Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold331
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: 1033222
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.30
Warning! 83795 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:611561 original size:22 final size:21
Alignment explanation
Indices: 611526--611579 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
611516 CCTTAGCCTC
611526 TTCATTTTTACTTTTTCATTTTT
1 TTCATTTTT-CTTTTTCA-TTTT
611549 TTCATTTTTCTTTTTCATTTT
1 TTCATTTTTCTTTTTCATTTT
611570 TTCATTTTTC
1 TTCATTTTTC
611580 ACATTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 14 0.45
22 8 0.26
23 9 0.29
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCATTTTTCTTTTTCATTTT
Found at i:621369 original size:12 final size:12
Alignment explanation
Indices: 621354--621378 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
621344 ACTTGAAAGC
621354 ACACTTGATTTT
1 ACACTTGATTTT
621366 ACACTTGATTTT
1 ACACTTGATTTT
621378 A
1 A
621379 GAAAGCAATT
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:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (12 bp):
ACACTTGATTTT
Found at i:622148 original size:17 final size:17
Alignment explanation
Indices: 622126--622158 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
622116 TATCATTGTG
622126 TCATTAT-TTCATTTTAT
1 TCATTATATT-ATTTTAT
622143 TCATTATATTATTTTA
1 TCATTATATTATTTTA
622159 ACCTTTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (17 bp):
TCATTATATTATTTTAT
Found at i:626677 original size:14 final size:16
Alignment explanation
Indices: 626658--626692 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
626648 GGCAACCCAT
626658 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
626672 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
626688 ATTTA
1 ATTTA
626693 GCTTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 5 0.26
16 6 0.32
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:627399 original size:2 final size:2
Alignment explanation
Indices: 627394--627420 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
627384 AAAATAAGTA
627394 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
627421 CTATATATAT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:627443 original size:16 final size:17
Alignment explanation
Indices: 627420--627464 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
627410 AGAGAGAGAG
627420 ACTATATATATAGAAAA
1 ACTATATATATAGAAAA
* *
627437 A-TATATATAAATAAAA
1 ACTATATATATAGAAAA
*
627453 ACTATATGTATA
1 ACTATATATATA
627465 TATTACTCCG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (17 bp):
ACTATATATATAGAAAA
Found at i:634956 original size:39 final size:39
Alignment explanation
Indices: 634900--634974 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
634890 GCCGCTATTT
634900 GCTTGGATGATTAGATGCGAGCTAAGGGATTTTCAATAG
1 GCTTGGATGATTAGATGCGAGCTAAGGGATTTTCAATAG
*
634939 GCTTGGATGATTGGATGCGAGCTAAGGGATTTTCAA
1 GCTTGGATGATTAGATGCGAGCTAAGGGATTTTCAA
634975 CAAGTAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.31
Consensus pattern (39 bp):
GCTTGGATGATTAGATGCGAGCTAAGGGATTTTCAATAG
Found at i:638830 original size:16 final size:16
Alignment explanation
Indices: 638809--638863 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
638799 TGAATTACTG
* *
638809 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCA
*
638825 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCA
638841 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
638857 ATTACAG
1 ATTACAG
638864 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:641091 original size:110 final size:111
Alignment explanation
Indices: 640889--641111 Score: 439
Period size: 110 Copynumber: 2.0 Consensus size: 111
640879 CTTGGAGAGA
640889 CCCAAACCGACGCTTCGCCAGACAGAAATCGTGGGAAGACAAAGTTGTAAAACGAATATAAAGAA
1 CCCAAACCGACGCTTCGCCAGACAGAAATCGTGGGAAGACAAAGTTGTAAAACGAATATAAAGAA
640954 AAGGGGGGAGGGGTTGAAAGGCGGCTCCTTCTTGCTTGGTTGTGCT
66 AAGGGGGGAGGGGTTGAAAGGCGGCTCCTTCTTGCTTGGTTGTGCT
641000 CCCAAACC-ACGCTTCGCCAGACAGAAATCGTGGGAAGACAAAGTTGTAAAACGAATATAAAGAA
1 CCCAAACCGACGCTTCGCCAGACAGAAATCGTGGGAAGACAAAGTTGTAAAACGAATATAAAGAA
641064 AAGGGGGGAGGGGTTGAAAGGCGGCTCCTTCTTGCTTGGTTGTGCT
66 AAGGGGGGAGGGGTTGAAAGGCGGCTCCTTCTTGCTTGGTTGTGCT
641110 CC
1 CC
641112 AAAATAGATG
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
110 104 0.93
111 8 0.07
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (111 bp):
CCCAAACCGACGCTTCGCCAGACAGAAATCGTGGGAAGACAAAGTTGTAAAACGAATATAAAGAA
AAGGGGGGAGGGGTTGAAAGGCGGCTCCTTCTTGCTTGGTTGTGCT
Found at i:647448 original size:15 final size:14
Alignment explanation
Indices: 647421--647455 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
647411 AGTCCCTAGA
*
647421 GTTTTTGGTTTAGG
1 GTTTTTGGGTTAGG
647435 GTTTTTAGGGTTAGG
1 GTTTTT-GGGTTAGG
647450 GTTTTT
1 GTTTTT
647456 TAAAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.57
Consensus pattern (14 bp):
GTTTTTGGGTTAGG
Found at i:647629 original size:13 final size:14
Alignment explanation
Indices: 647611--647643 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
647601 AAAATATTGT
647611 GTTTAGA-TTTAGG
1 GTTTAGAGTTTAGG
647624 GTTTAGAGTTTAGG
1 GTTTAGAGTTTAGG
647638 GTTTAG
1 GTTTAG
647644 GAAAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (14 bp):
GTTTAGAGTTTAGG
Found at i:647906 original size:125 final size:123
Alignment explanation
Indices: 647677--648070 Score: 511
Period size: 126 Copynumber: 3.1 Consensus size: 123
647667 ATTTTATTTT
* *
647677 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATAC-TGTTCTGAACAAATAGTGTGAAA
1 TTTTTCTACAATAGTTCCTG-AAAAATAATTTTGAGAAAACGT-TTCTGAA-AAATAGTGTGAAA
* * * *
647741 AACACTTCAAGTAGGATGCACTGTCAGCAAAATTATTGAAAAAAGCTCCCACTTGGACACTC
63 AACGCTTCAAGTAGGATGCACTGTCAGCAAAA-TAATGAAAAAAGCTCCCACGTGGACGCTC
* **
647803 TTTTTCTACAGTAGTTCCTGAAAAATAATTTTGAGAAGGCGTTTCTGAATAAATAGTGTGAAAAA
1 TTTTTCTACAATAGTTCCTGAAAAATAATTTTGAGAAAACGTTTCTGAA-AAATAGTGTGAAAAA
* * *
647868 TGCTTCAAGTAGGATGCACTGTTAGCAAAATAACTGAAAAAAGCTCTCACGTGGACGCTC
65 CGCTTCAAGTAGGATGCACTGTCAGCAAAATAA-TGAAAAAAGCTCCCACGTGGACGCTC
* * * *
647928 TTTTTCTACAATAGTTCTTGAAAAATTAATTTTGAGAAAACGATTATGAGAAAATAGTGTCAAAA
1 TTTTTCTACAATAGTTCCTGAAAAA-TAATTTTGAGAAAACGTTTCTGA-AAAATAGTGTGAAAA
* * * * *
647993 ACGATTCAAGCAGGATGCACTGTCAGCAAAACTGATGAAAAAAGCTCCCACGTCGATGCTC
64 ACGCTTCAAGTAGGATGCACTGTCAGCAAAA-TAATGAAAAAAGCTCCCACGTGGACGCTC
648054 TTTTTCTACAATAGTTC
1 TTTTTCTACAATAGTTC
648071 ATTTTTGGCC
Statistics
Matches: 238, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
124 2 0.01
125 113 0.47
126 120 0.50
127 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (123 bp):
TTTTTCTACAATAGTTCCTGAAAAATAATTTTGAGAAAACGTTTCTGAAAAATAGTGTGAAAAAC
GCTTCAAGTAGGATGCACTGTCAGCAAAATAATGAAAAAAGCTCCCACGTGGACGCTC
Found at i:650427 original size:24 final size:22
Alignment explanation
Indices: 650371--650430 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 22
650361 AAGAACTTCT
650371 ATTTTATTTAAAATATAAAAATA
1 ATTTTA-TTAAAATATAAAAATA
650394 ATTTACTATTAAAATATTAAAAATA
1 ATTT--TATTAAAATA-TAAAAATA
650419 ACTTTTATTAAA
1 A-TTTTATTAAA
650431 TGAAACAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
23 4 0.12
24 15 0.45
25 11 0.33
26 3 0.09
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTATTAAAATATAAAAATA
Found at i:650862 original size:18 final size:18
Alignment explanation
Indices: 650820--650862 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
650810 GACTGGGAAA
* *
650820 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
650838 AGAATACATATAAGGGCT
1 AGGATACATATAAGGGCT
650856 AGGATAC
1 AGGATAC
650863 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:651458 original size:7 final size:7
Alignment explanation
Indices: 651448--651479 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
651438 TTATATACAT
651448 AATACTA
1 AATACTA
651455 AATACTA
1 AATACTA
651462 AATACTA
1 AATACTA
651469 AATACTA
1 AATACTA
651476 AATA
1 AATA
651480 TGAAACGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:652700 original size:30 final size:30
Alignment explanation
Indices: 652666--652724 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
652656 TTAATTAAAG
652666 AGAGCTTTGAGAAATTTAAGGAGAAATTTA
1 AGAGCTTTGAGAAATTTAAGGAGAAATTTA
*
652696 AGAGCTTTGAGAAATTTAGGGAGAAATTT
1 AGAGCTTTGAGAAATTTAAGGAGAAATTT
