTGTACATTCAAT
1 CAGTTAACAAAATTGATACAATTACAATTTGATCCTCAATACTT-TACATTCAAT
677686 CAGTTAACAAAATTGATACAATTACATATTTGATCCTCAATACTTTACATTCAAT
1 CAGTTAACAAAATTGATACAATTACA-ATTTGATCCTCAATACTTTACATTCAAT
677741 CA
1 CA
677743 ATTTAGTCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
54 23 0.44
55 12 0.23
56 17 0.33
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (54 bp):
CAGTTAACAAAATTGATACAATTACAATTTGATCCTCAATACTTTACATTCAAT
Found at i:678465 original size:19 final size:20
Alignment explanation
Indices: 678443--678481 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
678433 TAGTAAAAAT
*
678443 AAAATCTTTAATTAA-ATTA
1 AAAATATTTAATTAAGATTA
678462 AAAATATTTAATTAAGATTA
1 AAAATATTTAATTAAGATTA
678482 TATATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAATATTTAATTAAGATTA
Found at i:678869 original size:20 final size:20
Alignment explanation
Indices: 678844--678897 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
678834 CAATCTCAAA
678844 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
678864 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
678884 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
678898 ATGTAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:678944 original size:20 final size:20
Alignment explanation
Indices: 678921--678965 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
678911 TGCGATTTTC
* *
678921 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCAAAAGT
678941 CAAATTCGCAACGCAAAAGT
1 CAAATTCGCAACGCAAAAGT
678961 CAAAT
1 CAAAT
678966 GTTTTTACGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (20 bp):
CAAATTCGCAACGCAAAAGT
Found at i:681142 original size:21 final size:21
Alignment explanation
Indices: 681118--681167 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
681108 GTTAGGGGAA
** *
681118 TTACGTGATGAGGTTGGTGCT
1 TTACGTGATGAGGTCAGTACT
* *
681139 TTACATCATGAGGTCAGTACT
1 TTACGTGATGAGGTCAGTACT
681160 TTACGTGA
1 TTACGTGA
681168 AGATAATGAT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:683122 original size:20 final size:20
Alignment explanation
Indices: 683099--683137 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
683089 TATTTTCGGT
*
683099 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTATCGCG
683119 TTGCGAATTTGACTATCGC
1 TTGCGAATTTGACTATCGC
683138 AACGCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (20 bp):
TTGCGAATTTGACTATCGCG
Found at i:683456 original size:18 final size:18
Alignment explanation
Indices: 683430--683470 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
683420 ATGTGAAGCC
* *
683430 GATTGTGATTGGGATTTT
1 GATTTTGATTGCGATTTT
683448 GATTTTGATTGCGATTTT
1 GATTTTGATTGCGATTTT
683466 GATTT
1 GATTT
683471 CCTTTTGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.02, G:0.27, T:0.54
Consensus pattern (18 bp):
GATTTTGATTGCGATTTT
Found at i:685760 original size:24 final size:24
Alignment explanation
Indices: 685726--685779 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
685716 CCATCACATC
685726 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
685750 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
685774 ATCAAA
1 ATCAAA
685780 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:685793 original size:24 final size:24
Alignment explanation
Indices: 685726--685793 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
685716 CCATCACATC
* * *
685726 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
685750 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
685774 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
685794 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:686693 original size:19 final size:19
Alignment explanation
Indices: 686651--686795 Score: 73
Period size: 20 Copynumber: 7.4 Consensus size: 19
686641 AAACATTTGT
* **
686651 GTTGCGAAATTAAA-ACAT
1 GTTGCGAAATTAAATTCGC
686669 GTTGCGAAATTAAATTCGC
1 GTTGCGAAATTAAATTCGC
* *
686688 GTTGCGAATTTAAAATTC-A
1 GTTGCGAAATT-AAATTCGC
* *
686707 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAAATT--AAATTCGC
** *
686728 AATGCG-ATTTACATATTCGC
1 GTTGCGAAATTA-A-ATTCGC
* *
686748 GTTGCGAAATTGGAAACT-GT
1 GTTGCGAAATT--AAATTCGC
*
686768 GTTGCAAAATTAGAATTCGC
1 GTTGCGAAATTA-AATTCGC
686788 GTTGCGAA
1 GTTGCGAA
686796 TTTGTTGGTC
Statistics
Matches: 96, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
18 16 0.17
19 26 0.27
20 43 0.45
21 9 0.09
22 1 0.01
23 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (19 bp):
GTTGCGAAATTAAATTCGC
Found at i:686705 original size:20 final size:20
Alignment explanation
Indices: 686669--686798 Score: 81
Period size: 20 Copynumber: 6.5 Consensus size: 20
686659 ATTAAAACAT
*
686669 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTAAAATTCGC
*
686688 GTTGCGAATTTAAAATTC-A
1 GTTGCGAATTTAAAATTCGC
686707 GTTGCGAATTTGGAAAA-TCGC
1 GTTGCGAATTT--AAAATTCGC
** *
686728 AATGCG-ATTTACATATTCGC
1 GTTGCGAATTTA-AAATTCGC
** * *
686748 GTTGCGAAATTGGAAACT-GT
1 GTTGCG-AATTTAAAATTCGC
* * *
686768 GTTGCAAAATTAGAATTCGC
1 GTTGCGAATTTAAAATTCGC
686788 GTTGCGAATTT
1 GTTGCGAATTT
686799 GTTGGTCATT
Statistics
Matches: 80, Mismatches: 22, Indels: 17
0.67 0.18 0.14
Matches are distributed among these distances:
18 1 0.01
19 29 0.36
20 36 0.45
21 11 0.14
22 3 0.04
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (20 bp):
GTTGCGAATTTAAAATTCGC
Found at i:708726 original size:23 final size:23
Alignment explanation
Indices: 708700--708747 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
708690 ATTTATCTTT
*
708700 TAAATTTCATAAAAAATTATATA
1 TAAATTTCATAAAAAAGTATATA
* *
708723 TAAATTTTATTAAAAAGTATATA
1 TAAATTTCATAAAAAAGTATATA
708746 TA
1 TA
708748 TATATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAAATTTCATAAAAAAGTATATA
Found at i:709335 original size:31 final size:31
Alignment explanation
Indices: 709294--709400 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 31
709284 AGTTACGTCA
* *
709294 GGGACCATATTGCAAATGGACTAAATTTTGG
1 GGGACCATATTGCAAATAGACTAAATGTTGG
*
709325 GGGACTATATTGCAAATAGACTAAATGTT-G
1 GGGACCATATTGCAAATAGACTAAATGTTGG
* * *
709355 AGGACCATATTGCAAACAGATTAAATGTTGG
1 GGGACCATATTGCAAATAGACTAAATGTTGG
**
709386 GGGACTGTATTGCAA
1 GGGACCATATTGCAA
709401 GTTTTAAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
30 26 0.40
31 39 0.60
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (31 bp):
GGGACCATATTGCAAATAGACTAAATGTTGG
Found at i:709367 original size:30 final size:30
Alignment explanation
Indices: 709295--709384 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
709285 GTTACGTCAG
* * *
709295 GGACCATATTGCAAATGGACTAAATTTTGGG
1 GGACCATATTGCAAATAGACTAAATGTT-GA
*
709326 GGACTATATTGCAAATAGACTAAATGTTGA
1 GGACCATATTGCAAATAGACTAAATGTTGA
* *
709356 GGACCATATTGCAAACAGATTAAATGTTG
1 GGACCATATTGCAAATAGACTAAATGTTG
709385 GGGGACTGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
30 27 0.52
31 25 0.48
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (30 bp):
GGACCATATTGCAAATAGACTAAATGTTGA
Found at i:711982 original size:31 final size:31
Alignment explanation
Indices: 711947--712013 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
711937 CAGTTACATC
711947 GGGGACCATATTGCAAACAGACTAAATGTTG
1 GGGGACCATATTGCAAACAGACTAAATGTTG
*
711978 GGGGACCATATTGCAAACGGACTAAATGTTG
1 GGGGACCATATTGCAAACAGACTAAATGTTG
*
712009 AGGGA
1 GGGGA
712014 TTGTATTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (31 bp):
GGGGACCATATTGCAAACAGACTAAATGTTG
Found at i:717978 original size:35 final size:35
Alignment explanation
Indices: 717932--718003 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
717922 AGGGCTGGGT
* * * * *
717932 CTGGGCTTTACTCCTCCCTTCTCTTTTACGTGTGG
1 CTGGGCTTTACTCATCACTTCCCTTTAACCTGTGG
717967 CTGGGCTTTACTCATCACTTCCCTTTAACCTGTGG
1 CTGGGCTTTACTCATCACTTCCCTTTAACCTGTGG
718002 CT
1 CT
718004 ATGGCGTTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.10, C:0.32, G:0.18, T:0.40
Consensus pattern (35 bp):
CTGGGCTTTACTCATCACTTCCCTTTAACCTGTGG
Found at i:720472 original size:5 final size:5
Alignment explanation
Indices: 720462--720487 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
720452 AATTATTATT
720462 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
