Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009071.1 Hibiscus syriacus cultivar Beakdansim tig00112501_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: 822590
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:611280 original size:30 final size:30
Alignment explanation
Indices: 611246--611323 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
611236 TTCCAGAAAA
**
611246 TGAATTACTGAAATTTGAATTACTGGAATT
1 TGAATTACTGAAAAATGAATTACTGGAATT
611276 TGAATTACTGAAAAATGAATTACTGGAATT
1 TGAATTACTGAAAAATGAATTACTGGAATT
*
611306 TGAATT-CTGGAAAATGAA
1 TGAATTACTGAAAAATGAA
611324 CTACATTTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 11 0.24
30 34 0.76
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (30 bp):
TGAATTACTGAAAAATGAATTACTGGAATT
Found at i:611339 original size:20 final size:20
Alignment explanation
Indices: 611310--611359 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
611300 GGAATTTGAA
611310 TTCTGGAAAATGAACTACAT
1 TTCTGGAAAATGAACTACAT
* *
611330 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAACTACAT
611350 TTCTGGAAAA
1 TTCTGGAAAA
611360 CATCTGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATGAACTACAT
Found at i:611559 original size:29 final size:28
Alignment explanation
Indices: 611526--611590 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
611516 TTTACTAAAA
* *
611526 TATTATTGAAATATATAAATAATATTATT
1 TATTATT-AAATATATAAAAAAAATTATT
611555 TATTATTAAATATATAAAAAAAATTA-T
1 TATTATTAAATATATAAAAAAAATTATT
611582 TATATATTA
1 TAT-TATTA
611591 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 4 0.12
28 22 0.67
29 7 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
TATTATTAAATATATAAAAAAAATTATT
Found at i:611571 original size:28 final size:29
Alignment explanation
Indices: 611525--611707 Score: 109
Period size: 29 Copynumber: 6.3 Consensus size: 29
611515 CTTTACTAAA
611525 ATATTATTGAAATATATAAATAA-TATTAT
1 ATATTATT-AAATATATAAATAATTATTAT
* *
611554 TTATTATTAAATATATAAAAAAAATTATTAT
1 ATATTATTAAATATAT--AAATAATTATTAT
* *
611585 ATATTATTAAA-ATAAAAATATAATATCT-T
1 ATATTATTAAATATATAAATA-ATTAT-TAT
* * *
611614 ATATTATTATA-ATATAATTGATTATTTTAT
1 ATATTATTAAATATATAAATAATTA--TTAT
* *
611644 ATAATATTAAAAATAT-AAT-ATTA-TAT
1 ATATTATTAAATATATAAATAATTATTAT
*
611670 -TATTA-TAAATATTAATAAATATATT-TTAA
1 ATATTATTAAATA-T-ATAAATA-ATTATTAT
611699 ATATT-TTAA
1 ATATTATTAA
611708 TAATTAATAT
Statistics
Matches: 120, Mismatches: 17, Indels: 33
0.71 0.10 0.19
Matches are distributed among these distances:
24 5 0.04
25 5 0.04
26 5 0.04
27 3 0.03
28 15 0.12
29 38 0.32
30 29 0.24
31 20 0.17
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
ATATTATTAAATATATAAATAATTATTAT
Found at i:611601 original size:24 final size:23
Alignment explanation
Indices: 611556--611615 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 23
611546 AATATTATTT
*
611556 ATTATTAAATA-TA-TAAAAAAA
1 ATTATTATATATTATTAAAAAAA
611577 ATTATTATATATTATTAAAATAAA
1 ATTATTATATATTATTAAAA-AAA
* * *
611601 AATATAATATCTTAT
1 ATTATTATATATTAT
611616 ATTATTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.31
22 2 0.06
23 5 0.16
24 15 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTATTATATATTATTAAAAAAA
Found at i:611617 original size:29 final size:29
Alignment explanation
Indices: 611525--611630 Score: 117
Period size: 29 Copynumber: 3.6 Consensus size: 29
611515 CTTTACTAAA
* *
611525 ATATTATTGAAATATATAAATAATATTAT
1 ATATTATTAAAATATAAAAATAATATTAT
* *
611554 TTATTATTAAATATATAAAAAAAATTATTAT
1 ATATTATTAAA-ATATAAAAATAA-TATTAT
611585 ATATTATTAAAATA-AAAATATAATATCT-T
1 ATATTATTAAAATATAAAA-ATAATAT-TAT
*
611614 ATATTATTATAATATAA
1 ATATTATTAAAATATAA
611631 TTGATTATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
29 30 0.46
30 19 0.29
31 16 0.25
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATTATTAAAATATAAAAATAATATTAT
Found at i:611668 original size:22 final size:23
Alignment explanation
Indices: 611643--611686 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
611633 GATTATTTTA
611643 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
611665 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
611687 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:611691 original size:22 final size:22
Alignment explanation
Indices: 611647--611703 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
611637 ATTTTATATA
* *
611647 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
611668 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
611690 ATATTTTAAATATT
1 ATATTATAAATATT
611704 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:611702 original size:52 final size:51
Alignment explanation
Indices: 611583--611703 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 51
611573 AAAAATTATT
**
611583 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAA
611634 AT-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAA
611688 ATATATTTTAAATATT
1 ATATATTTTAAATATT
611704 TTAATAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 20 0.33
53 7 0.12
54 22 0.37
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAA
Found at i:611939 original size:42 final size:42
Alignment explanation
Indices: 611892--612011 Score: 231
Period size: 42 Copynumber: 2.9 Consensus size: 42
611882 ATGAATTACA
*
611892 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
611934 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
611976 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
612012 TTCGGGGAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:619444 original size:24 final size:26
Alignment explanation
Indices: 619393--619444 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
619383 TAAACTAATT
*
619393 TTATATTTTAATCAATTAAATAATAA
1 TTATATTTTAATCAATAAAATAATAA
619419 TTAT-TTTTAAT-AATCAAAATAA-AA
1 TTATATTTTAATCAAT-AAAATAATAA
619443 TT
1 TT
619445 GATCTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 7 0.29
25 13 0.54
26 4 0.17
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TTATATTTTAATCAATAAAATAATAA
Found at i:640937 original size:38 final size:37
Alignment explanation
Indices: 640867--640990 Score: 148
Period size: 38 Copynumber: 3.4 Consensus size: 37
640857 TTTATTTTGT
640867 TCGGGTCGG--TTTTTTAA-GTGATATTCGGGTTGAG
1 TCGGGTCGGATTTTTTTAATGTGATATTCGGGTTGAG
*
640901 TCGGGTCGGATTTTTTTAAGTGTGATATTCGAGTTGAG
1 TCGGGTCGGATTTTTTTAA-TGTGATATTCGGGTTGAG
* * *
640939 TTGGGTCGGATTTTTTAAAATTTGATATTCGGGTCTG-G
1 TCGGGTCGGATTTTTT-TAATGTGATATTCGGGT-TGAG
640977 TCGGGTTCGGATTT
1 TCGGG-TCGGATTT
640991 AGGGTAAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
34 9 0.12
36 8 0.10
38 48 0.62
39 12 0.16
ACGTcount: A:0.16, C:0.09, G:0.32, T:0.43
Consensus pattern (37 bp):
TCGGGTCGGATTTTTTTAATGTGATATTCGGGTTGAG
Found at i:649513 original size:15 final size:15
Alignment explanation
Indices: 649473--649515 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
649463 AAGATTATTC
*
649473 AATAAATTATTCTATA
1 AATAATTTA-TCTATA
*
649489 ATTAATTTTATCTATA
1 AATAA-TTTATCTATA
649505 AATAATTTATC
1 AATAATTTATC
649516 ATGAACTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 6 0.26
16 14 0.61
17 3 0.13
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (15 bp):
AATAATTTATCTATA
Found at i:651880 original size:38 final size:38
Alignment explanation
Indices: 651849--651928 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
651839 TAATTTTTTG
*
651849 GTTTAGGGTTTGGTTTATTTTTTTGAATTAATATTAAA
1 GTTTAGGGTTTGGTTTAATTTTTTGAATTAATATTAAA
* * *
651887 TTTTTGGTTTTGGTTTAATTTTTTGAATTAATATTAAA
1 GTTTAGGGTTTGGTTTAATTTTTTGAATTAATATTAAA
651925 -TTTA
1 GTTTA
651929 TAAATCATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 3 0.08
38 34 0.92
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (38 bp):
GTTTAGGGTTTGGTTTAATTTTTTGAATTAATATTAAA