652725 GAGATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (30 bp):
AGAGCTTTGAGAAATTTAAGGAGAAATTTA
Found at i:654760 original size:10 final size:10
Alignment explanation
Indices: 654724--654768 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
654714 CTTTGCACAC
*
654724 AAAAGAAAAG
1 AAAACAAAAG
654734 TAAAACAAAATG
1 -AAAACAAAA-G
654746 AAAACAAAAG
1 AAAACAAAAG
*
654756 AAAACAAGAG
1 AAAACAAAAG
654766 AAA
1 AAA
654769 GAACTCAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
10 13 0.42
11 17 0.55
12 1 0.03
ACGTcount: A:0.76, C:0.07, G:0.13, T:0.04
Consensus pattern (10 bp):
AAAACAAAAG
Found at i:660483 original size:15 final size:15
Alignment explanation
Indices: 660445--660476 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
660435 ATTTCATAGT
660445 TTCTATTTAAAAAGA
1 TTCTATTTAAAAAGA
660460 TTCTATTTAAAAAGA
1 TTCTATTTAAAAAGA
660475 TT
1 TT
660477 TTTTTTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (15 bp):
TTCTATTTAAAAAGA
Found at i:662674 original size:78 final size:79
Alignment explanation
Indices: 662574--662730 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 79
662564 AAAATTATAA
662574 AAATAAGCTATTAAAATGGTGAAATTACATTTTTACTGTCGTAAAAATATACAATTTAATTTCGC
1 AAATAAGCTATTAAAATGGTGAAATTACATTTTTACTGTCGTAAAAATATACAATTTAATTTCGC
662639 CTCCAAACAAATTT
66 CTCCAAACAAATTT
662653 AAATAAGCTA-TAAAATGGTGAAATTACATTTTTACTGTCGTAAAAATATACAATTTAATTTCGC
1 AAATAAGCTATTAAAATGGTGAAATTACATTTTTACTGTCGTAAAAATATACAATTTAATTTCGC
662717 CTCCAAACAAATTT
66 CTCCAAACAAATTT
662731 CCTAACTTCG
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 68 0.87
79 10 0.13
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (79 bp):
AAATAAGCTATTAAAATGGTGAAATTACATTTTTACTGTCGTAAAAATATACAATTTAATTTCGC
CTCCAAACAAATTT
Found at i:664185 original size:27 final size:29
Alignment explanation
Indices: 664133--664203 Score: 101
Period size: 27 Copynumber: 2.5 Consensus size: 29
664123 TAGTCGAACC
664133 CCCTTGTATGCAAACCCCTTATAGGTGAG
1 CCCTTGTATGCAAACCCCTTATAGGTGAG
*
664162 CCCTTGT-TGCGAACCCC-TATAGGTGAG
1 CCCTTGTATGCAAACCCCTTATAGGTGAG
* *
664189 CCCCTGTATTCAAAC
1 CCCTTGTATGCAAAC
664204 ACCTAAAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 16 0.43
28 14 0.38
29 7 0.19
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (29 bp):
CCCTTGTATGCAAACCCCTTATAGGTGAG
Found at i:664213 original size:28 final size:28
Alignment explanation
Indices: 664132--664215 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
664122 ATAGTCGAAC
664132 CCCCTTGTATGCAAACCCCTTATAGGTGAG
1 CCCC-TGTATGCAAACCCC-TATAGGTGAG
* *
664162 CCCTTGT-TGCGAACCCCTATAGGTGAG
1 CCCCTGTATGCAAACCCCTATAGGTGAG
* * *
664189 CCCCTGTATTCAAACACCTAAAGGTGA
1 CCCCTGTATGCAAACCCCTATAGGTGA
664216 ACCTTGAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 16 0.35
28 24 0.52
29 3 0.07
30 3 0.07
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (28 bp):
CCCCTGTATGCAAACCCCTATAGGTGAG
Found at i:670516 original size:41 final size:40
Alignment explanation
Indices: 670459--670694 Score: 321
Period size: 41 Copynumber: 5.8 Consensus size: 40
670449 AAATGTTTTT
* *
670459 GCGGCGCTTCTTCAAAAACACCGCTAAAGGCCTCAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC-GAGCATTA
670500 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCGAGCATTA
670540 GCGGCGCATT-TTCAAAAACGCCGCTAAAGGTCCGAGCATTA
1 GCGGCGC-TTCTTCAAAAACGCCGCTAAAGG-CCGAGCATTA
* *
670581 GCGACGCTTTTTCAAAAACGCCGCTAAAGGTCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGG-CCGAGCATTA
* * * *
670622 GCGGCGCTTATTCAAAAACGCCCCTAAAGACCTAAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC-GAGCATTA
* * *
670663 GCGACGCTTTTTCAAAAACGCTGCTAAAGGCC
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
670695 CCAAAAACTC
Statistics
Matches: 178, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
40 38 0.21
41 140 0.79
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.20
Consensus pattern (40 bp):
GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCGAGCATTA
Found at i:671250 original size:23 final size:25
Alignment explanation
Indices: 671224--671269 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
671214 AAATATATAA
671224 AAATTAT-TAAAAA-AATAAAAAAG
1 AAATTATATAAAAAGAATAAAAAAG
*
671247 AAATTATATAAAAAGAATTAAAA
1 AAATTATATAAAAAGAATAAAAA
671270 TGATAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (25 bp):
AAATTATATAAAAAGAATAAAAAAG
Found at i:671750 original size:28 final size:29
Alignment explanation
Indices: 671701--671755 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
671691 CATATATTTA
*
671701 ATATTTTTATAACTTTACT-AAATTTAAT
1 ATATTTTTATAACTTTAATAAAATTTAAT
*
671729 ATATTTTTATCA-TATTAATAAAATTTA
1 ATATTTTTATAACT-TTAATAAAATTTA
671756 TAACTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.04
28 15 0.65
29 7 0.30
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (29 bp):
ATATTTTTATAACTTTAATAAAATTTAAT
Found at i:671806 original size:30 final size:29
Alignment explanation
Indices: 671772--671828 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
671762 ATTTCATAGT
* *
671772 TTTCTATAATTTTTAATAA-ATTATCTATAA
1 TTTCTAAAAGTTTT-ATAATATT-TCTATAA
671802 TTTCTAAAAGTTTTATAATATTTCTAT
1 TTTCTAAAAGTTTTATAATATTTCTAT
671829 TATTCTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (29 bp):
TTTCTAAAAGTTTTATAATATTTCTATAA
Found at i:671911 original size:19 final size:20
Alignment explanation
Indices: 671883--671926 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
671873 TATAATTTTC
* *
671883 TAATTTTTATAGT-TTTTAA
1 TAATTCTTATAATATTTTAA
671902 TAATTCTTATAATATTTTAA
1 TAATTCTTATAATATTTTAA
671922 TAATT
1 TAATT
671927 TTTGAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TAATTCTTATAATATTTTAA
Found at i:671913 original size:9 final size:9
Alignment explanation
Indices: 671872--671929 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
671862 TTATACAAAA
671872 TTATAA-TT
1 TTATAATTT
*
671880 TTCTAATTT
1 TTATAATTT
*
671889 TTATAGTTT
1 TTATAATTT
*
671898 TTAATAATTC
1 TT-ATAATTT
671908 TTATAATATT
1 TTATAAT-TT
671918 TTAATAATTT
1 TT-ATAATTT
671928 TT
1 TT
671930 GAACTTAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
8 5 0.12
9 16 0.40
10 14 0.35
11 5 0.12
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
TTATAATTT
Found at i:671921 original size:20 final size:19
Alignment explanation
Indices: 671872--671926 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
671862 TTATACAAAA
671872 TTATAATTTTCTAAT--TT-
1 TTATAATTTT-TAATAATTC
*
671889 TTATAGTTTTTAATAATTC
1 TTATAATTTTTAATAATTC
671908 TTATAATATTTTAATAATT
1 TTATAAT-TTTTAATAATT
671927 TTTGAACTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 4 0.12
17 9 0.28
18 2 0.06
19 6 0.19
20 11 0.34
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATAATTTTTAATAATTC
Found at i:674063 original size:4 final size:4
Alignment explanation
Indices: 674054--674087 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
674044 GGATATTGGC
674054 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
674088 TTAGATTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:677639 original size:23 final size:23
Alignment explanation
Indices: 677613--677664 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
677603 TGATTTTTAA
*
677613 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
677636 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
677659 ATTTAG
1 ATTTAG
677665 TGGTAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:677640 original size:13 final size:13
Alignment explanation
Indices: 677622--677677 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
677612 AATTTTGAAT
677622 TATTTAGTGATAA
1 TATTTAGTGATAA
*
677635 TATTTA--GA-AT
1 TATTTAGTGATAA
677645 TATTTAGTGATAA
1 TATTTAGTGATAA
*
677658 TATTTAGTGGTAA
1 TATTTAGTGATAA
677671 TATTTAG
1 TATTTAG
677678 GAAAAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 7 0.19
11 2 0.05
12 2 0.05
13 26 0.70
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:679613 original size:87 final size:87
Alignment explanation
Indices: 679506--679678 Score: 346
Period size: 87 Copynumber: 2.0 Consensus size: 87
679496 GATAATTAAA
679506 ACCCAAAACCAAAGTCCGAAAGTCCAATTACAACCCAAAAACTTAGCCAGTAAAAATAGAATAGA
1 ACCCAAAACCAAAGTCCGAAAGTCCAATTACAACCCAAAAACTTAGCCAGTAAAAATAGAATAGA
679571 AATAAAACTAATTATCAAAAAG
66 AATAAAACTAATTATCAAAAAG