720488 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:722897 original size:20 final size:20
Alignment explanation
Indices: 722872--722911 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
722862 GTTTTAAATA
* *
722872 TAATTTTAGAAATATATTTG
1 TAATTTTAAAAATAAATTTG
722892 TAATTTTAAAAATAAATTTG
1 TAATTTTAAAAATAAATTTG
722912 AAAATTCCAT
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:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
TAATTTTAAAAATAAATTTG
Found at i:723952 original size:15 final size:15
Alignment explanation
Indices: 723932--723960 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
723922 TTTAAAGTTA
723932 GTTATGTAAAATTAT
1 GTTATGTAAAATTAT
723947 GTTATGTAAAATTA
1 GTTATGTAAAATTA
723961 CATTAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (15 bp):
GTTATGTAAAATTAT
Found at i:724131 original size:4 final size:4
Alignment explanation
Indices: 724122--724160 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
724112 GTCAGTTCTT
*
724122 CATC CATC CATC TATC CATC CATC CATC CATC CATC CAT
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CAT
724161 ACTCGAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.46, G:0.00, T:0.28
Consensus pattern (4 bp):
CATC
Found at i:725530 original size:147 final size:144
Alignment explanation
Indices: 725248--725536 Score: 400
Period size: 147 Copynumber: 2.0 Consensus size: 144
725238 AAAAATTGAT
* * *
725248 AAAAGCTATGCCTCAATCTTCACAATAATCGACAGCTGCTGAAATCAAGATCAGTCCAGAAAAAG
1 AAAAACTATGCCTCAATCTTCACAATAATCGACAGCTGCTGAAATCAACAACAGTCCAGAAAAAG
* *
725313 AAATAATTTAAGATCACAATTTCTCAGTAAAAACCAAGCAAATGACACAAAGACGGCAACAGATA
66 AAATAATTTAAGATCACAATTTCTCAGTAAAAACCAAGCAAAGGACACAAAGAAGGCAACAGATA
725378 ATATAGCAAAATAC
131 ATATAGCAAAATAC
** * * *
725392 AAAAACTATGCCTCAATCTTCATGATAATCTACAGCTTCTGAAATCAACAACAGTCCAGGAAAAG
1 AAAAACTATGCCTCAATCTTCACAATAATCGACAGCTGCTGAAATCAACAACAGTCCAGAAAAAG
* * * * *
725457 AATTTACGCTTTGAGATCACAATTTCTCTA-TCAAAACCAAGCAAAGGACACAAAGAAGGCAACG
66 AA-ATA--ATTTAAGATCACAATTTCTC-AGTAAAAACCAAGCAAAGGACACAAAGAAGGCAACA
725521 GATAATATAGCAAAAT
127 GATAATATAGCAAAAT
725537 TAAAAGACCT
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
144 59 0.47
145 2 0.02
147 64 0.51
148 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.21
Consensus pattern (144 bp):
AAAAACTATGCCTCAATCTTCACAATAATCGACAGCTGCTGAAATCAACAACAGTCCAGAAAAAG
AAATAATTTAAGATCACAATTTCTCAGTAAAAACCAAGCAAAGGACACAAAGAAGGCAACAGATA
ATATAGCAAAATAC
Found at i:725990 original size:16 final size:17
Alignment explanation
Indices: 725969--726002 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
725959 CATAAAAATA
725969 AAATTATTGAA-ATATT
1 AAATTATTGAATATATT
*
725985 AAATTATTTAATATATT
1 AAATTATTGAATATATT
726002 A
1 A
726003 CTGAGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
AAATTATTGAATATATT
Found at i:726269 original size:53 final size:52
Alignment explanation
Indices: 726201--726499 Score: 302
Period size: 53 Copynumber: 5.7 Consensus size: 52
726191 TTGAGTATAT
* *
726201 TTACACCT-ATGTAAGTATGTGTTGATTTCTAAGATATTAAGAGATGTACATAC
1 TTACA-CTGATGTAAGTATGTGTTAATTT-TAAGATATTGAGAGATGTACATAC
* * * * * **
726254 TTACACTGATCTAAGTGTGTGTTGATTCCTAATATATTGAGAGATGTACATTT
1 TTACACTGATGTAAGTATGTGTTAATT-TTAAGATATTGAGAGATGTACATAC
* * *
726307 TTACACTGATATAAGTGTGTGTTAATTTTAAGATATTGAGAGATGCACATAC
1 TTACACTGATGTAAGTATGTGTTAATTTTAAGATATTGAGAGATGTACATAC
* * * *
726359 TTACACT-ACTGTAAGTATTTGTTAATTGTTAAGATATTAAGATATGCACATAC
1 TTACACTGA-TGTAAGTATGTGTTAATT-TTAAGATATTGAGAGATGTACATAC
* * *
726412 TTACACTGGTGTAAGTATTTGTTAATTGTTAAGATATTGAGAGATGTACATAT
1 TTACACTGATGTAAGTATGTGTTAATT-TTAAGATATTGAGAGATGTACATAC
* **
726465 TTATA-TCGGCGTAAGTATGTGTTAA--TTAAGATATT
1 TTACACT-GATGTAAGTATGTGTTAATTTTAAGATATT
726500 TTTTTTATTT
Statistics
Matches: 213, Mismatches: 27, Indels: 15
0.84 0.11 0.06
Matches are distributed among these distances:
50 10 0.05
51 1 0.00
52 45 0.21
53 157 0.74
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (52 bp):
TTACACTGATGTAAGTATGTGTTAATTTTAAGATATTGAGAGATGTACATAC
Found at i:726357 original size:105 final size:105
Alignment explanation
Indices: 726212--726463 Score: 299
Period size: 105 Copynumber: 2.4 Consensus size: 105
726202 TACACCTATG
* * *
726212 TAAGTATGTGTTGATTTCTAAGATATTAAGAGATGTACATACTTACACTGA-TCTAAGTGTGTGT
1 TAAGTATGTGTTAATTT-TAAGATATTGAGAGATGTACATACTTACACT-ACTCTAAGTATGTGT
* * * * **
726276 TGATTCCTAATATATTGAGAGATGTACATTTTTACACTGATA
64 TAATTCCTAAGATATTAAGAGATGCACATACTTACACTGATA
* * * *
726318 TAAGTGTGTGTTAATTTTAAGATATTGAGAGATGCACATACTTACACTACTGTAAGTATTTGTTA
1 TAAGTATGTGTTAATTTTAAGATATTGAGAGATGTACATACTTACACTACTCTAAGTATGTGTTA
** * * *
726383 ATTGTTAAGATATTAAGATATGCACATACTTACACTGGTG
66 ATTCCTAAGATATTAAGAGATGCACATACTTACACTGATA
*
726423 TAAGTATTTGTTAATTGTTAAGATATTGAGAGATGTACATA
1 TAAGTATGTGTTAATT-TTAAGATATTGAGAGATGTACATA
726464 TTTATATCGG
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
104 1 0.01
105 84 0.68
106 38 0.31
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (105 bp):
TAAGTATGTGTTAATTTTAAGATATTGAGAGATGTACATACTTACACTACTCTAAGTATGTGTTA
ATTCCTAAGATATTAAGAGATGCACATACTTACACTGATA
Found at i:726489 original size:158 final size:156
Alignment explanation
Indices: 726201--726499 Score: 370
Period size: 158 Copynumber: 1.9 Consensus size: 156
726191 TTGAGTATAT
* *
726201 TTACACCTATGTAAGTATGTGTTGATTTCTAAGATATTAAGAGATGTACATACTTACACTGATCT
1 TTACACCTATGTAAGTATGTGTTAATTTCTAAGATATTAAGAGATGCACATACTTACACTGATCT
* * * * * *
726266 AAGTGTGTGTTGATTCCTAATATATTGAGAGATGTACATTTTTACACTGATATAAGTGTGTGTTA
66 AAGTATGTGTTAATTCCTAAGATATTGAGAGATGTACATATTTACACTGACATAAGTATGTGTTA
726331 ATTTTAAGATATTGAGAGATGCACATAC
131 A--TTAAGATATTGAGAGATGCACATAC
* * *
726359 TTACA-CTACTGTAAGTATTTGTTAATTGT-TAAGATATTAAGATATGCACATACTTACACTGGT
1 TTACACCTA-TGTAAGTATGTGTTAATT-TCTAAGATATTAAGAGATGCACATACTTACACTGAT
* * ** * * *
726422 GTAAGTATTTGTTAATTGTTAAGATATTGAGAGATGTACATATTTATA-TCGGCGTAAGTATGTG
64 CTAAGTATGTGTTAATTCCTAAGATATTGAGAGATGTACATATTTACACT-GACATAAGTATGTG
726486 TTAATTAAGATATT
128 TTAATTAAGATATT
726500 TTTTTTATTT
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
156 10 0.08
157 4 0.03
158 105 0.88
159 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (156 bp):
TTACACCTATGTAAGTATGTGTTAATTTCTAAGATATTAAGAGATGCACATACTTACACTGATCT
AAGTATGTGTTAATTCCTAAGATATTGAGAGATGTACATATTTACACTGACATAAGTATGTGTTA
ATTAAGATATTGAGAGATGCACATAC
Found at i:729158 original size:15 final size:16
Alignment explanation
Indices: 729120--729165 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
729110 AAAAAAAAAT
*
729120 TAAAATTTACATTATA
1 TAAAATTTAAATTATA
*
729136 TAATATTTAAATT-TA
1 TAAAATTTAAATTATA
729151 TAAAATTTTAAATTA
1 TAAAA-TTTAAATTA
729166 CTAATAGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATTTAAATTATA
Found at i:732616 original size:2 final size:2
Alignment explanation
Indices: 732554--732607 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
732544 TAAAATGATA
732554 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
732596 AT AT AT AT AT AT
1 AT AT AT AT AT AT
732608 TTGATATATT
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:733121 original size:20 final size:20
Alignment explanation
Indices: 733059--733201 Score: 162
Period size: 20 Copynumber: 7.1 Consensus size: 20
733049 CGTTGCGATT
*
733059 TTCTGACTATCGCAATGCGA
1 TTCTGACTATCGCAACGCGA
* * *
733079 ATATGTA-AATCGCAAACGCGA
1 TTCTG-ACTATCGC-AACGCGA
*
733100 TTCTGACTATCGCAACGAGA
1 TTCTGACTATCGCAACGCGA
*
733120 TTCTGACTATCTCAACGCGA
1 TTCTGACTATCGCAACGCGA
* *
733140 TTCTGACTGTTGCAACGCGA
1 TTCTGACTATCGCAACGCGA
*
733160 TTCTGACTGTCGCAACGCGA
1 TTCTGACTATCGCAACGCGA
* *
733180 TGCTGACTATCGCAATGCGA
1 TTCTGACTATCGCAACGCGA
733200 TT
1 TT
733202 TTCAAAGCGC
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
20 87 0.85
21 15 0.15
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (20 bp):
TTCTGACTATCGCAACGCGA
Found at i:733399 original size:22 final size:22
Alignment explanation
Indices: 733374--733416 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
733364 GGTGACATCC
733374 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
733396 GTCCCCATCTCCGGCGAAATC
1 GTCCCCATCTCCGACGAAATC