Found at i:651892 original size:19 final size:19
Alignment explanation
Indices: 651868--651927 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
651858 TTGGTTTATT
651868 TTTTTGAATTAATATTAAA
1 TTTTTGAATTAATATTAAA
** ** *
651887 TTTTTGGTTTTGGT-TTAAT
1 TTTTT-GAATTAATATTAAA
651906 TTTTTGAATTAATATTAAA
1 TTTTTGAATTAATATTAAA
651925 TTT
1 TTT
651928 ATAAATCATA
Statistics
Matches: 29, Mismatches: 10, Indels: 4
0.67 0.23 0.09
Matches are distributed among these distances:
18 4 0.14
19 21 0.72
20 4 0.14
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (19 bp):
TTTTTGAATTAATATTAAA
Found at i:652710 original size:45 final size:45
Alignment explanation
Indices: 652635--652734 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 45
652625 TTTTAAACCC
* * * *
652635 TTTTAACATTTCCCATATTTAATATTACGTCGTTTGGGAATATTT
1 TTTTAACTTTTCCAAAATTTAATATGACGTCGTTTGGGAATATTT
*
652680 TTTTAACTTTTCCAAAATTTTATATGACGTCGTTTGGGAATATTT
1 TTTTAACTTTTCCAAAATTTAATATGACGTCGTTTGGGAATATTT
652725 TTTTAA-TTTT
1 TTTTAACTTTT
652735 ATTAAGCTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 4 0.08
45 46 0.92
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (45 bp):
TTTTAACTTTTCCAAAATTTAATATGACGTCGTTTGGGAATATTT
Found at i:653589 original size:14 final size:14
Alignment explanation
Indices: 653568--653602 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
653558 CGACCTAACC
*
653568 CATTGACCGTTGAT
1 CATTGACCATTGAT
*
653582 CGTTGACCATTGAT
1 CATTGACCATTGAT
653596 CATTGAC
1 CATTGAC
653603 TTTGACCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (14 bp):
CATTGACCATTGAT
Found at i:653601 original size:21 final size:20
Alignment explanation
Indices: 653567--653610 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
653557 CCGACCTAAC
*
653567 CCATTGACCGTTGATCGTTGA
1 CCATTGACCATTGA-CGTTGA
* *
653588 CCATTGATCATTGACTTTGA
1 CCATTGACCATTGACGTTGA
653608 CCA
1 CCA
653611 AAAAGTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (20 bp):
CCATTGACCATTGACGTTGA
Found at i:657399 original size:23 final size:21
Alignment explanation
Indices: 657369--657427 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
657359 TTCCCCTGTG
657369 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCC-TC-AA
*
657392 GGGGGAATCAGTT-CCCTCAA
1 GGGGGAATCGGTTCCCCTCAA
* *
657412 GGGGGGATCGATTCCC
1 GGGGGAATCGGTTCCC
657428 TCTGCACCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 12 0.39
21 4 0.13
22 3 0.10
23 12 0.39
ACGTcount: A:0.20, C:0.25, G:0.34, T:0.20
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCTCAA
Found at i:657416 original size:21 final size:23
Alignment explanation
Indices: 657368--657418 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
657358 ATTCCCCTGT
*
657368 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCAGTTCCCCTTCAA
*
657391 AGGGGGAATCAGTT-CCC-TCAA
1 GGGGGGAATCAGTTCCCCTTCAA
657412 GGGGGGA
1 GGGGGGA
657419 TCGATTCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.40
22 3 0.12
23 12 0.48
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.18
Consensus pattern (23 bp):
GGGGGGAATCAGTTCCCCTTCAA
Found at i:662892 original size:21 final size:21
Alignment explanation
Indices: 662866--662927 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
662856 AAACCATTCA
662866 GGGGGGAATCGGTACCCCCTT
1 GGGGGGAATCGGTACCCCCTT
* * *
662887 GGGGGGAATCAGTTCCCTC-T
1 GGGGGGAATCGGTACCCCCTT
*
662907 --GAGGAATCGGTACCCCCTT
1 GGGGGGAATCGGTACCCCCTT
662926 GG
1 GG
662928 TGATTAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
18 13 0.42
19 1 0.03
20 1 0.03
21 16 0.52
ACGTcount: A:0.16, C:0.27, G:0.35, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTT
Found at i:663734 original size:64 final size:64
Alignment explanation
Indices: 663660--663844 Score: 198
Period size: 64 Copynumber: 2.9 Consensus size: 64
663650 TTGTTTGAAT
* * **
663660 GTGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAA-T
663723 C-
63 CG
* * * *
663724 GTGCATCGATGCATAAGTAATGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
** **
663788 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAACAATAATACTACATCGAAT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAAT
663845 ACCTTTTATG
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
63 2 0.02
64 92 0.91
65 7 0.07
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
Found at i:664210 original size:12 final size:12
Alignment explanation
Indices: 664192--664227 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
664182 TATATATGTT
664192 CATGTGATATGA
1 CATGTGATATGA
*
664204 TATGTGATATGA
1 CATGTGATATGA
*
664216 CCTGTGATATGA
1 CATGTGATATGA
664228 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:664285 original size:29 final size:29
Alignment explanation
Indices: 664243--664309 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
664233 TGATATGAAG
664243 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
664272 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
*
664301 TGATATGAG
1 TGACATGAG
664310 TATATGAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:670660 original size:64 final size:64
Alignment explanation
Indices: 670582--670807 Score: 217
Period size: 64 Copynumber: 3.5 Consensus size: 64
670572 ATTGTTTGAA
* * *
670582 TGTGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAAT
1 TGTGCATCGATGCATAGGTAGTGCATCGATGCATC-CTATTAATAATAAA-ACATCGAATGCAAT
*
670645 T
64 C
* *
670646 TGTGCATCGATGCATAGGTAGTGCATCGATGCATCCTATTAATAGTGAAACATCGAATGCAATC
1 TGTGCATCGATGCATAGGTAGTGCATCGATGCATCCTATTAATAATAAAACATCGAATGCAATC
* * ** ** * * ** *
670710 GGTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAGCAATAATACTATATCGAATACCTTT
1 TGTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCTATTAATAATAAAACATCGAATGCAATC
* *
670774 TATGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 TGTGCATCGATGCAT-AGGTAGTGCATCGATGCAT
670808 ACCTTCATTA
Statistics
Matches: 135, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
63 1 0.01
64 126 0.93
65 8 0.06
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (64 bp):
TGTGCATCGATGCATAGGTAGTGCATCGATGCATCCTATTAATAATAAAACATCGAATGCAATC
Found at i:671133 original size:12 final size:12
Alignment explanation
Indices: 671115--671150 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
671105 TATATATGTT
671115 CATGTGATATGA
1 CATGTGATATGA
*
671127 TATGTGATATGA
1 CATGTGATATGA
*
671139 CCTGTGATATGA
1 CATGTGATATGA
671151 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:671208 original size:29 final size:29
Alignment explanation
Indices: 671166--671239 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
671156 TGATATGAAG
671166 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
671195 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
*
671224 TGATATGAG-TACATGA
1 TGACATGAGCTACATGA
671240 ACATATGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 7 0.16
29 37 0.84
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:671342 original size:15 final size:15
Alignment explanation
Indices: 671324--671356 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
671314 GAGGGTATAA
671324 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
671339 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
671354 TAG
1 TAG
671357 GAGTCCTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:672690 original size:23 final size:23
Alignment explanation
Indices: 672657--672724 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
672647 ATTATTATAT
672657 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
672680 GGCACTCCGGTGTAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
672703 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
672725 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:678365 original size:24 final size:25
Alignment explanation