679593 ACCCAAAACCAAAGTCCGAAAGTCCAATTACAACCCAAAAACTTAGCCAGTAAAAATAGAATAGA
1 ACCCAAAACCAAAGTCCGAAAGTCCAATTACAACCCAAAAACTTAGCCAGTAAAAATAGAATAGA
679658 AATAAAACTAATTATCAAAAA
66 AATAAAACTAATTATCAAAAA
679679 TATGGGTTAA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.54, C:0.21, G:0.09, T:0.16
Consensus pattern (87 bp):
ACCCAAAACCAAAGTCCGAAAGTCCAATTACAACCCAAAAACTTAGCCAGTAAAAATAGAATAGA
AATAAAACTAATTATCAAAAAG
Found at i:685543 original size:13 final size:13
Alignment explanation
Indices: 685525--685557 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
685515 AATTTTAAAT
*
685525 TATTTAGTTGTAA
1 TATTTAGTGGTAA
685538 TATTTAGTGGTAA
1 TATTTAGTGGTAA
685551 TATTTAG
1 TATTTAG
685558 GAAAAATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (13 bp):
TATTTAGTGGTAA
Found at i:694065 original size:18 final size:19
Alignment explanation
Indices: 694024--694075 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
694014 GAAAAAAAAT
694024 AAAGAAA-AT-AATAAT-A
1 AAAGAAATATAAATAATAA
*
694040 AAAGAAATTTAAA-AATAA
1 AAAGAAATATAAATAATAA
*
694058 AAATAAATATAAATAATA
1 AAAGAAATATAAATAATA
694076 TCTAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 7 0.24
17 4 0.14
18 14 0.48
19 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (19 bp):
AAAGAAATATAAATAATAA
Found at i:699718 original size:23 final size:22
Alignment explanation
Indices: 699692--699744 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
699682 ATTCTCTCTC
*
699692 TAGGGTTA-GATTTTTCTGAGGGT
1 TAGGGTTATAATTTTT-T-AGGGT
*
699715 TAGGATTATTAATTTTTTAGGGT
1 TAGGGTTA-TAATTTTTTAGGGT
699738 TAGGGTT
1 TAGGGTT
699745 TTAGGGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 18 0.72
24 1 0.04
25 6 0.24
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (22 bp):
TAGGGTTATAATTTTTTAGGGT
Found at i:703011 original size:21 final size:21
Alignment explanation
Indices: 702985--703024 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
702975 TAGTCGATTT
* *
702985 TCACACAGGCGTGTGCCTTGG
1 TCACACAGCCGTGTCCCTTGG
703006 TCACACAGCCGTGTCCCTT
1 TCACACAGCCGTGTCCCTT
703025 AACCACACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (21 bp):
TCACACAGCCGTGTCCCTTGG
Found at i:708925 original size:83 final size:84
Alignment explanation
Indices: 708785--708951 Score: 327
Period size: 83 Copynumber: 2.0 Consensus size: 84
708775 AGTCCCATAC
708785 CCTGAATCCATTTCATGTTGTCTTCATATGCACCAGTGATTTCAGCGGAAAAGGCTTACCATGAG
1 CCTGAATCCATTTCATGTTGTCTTCATATGCACCAGTGATTTCAGCGGAAAAGGCTTACCATGAG
708850 CAACTATCAGTAGCAGAAA
66 CAACTATCAGTAGCAGAAA
708869 CCTGAATCCA-TTCATGTTGTCTTCATATGCACCAGTGATTTCAGCGGAAAAGGCTTACCATGAG
1 CCTGAATCCATTTCATGTTGTCTTCATATGCACCAGTGATTTCAGCGGAAAAGGCTTACCATGAG
708933 CAACTATCAGTAGCAGAAA
66 CAACTATCAGTAGCAGAAA
708952 TCACAAGCAG
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 73 0.88
84 10 0.12
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (84 bp):
CCTGAATCCATTTCATGTTGTCTTCATATGCACCAGTGATTTCAGCGGAAAAGGCTTACCATGAG
CAACTATCAGTAGCAGAAA
Found at i:710071 original size:16 final size:16
Alignment explanation
Indices: 710046--710110 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
710036 TTGATTTGCT
710046 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
710062 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
*
710078 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
710094 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
710110 A
1 A
710111 ATACAGCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:720007 original size:9 final size:9
Alignment explanation
Indices: 719993--720030 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
719983 AATAAAAAGC
719993 TTGAGAGAG
1 TTGAGAGAG
720002 TTGAGAGAG
1 TTGAGAGAG
720011 TTGAGAGAG
1 TTGAGAGAG
720020 TTGAGAGAG
1 TTGAGAGAG
720029 TT
1 TT
720031 TAAGAGAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.42, T:0.26
Consensus pattern (9 bp):
TTGAGAGAG
Found at i:721768 original size:23 final size:20
Alignment explanation
Indices: 721724--721794 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
721714 TAATAGTATT
*
721724 AAAAATAATTATTTAC-TT-A
1 AAAAAT-ATTACTTACTTTAA
* *
721743 AAAACTATTACTTTATTTTTAAA
1 AAAAATATTAC-TTA-CTTT-AA
*
721766 AAAAATATAACTTACTTTAA
1 AAAAATATTACTTACTTTAA
721786 AAAAATATT
1 AAAAATATT
721795 TTTTAATTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
18 4 0.10
19 8 0.20
20 10 0.25
21 5 0.12
22 3 0.08
23 10 0.25
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATATTACTTACTTTAA
Found at i:725408 original size:1 final size:1
Alignment explanation
Indices: 725402--725457 Score: 112
Period size: 1 Copynumber: 56.0 Consensus size: 1
725392 TTCTTTTCTA
725402 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
725458 AAAAAATTCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:732287 original size:368 final size:368
Alignment explanation
Indices: 731610--732334 Score: 1218
Period size: 368 Copynumber: 2.0 Consensus size: 368
731600 TCATTTACAC
731610 GTCTACTATTAAGAGTTGGTTCTAGAACCATTTTTGTAGGGTTTTGTATAATTCTCGAAAGCTCA
1 GTCTACTATTAAGAGTTGGTTCTAGAACCATTTTTGTAGGGTTTTGTATAATTCTCGAAAGCTCA
** *
731675 TCGAGTACCTCTTTACTCCGATGTTTGAAGTCATTCATGTAACTTTCTTCAAGAAGGTAGCATGA
66 TAAAGTACCTCTTTACTCCGAGGTTTGAAGTCATTCATGTAACTTTCTTCAAGAAGGTAGCATGA
* * *
731740 GCTAATATCATAACAGTTTACTCTTTCGGGTTATAAAATAAACCACCCTTTGTTCTCTTTAGATA
131 GCTAAGATCATAACAGTTTACTCTTTCGGGTTATAAAATAAACCACCATTTGTTCTATTTAGATA
* **
731805 TTGTACAAACATGCACAATTCTGTTCGTAAGTTCAACTTCCTTGCATATTTATCCAATACATTGG
196 TTGTACAAACATGCACAATTCTGTTCATAAGTTCAACTTCCTCACATATTTATCCAATACATTGG
* * * *
731870 TCGAGCATCCTCAAATCCTAAAATGATTAATATTCGACTTCCTGTCATGCTACAATTCGTATGGG
261 TCGAGCATCCCCAAATACTAAAATGATTAAAATTCGACTTCCTGTCATGCTACAATTCATATGGG
731935 TTTTCGATGCTCCCCTAATTGGCACATCATTCCTGTCATGCAG
326 TTTTCGATGCTCCCCTAATTGGCACATCATTCCTGTCATGCAG
*
731978 GTCTACTATTAAGAGTTGGTTCTAGAACCATTTTTTTAGGGTTTTGTATAATTCTCGAAAGCTCA
1 GTCTACTATTAAGAGTTGGTTCTAGAACCATTTTTGTAGGGTTTTGTATAATTCTCGAAAGCTCA
*
732043 TAAAGTACCTCTTTACTCCGAGGTTTGAAGTTATTCATGTAACTTTCTTCAAGAAAGGTAGCATG
66 TAAAGTACCTCTTTACTCCGAGGTTTGAAGTCATTCATGTAACTTTCTTCAAG-AAGGTAGCATG
* * *
732108 AGCTGAGATCATAACAGTTTGCTCTTTCGGGTTA-AAAATAAACCACCATTTGTTCTATTTTGAT
130 AGCTAAGATCATAACAGTTTACTCTTTCGGGTTATAAAATAAACCACCATTTGTTCTATTTAGAT
**
732172 ATTGTACAAACATGCACAATTCTGTTCATAAGTTCAACTTCCTCACATATTTATCCAATATGTTG
195 ATTGTACAAACATGCACAATTCTGTTCATAAGTTCAACTTCCTCACATATTTATCCAATACATTG
* *
732237 GTCGAGCATCCCCAAATATTAAAATGATTAAAATTTGACTTCCTGTCATGCTACAATTCATATGG
260 GTCGAGCATCCCCAAATACTAAAATGATTAAAATTCGACTTCCTGTCATGCTACAATTCATATGG
* *
732302 GTTTTCGATGCTCCCTTAGTTGGCACATCATTC
325 GTTTTCGATGCTCCCCTAATTGGCACATCATTC
732335 AAAATATAGC
Statistics
Matches: 332, Mismatches: 24, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
368 290 0.87
369 42 0.13
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (368 bp):
GTCTACTATTAAGAGTTGGTTCTAGAACCATTTTTGTAGGGTTTTGTATAATTCTCGAAAGCTCA
TAAAGTACCTCTTTACTCCGAGGTTTGAAGTCATTCATGTAACTTTCTTCAAGAAGGTAGCATGA
GCTAAGATCATAACAGTTTACTCTTTCGGGTTATAAAATAAACCACCATTTGTTCTATTTAGATA
TTGTACAAACATGCACAATTCTGTTCATAAGTTCAACTTCCTCACATATTTATCCAATACATTGG
TCGAGCATCCCCAAATACTAAAATGATTAAAATTCGACTTCCTGTCATGCTACAATTCATATGGG
TTTTCGATGCTCCCCTAATTGGCACATCATTCCTGTCATGCAG
Found at i:735759 original size:17 final size:17
Alignment explanation
Indices: 735737--735771 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
735727 TCAAATGCCA
735737 AAGTTACACCTCGTTAG
1 AAGTTACACCTCGTTAG
735754 AAGTTACACCTCGTTAG
1 AAGTTACACCTCGTTAG
735771 A
1 A
735772 GTGAGAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (17 bp):
AAGTTACACCTCGTTAG
Found at i:736919 original size:42 final size:42
Alignment explanation
Indices: 736872--736962 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
736862 TCTTTTAAAT
*
736872 AATTTAATTTAATATTTATCTAGATATTAATATGAGATATTA
1 AATTTAATTTAATATTTACCTAGATATTAATATGAGATATTA
*
736914 AATTTAATTTAATATTTACCTAGATATTAATATGGGATATTA
1 AATTTAATTTAATATTTACCTAGATATTAATATGAGATATTA
736956 AATTTAA
1 AATTTAA
736963 GTTTCGAGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (42 bp):
AATTTAATTTAATATTTACCTAGATATTAATATGAGATATTA
Found at i:737195 original size:292 final size:292
Alignment explanation
Indices: 736671--737222 Score: 1104
Period size: 292 Copynumber: 1.9 Consensus size: 292
736661 AAACAACGGC
736671 GTTTCGAGGTGTCGAGGGAGTCGTGCTGGCGATGGCACCGTCGGGCATGGCAGCTGCGACGATAG