733417 CGTCTATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:733893 original size:20 final size:19
Alignment explanation
Indices: 733808--733896 Score: 79
Period size: 20 Copynumber: 4.5 Consensus size: 19
733798 AGCATCGCAA
*
733808 TGCGATTTTAGTTTCGCGT
1 TGCGATTTTATTTTCGCGT
* * **
733827 TGCGATAGTCAAATTCGCGT
1 TGCGAT-TTTATTTTCGCGT
* *
733847 TGCGATAGTTATTTTCGTGT
1 TGCGAT-TTTATTTTCGCGT
*
733867 TGCGATTTTCATTTTCGTGT
1 TGCGATTTT-ATTTTCGCGT
733887 TGCGATTTTA
1 TGCGATTTTA
733897 AGTTTCAGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 9 0.15
20 50 0.85
ACGTcount: A:0.16, C:0.15, G:0.24, T:0.46
Consensus pattern (19 bp):
TGCGATTTTATTTTCGCGT
Found at i:733902 original size:20 final size:20
Alignment explanation
Indices: 733859--733902 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
733849 CGATAGTTAT
* *
733859 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
733879 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
733899 TTTC
1 TTTC
733903 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:735646 original size:18 final size:18
Alignment explanation
Indices: 735623--735672 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
735613 TTTACTCGTA
735623 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
735641 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
735659 ATTTCACTTAGATT
1 ATTTCACTTAGATT
735673 GCTTAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:735917 original size:20 final size:19
Alignment explanation
Indices: 735892--735956 Score: 87
Period size: 20 Copynumber: 3.4 Consensus size: 19
735882 GATTCTCTCA
735892 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTC-AATTCGCG
*
735912 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCAATT-CGCG
*
735932 TTGCGATAGTC-ATTCGTG
1 TTGCGATAGTCAATTCGCG
735950 TTGCGAT
1 TTGCGAT
735957 TTTAACTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
18 10 0.24
19 5 0.12
20 26 0.63
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.35
Consensus pattern (19 bp):
TTGCGATAGTCAATTCGCG
Found at i:736772 original size:5 final size:5
Alignment explanation
Indices: 736762--736830 Score: 57
Period size: 5 Copynumber: 12.0 Consensus size: 5
736752 ACCGGTCACA
736762 ACCCG ACCCG ACCCGTTG ACCCG ACCCG ACCCG ACCCG TTTACCCG ACCCGTTG
1 ACCCG ACCCG ACCC---G ACCCG ACCCG ACCCG ACCCG ---ACCCG ACCC---G
736816 ACCCG ACCCG ACCCG
1 ACCCG ACCCG ACCCG
736831 TTGATCGTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
5 40 0.73
8 15 0.27
ACGTcount: A:0.17, C:0.52, G:0.20, T:0.10
Consensus pattern (5 bp):
ACCCG
Found at i:736784 original size:13 final size:13
Alignment explanation
Indices: 736766--736825 Score: 90
Period size: 13 Copynumber: 4.8 Consensus size: 13
736756 GTCACAACCC
736766 GACCCGACCCGTT
1 GACCCGACCCGTT
736779 GACCCGACCC---
1 GACCCGACCCGTT
736789 GACCCGACCCGTT
1 GACCCGACCCGTT
*
736802 TACCCGACCCGTT
1 GACCCGACCCGTT
736815 GACCCGACCCG
1 GACCCGACCCG
736826 ACCCGTTGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
10 10 0.24
13 32 0.76
ACGTcount: A:0.17, C:0.50, G:0.22, T:0.12
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:736785 original size:18 final size:18
Alignment explanation
Indices: 736762--736834 Score: 98
Period size: 18 Copynumber: 4.1 Consensus size: 18
736752 ACCGGTCACA
736762 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
736780 ACCCGACCCGACCC---G
1 ACCCGACCCGACCCGTTG
736795 ACCCGTTTACCCGACCCGTTG
1 ACCCG---ACCCGACCCGTTG
736816 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
736834 A
1 A
736835 TCGTTGACCC
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.12
18 37 0.76
21 6 0.12
ACGTcount: A:0.18, C:0.49, G:0.21, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:736788 original size:23 final size:23
Alignment explanation
Indices: 736762--736812 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
736752 ACCGGTCACA
736762 ACCCGACCCGACCCGTTGACCCG
1 ACCCGACCCGACCCGTTGACCCG
*
736785 ACCCGACCCGACCCGTTTACCCG
1 ACCCGACCCGACCCGTTGACCCG
736808 ACCCG
1 ACCCG
736813 TTGACCCGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.18, C:0.53, G:0.20, T:0.10
Consensus pattern (23 bp):
ACCCGACCCGACCCGTTGACCCG
Found at i:739409 original size:24 final size:24
Alignment explanation
Indices: 739313--739421 Score: 78
Period size: 24 Copynumber: 4.5 Consensus size: 24
739303 GAATATTTTA
* * *
739313 TCTGATTTCTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTATGT
* * *
739337 TTTGACATCTGATCTGAAATCA-GT
1 TCTGATATCTGATCTG-AATTATGT
* * * *
739361 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTATGT
739385 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* *
739409 TTTGATTTCTGAT
1 TCTGATATCTGAT
739422 ATCTCCGTTT
Statistics
Matches: 62, Mismatches: 19, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
23 3 0.05
24 55 0.89
25 4 0.06
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.47
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTATGT
Found at i:740671 original size:21 final size:21
Alignment explanation
Indices: 740630--740728 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 21
740620 ACCTGTCATT
740630 GTTCAAGAGGCCTCC--CCTATC
1 GTTCAAGAGGCC-CCTACC-ATC
**
740651 GTTCAAGAGGCCCCTATTATC
1 GTTCAAGAGGCCCCTACCATC
** * * *
740672 CCTCAAGAGTCCCCTCCCACC
1 GTTCAAGAGGCCCCTACCATC
* *
740693 GTTCAAGAGGCCACTATCATC
1 GTTCAAGAGGCCCCTACCATC
* *
740714 GTTGAAGAGGTCCCT
1 GTTCAAGAGGCCCCT
740729 CCCAACATTC
Statistics
Matches: 57, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
20 2 0.04
21 55 0.96
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.23
Consensus pattern (21 bp):
GTTCAAGAGGCCCCTACCATC
Found at i:740722 original size:42 final size:42
Alignment explanation
Indices: 740650--740732 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
740640 CCTCCCCTAT
* *
740650 CGTTCAAGAGGCCCCTATTATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAC
** *
740692 CGTTCAAGAGGCCACTATCATCGTTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
740733 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:742318 original size:20 final size:20
Alignment explanation
Indices: 742293--742345 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
742283 AGGTACACTT
* *
742293 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACACAAAA
* *
742313 TCGCAATGCGAAAGACAAAA
1 TCGCAACGCGAAACACAAAA
*
742333 TCGCAACTCGAAA
1 TCGCAACGCGAAA
742346 GTCAATTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.26, G:0.15, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAACACAAAA
Found at i:742400 original size:34 final size:34
Alignment explanation
Indices: 742357--742491 Score: 137
Period size: 34 Copynumber: 3.8 Consensus size: 34
742347 TCAATTCGCG
* * *
742357 TTGCGATAGTCTAATACGCTTTACGATTTTCTCA
1 TTGCGATAGTCAAATACGCGTTGCGATTTTCTCA
* * *
742391 TTGCGATAGTCAAATACCCGTTGCGATAATAAAATTCGCG
1 TTGCGATAGTCAAATACGCGTTGCGAT--T----TTCTCA
*
742431 TTGCGATAGTCAAATTCGCGTTGCGATTTTCTCA
1 TTGCGATAGTCAAATACGCGTTGCGATTTTCTCA
742465 TTGCGATAGTCAAATA-GCCGTTGCGAT
1 TTGCGATAGTCAAATACG-CGTTGCGAT
742492 AATCAAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
33 1 0.01
34 51 0.61
36 1 0.01
38 1 0.01
40 29 0.35
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (34 bp):
TTGCGATAGTCAAATACGCGTTGCGATTTTCTCA
Found at i:742416 original size:20 final size:20
Alignment explanation
Indices: 742391--742653 Score: 264
Period size: 20 Copynumber: 13.8 Consensus size: 20
742381 GATTTTCTCA
* *
742391 TTGCGATAGTCAAATACCCG
1 TTGCGATAGTCAAATTCGCG
* *
742411 TTGCGATAATAAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
742431 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* *
742451 TTGCGAT--T----TTCTCA
1 TTGCGATAGTCAAATTCGCG
*
742465 TTGCGATAGTCAAA-TAGCCG
1 TTGCGATAGTCAAATTCG-CG
*
742485 TTGCGATAATCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
*
742505 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCG
* *
742525 TTACGATAGACAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* **
742545 TTGCGATAGTCATATTCATG
1 TTGCGATAGTCAAATTCGCG
742565 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* *
742585 TTGCGAT--T----TTTGAG
1 TTGCGATAGTCAAATTCGCG
*
742599 TTGCGATAATCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