Indices: 678338--678405 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
678328 ATCTATGATA
678338 TTTTTAATTTTATAAAATTAAT-TT
1 TTTTTAATTTTATAAAATTAATATT
* **
678362 TTTTTTATTTTATCAACTTTTAATATT
1 TTTTTAATTTTAT-AA-AATTAATATT
678389 TTTATTAATTTT-TAAAA
1 TTT-TTAATTTTATAAAA
678406 ATTAGATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
24 12 0.35
25 2 0.06
26 7 0.21
27 6 0.18
28 7 0.21
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTTAATTTTATAAAATTAATATT
Found at i:684445 original size:31 final size:31
Alignment explanation
Indices: 684407--684478 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
684397 AACGGTTGTA
684407 GACCATATTGCAAACAGATTAAATATTAGGG
1 GACCATATTGCAAACAGATTAAATATTAGGG
*
684438 GACCATATTGTAAACAGATTAAATATTAGGG
1 GACCATATTGCAAACAGATTAAATATTAGGG
*
684469 GACTATATTG
1 GACCATATTG
684479 AAAGTTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.29
Consensus pattern (31 bp):
GACCATATTGCAAACAGATTAAATATTAGGG
Found at i:694556 original size:19 final size:19
Alignment explanation
Indices: 694497--694558 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
694487 GTGTTGATAA
*
694497 TAATATTTAGTTTAAATTTT
1 TAATATTTAGATTAAA-TTT
**
694517 TAGATATTTA-A-TAAAAAT
1 TA-ATATTTAGATTAAATTT
694535 TAATATTTAGATTAAATTT
1 TAATATTTAGATTAAATTT
694554 TAATA
1 TAATA
694559 GTAATATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 7 0.21
18 4 0.12
19 14 0.41
20 2 0.06
21 7 0.21
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
TAATATTTAGATTAAATTT
Found at i:697172 original size:238 final size:241
Alignment explanation
Indices: 696696--697192 Score: 761
Period size: 238 Copynumber: 2.0 Consensus size: 241
696686 ACTTTATTTT
* * *
696696 GGTCGGGTCGGATCGGGTTTTTTTAAGTGTGATATTCAGGTTGAGTTCGGGTTTAGGGTGAAAAA
1 GGTCGGGTCGGATCGGGGTTTTTTAAGTGTGATATTCAGGTCGAGTTCAGGTTTAGGGTGAAAAA
*
696761 AGGGGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAA
66 AGGGGACCGACCCAAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAA
696826 TAAAAATATTTTTTTATTATTTCGGGTCGGGTCTGGTTGGATTTCTAATTCATATATTCGGGTCG
131 TAAAAATATTTTTTTATTATTT---GTCGGGTC----TGGATTTCTAATTCATATATTCGGGTCG
*
696891 GGACGGATGAAACTTTATTTTGTTCGGGTCGGGTTTTTTAAGTGTGATATTCG
189 GGACGGATGAAACTTTATTTTGTTCGGGTCAGGTTTTTTAAGTGTGATATTCG
* * *
696944 GGTCGAGTCGG-TCGGGGTTTTTTAAGTGTGATATTCGGGTCGGGTTCAGGTTTAGGGT-AAAAA
1 GGTCGGGTCGGATCGGGGTTTTTTAAGTGTGATATTCAGGTCGAGTTCAGGTTTAGGGTGAAAAA
* * *
697007 ATGGGACCGACCCAAAAATATATATAATTCGGGTCGGGTTGGATTAAGTCATTGTTTTTATTAAA
66 AGGGGACCGACCCAAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAA
*
697072 TAAAAATAATTTTTTTTATTA-TT-TCGGGTC-GGATTTCTAATTCATATATTCGGGTCGGGTCG
131 TAAAAAT-A-TTTTTTTATTATTTGTCGGGTCTGGATTTCTAATTCATATATTCGGGTCGGGACG
*
697134 GATGAAACTTTATTTTGTTCGGGTCATGTTTTTTAAGTGTGATATTCG
194 GATGAAACTTTATTTTGTTCGGGTCAGGTTTTTTAAGTGTGATATTCG
697182 GGTCGGGTCGG
1 GGTCGGGTCGG
697193 GTTCGGGTTT
Statistics
Matches: 233, Mismatches: 14, Indels: 14
0.89 0.05 0.05
Matches are distributed among these distances:
238 87 0.37
243 7 0.03
246 73 0.31
247 45 0.19
248 21 0.09
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (241 bp):
GGTCGGGTCGGATCGGGGTTTTTTAAGTGTGATATTCAGGTCGAGTTCAGGTTTAGGGTGAAAAA
AGGGGACCGACCCAAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAA
TAAAAATATTTTTTTATTATTTGTCGGGTCTGGATTTCTAATTCATATATTCGGGTCGGGACGGA
TGAAACTTTATTTTGTTCGGGTCAGGTTTTTTAAGTGTGATATTCG
Found at i:701436 original size:25 final size:24
Alignment explanation
Indices: 701408--701458 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
701398 ACTGTTGCAT
701408 AATTTATAATCACAACAAAAATTAA
1 AATTTATAATCACAACAAAAA-TAA
* *
701433 AATTTATATTTACAACAAAAATAA
1 AATTTATAATCACAACAAAAATAA
701457 AA
1 AA
701459 GATGGGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (24 bp):
AATTTATAATCACAACAAAAATAA
Found at i:705602 original size:45 final size:45
Alignment explanation
Indices: 705537--705845 Score: 451
Period size: 45 Copynumber: 6.9 Consensus size: 45
705527 CATTTATTTT
* * *
705537 CCATTTATCCCATAATCTCGTAAGCATATTTTACCAATATACTTA
1 CCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTA
* * *
705582 CCATTTATACCATAAGCTCGTAAGTTTATTTCATCAATATACTTA
1 CCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTA
* *
705627 CCATTTA-ATCCATAAGTTCGTAAGCTTATTTTACCAATGTACTTA
1 CCATTTATA-CCATAAGCTCGTAAGCTTATTTTACCAATATACTTA
** *
705672 CCATTTATTTCATAAGCTTGTAAGCTTATTTTACCAATATACTTA
1 CCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTA
* *
705717 CCATTTATTCCATAAGCTCGTAAGCTTATTTTATCAATATACTTA
1 CCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTA
*
705762 CCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTG
1 CCATTT-ATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTA
*
705808 CCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATA
1 CCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATA
705846 AACCATAAAT
Statistics
Matches: 238, Mismatches: 23, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
44 33 0.14
45 166 0.70
46 39 0.16
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (45 bp):
CCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTA
Found at i:705815 original size:135 final size:135
Alignment explanation
Indices: 705537--705845 Score: 503
Period size: 135 Copynumber: 2.3 Consensus size: 135
705527 CATTTATTTT
* * *
705537 CCATTTATCCCATAATCTCGTAAGCATATTTTACCAATATACTTACCATTTATACCATAAGCTCG
1 CCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATACCATAAGCTCG
* * *
705602 TAAGTTTATTTCATCAATATACTTACCATTTAATCCATAAGTTCGTAAGCTTATTTTACCAATGT
66 TAAGCTTATTTCATCAATATACTTACCATTTAATCCATAAGCTCGTAAGCTTATTTTACCAATAT
705667 ACTTA
131 ACTTA
* * *
705672 CCATTTATTTCATAAGCTTGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAGCTCG
1 CCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATACCATAAGCTCG
*
705737 TAAGCTTATTTTATCAATATACTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATA
66 TAAGCTTATTTCATCAATATACTTACCATTTAAT-CCATAAGCTCGTAAGCTTATTTTACCAATA
*
705802 TACTTG
130 TACTTA
705808 CCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATA
1 CCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATA
705846 AACCATAAAT
Statistics
Matches: 160, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
135 124 0.77
136 36 0.22
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (135 bp):
CCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATACCATAAGCTCG
TAAGCTTATTTCATCAATATACTTACCATTTAATCCATAAGCTCGTAAGCTTATTTTACCAATAT
ACTTA
Found at i:705894 original size:14 final size:14
Alignment explanation
Indices: 705875--705924 Score: 93
Period size: 14 Copynumber: 3.6 Consensus size: 14
705865 TAGTCTAACT
705875 GTATGAGGAACCTA
1 GTATGAGGAACCTA
705889 GTATGAGGAACCTA
1 GTATGAGGAACCTA
705903 GTATGAGGAACCTA
1 GTATGAGGAACCTA
705917 GTAT-AGGA
1 GTATGAGGA
705925 GTCAAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 4 0.11
14 32 0.89
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (14 bp):
GTATGAGGAACCTA
Found at i:706008 original size:40 final size:40
Alignment explanation
Indices: 705929--706012 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
705919 ATAGGAGTCA
* * * *
705929 AATATTGCACCGAAGTGCTGAGGTCAAGCTTTGCTCACCT
1 AATAATGCACCGAAGTGCTGAGGTCAAGATTTACACACCT
* **
705969 AATAATGCACCGTAGTGCTGAGGTCGGGATTTACACACCT
1 AATAATGCACCGAAGTGCTGAGGTCAAGATTTACACACCT
706009 AATA
1 AATA
706013 CACCGTAGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (40 bp):
AATAATGCACCGAAGTGCTGAGGTCAAGATTTACACACCT
Found at i:710335 original size:24 final size:24
Alignment explanation
Indices: 710290--710335 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
710280 GTTTTCCCTG
*
710290 TCACTTTCCATTATAATTATATAC
1 TCACTTTCCATTATAATCATATAC
*
710314 TCACTTTCCCTTCAT-ATCATAT
1 TCACTTTCCATT-ATAATCATAT
710336 CCCATCTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (24 bp):