1 GTTTCGAGGTGTCGAGGGAGTCGTGCTGGCGATGGCACCGTCGGGCATGGCAGCTGCGACGATAG
736736 CGACCCGGCGATCAATAGATGGTTGGCAACTTTAGTTTTTCAGTGGTAGAGCAGTGGAAAAACGA
66 CGACCCGGCGATCAATAGATGGTTGGCAACTTTAGTTTTTCAGTGGTAGAGCAGTGGAAAAACGA
736801 GACTCCTAGTAGGACTCTATCAAATAACTTGATTTCAAAGTAACTTTTCCAAAGATAATATTCTT
131 GACTCCTAGTAGGACTCTATCAAATAACTTGATTTCAAAGTAACTTTTCCAAAGATAATATTCTT
736866 TTAAATAATTTAATTTAATATTTATCTAGATATTAATATGAGATATTAAATTTAATTTAATATTT
196 TTAAATAATTTAATTTAATATTTATCTAGATATTAATATGAGATATTAAATTTAATTTAATATTT
736931 ACCTAGATATTAATATGGGATATTAAATTTAA
261 ACCTAGATATTAATATGGGATATTAAATTTAA
736963 GTTTCGAGGTGTCGAGGGAGTCGTGCTGGCGATGGCACCGTCGGGCATGGCAGCTGCGACGATAG
1 GTTTCGAGGTGTCGAGGGAGTCGTGCTGGCGATGGCACCGTCGGGCATGGCAGCTGCGACGATAG
737028 CGACCCGGCGATCAATAGATGGTTGGCAACTTTAGTTTTTCAGTGGTAGAGCAGTGGAAAAACGA
66 CGACCCGGCGATCAATAGATGGTTGGCAACTTTAGTTTTTCAGTGGTAGAGCAGTGGAAAAACGA
737093 GACTCCTAGTAGGACTCTATCAAATAACTTGATTTCAAAGTAACTTTTCCAAAGATAATATTCTT
131 GACTCCTAGTAGGACTCTATCAAATAACTTGATTTCAAAGTAACTTTTCCAAAGATAATATTCTT
737158 TTAAATAATTTAATTTAATATTTATCTAGATATTAATATGAGATATTAAATTTAATTTAATATTT
196 TTAAATAATTTAATTTAATATTTATCTAGATATTAATATGAGATATTAAATTTAATTTAATATTT
737223 CAGATAGAAT
Statistics
Matches: 260, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
292 260 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (292 bp):
GTTTCGAGGTGTCGAGGGAGTCGTGCTGGCGATGGCACCGTCGGGCATGGCAGCTGCGACGATAG
CGACCCGGCGATCAATAGATGGTTGGCAACTTTAGTTTTTCAGTGGTAGAGCAGTGGAAAAACGA
GACTCCTAGTAGGACTCTATCAAATAACTTGATTTCAAAGTAACTTTTCCAAAGATAATATTCTT
TTAAATAATTTAATTTAATATTTATCTAGATATTAATATGAGATATTAAATTTAATTTAATATTT
ACCTAGATATTAATATGGGATATTAAATTTAA
Found at i:737252 original size:61 final size:62
Alignment explanation
Indices: 737187--737377 Score: 325
Period size: 61 Copynumber: 3.1 Consensus size: 62
737177 ATTTATCTAG
*
737187 ATATTAATATGAGATATTAAATTTAATTTAATATTTCAGATAGA-ATTATTTTATTAATTTA
1 ATATTAATATGAGATATTAAATTTAATTTAATATTTCAGATAGATAGTATTTTATTAATTTA
*
737248 ATATTAATATGTGATATTAAATTTAATTTAATA-TTCAGATAGATAGTATTTTATTAATTTA
1 ATATTAATATGAGATATTAAATTTAATTTAATATTTCAGATAGATAGTATTTTATTAATTTA
* *
737309 ATATTAATATGCGATATTAAATTTAATTTAATATTT-AGATAGATAGTATTTTGTTAATTTA
1 ATATTAATATGAGATATTAAATTTAATTTAATATTTCAGATAGATAGTATTTTATTAATTTA
737370 ATATTAAT
1 ATATTAAT
737378 GTGATTAATT
Statistics
Matches: 124, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
60 10 0.08
61 112 0.90
62 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (62 bp):
ATATTAATATGAGATATTAAATTTAATTTAATATTTCAGATAGATAGTATTTTATTAATTTA
Found at i:739187 original size:8 final size:8
Alignment explanation
Indices: 739153--739195 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
739143 GAATTTTATA
739153 ATATTTTT
1 ATATTTTT
739161 ATGATTTTT
1 AT-ATTTTT
*
739170 ATAAAATTTT
1 AT--ATTTTT
739180 ATATTTTT
1 ATATTTTT
739188 ATATTTTT
1 ATATTTTT
739196 TTTACAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 15 0.50
9 8 0.27
10 7 0.23
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (8 bp):
ATATTTTT
Found at i:739187 original size:18 final size:20
Alignment explanation
Indices: 739136--739190 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
739126 TAAATGACCT
* *
739136 TTTTGATGAATTTTATAATAT
1 TTTT-ATGATTTTTATAATAA
739157 TTTTATGATTTTTATAA-AA
1 TTTTATGATTTTTATAATAA
739176 TTTTAT-ATTTTTATA
1 TTTTATGATTTTTATA
739191 TTTTTTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 9 0.28
19 7 0.22
20 12 0.38
21 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTATGATTTTTATAATAA
Found at i:739399 original size:94 final size:95
Alignment explanation
Indices: 739222--739404 Score: 210
Period size: 94 Copynumber: 1.9 Consensus size: 95
739212 ATTTTTAATA
* ** * * *
739222 AAAGTAGGGGTTTAATTACTTTTTTTGAAAAAGTTTGAGGGTCTTTTTAATGCATTTTGAAAGTT
1 AAAGTAGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAGACTCTTTTTAATACATTTTAAAAATT
* * * *
739287 CAAGTATCCAATTGAGTAAAAAAATAAAAG
66 CAAATACCCAAATAAGTAAAAAAATAAAAG
* *
739317 AAAGTAGGGGCTTAATT-GTTTTTTTG-AAAAGATTTGAGAACT-TTTTTGATACATTTTAAAAA
1 AAAGTAGGGGCTTAATTACTTTTTTTGAAAAAG-TTTGAG-ACTCTTTTTAATACATTTTAAAAA
*
739379 TTTAAATACCCAAATAAGTAAAAAAA
64 TTCAAATACCCAAATAAGTAAAAAAA
739405 AAGTAGAGGC
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
93 5 0.07
94 51 0.70
95 17 0.23
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (95 bp):
AAAGTAGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAGACTCTTTTTAATACATTTTAAAAATT
CAAATACCCAAATAAGTAAAAAAATAAAAG
Found at i:740449 original size:88 final size:88
Alignment explanation
Indices: 740347--740569 Score: 213
Period size: 88 Copynumber: 2.5 Consensus size: 88
740337 GCATTTTCGT
* * ** * *
740347 AATTGAGTGCAAAAAAGGCAAGGGTTTAATTACTTTTTTTTTGAAAATTTTTTAGGGTTTTTTTG
1 AATTGAGT--AAAAAAAGCAAGGGCTTAATTACTTTTTTTTTGAAAAAGTTTTAGAGTCTTTTTG
* *
740412 ACACATTTTGGTAA-TTCAAGTACCC
64 ACACATTTT-GAAAGTTCAAATACCC
* * *
740437 AATTGAGTAAAAAAAAGCAGGGGGCTTAATTGC--TGTTTTTGAAAAAGTTTTAGAGTCTTTTTG
1 AATTGAGT-AAAAAAAGCA-AGGGCTTAATTACTTTTTTTTTGAAAAAGTTTTAGAGTCTTTTTG
** *
740500 ATGCATTTTGAAAGTTCAAATATCC
64 ACACATTTTGAAAGTTCAAATACCC
* *
740525 AATTGAGTAAAAAAA--AAGAGCTTAATTACTTTCTTTTTTTAAAAA
1 AATTGAGTAAAAAAAGCAAGGGCTTAATTACTTT-TTTTTTGAAAAA
740570 AAATTGATGA
Statistics
Matches: 108, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
84 10 0.09
85 1 0.01
86 1 0.01
87 20 0.19
88 49 0.45
89 9 0.08
90 18 0.17
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (88 bp):
AATTGAGTAAAAAAAGCAAGGGCTTAATTACTTTTTTTTTGAAAAAGTTTTAGAGTCTTTTTGAC
ACATTTTGAAAGTTCAAATACCC
Found at i:740709 original size:44 final size:45
Alignment explanation
Indices: 740620--740715 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 45
740610 TTTGGTTCGC
740620 TGTAATGGAATAGAGGCGTAATAGTAATTCAATTATTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGTAATTCAATTATTTGGTTGAA
*
740665 TGTAATGGAATAGAGGCGTAATAGT-ATTC-ATGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGTAATTCAAT-TATTTGGTTGAA
*
740709 TGGAATG
1 TGTAATG
740716 ATGTTGTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
43 2 0.04
44 21 0.44
45 25 0.52
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.35
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGTAATTCAATTATTTGGTTGAA
Found at i:742550 original size:49 final size:49
Alignment explanation
Indices: 742471--742574 Score: 156
Period size: 49 Copynumber: 2.1 Consensus size: 49
742461 AGAAAAAAAC
* * * *
742471 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
742520 AAATTAAAATTAAGTTCAATATCCAT-AATCAAAAGCTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATAT-CATGAATCAAAAGCTCAACACTGTATA
742569 AAATTA
1 AAATTA
742575 TAACACATGA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 47 0.94
50 3 0.06
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
Found at i:744997 original size:73 final size:75
Alignment explanation
Indices: 744904--745063 Score: 288
Period size: 75 Copynumber: 2.2 Consensus size: 75
744894 TTAATTTTAT
*
744904 TTTAATAAATTGGAATATTAAAAATAAAAAAT-ATCCAAACTTTA-TTGAATTACAAAAATAAAC
1 TTTAGTAAATTGGAATATTAAAAATAAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAAC
*
744967 AAATGCATTA
66 AAATGAATTA
744977 TTTAGTAAATTGGAATATTAAAAATAAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAAC
1 TTTAGTAAATTGGAATATTAAAAATAAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAAC
745042 AAATGAATTA
66 AAATGAATTA
745052 TTTAGTAAATTG
1 TTTAGTAAATTG
745064 AAAAACAATT
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
73 31 0.37
74 12 0.14
75 40 0.48
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (75 bp):
TTTAGTAAATTGGAATATTAAAAATAAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAAC
AAATGAATTA
Found at i:745798 original size:12 final size:12
Alignment explanation
Indices: 745783--745816 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
745773 ACTTAACAGA
*
745783 AACCAAAACATT
1 AACCAAAACATG
745795 AACCAAAACATG
1 AACCAAAACATG
745807 AACCAAAACA
1 AACCAAAACA
745817 ATAGAGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.62, C:0.26, G:0.03, T:0.09
Consensus pattern (12 bp):
AACCAAAACATG
Found at i:745899 original size:12 final size:12
Alignment explanation
Indices: 745884--746002 Score: 80
Period size: 12 Copynumber: 9.2 Consensus size: 12
745874 ACTTAACAGA
745884 AACCAAAACATG
1 AACCAAAACATG
*
745896 AACCAAAACATA