742619 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
*
742639 TTGCGATATTCAAAT
1 TTGCGATAGTCAAAT
742654 GAATTTGTAA
Statistics
Matches: 197, Mismatches: 32, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
14 22 0.11
16 2 0.01
18 2 0.01
19 1 0.01
20 168 0.85
21 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:742438 original size:74 final size:74
Alignment explanation
Indices: 742349--742531 Score: 303
Period size: 74 Copynumber: 2.5 Consensus size: 74
742339 CTCGAAAGTC
* * *
742349 AATTCGCGTTGCGATAGTCTAATACGCTTTACGATTTTCTCATTGCGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCATTACGATTTTCTCATTGCGATAGTCAAATACCCGTTG
742414 CGATAATAA
66 CGATAATAA
* * *
742423 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCATTGCGATAGTCAAATAGCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCATTACGATTTTCTCATTGCGATAGTCAAATACCCGTTG
*
742488 CGATAATCA
66 CGATAATAA
742497 AATTCGCGTTGCGATAGTCAAATTCGCATTACGAT
1 AATTCGCGTTGCGATAGTCAAATTCGCATTACGAT
742532 AGACAAATTC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 101 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (74 bp):
AATTCGCGTTGCGATAGTCAAATTCGCATTACGATTTTCTCATTGCGATAGTCAAATACCCGTTG
CGATAATAA
Found at i:742876 original size:140 final size:140
Alignment explanation
Indices: 742624--742893 Score: 488
Period size: 140 Copynumber: 1.9 Consensus size: 140
742614 TCGCGTTGCG
* * *
742624 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATTTGTAATAAGTGATAACAACTGAATATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
742689 TAGCAATGTTCAAACTCGAGTTACTAATACATTCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATTCCTAACTGAAAATGTTAAAAGTTTACACATAA
742754 AATACACATA
131 AATACACATA
742764 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
742829 TAGCAATGTTCAAACTCAAGTTACTAATACATGT-CTAACTGAAAATGTTAAAAGTTTACACATA
66 TAGCAATGTTCAAACTCAAGTTACTAATACAT-TCCTAACTGAAAATGTTAAAAGTTTACACATA
742893 A
130 A
742894 TACAATGTTT
Statistics
Matches: 125, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
140 124 0.99
141 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATTCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:742981 original size:18 final size:18
Alignment explanation
Indices: 742954--742989 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
742944 AGCCGGTTGT
*
742954 GATTGGGATTTTGATTGC
1 GATTGCGATTTTGATTGC
742972 GATTGCGATTTTGATTGC
1 GATTGCGATTTTGATTGC
742990 CTTTTTCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.31, T:0.44
Consensus pattern (18 bp):
GATTGCGATTTTGATTGC
Found at i:745039 original size:14 final size:14
Alignment explanation
Indices: 745020--745056 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
745010 TCCCGTGGCA
745020 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
745034 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
745048 TTCTTCTTC
1 TT-TTCTTC
745057 TTATTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:745285 original size:24 final size:24
Alignment explanation
Indices: 745258--745304 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
745248 CAAAATCCAA
745258 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
745282 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
745305 AATACCGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:746185 original size:20 final size:20
Alignment explanation
Indices: 746121--746209 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 20
746111 AAATTCAGTG
*
746121 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCA
* *
746141 TTGCAACAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCA
*
746161 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCAGAATCGCA
* * *
746181 TTGCGAT-TTACATATTCGCA
1 TTGCGATAGT-CAGAATCGCA
746201 TTGCGATAG
1 TTGCGATAG
746210 CCGAAAAATC
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
19 1 0.02
20 57 0.98
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCA
Found at i:760644 original size:58 final size:62
Alignment explanation
Indices: 760570--760697 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 62
760560 AAATAACTTA
* *
760570 AAACTAAGTTTCTTTA-TT-T-A-ATAAAAATGCCTAGAGATAAGACAAGAGAACAATACAT
1 AAACTAAGTTTCTTTATTTATAACAAAAAAATGCCTAGAGATAAGACAAGACAACAATACAT
* * *
760628 AAACTAAGTTGT-TTTATTTCATAACAAAAAAATGTCTCGAGATAAGACCAGACAACAATACAT
1 AAACTAAGTT-TCTTTATTT-ATAACAAAAAAATGCCTAGAGATAAGACAAGACAACAATACAT
760691 AAACTAA
1 AAACTAA
760698 AACGAAAGCA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
58 14 0.24
59 3 0.05
61 1 0.02
62 1 0.02
63 40 0.68
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (62 bp):
AAACTAAGTTTCTTTATTTATAACAAAAAAATGCCTAGAGATAAGACAAGACAACAATACAT
Found at i:762113 original size:24 final size:24
Alignment explanation
Indices: 762085--762161 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 24
762075 TTATTAAGTT
762085 TTCAATTCCAACTTAAAAAACATA
1 TTCAATTCCAACTTAAAAAACATA
* * ** *
762109 TTCAATT-TAA---AAATTATTAGTT
1 TTCAATTCCAACTTAAA-AAACA-TA
762131 TTCAATTCCAACTTAAAAAACATA
1 TTCAATTCCAACTTAAAAAACATA
762155 TTCAATT
1 TTCAATT
762162 TAAAAATTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
20 3 0.08
21 2 0.05
22 8 0.22
23 4 0.11
24 15 0.41
25 2 0.05
26 3 0.08
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.38
Consensus pattern (24 bp):
TTCAATTCCAACTTAAAAAACATA
Found at i:762143 original size:46 final size:47
Alignment explanation
Indices: 762075--762172 Score: 189
Period size: 46 Copynumber: 2.1 Consensus size: 47
762065 GAAAACTTTT
762075 TTATTAAGTTTTCAATTCCAACTTAAAAAACATATTCAATTTAAAAA
1 TTATTAAGTTTTCAATTCCAACTTAAAAAACATATTCAATTTAAAAA
762122 TTATT-AGTTTTCAATTCCAACTTAAAAAACATATTCAATTTAAAAA
1 TTATTAAGTTTTCAATTCCAACTTAAAAAACATATTCAATTTAAAAA
762168 TTATT
1 TTATT
762173 TTTGTTTTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 46 0.90
47 5 0.10
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (47 bp):
TTATTAAGTTTTCAATTCCAACTTAAAAAACATATTCAATTTAAAAA
Found at i:763020 original size:24 final size:22
Alignment explanation
Indices: 762988--763033 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
762978 ATAAATTCAA
*
762988 AATTTTAAATAATTTATTTATTAT
1 AATTATAAA-AATTTATTT-TTAT
*
763012 AATTATAAAATTTTATTTTTAT
1 AATTATAAAAATTTATTTTTAT
763034 TTATATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AATTATAAAAATTTATTTTTAT
Found at i:768937 original size:20 final size:21
Alignment explanation
Indices: 768899--768955 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
768889 ATTTGTGGCT
768899 CAAATGATCGATCCCTTTGAC
1 CAAATGATCGATCCCTTTGAC
*
768920 CAAATGATTGAT-CCTTTGA-
1 CAAATGATCGATCCCTTTGAC
* *
768939 AAAAGGATCGATCCCTT
1 CAAATGATCGATCCCTT
768956 GGATAACAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 9 0.29
20 11 0.35
21 11 0.35
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (21 bp):
CAAATGATCGATCCCTTTGAC
Found at i:769014 original size:21 final size:19
Alignment explanation
Indices: 768990--769068 Score: 68
Period size: 21 Copynumber: 3.9 Consensus size: 19
768980 TCCATTAACC
*
768990 AAAAGGATTGATCCCTATAGG
1 AAAAGGATCGATCCCT-TA-G
* *
769011 AAAATGATCGATCCCTTAA
1 AAAAGGATCGATCCCTTAG
*
769030 ACAAAGGATCGATCCCTCGATG
1 A-AAAGGATCGATCCCT-TA-G
*
769052 AAAAGGATTGATCCCTT
1 AAAAGGATCGATCCCTT
769069 TGTTACAACG
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 16 0.34
21 29 0.62
22 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (19 bp):
AAAAGGATCGATCCCTTAG
Found at i:769041 original size:20 final size:20
Alignment explanation
Indices: 768973--769046 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
768963 AGTGAGTTTG
* *
768973 GGATCGATCCATTAACCAAAA
1 GGATCGATCCCTTAAAC-AAA
* *
768994 GGATTGATCCCTATAGGA-AAA
1 GGATCGATCCCT-TA-AACAAA
*
769015 TGATCGATCCCTTAAACAAA
1 GGATCGATCCCTTAAACAAA
769035 GGATCGATCCCT
1 GGATCGATCCCT
769047 CGATGAAAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
19 1 0.02
20 16 0.38
21 23 0.55
22 2 0.05
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (20 bp):
GGATCGATCCCTTAAACAAA
Found at i:769055 original size:41 final size:42
Alignment explanation
Indices: 768973--769068 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 42
768963 AGTGAGTTTG
* * * *