TCACTTTCCATTATAATCATATAC
Found at i:712581 original size:2 final size:2
Alignment explanation
Indices: 712576--712611 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
712566 CAAACATACT
712576 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
712612 TTTTATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:714905 original size:25 final size:25
Alignment explanation
Indices: 714877--714926 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
714867 GAAGAAAGCA
714877 ATAAGGGTAAATGTATACTTTTAGG
1 ATAAGGGTAAATGTATACTTTTAGG
714902 ATAAGGGTAAATGTATACTTTTAGG
1 ATAAGGGTAAATGTATACTTTTAGG
714927 GAAATTCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (25 bp):
ATAAGGGTAAATGTATACTTTTAGG
Found at i:727120 original size:3 final size:3
Alignment explanation
Indices: 727112--727141 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
727102 AACGTTTTCT
727112 TTC TTC TTC TTC TTC TTC TTC TT- TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
727142 AAATTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:728860 original size:5 final size:5
Alignment explanation
Indices: 728850--728875 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
728840 TCGACACTAC
728850 TAATA TAATA TAATA TAATA TAATA T
1 TAATA TAATA TAATA TAATA TAATA T
728876 TTATGTGTCT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:730238 original size:24 final size:24
Alignment explanation
Indices: 730209--730299 Score: 173
Period size: 24 Copynumber: 3.8 Consensus size: 24
730199 CGTTTGATAA
730209 TATGTTCGTTCATTTATGTAAATT
1 TATGTTCGTTCATTTATGTAAATT
*
730233 TATGTTCGTTCATTTATGTAAACT
1 TATGTTCGTTCATTTATGTAAATT
730257 TATGTTCGTTCATTTATGTAAATT
1 TATGTTCGTTCATTTATGTAAATT
730281 TATGTTCGTTCATTTATGT
1 TATGTTCGTTCATTTATGT
730300 TCGTTCGTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.54
Consensus pattern (24 bp):
TATGTTCGTTCATTTATGTAAATT
Found at i:730297 original size:14 final size:14
Alignment explanation
Indices: 730278--730328 Score: 77
Period size: 14 Copynumber: 3.6 Consensus size: 14
730268 ATTTATGTAA
730278 ATTTATGTTCGTTC
1 ATTTATGTTCGTTC
730292 ATTTATGTTCGTTC
1 ATTTATGTTCGTTC
*
730306 GTTTATGTGT-GTTC
1 ATTTATGT-TCGTTC
730320 ATTTATGTT
1 ATTTATGTT
730329 TAGCCCAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 1 0.03
14 32 0.94
15 1 0.03
ACGTcount: A:0.14, C:0.10, G:0.18, T:0.59
Consensus pattern (14 bp):
ATTTATGTTCGTTC
Found at i:730557 original size:47 final size:47
Alignment explanation
Indices: 730504--730600 Score: 133
Period size: 47 Copynumber: 2.1 Consensus size: 47
730494 TTTTATTTAT
**
730504 GTTCGTTTACGTT-TGTTTATGTTCATTTATTGTGTTCGTTTACGTTC
1 GTTCGTTTACGTTCT-TTTACATTCATTTATTGTGTTCGTTTACGTTC
** *
730551 GTTCGTTTGTGTTCTTTTACATTCATTTATTGTGTTCGTTTATGTTC
1 GTTCGTTTACGTTCTTTTACATTCATTTATTGTGTTCGTTTACGTTC
730598 GTT
1 GTT
730601 TACATCTGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
47 43 0.98
48 1 0.02
ACGTcount: A:0.10, C:0.12, G:0.19, T:0.59
Consensus pattern (47 bp):
GTTCGTTTACGTTCTTTTACATTCATTTATTGTGTTCGTTTACGTTC
Found at i:730611 original size:47 final size:47
Alignment explanation
Indices: 730525--730627 Score: 125
Period size: 47 Copynumber: 2.2 Consensus size: 47
730515 TTTGTTTATG
*** * *
730525 TTCATTTATTGTGTTCGTTTACGTTCGTTCGTTTGTGTTCTTTTACA
1 TTCATTTATTGTGTTCGTTTACGTTCGTTCACATCTGTTCATTTACA
* * **
730572 TTCATTTATTGTGTTCGTTTATGTTCGTTTACATCTGTTCATTTATG
1 TTCATTTATTGTGTTCGTTTACGTTCGTTCACATCTGTTCATTTACA
730619 TTCATTTAT
1 TTCATTTAT
730628 CATTTAAATG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.14, C:0.14, G:0.15, T:0.58
Consensus pattern (47 bp):
TTCATTTATTGTGTTCGTTTACGTTCGTTCACATCTGTTCATTTACA
Found at i:732150 original size:16 final size:17
Alignment explanation
Indices: 732118--732155 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
732108 ATCGAGAATA
732118 TAATACTTTATTATTTT
1 TAATACTTTATTATTTT
732135 TAATA-TTTA-TACTTTT
1 TAATACTTTATTA-TTTT
732151 TAATA
1 TAATA
732156 AAATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 2 0.10
16 13 0.65
17 5 0.25
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATACTTTATTATTTT
Found at i:732194 original size:25 final size:24
Alignment explanation
Indices: 732147--732194 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
732137 ATATTTATAC
* *
732147 TTTTTAATAAAATTTATATATAAT
1 TTTTTAATAAAATTTAAAGATAAT
*
732171 TTTTTTATAAAATTTAAAAGATAA
1 TTTTTAATAAAATTT-AAAGATAA
732195 ATGGATAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTTAATAAAATTTAAAGATAAT
Found at i:732473 original size:26 final size:25
Alignment explanation
Indices: 732444--732494 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
732434 ACAATTAAAC
732444 AAAAATCA-AAATTATATATATTATAT
1 AAAAATCATAAATTA-ATAT-TTATAT
*
732470 -AAAATTATAAATTAATATTTATAT
1 AAAAATCATAAATTAATATTTATAT
732494 A
1 A
732495 TTTCTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
24 6 0.27
25 10 0.45
26 6 0.27
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAAATCATAAATTAATATTTATAT
Found at i:745237 original size:27 final size:27
Alignment explanation
Indices: 745205--745258 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
745195 TGGAGGTAGT
745205 GGGTGGGGTGTTTAGAAAAAATGGAAA
1 GGGTGGGGTGTTTAGAAAAAATGGAAA
745232 GGGTGGGGTGTTTAGAAAAAATGGAAA
1 GGGTGGGGTGTTTAGAAAAAATGGAAA
745259 TTAAAAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (27 bp):
GGGTGGGGTGTTTAGAAAAAATGGAAA
Found at i:746578 original size:19 final size:19
Alignment explanation
Indices: 746554--746595 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
746544 TTAAATTTAT
*
746554 TTTTCATTATTAGTGAATC
1 TTTTCAGTATTAGTGAATC
* *
746573 TTTTCAGTATTATTTAATC
1 TTTTCAGTATTAGTGAATC
746592 TTTT
1 TTTT
746596 TAATTATACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTCAGTATTAGTGAATC
Found at i:747959 original size:54 final size:54
Alignment explanation
Indices: 747849--747964 Score: 164
Period size: 54 Copynumber: 2.1 Consensus size: 54
747839 GCAAATCATT
* * * *
747849 GGAGAAAATCGCTACTGAAGTTGTTTACGCCGCTTCCGTACAACGCGAATCTTC
1 GGAGAAAACCGCTACTGAAGCTGTTCACGCCGCTTCCGTACAACACGAATCTTC
747903 GGAGAAAACCGCTACTGAAGCTGTTCACGCCGCTTCCGTACAACAC-ACAT-TATC
1 GGAGAAAACCGCTACTGAAGCTGTTCACGCCGCTTCCGTACAACACGA-ATCT-TC
747957 GGAGAAAA
1 GGAGAAAA
747965 GAGCTGCCAT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
53 2 0.04
54 54 0.96
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (54 bp):
GGAGAAAACCGCTACTGAAGCTGTTCACGCCGCTTCCGTACAACACGAATCTTC
Found at i:751516 original size:35 final size:35
Alignment explanation
Indices: 751444--751522 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
751434 TTTGATAAAA
* * *
751444 TAAATGAATATTATTTATATATATATTTATAAGAC
1 TAAATAAATATTATTTATATATATATTGACAAGAC
*
751479 TAAATAAATATTATTTTTATATATATTGACATA-AC
1 TAAATAAATATTATTTATATATATATTGACA-AGAC
751514 T-AATAAATA
1 TAAATAAATA
751523 ATAATAGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
34 8 0.21
35 30 0.77
36 1 0.03
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (35 bp):
TAAATAAATATTATTTATATATATATTGACAAGAC
Found at i:761447 original size:15 final size:16
Alignment explanation
Indices: 761411--761451 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
761401 TTTAAATAAC
761411 GTTTTAAAACAGCTACAT
1 GTTTT-AAA-AGCTACAT
761429 -TTTTAAAAGCTA-AT
1 GTTTTAAAAGCTACAT
761443 GTTTTAAAA
1 GTTTTAAAA
761452 AGAATTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.09
15 13 0.59
16 3 0.14
17 4 0.18
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (16 bp):
GTTTTAAAAGCTACAT
Found at i:763159 original size:19 final size:19
Alignment explanation
Indices: 763128--763173 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
763118 TGGCTTGACA
763128 GGTCTGAACCGGTCCAAATC
1 GGTCTG-ACCGGTCCAAATC
*
763148 GGTCTGACCGGTCCGAATC
1 GGTCTGACCGGTCCAAATC
763167 GGTCTGA
1 GGTCTGA