1 AACCAAAACATG
745908 AACCAAAACATG
1 AACCAAAACATG
745920 AACTTAACAGAAACATG
1 AAC----CA-AAACATG
* *
745937 AACATTATAACACATA
1 AAC--CA-AA-ACATG
*
745953 AACCTAAACATG
1 AACCAAAACATG
**
745965 AA-CTTAACA-G
1 AACCAAAACATG
745975 AAACCAAAACATG
1 -AACCAAAACATG
745988 AACCAAAACATG
1 AACCAAAACATG
746000 AAC
1 AAC
746003 TTAACAGAAG
Statistics
Matches: 86, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
10 1 0.01
11 8 0.09
12 51 0.59
13 3 0.03
15 4 0.05
16 9 0.10
17 10 0.12
ACGTcount: A:0.57, C:0.23, G:0.07, T:0.13
Consensus pattern (12 bp):
AACCAAAACATG
Found at i:745967 original size:45 final size:44
Alignment explanation
Indices: 745901--746058 Score: 208
Period size: 45 Copynumber: 3.8 Consensus size: 44
745891 ACATGAACCA
745901 AAACATAAACCAAAACATGAACTTAACAGAAACATGAACATTAT
1 AAACATAAACCAAAACATGAACTTAACAGAAACATGAACATTAT
*
745945 AACACATAAACCTAAACATGAACTTAACAGAAAC-----C---A-
1 AA-ACATAAACCAAAACATGAACTTAACAGAAACATGAACATTAT
* *
745981 AAACATGAACCAAAACATGAACTTAACAGAAGCATGAACATTAT
1 AAACATAAACCAAAACATGAACTTAACAGAAACATGAACATTAT
746025 AATACATAAACCAAAACATGAACTTAACAGAAAC
1 AA-ACATAAACCAAAACATGAACTTAACAGAAAC
746059 CAAAACATGA
Statistics
Matches: 97, Mismatches: 6, Indels: 21
0.78 0.05 0.17
Matches are distributed among these distances:
35 28 0.29
36 2 0.02
37 1 0.01
40 2 0.02
43 1 0.01
44 4 0.04
45 59 0.61
ACGTcount: A:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (44 bp):
AAACATAAACCAAAACATGAACTTAACAGAAACATGAACATTAT
Found at i:745994 original size:80 final size:80
Alignment explanation
Indices: 745896--746070 Score: 314
Period size: 80 Copynumber: 2.2 Consensus size: 80
745886 CCAAAACATG
* *
745896 AACCAAAACATAAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCTAAA
1 AACCAAAACATGAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCAAAA
745961 CATGAACTTAACAGA
66 CATGAACTTAACAGA
* *
745976 AACCAAAACATGAACCAAAACATGAACTTAACAGAAGCATGAACATTATAATACATAAACCAAAA
1 AACCAAAACATGAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCAAAA
746041 CATGAACTTAACAGA
66 CATGAACTTAACAGA
746056 AACCAAAACATGAAC
1 AACCAAAACATGAAC
746071 ATTATAACAC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 91 1.00
ACGTcount: A:0.56, C:0.21, G:0.07, T:0.15
Consensus pattern (80 bp):
AACCAAAACATGAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCAAAA
CATGAACTTAACAGA
Found at i:747441 original size:17 final size:18
Alignment explanation
Indices: 747419--747459 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
747409 AAATGGAGAA
747419 AAGAAAAGAAACGT-GAG
1 AAGAAAAGAAACGTAGAG
*
747436 AAGAAAAGAAGCGTACGAG
1 AAGAAAAGAAACGTA-GAG
747455 AAGAA
1 AAGAA
747460 GAAGCAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.62
19 8 0.38
ACGTcount: A:0.59, C:0.07, G:0.29, T:0.05
Consensus pattern (18 bp):
AAGAAAAGAAACGTAGAG
Found at i:750501 original size:20 final size:20
Alignment explanation
Indices: 750476--750518 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
750466 GAAAATTTGC
* *
750476 ATTTTTTGTCCCTTTCATAT
1 ATTTTTGGTCCCTCTCATAT
750496 ATTTTTGGTCCCTCTCATAT
1 ATTTTTGGTCCCTCTCATAT
750516 ATT
1 ATT
750519 AAAATTTTAA
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:0.16, C:0.21, G:0.07, T:0.56
Consensus pattern (20 bp):
ATTTTTGGTCCCTCTCATAT
Found at i:750809 original size:2 final size:2
Alignment explanation
Indices: 750804--750837 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
750794 GACTGTTTGC
750804 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
750838 TATAAGTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:752349 original size:16 final size:17
Alignment explanation
Indices: 752330--752362 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
752320 GAAAAGCAAC
752330 TAACAACAA-AATAAAT
1 TAACAACAACAATAAAT
*
752346 TAACAAGAACAATAAAT
1 TAACAACAACAATAAAT
752363 GAGATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.67, C:0.12, G:0.03, T:0.18
Consensus pattern (17 bp):
TAACAACAACAATAAAT
Found at i:758304 original size:15 final size:15
Alignment explanation
Indices: 758279--758316 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
758269 TTTGGTCCAT
*
758279 TTATT-TTGTTATTA
1 TTATTATTGTTAGTA
758293 TTATTATTGTTAGTA
1 TTATTATTGTTAGTA
758308 TTATGTATT
1 TTAT-TATT
758317 TATTTTCGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 12 0.57
16 4 0.19
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
TTATTATTGTTAGTA
Found at i:760045 original size:26 final size:26
Alignment explanation
Indices: 760016--760066 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
760006 TTATTTTTAG
*
760016 TTATTTTATTT-TATTGTGAGACATTT
1 TTATGTTATTTCTATTGTGA-ACATTT
*
760042 TTATGTTATTTCTATTTTGAACATT
1 TTATGTTATTTCTATTGTGAACATT
760067 GCTATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.24, C:0.06, G:0.10, T:0.61
Consensus pattern (26 bp):
TTATGTTATTTCTATTGTGAACATTT
Found at i:765775 original size:22 final size:22
Alignment explanation
Indices: 765745--765789 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
765735 TAGAGATAAA
*
765745 ATCATGTGCTTTATTTATATCT
1 ATCACGTGCTTTATTTATATCT
765767 ATCACGTGCTTTATTTATATCT
1 ATCACGTGCTTTATTTATATCT
765789 A
1 A
765790 GCATGTTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (22 bp):
ATCACGTGCTTTATTTATATCT
Found at i:769812 original size:46 final size:44
Alignment explanation
Indices: 769759--769851 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
769749 GGTTCGCTGT
* *
769759 AATGGAATAGAGGCGTAATAGGTAATCATTTTGTTTGGTTGAATTG
1 AATGGAATAGAGGCGTAAT-GGTAATC-TTGTGTTTGGTTGAATGG
**
769805 AATGGAATAGAGGCGTAATGGTTTTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATGGTAATCTTGTGTTTGGTTGAATGG
769849 AAT
1 AAT
769852 AGATGGGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 19 0.44
45 5 0.12
46 19 0.44
ACGTcount: A:0.28, C:0.04, G:0.30, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATGGTAATCTTGTGTTTGGTTGAATGG
Found at i:771921 original size:49 final size:49
Alignment explanation
Indices: 771830--771933 Score: 147
Period size: 49 Copynumber: 2.1 Consensus size: 49
771820 GAAAAAAAAC
* ** * *
771830 AAAA-TAAAATTAAGTTTAATATCATGAATCAAAAGGGGAACACTTTAT
1 AAAATTAAAATTAAGTTCAATATCATGAATCAAAAACGCAACACTGTAT
*
771878 AAAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTAT
1 AAAATTAAAATTAAGTTCAATATCATGAATCAAAAACGCAACACTGTAT
771927 AAAATTA
1 AAAATTA
771934 TAACACATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
48 4 0.08
49 45 0.92
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.29
Consensus pattern (49 bp):
AAAATTAAAATTAAGTTCAATATCATGAATCAAAAACGCAACACTGTAT
Found at i:774806 original size:9 final size:10
Alignment explanation
Indices: 774781--774826 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
774771 AGAATGCAAG
774781 ATTTATTATAT
1 ATTTATTA-AT
774792 ATTTATTAA-
1 ATTTATTAAT
774801 ATTTATTAAT
1 ATTTATTAAT
*
774811 A--TATTTAT
1 ATTTATTAAT
774819 ATTTATTA
1 ATTTATTA
774827 TGTATGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
8 7 0.23
9 9 0.30
10 6 0.20
11 8 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTTATTAAT
Found at i:775299 original size:10 final size:10
Alignment explanation
Indices: 775284--775308 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
775274 ACAGCAAAGG
775284 AATCACAGTC
1 AATCACAGTC
775294 AATCACAGTC
1 AATCACAGTC
775304 AATCA
1 AATCA
775309 GCCAATCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.20
Consensus pattern (10 bp):
AATCACAGTC
Found at i:778470 original size:20 final size:20
Alignment explanation
Indices: 778424--778475 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
778414 TTAATTTAGC
* *
778424 CATTTTATATTTTAATTTTTT
1 CATTTT-TAATTTAATTTTTA
**
778445 TGTTTTTAATTTAATTTTTA
1 CATTTTTAATTTAATTTTTA
778465 CA-TTTTAATTT
1 CATTTTTAATTT
778476 TTCTTTTGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 9 0.36
20 12 0.48
21 4 0.16
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (20 bp):
CATTTTTAATTTAATTTTTA
Found at i:784993 original size:42 final size:42
Alignment explanation
Indices: 784880--785008 Score: 143
Period size: 42 Copynumber: 3.1 Consensus size: 42
784870 CGAAGGCTGC
* * * **
784880 ACAGAAGCACATAAGTGCTAAACAGAAACCTGTAAGGGTTGA
1 ACAGAAGCTCACAAGAGCTAAACAGAAACCCATAAGGGTTGA
* * *
784922 ACAGAAGCTCACAAGAACTTAACAAAAACCCATAAGGGTTGA
1 ACAGAAGCTCACAAGAGCTAAACAGAAACCCATAAGGGTTGA
* * *