768973 GGATCGATCCATTAACCAAAAGGATTGATCCCTATAGGAAAA
1 GGATCGATCCCTTAAACAAAAGGATCGATCCCTAGAGGAAAA
* * *
769015 TGATCGATCCCTTAAAC-AAAGGATCGATCCCTCGATGAAAA
1 GGATCGATCCCTTAAACAAAAGGATCGATCCCTAGAGGAAAA
*
769056 GGATTGATCCCTT
1 GGATCGATCCCTT
769069 TGTTACAACG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 31 0.69
42 14 0.31
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (42 bp):
GGATCGATCCCTTAAACAAAAGGATCGATCCCTAGAGGAAAA
Found at i:769131 original size:22 final size:22
Alignment explanation
Indices: 769086--769128 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
769076 ACGATCGAAA
769086 TTTTTAAAAAAATGATCGATCC
1 TTTTTAAAAAAATGATCGATCC
* *
769108 TTTTTAATAAAA-GATTGATCC
1 TTTTTAAAAAAATGATCGATCC
769129 CTTGTTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (22 bp):
TTTTTAAAAAAATGATCGATCC
Found at i:780066 original size:65 final size:63
Alignment explanation
Indices: 779990--780149 Score: 198
Period size: 65 Copynumber: 2.5 Consensus size: 63
779980 GAATAAATTG
* * *
779990 AACATTGAATGCATTATATGCATCGATGCACATA-CCATGCATCGATGCACTCAGGAT-TTTATG
1 AACATCGAATGCATT-TATGCATCGATGCACA-AGACATGAATCGATGCACTCAGGATATTT-TG
780053 AA
63 -A
* *
780055 AACATCTAATGCATTTGATGCATCGATGCACAAGACATGAATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTT-ATGCATCGATGCACAAGACATGAATCGATGCACTCAGGATATTTTGA
*
780119 AACATCGAATGCACTTCATGCATCGATGCAC
1 AACATCGAATGCA-TTTATGCATCGATGCAC
780150 TAAGGGTCCA
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
64 29 0.35
65 52 0.62
66 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTATGCATCGATGCACAAGACATGAATCGATGCACTCAGGATATTTTGA
Found at i:781700 original size:19 final size:19
Alignment explanation
Indices: 781672--781711 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
781662 GTCATCAATT
781672 TGGTCATTGGAATAAAAGA
1 TGGTCATTGGAATAAAAGA
*
781691 TGGTCCTTGGAATAAAAGA
1 TGGTCATTGGAATAAAAGA
781710 TG
1 TG
781712 CAATTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (19 bp):
TGGTCATTGGAATAAAAGA
Found at i:783920 original size:42 final size:42
Alignment explanation
Indices: 783831--783928 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
783821 CGGTGAGTTT
* * *
783831 GGGATCGA-CCCTTTTACAAAAAGGATCGATCTCTGTAGGAAA
1 GGGATCGATCCC-TTAACCAAAAGGATCGATCCCTGTAGGAAA
* *
783873 GGGATCTATCCCTTAACCAAAAGGATCGATCCCTCG-ATGAAA
1 GGGATCGATCCCTTAACCAAAAGGATCGATCCCT-GTAGGAAA
*
783915 TGGATCGATCCCTT
1 GGGATCGATCCCTT
783929 TGTTACAATG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 43 0.91
43 4 0.09
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (42 bp):
GGGATCGATCCCTTAACCAAAAGGATCGATCCCTGTAGGAAA
Found at i:787321 original size:20 final size:20
Alignment explanation
Indices: 787274--787312 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
787264 TGTAAATATT
*
787274 AAATTTTAAAAAGATATTCA
1 AAATTTTCAAAAGATATTCA
787294 AAATTTTCAAAA-ATATTCA
1 AAATTTTCAAAAGATATTCA
787313 CTAATTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
AAATTTTCAAAAGATATTCA
Found at i:787529 original size:26 final size:26
Alignment explanation
Indices: 787500--787563 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
787490 TATAAAAAAT
* *
787500 TAATCAAATCAAATTT-TCAATTCAAC
1 TAATAAAATC-AATTTATCAAATCAAC
*
787526 TAATAAAATCAATTTATCAAATCAAT
1 TAATAAAATCAATTTATCAAATCAAC
*
787552 TACTAAAATCAA
1 TAATAAAATCAA
787564 CTACTAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 5 0.15
26 28 0.85
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.33
Consensus pattern (26 bp):
TAATAAAATCAATTTATCAAATCAAC
Found at i:789009 original size:192 final size:192
Alignment explanation
Indices: 788681--789070 Score: 658
Period size: 192 Copynumber: 2.0 Consensus size: 192
788671 TTTAACATCT
*
788681 TATTTTGCAATCAGTTTTTCTAAACCGATGTATTTTCTAGCGTTTCATTTTCAGCTTATTTTGTG
1 TATTTTGCAATCAGTTTTTCTAAACCGATGAATTTTCTAGCGTTTCATTTTCAGCTTATTTTGTG
* *
788746 CAATAAACTCTTTCAAAAAAGTGTTTACCAATAAGTTATTTTTATTCAAATAAACTAAAAACTCT
66 CAATAAACTCTTTCAAAAAAGTGTTTACCAATAAGCTATTTTTACTCAAATAAACTAAAAACTCT
*
788811 TCAAAAATTTATTTCCCAAACACTCCCATTAACTTTTTAAAAAGATTAGACGTTTTGAGTGA
131 TCAAAAAGTTATTTCCCAAACACTCCCATTAACTTTTTAAAAAGATTAGACGTTTTGAGTGA
* *
788873 T-TTTTGCAATCAGTTCTTT-TAAACCGATGAATTTTCTAGCGTTTTTATTTTCAGCTTGTTTTG
1 TATTTTGCAATCAGTT-TTTCTAAACCGATGAATTTTCTAGCG-TTTCATTTTCAGCTTATTTTG
* * *
788936 TGTAATAAACTCTTTCAAAAAAGTGTTTACCAATCAGCTATTTTTGCTCAAATAAACTAAAAACT
64 TGCAATAAACTCTTTCAAAAAAGTGTTTACCAATAAGCTATTTTTACTCAAATAAACTAAAAACT
*
789001 CTTCAAAAAGTTATTTCCCAAACACTCCCATTAACTTTTTAAAAAGATTAGATGTTTTGAGTGA
129 CTTCAAAAAGTTATTTCCCAAACACTCCCATTAACTTTTTAAAAAGATTAGACGTTTTGAGTGA
789065 TATTTT
1 TATTTT
789071 TTAGCCCGAA
Statistics
Matches: 185, Mismatches: 10, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
191 35 0.19
192 146 0.79
193 4 0.02
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (192 bp):
TATTTTGCAATCAGTTTTTCTAAACCGATGAATTTTCTAGCGTTTCATTTTCAGCTTATTTTGTG
CAATAAACTCTTTCAAAAAAGTGTTTACCAATAAGCTATTTTTACTCAAATAAACTAAAAACTCT
TCAAAAAGTTATTTCCCAAACACTCCCATTAACTTTTTAAAAAGATTAGACGTTTTGAGTGA
Found at i:798430 original size:20 final size:19
Alignment explanation
Indices: 798405--798575 Score: 129
Period size: 20 Copynumber: 8.7 Consensus size: 19
798395 ACAATGCGAT
798405 AGTCAAATTCGCAACACTGA
1 AGTCAAATTCGCAACAC-GA
* *
798425 AGTCAAATTCGTAACGCGA
1 AGTCAAATTCGCAACACGA
798444 A-TCTGTAAA-TCG--ACACGA
1 AGTC---AAATTCGCAACACGA
*
798462 ATTTGT-AAA-TCGCAACACAAA
1 A---GTCAAATTCGCAACAC-GA
*
798483 AGTCAAATTCGCAACACAAA
1 AGTCAAATTCGCAACAC-GA
*
798503 AGTCAAATTCGCAACACTA
1 AGTCAAATTCGCAACACGA
* *
798522 AGTCAAATTCACAACACAAA
1 AGTCAAATTCGCAACAC-GA
*
798542 AGTCAAATTCGCAACGCGAA
1 AGTCAAATTCGCAACACG-A
798562 AGTCAAATTCGCAA
1 AGTCAAATTCGCAA
798576 AGCGCGTTTA
Statistics
Matches: 127, Mismatches: 10, Indels: 28
0.77 0.06 0.17
Matches are distributed among these distances:
18 16 0.13
19 23 0.18
20 82 0.65
21 5 0.04
22 1 0.01
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.19
Consensus pattern (19 bp):
AGTCAAATTCGCAACACGA
Found at i:798529 original size:39 final size:40
Alignment explanation
Indices: 798471--798575 Score: 167
Period size: 39 Copynumber: 2.6 Consensus size: 40
798461 AATTTGTAAA
798471 TCGCAACACAAAAGTCAAATTCGCAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAATTCGCAACACAAAAGTCAAAT
* *
798511 TCGCAACAC-TAAGTCAAATTCACAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAATTCGCAACACAAAAGTCAAAT
* *
798550 TCGCAACGCGAAAGTCAAATTCGCAA
1 TCGCAACACAAAAGTCAAATTCGCAA
798576 AGCGCGTTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 36 0.61
40 23 0.39
ACGTcount: A:0.47, C:0.26, G:0.11, T:0.16
Consensus pattern (40 bp):
TCGCAACACAAAAGTCAAATTCGCAACACAAAAGTCAAAT
Found at i:798664 original size:20 final size:20
Alignment explanation
Indices: 798618--798666 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
798608 TCGGTAATTA
798618 GCATTGCGAATTTGTAAATC
1 GCATTGCGAATTTGTAAATC
* *
798638 ACGTTGCGAATTTGTAAATC
1 GCATTGCGAATTTGTAAATC
798658 GCATTGCGA
1 GCATTGCGA
798667 TAGTACTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (20 bp):
GCATTGCGAATTTGTAAATC
Found at i:798725 original size:76 final size:75
Alignment explanation
Indices: 798599--798741 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 75
798589 TCGCAACAGT
* * *
798599 TTACCTATATCGGTAATTAGCATTGCGAATTTGTAAATCACGTTGCGAATTTGTAAATCGCATTG
1 TTACCTATATCGATAATTAGCATTGCGAATTTGAAAATCACGTTGCGAA-TTGAAAATCGCATTG
798664 CGATAGTACTG
65 CGATAGTACTG
** * *
798675 TTACCTATATCGATAATTAGTGTTGCGAATTTGAAAATCGCGTTGCGAATTGAAAATCGCGTTGC
1 TTACCTATATCGATAATTAGCATTGCGAATTTGAAAATCACGTTGCGAATTGAAAATCGCATTGC
798740 GA
66 GA
798742 ATTTGTAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
75 16 0.27
76 44 0.73
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (75 bp):
TTACCTATATCGATAATTAGCATTGCGAATTTGAAAATCACGTTGCGAATTGAAAATCGCATTGC
GATAGTACTG
Found at i:798729 original size:19 final size:20
Alignment explanation
Indices: 798696--798760 Score: 107
Period size: 19 Copynumber: 3.4 Consensus size: 20
798686 GATAATTAGT
798696 GTTGCGAATTTGAAAATCGC
1 GTTGCGAATTTGAAAATCGC
798716 GTTGCGAA-TTGAAAATCGC
1 GTTGCGAATTTGAAAATCGC
*
798735 GTTGCGAATTTGTAAAT-GC
1 GTTGCGAATTTGAAAATCGC
798754 GTTGCGA
1 GTTGCGA