763174 ACGACCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.20, C:0.28, G:0.30, T:0.22
Consensus pattern (19 bp):
GGTCTGACCGGTCCAAATC
Found at i:763214 original size:13 final size:12
Alignment explanation
Indices: 763182--763223 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
763172 GAACGACCCA
763182 ACCCGTTGACCG
1 ACCCGTTGACCG
**
763194 ACTTGTTGACCCG
1 ACCCGTTGA-CCG
763207 ACCCGTTGACCG
1 ACCCGTTGACCG
763219 ACCCG
1 ACCCG
763224 ATCCAGTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.17, C:0.40, G:0.24, T:0.19
Consensus pattern (12 bp):
ACCCGTTGACCG
Found at i:763279 original size:29 final size:28
Alignment explanation
Indices: 763247--763447 Score: 188
Period size: 29 Copynumber: 7.0 Consensus size: 28
763237 TTTGATTTTT
* *
763247 TTTTAAAAATAGTGACATTCTGGCAATTA
1 TTTTAAAAA-AGTGACATTTTGGTAATTA
* * * *
763276 TTTTTAAAACGATGACATTTTGGGAATTT
1 TTTTAAAAAAG-TGACATTTTGGTAATTA
763305 TTTTAAAAACAGTGACATTTTGGTAATTA
1 TTTTAAAAA-AGTGACATTTTGGTAATTA
* * *
763334 TTTTTAAAACGATGACATTTTGGGAATTA
1 TTTTAAAAAAG-TGACATTTTGGTAATTA
** *
763363 TTTGTAAAATGGTGATATTTTGGTAATTA
1 TTT-TAAAAAAGTGACATTTTGGTAATTA
*
763392 TTTTTAAAACAA-TGATATTTTGGTAATTA
1 -TTTTAAAA-AAGTGACATTTTGGTAATTA
* * *
763421 TTTAAAAAAAGTGATATTTTTGTAATT
1 TTTTAAAAAAGTGACATTTTGGTAATT
763448 TTCGAACTTG
Statistics
Matches: 144, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
27 2 0.01
28 24 0.17
29 109 0.76
30 9 0.06
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (28 bp):
TTTTAAAAAAGTGACATTTTGGTAATTA
Found at i:763333 original size:58 final size:58
Alignment explanation
Indices: 763244--763447 Score: 268
Period size: 58 Copynumber: 3.5 Consensus size: 58
763234 ATTTTTGATT
* *
763244 TTTTTTTAAAAATAGTGACATTCTGGCAATTATTTTTAAAACGATGACATTTTGGGAA
1 TTTTTTTAAAAATAGTGACATTTTGGTAATTATTTTTAAAACGATGACATTTTGGGAA
*
763302 TTTTTTTAAAAACAGTGACATTTTGGTAATTATTTTTAAAACGATGACATTTTGGGAA
1 TTTTTTTAAAAATAGTGACATTTTGGTAATTATTTTTAAAACGATGACATTTTGGGAA
* * * * * *
763360 TTATTTGT-AAAATGGTGATATTTTGGTAATTATTTTTAAAACAATGATATTTTGGTAA
1 TT-TTTTTAAAAATAGTGACATTTTGGTAATTATTTTTAAAACGATGACATTTTGGGAA
* * * *
763418 -TTATTTAAAAAAAGTGATATTTTTGTAATT
1 TTTTTTTAAAAATAGTGACATTTTGGTAATT
763448 TTCGAACTTG
Statistics
Matches: 129, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
56 3 0.02
57 21 0.16
58 101 0.78
59 4 0.03
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (58 bp):
TTTTTTTAAAAATAGTGACATTTTGGTAATTATTTTTAAAACGATGACATTTTGGGAA
Found at i:763442 original size:87 final size:86
Alignment explanation
Indices: 763248--763440 Score: 235
Period size: 87 Copynumber: 2.2 Consensus size: 86
763238 TTGATTTTTT
* * *
763248 TTTAAAAATAGTGACATTCTGGCAATTATTTTTAAAACGATGACATTTTGGGAATTTTTTTAAAA
1 TTTAAAAAAAGTGACATTTTGGCAATTATTTGTAAAACGATGACATTTTGGGAATTTTTTTAAAA
*
763313 ACAGTGACATTTTGGTAATTA
66 ACAATGACATTTTGGTAATTA
** * * * * * *
763334 TTTTTAAAACGATGACATTTTGGGAATTATTTGTAAAATGGTGATATTTTGGTAATTATTTTT-A
1 TTTAAAAAAAG-TGACATTTTGGCAATTATTTGTAAAACGATGACATTTTGGGAATT-TTTTTAA
*
763398 AAACAATGATATTTTGGTAATTA
64 AAACAATGACATTTTGGTAATTA
*
763421 TTTAAAAAAAGTGATATTTT
1 TTTAAAAAAAGTGACATTTT
763441 TGTAATTTTC
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
86 15 0.17
87 68 0.77
88 5 0.06
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (86 bp):
TTTAAAAAAAGTGACATTTTGGCAATTATTTGTAAAACGATGACATTTTGGGAATTTTTTTAAAA
ACAATGACATTTTGGTAATTA
Found at i:764504 original size:84 final size:84
Alignment explanation
Indices: 764386--764582 Score: 308
Period size: 84 Copynumber: 2.4 Consensus size: 84
764376 AGATGCTTCA
* * * *
764386 TTAGGTTGGC-TCCATT-TGTTGTGTGCTTAGGGTAAGCCATACGGATTTACTGACTTAAGGATA
1 TTAGGTTGGCTTCCTTTCTGTTGTGTGCTTAAGGTAAGCCATACGGACTTACAGACTTAAGGATA
764449 CAAGCCCCAAAGCCTATAT
66 CAAGCCCCAAAGCCTATAT
*
764468 TTAGGTTGGCTTCCTTTCTGTTGTGTGCTTAAGGTAAGCCCTACGGACTTACAGACTTAAGGATA
1 TTAGGTTGGCTTCCTTTCTGTTGTGTGCTTAAGGTAAGCCATACGGACTTACAGACTTAAGGATA
* *
764533 CATGCCCCAAAGCCTATCT
66 CAAGCCCCAAAGCCTATAT
*
764552 TTAGGTTGGCTTCCTTTCTGTTGTTTGCTTA
1 TTAGGTTGGCTTCCTTTCTGTTGTGTGCTTA
764583 TTGCTTAAGG
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
82 10 0.10
83 5 0.05
84 90 0.86
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (84 bp):
TTAGGTTGGCTTCCTTTCTGTTGTGTGCTTAAGGTAAGCCATACGGACTTACAGACTTAAGGATA
CAAGCCCCAAAGCCTATAT
Found at i:765267 original size:39 final size:39
Alignment explanation
Indices: 765224--765298 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
765214 GGGATTACCA
* * *
765224 TGTGCACAAAGCAGATGAGCTTGCAGTAAGGTCTTATCC
1 TGTGCACAAAGCAGAAGAGCCTGCAGTAAGGACTTATCC
*
765263 TGTGCTCAAAGCAGAAGAGCCTGCAGTAAGGACTTA
1 TGTGCACAAAGCAGAAGAGCCTGCAGTAAGGACTTA
765299 CCTTGAGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (39 bp):
TGTGCACAAAGCAGAAGAGCCTGCAGTAAGGACTTATCC
Found at i:765313 original size:39 final size:39
Alignment explanation
Indices: 765230--765306 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
765220 ACCATGTGCA
* * * *
765230 CAAAGCAGATGAGCTTGCAGTAAGGTCTTATCCTGTGCT
1 CAAAGCAGAAGAGCCTGCAGTAAGGACTTATCCTGAGCT
765269 CAAAGCAGAAGAGCCTGCAGTAAGGACTTA-CCTTGAGC
1 CAAAGCAGAAGAGCCTGCAGTAAGGACTTATCC-TGAGC
765307 ATAAAGCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (39 bp):
CAAAGCAGAAGAGCCTGCAGTAAGGACTTATCCTGAGCT
Found at i:766168 original size:13 final size:13
Alignment explanation
Indices: 766150--766176 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
766140 AGTTCGGACA
766150 CGAGTTAGCGGGT
1 CGAGTTAGCGGGT
766163 CGAGTTAGCGGGT
1 CGAGTTAGCGGGT
766176 C
1 C
766177 AGGTCGAATC
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:0.15, C:0.19, G:0.44, T:0.22
Consensus pattern (13 bp):
CGAGTTAGCGGGT
Found at i:770811 original size:12 final size:12
Alignment explanation
Indices: 770790--770834 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
770780 ATTTTGGTCC
770790 TTTTTCATTTTTA
1 TTTTT-ATTTTTA
770803 TTTTTATTTTTA
1 TTTTTATTTTTA
*
770815 TTTTATTATTTTTC
1 -TTT-TTATTTTTA
770829 TTTTTA
1 TTTTTA
770835 CTAACTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 10 0.34
13 11 0.38
14 8 0.28
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:770812 original size:5 final size:6
Alignment explanation
Indices: 770790--770834 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
770780 ATTTTGGTCC
*
770790 TTTTTCA TTTTTA TTTTTA TTTTTA TTTTATTA TTTTTC TTTTTA
1 TTTTT-A TTTTTA TTTTTA TTTTTA -TTT-TTA TTTTTA TTTTTA
770835 CTAACTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 20 0.59
7 11 0.32
8 3 0.09
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:770855 original size:22 final size:22
Alignment explanation
Indices: 770820--770871 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
770810 TTTTATTTTA
*
770820 TTATTTTTC-TTTTTA-CTAACTT
1 TTATTTATCATTTTTATCT-AC-T
770842 TTATTTATCATTTTTATCTACT
1 TTATTTATCATTTTTATCTACT
770864 TTATTTAT
1 TTATTTAT
770872 TTTATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 17 0.63
23 8 0.30
24 2 0.07
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATTTATCATTTTTATCTACT
Found at i:770895 original size:26 final size:25
Alignment explanation
Indices: 770866--770925 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
770856 TATCTACTTT
*
770866 ATTTATTTTATTATTATT-ATATTAAC
1 ATTTATTTT-TCA-TATTCATATTAAC
* *
770892 ATTT-TTTTTCATATTCATATTCAT
1 ATTTATTTTTCATATTCATATTAAC
770916 ATTTATTTTT
1 ATTTATTTTT
770926 ATTTTACAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 12 0.41
25 9 0.31
26 4 0.14
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (25 bp):
ATTTATTTTTCATATTCATATTAAC
Found at i:775255 original size:43 final size:43
Alignment explanation
Indices: 775194--775349 Score: 125
Period size: 43 Copynumber: 3.4 Consensus size: 43
775184 CATAGCCAAT
775194 TTCAACTTCAC-AGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGA-CGAAGGATATTGGACTCCAGACAACGCAAG