784964 ATAGAAGCTCA-ATAGAGCTAAACGGAAACCCATAAGGGTTAA
1 ACAGAAGCTCACA-AGAGCTAAACAGAAACCCATAAGGGTTGA
785006 ACA
1 ACA
785009 AAAACTCATA
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 1 0.01
42 70 0.99
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.16
Consensus pattern (42 bp):
ACAGAAGCTCACAAGAGCTAAACAGAAACCCATAAGGGTTGA
Found at i:785013 original size:21 final size:21
Alignment explanation
Indices: 784989--785032 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
784979 AGCTAAACGG
*
784989 AAACCCATAAGGGTTAAACAA
1 AAACCCATAAGAGTTAAACAA
* *
785010 AAACTCATATGAGTTAAACAA
1 AAACCCATAAGAGTTAAACAA
785031 AA
1 AA
785033 GCTCGTGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.18
Consensus pattern (21 bp):
AAACCCATAAGAGTTAAACAA
Found at i:785174 original size:24 final size:24
Alignment explanation
Indices: 785112--785175 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
785102 TAATTTGCCA
*
785112 TCAATTCATCCTTTACATATACCG
1 TCAATTCATCCTTTGCATATACCG
* *
785136 TCAATTCATCCTTTGCATTTACTG
1 TCAATTCATCCTTTGCATATACCG
785160 TCAATTCATCCTTTGC
1 TCAATTCATCCTTTGC
785176 CATAGAACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.23, C:0.28, G:0.06, T:0.42
Consensus pattern (24 bp):
TCAATTCATCCTTTGCATATACCG
Found at i:795196 original size:217 final size:217
Alignment explanation
Indices: 794821--795255 Score: 834
Period size: 217 Copynumber: 2.0 Consensus size: 217
794811 GGCGGATTGT
794821 ACCACACGTCTGTCTATTGATCTTGGCCACTCCTTGTCATCCATCTTGTCAGGTTTTTCTTCAAG
1 ACCACACGTCTGTCTATTGATCTTGGCCACTCCTTGTCATCCATCTTGTCAGGTTTTTCTTCAAG
794886 GGCTATATCCAGCTCTTGCTGACATAAGACATCCAGGATCTCACATTGCCACATACCAAAATTAT
66 GGCTATATCCAGCTCTTGCTGACATAAGACATCCAGGATCTCACATTGCCACATACCAAAATTAT
*
794951 TGGTACCATCAAATTTCTCTACTTCAAATTTTGCATTGGTCACAGTAGTCTTTGCTAATGACGAT
131 TGGTACCATCAAATTTCTCTACTTCAAATTTTGCATTGGTCACAGTAATCTTTGCTAATGACGAT
* *
795016 GCCTTTTCCATTTTTCTCCTCA
196 GCCTCTGCCATTTTTCTCCTCA
795038 ACCACACGTCTGTCTATTGATCTTGGCCACTCCTTGTCATCCATCTTGTCAGGTTTTTCTTCAAG
1 ACCACACGTCTGTCTATTGATCTTGGCCACTCCTTGTCATCCATCTTGTCAGGTTTTTCTTCAAG
795103 GGCTATATCCAGCTCTTGCTGACATAAGACATCCAGGATCTCACATTGCCACATACCAAAATTAT
66 GGCTATATCCAGCTCTTGCTGACATAAGACATCCAGGATCTCACATTGCCACATACCAAAATTAT
*
795168 TGGTACCATCAAATTTCTCTACTTCAAATTTTGCATTGGTCACAGTAATCTTTGCTGATGACGAT
131 TGGTACCATCAAATTTCTCTACTTCAAATTTTGCATTGGTCACAGTAATCTTTGCTAATGACGAT
795233 GCCTCTGCCATTTTTCTCCTCA
196 GCCTCTGCCATTTTTCTCCTCA
795255 A
1 A
795256 TCCCAATACT
Statistics
Matches: 214, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
217 214 1.00
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (217 bp):
ACCACACGTCTGTCTATTGATCTTGGCCACTCCTTGTCATCCATCTTGTCAGGTTTTTCTTCAAG
GGCTATATCCAGCTCTTGCTGACATAAGACATCCAGGATCTCACATTGCCACATACCAAAATTAT
TGGTACCATCAAATTTCTCTACTTCAAATTTTGCATTGGTCACAGTAATCTTTGCTAATGACGAT
GCCTCTGCCATTTTTCTCCTCA
Found at i:797344 original size:29 final size:28
Alignment explanation
Indices: 797277--797357 Score: 101
Period size: 29 Copynumber: 2.9 Consensus size: 28
797267 TATAACATTT
*
797277 AATAAATTTAGATACCAAATT-GAACCAA
1 AATAAATTTAAATACCAAATTAG-ACCAA
*
797305 AAAAAATTTAAATACCAAATTAGACTCAA
1 AATAAATTTAAATACCAAATTAGAC-CAA
* *
797334 AATAGATTTAAATACCAATTTAGA
1 AATAAATTTAAATACCAAATTAGA
797358 AAAAAGTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 21 0.46
29 25 0.54
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.27
Consensus pattern (28 bp):
AATAAATTTAAATACCAAATTAGACCAA
Found at i:801981 original size:8 final size:8
Alignment explanation
Indices: 801970--802020 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
801960 TGAAATTTTG
801970 AATTTTAA
1 AATTTTAA
801978 AATTTTAA
1 AATTTTAA
* *
801986 AATGTTAG
1 AATTTTAA
*
801994 AATTTTAG
1 AATTTTAA
**
802002 TTTTTTAA
1 AATTTTAA
802010 AATTTTAA
1 AATTTTAA
802018 AAT
1 AAT
802021 ATCTCATCCA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (8 bp):
AATTTTAA
Found at i:804358 original size:16 final size:17
Alignment explanation
Indices: 804328--804361 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
804318 TAACATACAA
804328 ATATGAATATCATAGAT
1 ATATGAATATCATAGAT
*
804345 ATAT-AATATGATAGAT
1 ATATGAATATCATAGAT
804361 A
1 A
804362 GTCATTTCCA
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:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (17 bp):
ATATGAATATCATAGAT
Found at i:806800 original size:19 final size:19
Alignment explanation
Indices: 806776--806816 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
806766 ACTTAAATGG
*
806776 TTAATTAACATAATTAACC
1 TTAATTAACATAATAAACC
* *
806795 TTAATTTACTTAATAAACC
1 TTAATTAACATAATAAACC
806814 TTA
1 TTA
806817 TTATTAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAATTAACATAATAAACC
Found at i:808299 original size:57 final size:58
Alignment explanation
Indices: 808186--808299 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 58
808176 GAAAATGGTA
* *
808186 GAGAAATGAGAAATATTGGAAATGAAATATGGATTTCTCCAATATGAAAATGAAAAAG
1 GAGAAATGAGAAACATTGGAAATGAAATATGGATTTCTCCAAAATGAAAATGAAAAAG
* *
808244 GAGAAATG-GAAACATTTGGAAATG-AATGTGG-TCTTTTCCAAAATGAAAATGAAAAA
1 GAGAAATGAGAAACA-TTGGAAATGAAATATGGAT-TTCTCCAAAATGAAAATGAAAAA
808300 TGACCTGGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
56 1 0.02
57 32 0.64
58 17 0.34
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.25
Consensus pattern (58 bp):
GAGAAATGAGAAACATTGGAAATGAAATATGGATTTCTCCAAAATGAAAATGAAAAAG
Found at i:810551 original size:18 final size:19
Alignment explanation
Indices: 810513--810562 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
810503 TGTAATTCAG
**
810513 AATATTATAAAAATTGTAA
1 AATATTATAAAAATTACAA
810532 AATATTAT-AAAATTACAA
1 AATATTATAAAAATTACAA
*
810550 AATAATA-AAAAAT
1 AATATTATAAAAAT
810563 ACTAACAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AATATTATAAAAATTACAA
Found at i:810876 original size:32 final size:32
Alignment explanation
Indices: 810825--810909 Score: 79
Period size: 32 Copynumber: 2.6 Consensus size: 32
810815 AACTTTCAAT
*
810825 ATTTATTATACATATATAAT-AT-TTTCATTAAAA
1 ATTTATTTTACAT-TATAATAATCTTT--TTAAAA
810858 A-TTATTTTACATTCATAATTAATCTTTTTAAAA
1 ATTTATTTTACATT-ATAA-TAATCTTTTTAAAA
810891 ATTTATTTTA-ATTTATAAT
1 ATTTATTTTACA-TTATAAT
810910 TTAACATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
31 1 0.02
32 15 0.33
33 14 0.31
34 12 0.27
35 3 0.07
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (32 bp):
ATTTATTTTACATTATAATAATCTTTTTAAAA
Found at i:822174 original size:18 final size:17
Alignment explanation
Indices: 822151--822185 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
822141 TTTCTAGACT
822151 TTTAACTAACCCATATAA
1 TTTAACTAACCCA-ATAA
822169 TTTAACTAACCCAATAA
1 TTTAACTAACCCAATAA
822186 ACAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (17 bp):
TTTAACTAACCCAATAA
Found at i:823497 original size:27 final size:25
Alignment explanation
Indices: 823467--823660 Score: 183
Period size: 27 Copynumber: 7.2 Consensus size: 25
823457 ACCATATGGA
823467 GGTATTTCAGTAATTTTA-CCATTCAGG
1 GGTATTTC-GTAATTTTACCCA-TC-GG
*
823494 GGTATTTCGATAATTTTACCCTTCGAG
1 GGTATTTCG-TAATTTTACCCATCG-G
*
823521 GGTATTTCGATAATTTTACCCATCGA
1 GGTATTTCG-TAATTTTACCCATCGG
823547 GGTATTTCGATAATTTTACCCATCGAG
1 GGTATTTCG-TAATTTTACCCATCG-G
* *
823574 GGTATTTCAATCATTTTACCCATCGAG
1 GGTATTTC-GTAATTTTACCCATCG-G
* *
823601 GGTATTTCGGTCATTTTACCCATTGAG
1 GGTATTTC-GTAATTTTACCCATCG-G
* *
823628 GGTATTTCGATCATTTTACCCATAGAG
1 GGTATTTCG-TAATTTTACCCATCG-G
823655 GGTATT
1 GGTATT
823661 ACTGTCATTT
Statistics
Matches: 151, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
26 28 0.19
27 121 0.80
28 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (25 bp):
GGTATTTCGTAATTTTACCCATCGG
Found at i:823561 original size:80 final size:79
Alignment explanation
Indices: 823465--823660 Score: 252
Period size: 80 Copynumber: 2.4 Consensus size: 79
823455 TTACCATATG
* *
823465 GAGGTATTTC-AGTAATTTTACCATTC-AGGGGTATTTCGATAATTTTACCCTTCGAGGGTATTT
1 GAGGTATTTCGA-TAATTTTACCA-TCGA-GGGTATTTCAATAATTTTACCCATCGAGGGTATTT
823528 CGATAATTTTACCCATC
63 CGATAATTTTACCCATC
*
823545 GAGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAATCATTTTACCCATCGAGGGTATTTCG
1 GAGGTATTTCGATAATTTTA-CCATCGAGGGTATTTCAATAATTTTACCCATCGAGGGTATTTCG
* * *
823610 GTCATTTTACCCATT
65 ATAATTTTACCCATC
* *
823625 GAGGGTATTTCGATCATTTTACCCATAGAGGGTATT
1 GA-GGTATTTCGATAATTTTA-CCATCGAGGGTATT