798761 TAGTACTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
19 28 0.65
20 15 0.35
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCGC
Found at i:798796 original size:95 final size:96
Alignment explanation
Indices: 798621--798817 Score: 308
Period size: 95 Copynumber: 2.1 Consensus size: 96
798611 GTAATTAGCA
*
798621 TTGCGAATTTGTAAATCACGTTGCGAATTTGTAAATCGCATTGCGATAGTACTGTTACCTATATC
1 TTGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCGCATTGCGATAGTACTGTTACCTATATC
*
798686 GATAATTAGTGTTGCGAATTTGAAAATCGCG
66 GATAATTAGCGTTGCGAATTTGAAAATCGCG
* *
798717 TTGCGAA-TTGAAAATCGCGTTGCGAATTTGTAAAT-GCGTTGCGATAGTACTGTTTACCTATAT
1 TTGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCGCATTGCGATAGTACTG-TTACCTATAT
* * *
798780 CGGTAATTAGCGTTGCGAATTTGTAAATTGCG
65 CGATAATTAGCGTTGCGAATTTGAAAATCGCG
798812 TTGCGA
1 TTGCGA
798818 TAGTACTTTT
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
94 16 0.17
95 70 0.75
96 7 0.08
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (96 bp):
TTGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCGCATTGCGATAGTACTGTTACCTATATC
GATAATTAGCGTTGCGAATTTGAAAATCGCG
Found at i:798798 original size:56 final size:57
Alignment explanation
Indices: 798733--798930 Score: 285
Period size: 56 Copynumber: 3.5 Consensus size: 57
798723 ATTGAAAATC
798733 GCGTTGCGAATTTGTAAAT-GCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
1 GCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
*
798789 GCGTTGCGAATTTGTAAATTGCGTTGCGATAGTACT-TTTACCTATATCGGTAATTA
1 GCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
* * * * ** *
798845 GCATTTCGAATTTGAAAATCTCACTGCGATAGTACTGTTTAACCTAAATCGGTAATTA
1 GCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTT-ACCTATATCGGTAATTA
*
798903 GCGTTG-AAATTTGTAAATCGCGTTGCGA
1 GCGTTGCGAATTTGTAAATCGCGTTGCGA
798931 ATTTGTAATC
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
56 68 0.55
57 36 0.29
58 20 0.16
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.36
Consensus pattern (57 bp):
GCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
Found at i:798918 original size:19 final size:20
Alignment explanation
Indices: 798896--798939 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
798886 ACCTAAATCG
798896 GTAATTAGCGTTG-AAATTT
1 GTAATTAGCGTTGCAAATTT
* * *
798915 GTAAATCGCGTTGCGAATTT
1 GTAATTAGCGTTGCAAATTT
798935 GTAAT
1 GTAAT
798940 CGCATTGCGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (20 bp):
GTAATTAGCGTTGCAAATTT
Found at i:798940 original size:19 final size:20
Alignment explanation
Indices: 798910--798949 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
798900 TTAGCGTTGA
*
798910 AATTTGTAAATCGCGTTGCG
1 AATTTGTAAATCGCATTGCG
798930 AATTTGT-AATCGCATTGCG
1 AATTTGTAAATCGCATTGCG
798949 A
1 A
798950 TTGTACGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (20 bp):
AATTTGTAAATCGCATTGCG
Found at i:799069 original size:36 final size:36
Alignment explanation
Indices: 799018--799093 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
799008 TTTCAAATTT
799018 GCAACGCTAACTACCGATATAGTAAACAGTACTATC
1 GCAACGCTAACTACCGATATAGTAAACAGTACTATC
*
799054 GCAACGCTAATTACCGATATAGTAAACAGTACTATC
1 GCAACGCTAACTACCGATATAGTAAACAGTACTATC
799090 GCAA
1 GCAA
799094 AGCGATATAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.22
Consensus pattern (36 bp):
GCAACGCTAACTACCGATATAGTAAACAGTACTATC
Found at i:799206 original size:20 final size:20
Alignment explanation
Indices: 799161--799827 Score: 278
Period size: 20 Copynumber: 33.1 Consensus size: 20
799151 TAAACGCGCT
799161 TTGCGAATTTGACTATCGTG
1 TTGCGAATTTGACTATCGTG
*
799181 -TGCGAATTTGACTATCGGG
1 TTGCGAATTTGACTATCGTG
*
799200 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTATCGTG
* *
799220 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTATCGTG
*
799240 TTGCGAA-TTGA-AATTCAGTG
1 TTGCGAATTTGACTA-TC-GTG
**
799260 TTGCGAA-TTGACTATCGCA
1 TTGCGAATTTGACTATCGTG
*
799279 TTACGAATTTGACT-TCTGTG
1 TTGCGAATTTGACTATC-GTG
799299 TTGCGAATTTGACTTAT-GTG
1 TTGCGAATTTGAC-TATCGTG
*
799319 TTGCAAATTTGACT-TC-TG
1 TTGCGAATTTGACTATCGTG
* * * *
799337 -TG-TAATATTTACAAATTCGCG
1 TTGCGAAT-TTGAC-TA-TCGTG
* * *
799358 CTGTGAATTTAACT-TCAGTG
1 TTGCGAATTTGACTATC-GTG
* *
799378 TTGCGAA-TTGATTATCGCG
1 TTGCGAATTTGACTATCGTG
799397 TTGCGAATTTGACT-TCTGTG
1 TTGCGAATTTGACTATC-GTG
* *
799417 TCGCGAATTTGACT-TCTGTA
1 TTGCGAATTTGACTATC-GTG
* * * * *
799437 TTGTGATTTATAAAT-TCGCG
1 TTGCGAATT-TGACTATCGTG
* **
799457 TTGCG-ATTTAACTATCGCA
1 TTGCGAATTTGACTATCGTG
** * * **
799476 ACGCG-ATAT-ACAAATTCGCA
1 TTGCGAATTTGAC-TA-TCGTG
* * *
799496 ATGCTAATTATCGATATAGGTAAACAGTG
1 TTGCGAATT-T-GA-CTA--T---C-GTG
** * *
799525 TTGCGAAAAT-A--AACGCG
1 TTGCGAATTTGACTATCGTG
799542 CTTTGCGAATTTGACTATCGTG
1 --TTGCGAATTTGACTATCGTG
*
799564 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTATCGTG
*
799584 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTATCGTG
* *
799604 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTATCGTG
*
799624 TTGCGAATTTGA-AATTCAGTG
1 TTGCGAATTTGACTA-TC-GTG
**
799645 TTGCGAATTTGACTATCGCA
1 TTGCGAATTTGACTATCGTG
*
799665 TTACGAATTTGACT-TCTGTG
1 TTGCGAATTTGACTATC-GTG
799685 TTGCGAATTTGACT-TCTGTG
1 TTGCGAATTTGACTATC-GTG
*
799705 TTGCAAATTTGACT-TCTGTG
1 TTGCGAATTTGACTATC-GTG
* * *
799725 TT---AATATTTACAAATTCGCG
1 TTGCGAAT-TTGAC-TA-TCGTG
* * *
799745 CTGTGAATTTAACT-TCAGTG
1 TTGCGAATTTGACTATC-GTG
* *
799765 TTGCGAATTTGATTATCGCG
1 TTGCGAATTTGACTATCGTG
* *
799785 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTATCGTG
799805 TTGCGAATTTGACT-TCTGTG
1 TTGCGAATTTGACTATC-GTG
799825 TTG
1 TTG
799828 TGATTTACAA
Statistics
Matches: 496, Mismatches: 98, Indels: 106
0.71 0.14 0.15
Matches are distributed among these distances:
16 3 0.01
17 11 0.02
18 14 0.03
19 76 0.15
20 325 0.66
21 31 0.06
22 17 0.03
23 7 0.01
24 2 0.00
25 1 0.00
26 1 0.00
28 2 0.00
29 6 0.01
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGAATTTGACTATCGTG
Found at i:799271 original size:79 final size:80
Alignment explanation
Indices: 799181--799327 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 80
799171 GACTATCGTG
** * * *
799181 TGCGAATTTGACTATCGGGTTGCGAATTTGACTATC-GCGTTGCGAATTTGACTTTTGTGTTGCG
1 TGCGAATTTGACTATCGCATTACGAATTTGACT-TCTGCGTTGCGAATTTGACTTATGTGTTGCA
799245 AATTGAAATTCAGTGT
65 AATTGAAATTCAGTGT
*
799261 TGCGAA-TTGACTATCGCATTACGAATTTGACTTCTGTGTTGCGAATTTGACTTATGTGTTGCAA
1 TGCGAATTTGACTATCGCATTACGAATTTGACTTCTGCGTTGCGAATTTGACTTATGTGTTGCAA
799325 ATT
66 ATT
799328 TGACTTCTGT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
78 2 0.03
79 52 0.87
80 6 0.10
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.39
Consensus pattern (80 bp):
TGCGAATTTGACTATCGCATTACGAATTTGACTTCTGCGTTGCGAATTTGACTTATGTGTTGCAA
ATTGAAATTCAGTGT
Found at i:799432 original size:59 final size:60
Alignment explanation
Indices: 799161--799432 Score: 237
Period size: 59 Copynumber: 4.6 Consensus size: 60
799151 TAAACGCGCT
*
799161 TTGCGAATTTGACTATC-GTGT-GCGAATTTGACTATC-GGGTTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACT-TCTGTGTCGCGAATTTGACT-TCAGTGTTGCGAATTTGACTATCGCG
* * * *
799220 TTGCGAATTTGACTTTTGTGTTGCGAA-TTGAAATTCAGTGTTGCGAA-TTGACTATCGCA
1 TTGCGAATTTGACTTCTGTGTCGCGAATTTG-ACTTCAGTGTTGCGAATTTGACTATCGCG
* * * *
799279 TTACGAATTTGACTTCTGTGTTGCGAATTTGACTT-ATGTGTTGCAAATTTGACT-TC-TG
1 TTGCGAATTTGACTTCTGTGTCGCGAATTTGACTTCA-GTGTTGCGAATTTGACTATCGCG
* * * * * *
799337 -TG-TAATATTTACAAATTC-GCG-CTGTGAATTTAACTTCAGTGTTGCGAA-TTGATTATCGCG
1 TTGCGAAT-TTGAC---TTCTGTGTC-GCGAATTTGACTTCAGTGTTGCGAATTTGACTATCGCG
799397 TTGCGAATTTGACTTCTGTGTCGCGAATTTGACTTC
1 TTGCGAATTTGACTTCTGTGTCGCGAATTTGACTTC
799433 TGTATTGTGA
Statistics
Matches: 169, Mismatches: 25, Indels: 38
0.73 0.11 0.16
Matches are distributed among these distances:
56 3 0.02
57 5 0.03
58 10 0.06
59 111 0.66
60 31 0.18
61 6 0.04
62 3 0.02
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.40
Consensus pattern (60 bp):
TTGCGAATTTGACTTCTGTGTCGCGAATTTGACTTCAGTGTTGCGAATTTGACTATCGCG
Found at i:799657 original size:81 final size:81
Alignment explanation
Indices: 799544--799716 Score: 253
Period size: 81 Copynumber: 2.1 Consensus size: 81
799534 TAAACGCGCT
* * *