*** ** * * * *
775237 TTCAACTTCACGACGAAGGGACCGCTGGTTTTCAATAAACAATTTCCCAAT
1 TTCAACTTCACGACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
* *
775288 TTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
775331 TTCAACTTCACGACGAAGG
1 TTCAACTTCACGACGAAGG
775350 GACCGCTGGT
Statistics
Matches: 82, Mismatches: 22, Indels: 18
0.67 0.18 0.15
Matches are distributed among these distances:
43 36 0.44
44 4 0.05
45 3 0.04
46 7 0.09
48 7 0.09
49 3 0.04
50 3 0.04
51 19 0.23
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (43 bp):
TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:775257 original size:106 final size:105
Alignment explanation
Indices: 774559--776046 Score: 1971
Period size: 106 Copynumber: 14.3 Consensus size: 105
774549 CTCGAGAGTA
* ** * * * * *
774559 AATTTCAACTTCTCAATGAAGGATCTT-GAATCCAAGACAACACAAGCTCAACTTCATGACGAAG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAG
* * * * * *
774623 GGGCGGCTGATTGTCAACAAACACTTCCCAATTTCAGAGCC
65 GGACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
* * *
774664 AATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
774729 GACCGCTGGTTGTC-AACAAATTTTCCCGATTTCAGAGCC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
774768 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * **
774833 GACCGCTGCTTGTCAACAATAATTTCATAATTTCAGAGCC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
* *
774873 AATTTCAACTTCACAGCGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
774938 GACCGCTGGTTGTCAATAAAAAAAATTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTC-A-AAAAAAATTTCCCAATTTCAGAGCC
774980 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
775045 GACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
*
775085 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
** *
775150 GACCGCTGGTTGTCAATAAAAAAAATCCCAATTTCATAGCC
66 GACCGCTGGTTGTCAA-AAAAAATTTCCCAATTTCAGAGCC
775191 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
775256 GACCGCTGGTTTTC--AATAAA-----CAATTTC----CC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
* *
775285 AATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
775350 GACCGCTGGTTGTCAATAAACAATTTTCCAA-TTCTAGAGTC
66 GACCGCTGGTTGTCAA-AAAAAATTTCCCAATTTC-AGAGCC
* *
775391 AATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
775456 GACCACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAA-AAAAAATTTCCCAATTTCAGAGCC
* *
775497 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
775562 GACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAA-AAAAAATTTCCCAATTTCAGAGCC
* * * *
775603 AATTTCAACTTCACATCGAAGGATATTGGACTACAGACAACGTATGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
775668 GACCGCTGGTTGTC-AACAAATTTTCCCGATTTCAGAGCC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
*
775707 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
775772 GACCGCTGCTTGTC---AACAACTTCCCAATCTCAGAGCC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
*
775809 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * **
775874 GACCGCTGCTTGTC-AACAAAATTT--C-A-TTCAGAATC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
* * * * * ** *
775909 AATTTCAAATTCACAACGAATGATGTTGGACTCGAGACAAAACAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* ** * *
775974 GACGGCTGGTTGTCAACAACCAATTTCCCAGTTCCAGAGCC
66 GACCGCTGGTTGTCAA-AAAAAATTTCCCAATTTCAGAGCC
*
776015 AATTTCAACTTCAC-GACGGAGGATATTGGACT
1 AATTTCAACTTCACAG-CGAAGGATATTGGACT
776047 TGGAACAATG
Statistics
Matches: 1230, Mismatches: 125, Indels: 55
0.87 0.09 0.04
Matches are distributed among these distances:
94 78 0.06
97 4 0.00
98 7 0.01
100 76 0.06
101 5 0.00
102 106 0.09
103 5 0.00
104 193 0.16
105 256 0.21
106 400 0.33
107 100 0.08
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
Found at i:775492 original size:412 final size:413
Alignment explanation
Indices: 774559--776046 Score: 2038
Period size: 412 Copynumber: 3.6 Consensus size: 413
774549 CTCGAGAGTA
* * * * * *
774559 AATTTCAACTTCTCAATGAAGGATCTT-GAATCCAAGACAACACAAGCTCAACTTCATGACGAAG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACACAAGTTCAACTTCACGACGAAG
* * * * *
774623 GGGCGGCTGATTGTCAACAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGAT
65 GGACCGCTGGTTGTCAACAAACACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
* * * *
774688 ATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC-A-ACAAATT
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAAT
*
774751 TTCCCGATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
195 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
* * *
774816 CAACTTCACGACGAAGGGACCGCTGCTTGTCAACAATAATTTCATAATTTCAGAGCCAATTTCAA
260 CAACTTCACGACGAAGGGACCGCTGGTT-T--TCAATAA----ACAATTTC--A-CCAATTTCAA
* * *
774881 CTTCACAGCGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTG
315 CTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
*
774946 GTTGTCAATAAAAAAAATTCCCAATT-TCAGAGCC
380 GTTGTCAAT-AAACAAATTCCCAATTCTCAGAGCC
* *
774980 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* *
775045 GACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
66 GACCGCTGGTTGTCAACAAACACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
* **
775110 TTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAAAA
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAATT
*
775175 TCCCAATTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTC
196 TCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTC
*
775240 AACTTCACGACGAAGGGACCGCTGGTTTTCAATAAACAATTTC-CCAATTTCAACTTCGCAACGA
261 AACTTCACGACGAAGGGACCGCTGGTTTTCAATAAACAATTTCACCAATTTCAACTTCACAACGA
775304 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
326 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
* * *
775369 ACAATTTTCCAATTCT-AGAGTC
391 ACAAATTCCCAATTCTCAGAGCC
* *
775391 AATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
*
775456 GACCACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
66 GACCGCTGGTTGTCAACAAAC-ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
* * *
775521 ATTGGACTCCAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAC
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAAT
* * * *
775586 TTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTACAGACAACGTATGTT
195 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
* * *
775651 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATTTTCCCGATTTCAGAGCCAATTTCAAC
260 CAACTTCACGACGAAGGGACCGCTGGTTTTCAATAAA------CAATTTC--A-CCAATTTCAAC
*
775716 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGC
316 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
*
775781 TTGTC----AACAACTTCCCAA-TCTCAGAGCC
381 TTGTCAATAAACAAATTCCCAATTCTCAGAGCC
*
775809 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* ** * * *
775874 GACCGCTGCTTGTCAACAAA-A-TT-TC-A-TTCAGAATCAATTTCAAATTCACAACGAATGATG
66 GACCGCTGGTTGTCAACAAACACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
* ** * * * **
775934 TTGGACTCGAGACAAAACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACCAATT
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAATT
* * *
775999 TCCCAGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACT
196 TCCCAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACT
776047 TGGAACAATG
Statistics
Matches: 970, Mismatches: 80, Indels: 43
0.89 0.07 0.04
Matches are distributed among these distances:
411 101 0.10
412 405 0.42
413 1 0.00
414 2 0.00
415 2 0.00
416 8 0.01
417 3 0.00
418 102 0.11
420 6 0.01
421 161 0.17
422 86 0.09
423 93 0.10
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (413 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAACACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAATT
TCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTC
AACTTCACGACGAAGGGACCGCTGGTTTTCAATAAACAATTTCACCAATTTCAACTTCACAACGA
AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
ACAAATTCCCAATTCTCAGAGCC
Found at i:778297 original size:22 final size:22
Alignment explanation
Indices: 778262--778313 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
778252 TTTTATTTTA
*
778262 TTATTTTTC-TTTTTA-CTAACTT
1 TTATTTATCATTTTTATCT-AC-T
778284 TTATTTATCATTTTTATCTACT
1 TTATTTATCATTTTTATCTACT
778306 TTATTTAT
1 TTATTTAT
778314 TTTATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 17 0.63
23 8 0.30
24 2 0.07
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATTTATCATTTTTATCTACT
Found at i:778370 original size:22 final size:22
Alignment explanation
Indices: 778313--778370 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
778303 ACTTTATTTA
*
778313 TTTTATTATTATTATATTAACAT
1 TTTTATTTTTATTATATT-ACAT
*
778336 TTTT-TTTCATATTCATATT-CAT
1 TTTTATTT-TTATT-ATATTACAT
778358 TTTTATTTTTATT
1 TTTTATTTTTATT
778371 TTTATTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
22 13 0.45
23 11 0.38
24 5 0.17
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTATTATATTACAT
Found at i:778379 original size:5 final size:6
Alignment explanation
Indices: 778232--778378 Score: 55
Period size: 6 Copynumber: 22.7 Consensus size: 6
778222 ATTTTGGTCC
*
778232 TTTTTCA TTTTTA TTTTTA TTTTTA TTTTATTA TTTTTC TTTTTA CTAACTTTTA
1 TTTTT-A TTTTTA TTTTTA TTTTTA -TTT-TTA TTTTTA TTTTTA -T---TTTTA
* * * * * *
778287 TTTATCA TTTTTA TCTACTTTA TTTATT- TTATTA TTATTA TATTAA CATTTT-
1 TTT-TTA TTTTTA T-T--TTTA TTT-TTA TTTTTA TTTTTA TTTTTA -TTTTTA
* * * * *
778339 TTTTCA TATTCA TATTCA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
778379 ACAATCTAAC
Statistics
Matches: 110, Mismatches: 16, Indels: 29
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.05
6 68 0.62
7 22 0.20
8 4 0.04
9 6 0.05
10 5 0.05
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTTA
Found at i:783000 original size:21 final size:24
Alignment explanation
Indices: 782976--783023 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 24
782966 ATTTCTCCAG
*
782976 TCCTCCAAA-T-CCGCCTT-CCCT
1 TCCTCCAAACTACCCCCTTACCCT
*
782997 TCCTTCAAACTACCCCCTTACCCT
1 TCCTCCAAACTACCCCCTTACCCT
783021 TCC
1 TCC
783024 ATCAGAGCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 8 0.36
22 1 0.05
23 6 0.27
24 7 0.32
ACGTcount: A:0.17, C:0.52, G:0.02, T:0.29
Consensus pattern (24 bp):
TCCTCCAAACTACCCCCTTACCCT
Found at i:788703 original size:21 final size:21
Alignment explanation
Indices: 788611--788697 Score: 165
Period size: 21 Copynumber: 4.1 Consensus size: 21
788601 TTGACTATCT
788611 CAACGCGATAATACAAAATCG
1 CAACGCGATAATACAAAATCG
*
788632 CTACGCGATAATACAAAATCG
1 CAACGCGATAATACAAAATCG
788653 CAACGCGATAATACAAAATCG
1 CAACGCGATAATACAAAATCG
788674 CAACGCGATAATACAAAATCG
1 CAACGCGATAATACAAAATCG
788695 CAA
1 CAA
788698 TACGATTTTC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.47, C:0.24, G:0.14, T:0.15
Consensus pattern (21 bp):
CAACGCGATAATACAAAATCG
Found at i:789328 original size:20 final size:19
Alignment explanation
Indices: 789276--789329 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
789266 AATCGCAACG
*
789276 CGATTTTAGTTTCACGTTG
1 CGATTTTAGTTTCACGTTA
* * *
789295 TGATTTTCATTTTCATGTTA
1 CGATTTT-AGTTTCACGTTA
789315 CGATTTTAAGTTTCA
1 CGATTTT-AGTTTCA
789330 AAAACTATTC
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.20, C:0.13, G:0.15, T:0.52
Consensus pattern (19 bp):
CGATTTTAGTTTCACGTTA
Found at i:790902 original size:21 final size:21
Alignment explanation
Indices: 790878--790924 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
790868 TGGTGCATGG
* *
790878 CGTGATGAGGTATCTACTTTA
1 CGTGATGAGGTAGCCACTTTA
* *
790899 CGTGGTGAGGTAGCCGCTTTA
1 CGTGATGAGGTAGCCACTTTA
790920 CGTGA
1 CGTGA
790925 GATGATAGCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (21 bp):
CGTGATGAGGTAGCCACTTTA
Found at i:791205 original size:20 final size:19
Alignment explanation
Indices: 791182--791249 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 19
791172 GAAACTTAAA
791182 ATCGCAACGCGAAAATGACT
1 ATCGCAACGC-AAAATGACT
791202 ATCGCAACGCAGAAATGACT
1 ATCGCAACGCA-AAATGACT
*
791222 ATCGCAACGCAAATTTGACT
1 ATCGCAACGCAAA-ATGACT
791242 ATCGCAAC
1 ATCGCAAC
791250 TGGATAATCG
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
19 3 0.07
20 42 0.93
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (19 bp):
ATCGCAACGCAAAATGACT
Found at i:791281 original size:33 final size:34
Alignment explanation
Indices: 791242--791317 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 34
791232 AAATTTGACT
* *
791242 ATCGCAAC-TGGATAATCGCAATGCG-AAATAAAA
1 ATCGCAACGT-GAAAATCACAATGCGAAAATAAAA
*
791275 ATCGCAACGTGAAAATCACAATGCGAAAATGAAA
1 ATCGCAACGTGAAAATCACAATGCGAAAATAAAA
*
791309 ATCACAACG
1 ATCGCAACG
791318 CGAATTTAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 21 0.57
34 16 0.43
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.16
Consensus pattern (34 bp):
ATCGCAACGTGAAAATCACAATGCGAAAATAAAA
Found at i:791307 original size:20 final size:20
Alignment explanation
Indices: 791284--791321 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
791274 AATCGCAACG
*
791284 TGAAAATCACAATGCGAAAA
1 TGAAAATCACAACGCGAAAA
791304 TGAAAATCACAACGCGAA
1 TGAAAATCACAACGCGAA
791322 TTTAGTTTCG
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:0.53, C:0.18, G:0.16, T:0.13
Consensus pattern (20 bp):
TGAAAATCACAACGCGAAAA
Found at i:791349 original size:19 final size:19
Alignment explanation
Indices: 791322--791382 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
791312 ACAACGCGAA
791322 TTTAGTTTCGCGTTGCGATT
1 TTTA-TTTCGCGTTGCGATT
* *
791342 TTTATTTCGCATTGCGATA
1 TTTATTTCGCGTTGCGATT
* *
791361 GTCATTTCCGCGTTGCGATT
1 TTTATTT-CGCGTTGCGATT
791381 TT
1 TT
791383 AAGTTTCAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (19 bp):
TTTATTTCGCGTTGCGATT
Found at i:791966 original size:42 final size:42
Alignment explanation
Indices: 791865--791987 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
791855 GCCCGACTCA
* *
791865 CCTGTCATCGTTCAAGAGGTCTCTCCTATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGTCCCTCCTACCGTTCAAGAGGCC
* **
791907 CCTATCATCCCTCAAGA-GTCCCCTCCTACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGT-CCCTCCTACCGTTCAAGAGGCC
* * * *
791949 CCTGTCATTGTTGAAGAGGTCCCTCCCACCATTCAAGAG
1 CCTGTCATCGTTCAAGAGGTCCCTCCTACCGTTCAAGAG
791988 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 63 0.94
43 2 0.03
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (42 bp):
CCTGTCATCGTTCAAGAGGTCCCTCCTACCGTTCAAGAGGCC
Found at i:792941 original size:23 final size:23
Alignment explanation
Indices: 792915--792978 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
792905 CAGCTCATAT
792915 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* **
792938 AATTGCACCGGAGTGCTGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
792961 AATTACACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
792979 TATAATAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:793168 original size:103 final size:103
Alignment explanation
Indices: 792989--793211 Score: 437
Period size: 103 Copynumber: 2.2 Consensus size: 103
792979 TATAATAATG
792989 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACCAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACCAGGGATCAAGTATGTGTCT
793054 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
*
793092 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACCAGGGATCAAGTATGTGTCT
793157 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
793195 TCCCGAAGGACCACATA
1 TCCCGAAGGACCACATA
793212 GACCCTCGAC
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 119 1.00
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.25
Consensus pattern (103 bp):
TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACCAGGGATCAAGTATGTGTCT
CACCAGACTTCACACATGTTCCAAAGAATACATATATA
Found at i:794071 original size:64 final size:64
Alignment explanation
Indices: 793963--794187 Score: 253
Period size: 64 Copynumber: 3.5 Consensus size: 64
793953 TAATGAAGGT
* * * * *
793963 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTT-TCATTATTAATGG
794026 G
64 G
* *
794027 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
* * **
794091 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGT-TTCATTATTAATGGG
**
794154 AGTGCATCGATGCACTACCAATGCATCGATGCAC
1 A-TGCATCGATGCACTACTTATGCATCGATGCAC
794188 CTTCAAACAA
Statistics
Matches: 140, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
63 4 0.03
64 130 0.93
65 6 0.04
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:798687 original size:23 final size:23
Alignment explanation
Indices: 798661--798724 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
798651 CAGCTCATAC
798661 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
798684 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
798707 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
798725 TATAATAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:798914 original size:103 final size:103
Alignment explanation
Indices: 798735--798957 Score: 437
Period size: 103 Copynumber: 2.2 Consensus size: 103
798725 TATAATAATG
798735 TCCCGAAGGACCACATATCACTCATTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCATTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
798800 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
*
798838 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCATTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
798903 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
798941 TCCCGAAGGACCACATA
1 TCCCGAAGGACCACATA
798958 GACCCTCGAC
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 119 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
TCCCGAAGGACCACATATCACTCATTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
CACCAGACTTCACACATGTTCCAAAGAATACATATATA
Found at i:799817 original size:64 final size:64
Alignment explanation
Indices: 799709--799933 Score: 253
Period size: 64 Copynumber: 3.5 Consensus size: 64
799699 TAATGAAGGT
* * * * *
799709 ATGCATCGATGCACTACTGATGCATC-AGTGCATAAAATGTATTCGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGA-TGCACAAATTGCATTCGATGTT-TCATTATTAATGG
799772 G
64 G
* * *
799773 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACAAATTGCATTCGATGTTTCATTATTAATGGG
* **
799837 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGT-TTCATTATTAATGGG
**
799900 AGTGCATCGATGCACTACCAATGCATCGATGCAC
1 A-TGCATCGATGCACTACTTATGCATCGATGCAC
799934 CTTCAAACAA
Statistics
Matches: 139, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
63 4 0.03
64 129 0.93
65 6 0.04
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:802139 original size:20 final size:20
Alignment explanation
Indices: 802114--802179 Score: 98
Period size: 20 Copynumber: 3.3 Consensus size: 20
802104 ATGTATACTT
802114 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCTAAACTCAAAA
802134 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCTAAACTCAAAA
* *
802154 TCGCAAAGCGAAAGC-CAAAA
1 TCGCAACGCTAAA-CTCAAAA
802174 TCGCAA
1 TCGCAA
802180 AGTGAAAGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.45, C:0.29, G:0.14, T:0.12
Consensus pattern (20 bp):
TCGCAACGCTAAACTCAAAA
Found at i:802180 original size:20 final size:21
Alignment explanation
Indices: 802114--802191 Score: 83
Period size: 20 Copynumber: 3.9 Consensus size: 21
802104 ATGTATACTT
* *
802114 TCGCAACGCTAAA-CTCAAAA
1 TCGCAAAGCGAAAGCTCAAAA
* *
802134 TCGCAACGCTAAA-CTCAAAA
1 TCGCAAAGCGAAAGCTCAAAA
802154 TCGCAAAGCGAAAGC-CAAAA
1 TCGCAAAGCGAAAGCTCAAAA
*
802174 TCGCAAAGTGAAAG-TCAA
1 TCGCAAAGCGAAAGCTCAA
802192 TTCGCGTTGC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
20 52 0.98
21 1 0.02
ACGTcount: A:0.46, C:0.26, G:0.15, T:0.13
Consensus pattern (21 bp):
TCGCAAAGCGAAAGCTCAAAA
Found at i:802343 original size:20 final size:20
Alignment explanation
Indices: 802249--802345 Score: 140
Period size: 20 Copynumber: 4.8 Consensus size: 20
802239 GCGATTTTCT
* *
802249 CGTTGCGATAGACAAATTCC
1 CGTTGCGATAGTCAAATTCA
*
802269 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCA
* *
802289 CGTTGGGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCA
802309 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCA
*
802329 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
802346 GAATGTGTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCA
Found at i:804605 original size:14 final size:14
Alignment explanation
Indices: 804586--804622 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
804576 TCCCGTGGCA
804586 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
804600 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
804614 TTCTTCTTC
1 TT-TTCTTC
804623 TTCTTTTTCT
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:805545 original size:17 final size:17
Alignment explanation
Indices: 805519--805556 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
805509 CGGATGGGGA
805519 AGGATATCGTTGGATAT
1 AGGATATCGTTGGATAT
*
805536 AGGATGTCGTTGGATAT
1 AGGATATCGTTGGATAT
805553 AGGA
1 AGGA
805557 ACAGATGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.34, T:0.32
Consensus pattern (17 bp):
AGGATATCGTTGGATAT
Found at i:805731 original size:20 final size:20
Alignment explanation
Indices: 805703--805750 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
805693 GAAATTCAGT
*
805703 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCAC
*
805723 GTTGTGATAGTCAGAATCAC
1 GTTGCGATAGTCAGAATCAC
805743 GTTGCGAT
1 GTTGCGAT
805751 TTTGTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCAC
Found at i:805768 original size:21 final size:21
Alignment explanation
Indices: 805742--805794 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
805732 GTCAGAATCA
*
805742 CGTTGCGATTTTGTAT-TATCG
1 CGTTGCGATTTTATATAT-TCG
805763 CGTTGCGA-TTTATATATTCG
1 CGTTGCGATTTTATATATTCG
*
805783 CATTGCGATTTT
1 CGTTGCGATTTT
805795 CTAAAATCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (21 bp):
CGTTGCGATTTTATATATTCG
Found at i:805811 original size:21 final size:21
Alignment explanation
Indices: 805787--805827 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
805777 TATTCGCATT
* *
805787 GCGATTTTCTAAAATCGCAAC
1 GCGAATTTCGAAAATCGCAAC
*
805808 GCGAATTTGGAAAATCGCAA
1 GCGAATTTCGAAAATCGCAA
805828 TGGGATAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (21 bp):
GCGAATTTCGAAAATCGCAAC
Found at i:811507 original size:75 final size:76
Alignment explanation
Indices: 811364--811505 Score: 193
Period size: 75 Copynumber: 1.9 Consensus size: 76
811354 ATATGATAAA
* *
811364 CACAAATAAAATTTTAGAATAGACATCATCAGTAAAATAGATAATTAATTGAAAAAAACTTGAAT
1 CACAAATAAAATTTCAGAATAGACATCATCAGTAAAATAAATAATTAATTGAAAAAAACTTGAAT
811429 TTTAAGATGAG
66 TTTAAGATGAG
* * *
811440 CACAAATAAAATTTCA-AGTAGATA-CAATCAGTAAAATAAATAATTAATT-AAAGAAAA-TTTA
1 CACAAATAAAATTTCAGAATAGACATC-ATCAGTAAAATAAATAATTAATTGAAA-AAAACTTGA
811501 ATTTT
64 ATTTT
811506 TAGGGTGTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
74 12 0.20
75 32 0.54
76 15 0.25
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (76 bp):
CACAAATAAAATTTCAGAATAGACATCATCAGTAAAATAAATAATTAATTGAAAAAAACTTGAAT
TTTAAGATGAG
Found at i:819859 original size:21 final size:21
Alignment explanation
Indices: 819835--819874 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
819825 ATATTAACCT
* *
819835 AAGATAACCAATTTCAAAAGC
1 AAGAAAACCAATTGCAAAAGC
*
819856 AAGAAAACTAATTGCAAAA
1 AAGAAAACCAATTGCAAAA
819875 TAAAATCTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.15, G:0.10, T:0.17
Consensus pattern (21 bp):
AAGAAAACCAATTGCAAAAGC
Done.