823661 ACTGTCATTT
Statistics
Matches: 104, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
80 68 0.65
81 36 0.35
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (79 bp):
GAGGTATTTCGATAATTTTACCATCGAGGGTATTTCAATAATTTTACCCATCGAGGGTATTTCGA
TAATTTTACCCATC
Found at i:823629 original size:54 final size:54
Alignment explanation
Indices: 823467--823660 Score: 252
Period size: 54 Copynumber: 3.6 Consensus size: 54
823457 ACCATATGGA
*
823467 GGTATTTCAGTAATTTTA-CCATTC-AGGGGTATTTCGATAATTTTACCC-TTCGAG
1 GGTATTTCAATAATTTTACCCA-TCGA-GGGTATTTCGATAATTTTACCCATT-GAG
* *
823521 GGTATTTCGATAATTTTACCCATCGA-GGTATTTCGATAATTTTACCCATCGAG
1 GGTATTTCAATAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATTGAG
* * *
823574 GGTATTTCAATCATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCATTGAG
1 GGTATTTCAATAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATTGAG
* * *
823628 GGTATTTCGATCATTTTACCCATAGAGGGTATT
1 GGTATTTCAATAATTTTACCCATCGAGGGTATT
823661 ACTGTCATTT
Statistics
Matches: 126, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
53 48 0.38
54 74 0.59
55 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (54 bp):
GGTATTTCAATAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATTGAG
Found at i:823670 original size:27 final size:27
Alignment explanation
Indices: 823493--823660 Score: 257
Period size: 27 Copynumber: 6.3 Consensus size: 27
823483 TACCATTCAG
* *
823493 GGGTATTTCGATAATTTTACCCTTCGA
1 GGGTATTTCGATCATTTTACCCATCGA
*
823520 GGGTATTTCGATAATTTTACCCATCGA
1 GGGTATTTCGATCATTTTACCCATCGA
*
823547 -GGTATTTCGATAATTTTACCCATCGA
1 GGGTATTTCGATCATTTTACCCATCGA
*
823573 GGGTATTTCAATCATTTTACCCATCGA
1 GGGTATTTCGATCATTTTACCCATCGA
* *
823600 GGGTATTTCGGTCATTTTACCCATTGA
1 GGGTATTTCGATCATTTTACCCATCGA
*
823627 GGGTATTTCGATCATTTTACCCATAGA
1 GGGTATTTCGATCATTTTACCCATCGA
823654 GGGTATT
1 GGGTATT
823661 ACTGTCATTT
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
26 26 0.20
27 106 0.80
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATCATTTTACCCATCGA
Found at i:827943 original size:37 final size:37
Alignment explanation
Indices: 827863--827944 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
827853 CATGGCCATA
* * *
827863 GCATAATCTAGGGAAGTCCACCAGATTTGCCAATATG
1 GCATAATCTAGGGAAGTCCACCAAATTCGCCAACATG
* * ** *
827900 GGATAATCTAGGGAGGTCTGCCAAATTCGCCTACATG
1 GCATAATCTAGGGAAGTCCACCAAATTCGCCAACATG
827937 GCATAATC
1 GCATAATC
827945 CAATGGAGGC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (37 bp):
GCATAATCTAGGGAAGTCCACCAAATTCGCCAACATG
Found at i:834167 original size:14 final size:14
Alignment explanation
Indices: 834144--834174 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
834134 TATTTGTTTT
*
834144 ATTAATTAAATTAA
1 ATTAACTAAATTAA
834158 ATTAACTAAATTAA
1 ATTAACTAAATTAA
834172 ATT
1 ATT
834175 CTAATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTAACTAAATTAA
Found at i:834188 original size:19 final size:18
Alignment explanation
Indices: 834146--834188 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
834136 TTTGTTTTAT
*
834146 TAATTAAATTAAATTAAC
1 TAATTAAATTAAATTAAA
*
834164 TAAATTAAATTCTAATTAAA
1 T-AATTAAATT-AAATTAAA
834184 TAATT
1 TAATT
834189 TTCTCAATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 13 0.62
20 7 0.33
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATTAAATTAAATTAAA
Found at i:836429 original size:18 final size:18
Alignment explanation
Indices: 836396--836442 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
836386 TGTTGATTCA
*
836396 AAATTAAA-ATATTAATT
1 AAATTAAATAAATTAATT
836413 AAATTAAATAAATTAATT
1 AAATTAAATAAATTAATT
836431 -AATCTAAATAAA
1 AAAT-TAAATAAA
836443 CCTAATAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATTAAATAAATTAATT
Found at i:837276 original size:2 final size:2
Alignment explanation
Indices: 837271--837314 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
837261 ATGTGTTGCA
*
837271 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AA AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
837313 AC
1 AC
837315 TCCATTTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:838346 original size:3 final size:3
Alignment explanation
Indices: 838338--838400 Score: 99
Period size: 3 Copynumber: 21.0 Consensus size: 3
838328 ACTGGGAAAT
* *
838338 TTC TTC TTC TTC TTC CTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
838386 TTT TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC
838401 AGAGTTTTAG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:844691 original size:4 final size:4
Alignment explanation
Indices: 844684--844747 Score: 62
Period size: 4 Copynumber: 15.5 Consensus size: 4
844674 CTAATTTATT
844684 TTTA TTTA TTTA -TTA TTTTA TTTA TTTA TTTTA TTTA -TTA CTTTA TTTTA
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA -TTTA
844734 TTT- TATTA TTTA TT
1 TTTA T-TTA TTTA TT
844748 GCTTATTTGG
Statistics
Matches: 52, Mismatches: 1, Indels: 14
0.78 0.01 0.21
Matches are distributed among these distances:
3 7 0.13
4 30 0.58
5 15 0.29
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:844701 original size:17 final size:16
Alignment explanation
Indices: 844679--844747 Score: 70
Period size: 16 Copynumber: 4.1 Consensus size: 16
844669 GCAACCTAAT
844679 TTATTTTTATTTATTTA
1 TTATTTTTA-TTATTTA
844696 TTA-TTTTATTTATTTA
1 TTATTTTTA-TTATTTA
844712 TT-TTATTTATTACTTTA
1 TTATT-TTTATTA-TTTA
*
844729 TTTTATTTTATTATTTA
1 TTAT-TTTTATTATTTA
844746 TT
1 TT
844748 GCTTATTTGG
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
16 19 0.40
17 19 0.40
18 8 0.17
19 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTTTTATTATTTA
Found at i:844706 original size:5 final size:5
Alignment explanation
Indices: 844678--844740 Score: 51
Period size: 5 Copynumber: 12.2 Consensus size: 5
844668 GGCAACCTAA
*
844678 TTTAT TTT-T ATTTATT TATTAT TTTA- TTTA- TTTAT TTTATT TATTAC
1 TTTAT TTTAT -TTTA-T T-TTAT TTTAT TTTAT TTTAT TTTA-T T-TTAT
844725 TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT T
844741 ATTTATTGCT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
4 9 0.18
5 27 0.55
6 6 0.12
7 7 0.14
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:844713 original size:30 final size:30
Alignment explanation
Indices: 844677--844744 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
844667 AGGCAACCTA
844677 ATTTATTTTTATTTATTTA-TTATTTTATTT
1 ATTTATTTTTATTTA-TTACTTATTTTATTT
844707 ATTTA-TTTTATTTATTACTTTATTTTATTT
1 ATTTATTTTTATTTATTAC-TTATTTTATTT
844737 -TATTATTT
1 AT-TTATTT
844745 ATTGCTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
28 3 0.09
29 10 0.29
30 19 0.56
31 2 0.06
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (30 bp):
ATTTATTTTTATTTATTACTTATTTTATTT
Found at i:844720 original size:25 final size:24
Alignment explanation
Indices: 844677--844755 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 24
844667 AGGCAACCTA
*
844677 ATTTATTTTTATTTATTTATTATTTT
1 ATTTA-TTTT-TTTATTTATTACTTT
844703 ATTTATTTATTTTATTTATTACTTT
1 ATTTATTT-TTTTATTTATTACTTT
* *
844728 ATTTTATTTTATTATTTATTGC-TT
1 A-TTTATTTTTTTATTTATTACTTT
844752 ATTT
1 ATTT
844756 GGATATTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
23 3 0.06
24 3 0.06
25 29 0.60
26 13 0.27
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (24 bp):
ATTTATTTTTTTATTTATTACTTT
Found at i:845806 original size:16 final size:16
Alignment explanation
Indices: 845779--845818 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
845769 CTAAAGCATA
845779 AAAAAT-AA-ATAAAT
1 AAAAATAAATATAAAT
845793 AAAAATAAATATAAAT
1 AAAAATAAATATAAAT
*
845809 CAAAATAAAT
1 AAAAATAAAT
845819 GAAAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 2 0.09
16 15 0.65
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATAAATATAAAT
Found at i:846220 original size:70 final size:70
Alignment explanation
Indices: 846107--846244 Score: 276
Period size: 70 Copynumber: 2.0 Consensus size: 70
846097 GAGGGCAAGC
846107 ATGGACTAAGTAGGGGAAATTTGATAATACTTTAGAATAACGTATTTTTATGTATTAATTATGTA
1 ATGGACTAAGTAGGGGAAATTTGATAATACTTTAGAATAACGTATTTTTATGTATTAATTATGTA
846172 TTTTT
66 TTTTT
846177 ATGGACTAAGTAGGGGAAATTTGATAATACTTTAGAATAACGTATTTTTATGTATTAATTATGTA
1 ATGGACTAAGTAGGGGAAATTTGATAATACTTTAGAATAACGTATTTTTATGTATTAATTATGTA
846242 TTT
66 TTT
846245 ATTTTGAGTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.43