799544 TTGCGAATTTG-ACTATCGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATC-GCGTTG
1 TTGCGAATTTGAAATATCGTGTTGCGAATTTGACTATCGCATTACGAATTTGACT-TCTGCGTTG
*
799607 CGAATTTGACTTTTGTG
65 CGAATTTGACTTCTGTG
*
799624 TTGCGAATTTGAAAT-TCAGTGTTGCGAATTTGACTATCGCATTACGAATTTGACTTCTGTGTTG
1 TTGCGAATTTGAAATATC-GTGTTGCGAATTTGACTATCGCATTACGAATTTGACTTCTGCGTTG
799688 CGAATTTGACTTCTGTG
65 CGAATTTGACTTCTGTG
*
799705 TTGCAAATTTGA
1 TTGCGAATTTGA
799717 CTTCTGTGTT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
80 15 0.18
81 69 0.82
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.40
Consensus pattern (81 bp):
TTGCGAATTTGAAATATCGTGTTGCGAATTTGACTATCGCATTACGAATTTGACTTCTGCGTTGC
GAATTTGACTTCTGTG
Found at i:799854 original size:20 final size:20
Alignment explanation
Indices: 799829--799866 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
799819 TCTGTGTTGT
799829 GATTTACAAATTCGCGTTAC
1 GATTTACAAATTCGCGTTAC
*
799849 GATTTACAGATTCGCGTT
1 GATTTACAAATTCGCGTT
799867 GCGAATTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (20 bp):
GATTTACAAATTCGCGTTAC
Found at i:799854 original size:120 final size:121
Alignment explanation
Indices: 799547--799875 Score: 334
Period size: 120 Copynumber: 2.7 Consensus size: 121
799537 ACGCGCTTTG
* * **
799547 CGAATTTGACTATC-GTGTTGCGAATTTGACTATC-GCGTTGCGAATTTGACTATC-GCGTTGCG
1 CGAATTTGACT-TCTGTGTTGCGAATTTGACT-TCTGTGTTGCAAATTTGACT-TCTGCGTTAAG
* * * *
799609 AATTTGAC--TTTTGTGTTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTATCGCATTA
63 -ATTT-ACAAATTCGCGCTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTATCGCATTA
* *
799668 CGAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCAAATTTGACTTCTGTGTTAATATT
1 CGAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCAAATTTGACTTCTGCGTTAAGATT
* * * * *
799733 TACAAATTCGCGCTGTGAATTT-AACTTCAGTGTTGCGAATTTGATTATCGCGTTG
66 TACAAATTCGCGCTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTATCGCATTA
* ** *
799788 CGAATTTGACTTTTGTGTTGCGAATTTGACTTCTGTGTTG-TGATTT-ACAAATTC-GCGTTACG
1 CGAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCAAATTTGAC---TTCTGCGTTAAG
* *
799850 ATTTACAGATTCGCGTTGCGAATTTG
63 ATTTACAAATTCGCGCTGCGAATTTG
799876 GAAACTGGGT
Statistics
Matches: 175, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
118 2 0.01
119 6 0.03
120 105 0.60
121 62 0.35
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (121 bp):
CGAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCAAATTTGACTTCTGCGTTAAGATT
TACAAATTCGCGCTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTATCGCATTA
Found at i:801034 original size:27 final size:26
Alignment explanation
Indices: 801003--801066 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 26
800993 TATGAATTTC
801003 AGATAAAAAAAGAGAGAATTTGAATGA
1 AGATAAAAAAAGA-AGAATTTGAATGA
*
801030 AGAT--AAAAA-AAGATTTTGAATGA
1 AGATAAAAAAAGAAGAATTTGAATGA
801053 AGATAAAAAAAGAA
1 AGATAAAAAAAGAA
801067 TTTGAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 16 0.48
24 1 0.03
25 10 0.30
26 2 0.06
27 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (26 bp):
AGATAAAAAAAGAAGAATTTGAATGA
Found at i:801049 original size:23 final size:23
Alignment explanation
Indices: 801017--801073 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
801007 AAAAAAAGAG
801017 AGAATTTGAATGAAGATAAAAAA
1 AGAATTTGAATGAAGATAAAAAA
*
801040 AGATTTTGAATGAAGATAAAAAA
1 AGAATTTGAATGAAGATAAAAAA
801063 AGAATTTGAAT
1 AGAATTTGAAT
801074 TAATAGGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (23 bp):
AGAATTTGAATGAAGATAAAAAA
Found at i:801791 original size:21 final size:20
Alignment explanation
Indices: 801766--801804 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
801756 AATATTACCT
801766 TACCCTAAAATATAATGTAAA
1 TACCCTAAAATAT-ATGTAAA
801787 TACCCTAAAATATATGTA
1 TACCCTAAAATATATGTA
801805 CTTTTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (20 bp):
TACCCTAAAATATATGTAAA
Found at i:811593 original size:17 final size:17
Alignment explanation
Indices: 811556--811604 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
811546 TAATAACTCA
*
811556 AATAATATTATTTT-A-
1 AATAATAATATTTTCAC
811571 AATAATTAAT-TTTTCAC
1 AATAA-TAATATTTTCAC
811588 AATAATAATATTTTCAC
1 AATAATAATATTTTCAC
811605 CTCATAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 9 0.31
16 8 0.28
17 12 0.41
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (17 bp):
AATAATAATATTTTCAC
Found at i:822855 original size:20 final size:20
Alignment explanation
Indices: 822827--822866 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
822817 GAGAATGTCC
*
822827 ATGAAAAGATCGAGCATAGT
1 ATGAAAAGAACGAGCATAGT
* *
822847 ATGAGAAGAACGATCATAGT
1 ATGAAAAGAACGAGCATAGT
822867 TCGATTCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.25, T:0.20
Consensus pattern (20 bp):
ATGAAAAGAACGAGCATAGT
Found at i:824856 original size:20 final size:21
Alignment explanation
Indices: 824825--824871 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
824815 TTGTGAAAAC
*
824825 CAATATTGAGT-CCTTAGTAT
1 CAATACTGAGTCCCTTAGTAT
* *
824845 CGATACTGAGTCCCTTGGTAT
1 CAATACTGAGTCCCTTAGTAT
824866 CAATAC
1 CAATAC
824872 CCACTTGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (21 bp):
CAATACTGAGTCCCTTAGTAT
Found at i:834645 original size:20 final size:20
Alignment explanation
Indices: 834616--834657 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
834606 ATTCCACCAC
*
834616 ATGCAACTATACGCTCCTAA
1 ATGCAACTATACGATCCTAA
* *
834636 ATGCATCTATATGATCCTAA
1 ATGCAACTATACGATCCTAA
834656 AT
1 AT
834658 AGGCTTTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.31
Consensus pattern (20 bp):
ATGCAACTATACGATCCTAA
Found at i:835377 original size:21 final size:21
Alignment explanation
Indices: 835351--835393 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
835341 AGTTCCTTAA
835351 GCATGAAAAACATACAATCTT
1 GCATGAAAAACATACAATCTT
835372 GCATGAAAAACATACAATCTT
1 GCATGAAAAACATACAATCTT
835393 G
1 G
835394 TATTCAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.23
Consensus pattern (21 bp):
GCATGAAAAACATACAATCTT
Found at i:838814 original size:45 final size:44
Alignment explanation
Indices: 838720--838903 Score: 187
Period size: 44 Copynumber: 4.2 Consensus size: 44
838710 AAAGAAGCGC
** **
838720 CGCAAAAGGTCGAGATCTATAGCTACGTTTTTTGGAACAAACGT
1 CGCAAAAGGTCGAGATCTATAGCGGCACTTTTTGGAACAAACGT
*
838764 CGCAAAAGGTCGAGATCTATAGCGGCACTTTTTGGGTACAAACGT
1 CGCAAAAGGTCGAGATCTATAGCGGCACTTTTT-GGAACAAACGT
* *
838809 TGCAAAAGGTC-AGATCTATAGCGGC-GTTTTTGGAACAAACGT
1 CGCAAAAGGTCGAGATCTATAGCGGCACTTTTTGGAACAAACGT
* * ** * * **
838851 CGTAAAAGGT-TAGATAAATAACGACA-TTTTTGGACACAAACAC
1 CGCAAAAGGTCGAGATCTATAGCGGCACTTTTTGGA-ACAAACGT
838894 CGCAAAAGGT
1 CGCAAAAGGT
838904 TAGATAAATA
Statistics
Matches: 119, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
42 36 0.30
43 20 0.17
44 43 0.36
45 20 0.17
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.24
Consensus pattern (44 bp):
CGCAAAAGGTCGAGATCTATAGCGGCACTTTTTGGAACAAACGT
Found at i:838902 original size:43 final size:42
Alignment explanation
Indices: 838835--838951 Score: 146
Period size: 43 Copynumber: 2.8 Consensus size: 42
838825 TATAGCGGCG
*
838835 TTTTTGGAACAAACGTCGTAAAAGGTTAGATAAATAACGACA
1 TTTTTGGAACAAACGCCGTAAAAGGTTAGATAAATAACGACA
* * * * *
838877 TTTTTGGACACAAACACCGCAAAAGGTTAGATAAATAGCGTCG
1 TTTTTGGA-ACAAACGCCGTAAAAGGTTAGATAAATAACGACA
*
838920 TTTTT-GATACAAACGCCGTAAAAGGTCAGATA
1 TTTTTGGA-ACAAACGCCGTAAAAGGTTAGATA
838952 TCTAGTGGCG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 31 0.48
43 33 0.52
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (42 bp):
TTTTTGGAACAAACGCCGTAAAAGGTTAGATAAATAACGACA
Found at i:838915 original size:85 final size:86
Alignment explanation
Indices: 838719--838951 Score: 236
Period size: 85 Copynumber: 2.7 Consensus size: 86
838709 AAAAGAAGCG
** ** * **
838719 CCGCAAAAGGTCGAGATCTATAGCTACGTTTTTTGGAACAAACGTCGCAAAAGGTCGAGATCTAT
1 CCGCAAAAGGTC-AGATAAATAGCGGCG-TTTTTGGAACAAACGTCGTAAAAGGTC-AGATAAAT
* * ** *
838784 AGCGGCACTTTTTGGGTACAAACG
63 AACGACACTTTTTGGACACAAACA
** ** *
838808 TTGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGTCGTAAAAGGTTAGATAAATAAC
1 CCGCAAAAGGTCAGATAAATAGCGGCGTTTTTGGAACAAACGTCGTAAAAGGTCAGATAAATAAC
838873 GACA-TTTTTGGACACAAACA
66 GACACTTTTTGGACACAAACA
* * *
838893 CCGCAAAAGGTTAGATAAATAGCGTCGTTTTT-GATACAAACGCCGTAAAAGGTCAGATA
1 CCGCAAAAGGTCAGATAAATAGCGGCGTTTTTGGA-ACAAACGTCGTAAAAGGTCAGATA
838952 TCTAGTGGCG
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
84 2 0.02
85 61 0.50
86 11 0.09
87 25 0.20
88 13 0.11
89 10 0.08
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (86 bp):
CCGCAAAAGGTCAGATAAATAGCGGCGTTTTTGGAACAAACGTCGTAAAAGGTCAGATAAATAAC
GACACTTTTTGGACACAAACA
Found at i:838967 original size:43 final size:43
Alignment explanation
Indices: 838717--838981 Score: 230
Period size: 42 Copynumber: 6.1 Consensus size: 43
838707 CCAAAAGAAG
* **
838717 CGCCGCAAAAGGTCGAGATCTATAGCTACGTTTTTTGGA-ACAAA
1 CGCCGCAAAAGGTC-AGATATATAGCGGCG-TTTTTGGATACAAA
* * * *
838761 CGTCGCAAAAGGTCGAGATCTATAGCGGCACTTTTTGGGTACAAA
1 CGCCGCAAAAGGTC-AGATATATAGCGGC-GTTTTTGGATACAAA
** *
838806 CGTTGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAA
1 CGCCGCAAAAGGTCAGATATATAGCGGCGTTTTTGGATACAAA
* * * * * * * *
838848 CGTCGTAAAAGGTTAGATAAATAACGACATTTTTGGACACAAA
1 CGCCGCAAAAGGTCAGATATATAGCGGCGTTTTTGGATACAAA
* * * *
838891 CACCGCAAAAGGTTAGATAAATAGCGTCGTTTTT-GATACAAA
1 CGCCGCAAAAGGTCAGATATATAGCGGCGTTTTTGGATACAAA
* * * **
838933 CGCCGTAAAAGGTCAGATATCTAGTGGCGTTTTTTAATACAAA
1 CGCCGCAAAAGGTCAGATATATAGCGGCGTTTTTGGATACAAA
838976 CGCCGC
1 CGCCGC
838982 TAATACCATT
Statistics
Matches: 185, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
42 68 0.37
43 52 0.28
44 47 0.25
45 18 0.10
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (43 bp):
CGCCGCAAAAGGTCAGATATATAGCGGCGTTTTTGGATACAAA
Found at i:839107 original size:17 final size:18
Alignment explanation
Indices: 839075--839110 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
839065 CTTTATATAA
839075 TTAACAACAACCATAAATT
1 TTAACAACAA-CATAAATT
839094 TTAACAACAA-ATAAATT
1 TTAACAACAACATAAATT
839111 AAAATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.28
Consensus pattern (18 bp):
TTAACAACAACATAAATT
Found at i:839113 original size:22 final size:21
Alignment explanation
Indices: 839088--839135 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
839078 ACAACAACCA
839088 TAAATTTTA-ACAACAAATAAAT
1 TAAATTTTATA-AAC-AATAAAT
* *
839110 TAAAATTTATAAACATTAAAT
1 TAAATTTTATAAACAATAAAT
839131 TAAAT
1 TAAAT
839136 GTAATGTAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 10 0.45
22 11 0.50
23 1 0.05
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAATTTTATAAACAATAAAT
Found at i:841463 original size:24 final size:24
Alignment explanation
Indices: 841444--841596 Score: 170
Period size: 24 Copynumber: 6.3 Consensus size: 24
841434 TATGTATATA
*
841444 TGTATGTGTGTGTACGTGTATGCG
1 TGTATGTGTGTGTGCGTGTATGCG
841468 TGTATGCGTGTGTGTGCGTGTATGCG
1 TGTAT--GTGTGTGTGCGTGTATGCG
*
841494 TGTGTGTGTGTGTGCGTGTATGCG
1 TGTATGTGTGTGTGCGTGTATGCG
*
841518 TGTATGCGTGT-TGCGTG--TGCG
1 TGTATGTGTGTGTGCGTGTATGCG
*
841539 TGTATGTGTGTGTGCGTGTGTG-G
1 TGTATGTGTGTGTGCGTGTATGCG
* *
841562 TGTGTGTGTGTATGTGTATGTGTATGCG
1 TGTATGTGTG--TGTG--CGTGTATGCG
841590 TGTATGT
1 TGTATGT
841597 ATATATGTAT
Statistics
Matches: 110, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
21 14 0.13
22 6 0.05
23 16 0.15
24 35 0.32
25 4 0.04
26 22 0.20
27 6 0.05
28 7 0.06
ACGTcount: A:0.08, C:0.08, G:0.42, T:0.42
Consensus pattern (24 bp):
TGTATGTGTGTGTGCGTGTATGCG
Found at i:841480 original size:10 final size:8
Alignment explanation
Indices: 841444--841595 Score: 122
Period size: 8 Copynumber: 19.8 Consensus size: 8
841434 TATGTATATA
*
841444 TGTATGTG
1 TGTATGCG
* *
841452 TGTGTACG
1 TGTATGCG
841460 TGTATGCG
1 TGTATGCG
841468 TGTATGCGTG
1 TGTATGC--G
*
841478 TGTGTGCG
1 TGTATGCG
841486 TGTATGCG
1 TGTATGCG
* *
841494 TGTGTGTG
1 TGTATGCG
*
841502 TGTGTGCG
1 TGTATGCG
841510 TGTATGCG
1 TGTATGCG
841518 TGTATGCG
1 TGTATGCG
841526 TGT-TGCG
1 TGTATGCG
841533 TG--TGCG
1 TGTATGCG
*
841539 TGTATGTG
1 TGTATGCG
*
841547 TGTGTGCG
1 TGTATGCG
*
841555 TGTGTG-G
1 TGTATGCG
* *
841562 TGTGTGTG
1 TGTATGCG
841570 TGTAT--G
1 TGTATGCG
841576 TGTAT--G
1 TGTATGCG
841582 TGTATGCG
1 TGTATGCG
841590 TGTATG
1 TGTATG
841596 TATATATGTA
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
6 18 0.15
7 13 0.11
8 84 0.69
10 7 0.06
ACGTcount: A:0.08, C:0.08, G:0.42, T:0.42
Consensus pattern (8 bp):
TGTATGCG
Found at i:841500 original size:4 final size:4
Alignment explanation
Indices: 841475--841584 Score: 80
Period size: 4 Copynumber: 28.0 Consensus size: 4
841465 GCGTGTATGC
* * * * * * *
841475 GTGT GTGT GCGT GTAT GCGT GTGT GTGT GTGT GCGT GTAT GCGT GTAT
1 GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT
* * * * *
841523 GCGT GT-T GCGT GTGC GTGT ATGT GTGT GTGC GTGT GTG- GTGT GTGT
1 GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT
* *
841569 GTGT ATGT GTAT GTGT
1 GTGT GTGT GTGT GTGT
841585 ATGCGTGTAT
Statistics
Matches: 76, Mismatches: 28, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
3 5 0.07
4 71 0.93
ACGTcount: A:0.05, C:0.07, G:0.45, T:0.43
Consensus pattern (4 bp):
GTGT
Found at i:841502 original size:6 final size:6
Alignment explanation
Indices: 841475--841584 Score: 80
Period size: 6 Copynumber: 18.7 Consensus size: 6
841465 GCGTGTATGC
* * * * * * *
841475 GTGTGT GTGCGT GTATGC GTGTGT GTGTGT GTGCGT GTATGC GTGTAT
1 GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT
* * * * *
841523 GCGTGT -TGCGT GTGCGT GTATGT GTGTGT GCGTGT GTG-GT GTGTGT
1 GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT
* *
841569 GTGTAT GTGTAT GTGT
1 GTGTGT GTGTGT GTGT
841585 ATGCGTGTAT
Statistics
Matches: 79, Mismatches: 23, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
5 8 0.10
6 71 0.90
ACGTcount: A:0.05, C:0.07, G:0.45, T:0.43
Consensus pattern (6 bp):
GTGTGT
Found at i:842087 original size:43 final size:42
Alignment explanation
Indices: 842040--842123 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 42
842030 TGATGAAAAA
* *
842040 GGAAGCAACAAAGAGACAAAACTTCAGAATCTAAGGTACAAAG
1 GGAAGCAACAAAGAGAAAAAACTTCAG-ATCAAAGGTACAAAG
*
842083 GGAAGCAACAAAGAGAAAAAACTTCAGATCAAAGTTACAAA
1 GGAAGCAACAAAGAGAAAAAACTTCAGATCAAAGGTACAAA
842124 TCACAGAAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 12 0.32
43 26 0.68
ACGTcount: A:0.54, C:0.15, G:0.19, T:0.12
Consensus pattern (42 bp):
GGAAGCAACAAAGAGAAAAAACTTCAGATCAAAGGTACAAAG
Found at i:844835 original size:20 final size:20
Alignment explanation
Indices: 844806--844848 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
844796 ATTCCACCAC
*
844806 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
844826 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
844846 ATG
1 ATG
844849 GGCTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:845995 original size:61 final size:61
Alignment explanation
Indices: 845900--846055 Score: 228
Period size: 61 Copynumber: 2.6 Consensus size: 61
845890 TATGTATCAT
* *
845900 AGGTTTTAAAACCCCTAGGCTGGTTTCGAAACCCTTTGTCCATAATGACATTCTGCTAGAG
1 AGGTTTTAAAACCCCTAGGATGGTTTCGAAACCCTTTGTCCATAATGAAATTCTGCTAGAG
*
845961 AGGTTTTAAAACCCCTAGGATGGTTTCGAAACCCTTTGTCCATAATGAAATTCTGCTAGGG
1 AGGTTTTAAAACCCCTAGGATGGTTTCGAAACCCTTTGTCCATAATGAAATTCTGCTAGAG
*
846022 AGG-TCTAGAAACCCCTTTA-GA-GGTTTCGAAACCC
1 AGGTTTTA-AAACCCC--TAGGATGGTTTCGAAACCC
846056 CTACCCAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
60 3 0.03
61 81 0.92
62 2 0.02
63 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (61 bp):
AGGTTTTAAAACCCCTAGGATGGTTTCGAAACCCTTTGTCCATAATGAAATTCTGCTAGAG
Found at i:858802 original size:32 final size:32
Alignment explanation
Indices: 858761--858884 Score: 130
Period size: 31 Copynumber: 4.0 Consensus size: 32
858751 AGTCGAGGGT
*
858761 TTACCTATGTTCTATGGAACATATGGACAGAA
1 TTACCTATGTTCTATGGAACATATGGACAGTA
* * *
858793 TTACCTATG-TCTTTCGAGACATATGGATAGTA
1 TTACCTATGTTCTATGGA-ACATATGGACAGTA
* *
858825 -TACCTATGTTCTAAGGAACATATGGACA-TT
1 TTACCTATGTTCTATGGAACATATGGACAGTA
* * *
858855 TTACCTAGGTTCT-TGGGACCTATGGACAGT
1 TTACCTATGTTCTATGGAACATATGGACAGT
858885 TGCTGAGGTT
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
30 13 0.17
31 36 0.48
32 26 0.35
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (32 bp):
TTACCTATGTTCTATGGAACATATGGACAGTA
Done.