Consensus pattern (70 bp):
ATGGACTAAGTAGGGGAAATTTGATAATACTTTAGAATAACGTATTTTTATGTATTAATTATGTA
TTTTT
Found at i:846523 original size:13 final size:13
Alignment explanation
Indices: 846507--846531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
846497 TATTAAAGAT
846507 GATTTAATTTTAG
1 GATTTAATTTTAG
846520 GATTTAATTTTA
1 GATTTAATTTTA
846532 TTTATCTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
GATTTAATTTTAG
Found at i:854667 original size:34 final size:34
Alignment explanation
Indices: 854629--854720 Score: 139
Period size: 34 Copynumber: 2.7 Consensus size: 34
854619 GGTTAACCAG
*
854629 CCAGCACACCAAATGCTCATATGAGCCAGCCCAT
1 CCAGCACACCAAATGCTCATATGAGCCAACCCAT
* *
854663 CCAGCATACCAAATGCTCATATGAGCCAATCCAT
1 CCAGCACACCAAATGCTCATATGAGCCAACCCAT
* *
854697 CCAGTACACCAAATGCTCGTATGA
1 CCAGCACACCAAATGCTCATATGA
854721 CAAAATCCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.18
Consensus pattern (34 bp):
CCAGCACACCAAATGCTCATATGAGCCAACCCAT
Found at i:854728 original size:34 final size:34
Alignment explanation
Indices: 854629--854744 Score: 135
Period size: 34 Copynumber: 3.4 Consensus size: 34
854619 GGTTAACCAG
* * **
854629 CCAGCACACCAAATGCTCATATGAGCCAGCCCAT
1 CCAGTACACCAAATGCTCATATGAGCAAATCCAT
* * *
854663 CCAGCATACCAAATGCTCATATGAGCCAATCCAT
1 CCAGTACACCAAATGCTCATATGAGCAAATCCAT
*
854697 CCAGTACACCAAATGCTCGTATGA-CAAAATCCAT
1 CCAGTACACCAAATGCTCATATGAGC-AAATCCAT
*
854731 CCATTACACCAAAT
1 CCAGTACACCAAAT
854745 AACACTGTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
33 1 0.01
34 72 0.99
ACGTcount: A:0.36, C:0.34, G:0.11, T:0.19
Consensus pattern (34 bp):
CCAGTACACCAAATGCTCATATGAGCAAATCCAT
Found at i:875301 original size:12 final size:12
Alignment explanation
Indices: 875284--875314 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
875274 CCGTGTGGCT
875284 CACACGGCCTAC
1 CACACGGCCTAC
875296 CACACGGCCTAC
1 CACACGGCCTAC
*
875308 CATACGG
1 CACACGG
875315 TCATGTGGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.45, G:0.19, T:0.10
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:881097 original size:30 final size:30
Alignment explanation
Indices: 881063--881146 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 30
881053 ACAGTCGAAG
*
881063 CTATCCTTTTTCATAATTTGATAGTAGTCA
1 CTATCCCTTTTCATAATTTGATAGTAGTCA
** * * *
881093 CTATCCCTTTTCATTGTTTAATGGTCGTCA
1 CTATCCCTTTTCATAATTTGATAGTAGTCA
* *
881123 CCATCCCTTTTCATAATTGGATAG
1 CTATCCCTTTTCATAATTTGATAG
881147 CCGAAGCCAT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (30 bp):
CTATCCCTTTTCATAATTTGATAGTAGTCA
Found at i:881164 original size:90 final size:88
Alignment explanation
Indices: 881035--881284 Score: 254
Period size: 90 Copynumber: 2.8 Consensus size: 88
881025 AATTGAAATT
* * * * * *
881035 ATCCCTATTCATAGTTCGACAGTCGAAGCTATCCTTTTTCATAATTTGATAGT-AGTCACTATCC
1 ATCCCTTTTCATAATT-GATAGTCGAAGCTATCCCTTTTCATAATTCGATAGTCA-TCACCATCC
*
881099 CTTTTCATTGTTTAATGGTCGTCACC
64 CTTTTCATTG-TTAATGGTCATCACC
* * * * * *
881125 ATCCCTTTTCATAATTGGATAGCCGAAGCCATCCCTTTTCATAGTTCGATGGTCATCACCGTCCT
1 ATCCCTTTTCATAATT-GATAGTCGAAGCTATCCCTTTTCATAATTCGATAGTCATCACCATCCC
*
881190 TTTTCATTGTTGATGGTCATCACC
65 TTTTCATTGTTAATGGTCATCACC
* * * * * *
881214 ATCCCTTTTCATAATTGATTGTCGAAGCTATCCCCTTTC-TTATTCGATTGTCA-AAGCTATCCC
1 ATCCCTTTTCATAATTGATAGTCGAAGCTATCCCTTTTCATAATTCGATAGTCATCA-CCATCCC
881277 TTTTCATT
65 TTTTCATT
881285 TGTTGATGAT
Statistics
Matches: 132, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
86 1 0.01
87 23 0.17
88 19 0.14
89 29 0.22
90 59 0.45
91 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (88 bp):
ATCCCTTTTCATAATTGATAGTCGAAGCTATCCCTTTTCATAATTCGATAGTCATCACCATCCCT
TTTCATTGTTAATGGTCATCACC
Found at i:881194 original size:30 final size:29
Alignment explanation
Indices: 881090--881232 Score: 128
Period size: 30 Copynumber: 4.8 Consensus size: 29
881080 TTGATAGTAG
* * * *
881090 TCACTATCCCTTTTCATTGTTTAATGGTCG
1 TCACCATCCCTTTTCATAG-TTGATGGTCA
* * *
881120 TCACCATCCCTTTTCATAATTGGATAGCCGA
1 TCACCATCCCTTTTCATAGTT-GATGGTC-A
881151 --AGCCATCCCTTTTCATAGTTCGATGGTCA
1 TCA-CCATCCCTTTTCATAGTT-GATGGTCA
* * *
881180 TCACCGTCCTTTTTCATTGTTGATGGTCA
1 TCACCATCCCTTTTCATAGTTGATGGTCA
*
881209 TCACCATCCCTTTTCATAATTGAT
1 TCACCATCCCTTTTCATAGTTGAT
881233 TGTCGAAGCT
Statistics
Matches: 90, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
29 32 0.36
30 57 0.63
31 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (29 bp):
TCACCATCCCTTTTCATAGTTGATGGTCA
Found at i:881227 original size:89 final size:88
Alignment explanation
Indices: 881100--881266 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 88
881090 TCACTATCCC
* *
881100 TTTTCATTGTTTAATGGTCGTCACCATCCCTTTTCATAATTGGATAGCCGAAGCCATCCCTTTTC
1 TTTTCATTGTTTAATGGTCATCACCATCCCTTTTCATAATT-GATAGCCGAAGCCATCCCCTTTC
881165 ATAGTTCGATGGTCATCACCGTCCT
65 ATA-TTCGATGGTCATCACCGTCCT
* * * * *
881190 TTTTCATTG-TTGATGGTCATCACCATCCCTTTTCATAATTGATTGTCGAAGCTATCCCCTTTCT
1 TTTTCATTGTTTAATGGTCATCACCATCCCTTTTCATAATTGATAGCCGAAGCCATCCCCTTTCA
*
881254 TATTCGATTGTCA
66 TATTCGATGGTCA
881267 AAGCTATCCC
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
87 10 0.14
88 21 0.30
89 29 0.42
90 9 0.13
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (88 bp):
TTTTCATTGTTTAATGGTCATCACCATCCCTTTTCATAATTGATAGCCGAAGCCATCCCCTTTCA
TATTCGATGGTCATCACCGTCCT
Found at i:881246 original size:29 final size:30
Alignment explanation
Indices: 881214--881283 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
881204 GGTCATCACC
*
881214 ATCCCTTTTCATAATT-GATTGTCGAAGCT
1 ATCCCTTTTCATAATTCGATTGTCAAAGCT
* *
881243 ATCCCCTTTC-TTATTCGATTGTCAAAGCT
1 ATCCCTTTTCATAATTCGATTGTCAAAGCT
881272 ATCCCTTTTCAT
1 ATCCCTTTTCAT
881284 TTGTTGATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.11
29 30 0.86
30 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATTGTCAAAGCT
Found at i:883977 original size:21 final size:21
Alignment explanation
Indices: 883927--883979 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
883917 TACAATAAAT
* *
883927 AGGCCAAGTCTTGAAACTTAT
1 AGGCCAAGTATTGAAACTTAC
**
883948 A-GCCTAAGTATTGAGGCTTAC
1 AGGCC-AAGTATTGAAACTTAC
883969 AGGCCAAGTAT
1 AGGCCAAGTAT
883980 CGAGACTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 3 0.12
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (21 bp):
AGGCCAAGTATTGAAACTTAC
Found at i:884520 original size:22 final size:21
Alignment explanation
Indices: 884491--884531 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
884481 ATGGTAGAGT
* *
884491 AGAAAGAAAATTAGAAAGAAA
1 AGAAAGAAAAATAAAAAGAAA
884512 AGAATAGAAAAATAAAAAGA
1 AGAA-AGAAAAATAAAAAGA
884532 TAAAATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (21 bp):
AGAAAGAAAAATAAAAAGAAA
Found at i:921218 original size:20 final size:21
Alignment explanation
Indices: 921193--921231 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
921183 AGAGCAATTG
*
921193 TTCTTTT-TTGTTCTCCCTCT
1 TTCTTTTCTTGGTCTCCCTCT
921213 TTCTTTTCTTGGTCTCCCT
1 TTCTTTTCTTGGTCTCCCT
921232 TTGAACTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (21 bp):
TTCTTTTCTTGGTCTCCCTCT
Found at i:921617 original size:39 final size:40
Alignment explanation
Indices: 921497--921631 Score: 127
Period size: 39 Copynumber: 3.5 Consensus size: 40
921487 AAGAGTACAT
* * *
921497 TGAAGAAAAATCCCAGTTGCTGGCA-CTA-AAAGAGTACAC
1 TGAAGAAAAATCTCAGTTGCTGGCACCTATAAACA-TGCAC
* * * * * *
921536 AGAAGAAAAATCTCACTCGCTGACGCCTATAGAACTTG--C
1 TGAAGAAAAATCTCAGTTGCTGGCACCTATA-AACATGCAC
*
921575 TGAAGAAAAATCTCAGTTGCTGGCACCGATAAA-ATGCAC
1 TGAAGAAAAATCTCAGTTGCTGGCACCTATAAACATGCAC
921614 TGAAGAAAAATCTCAGTT
1 TGAAGAAAAATCTCAGTT
921632 AACCCCAGAG
Statistics
Matches: 75, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
37 2 0.03
38 2 0.03
39 64 0.85
40 3 0.04
41 2 0.03
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (40 bp):
TGAAGAAAAATCTCAGTTGCTGGCACCTATAAACATGCAC
Found at i:926613 original size:17 final size:19
Alignment explanation
Indices: 926575--926619 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
926565 GGTTTGAAGA
*
926575 GAAGTAAAATTTTTGAGGG
1 GAAGTAAAATCTTTGAGGG
926594 GAAGTAAAA-CTTTG-GGG
1 GAAGTAAAATCTTTGAGGG
*
926611 GAAATAAAA
1 GAAGTAAAA
926620 AGAAAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.46
18 4 0.17
19 9 0.38
ACGTcount: A:0.44, C:0.02, G:0.29, T:0.24
Consensus pattern (19 bp):
GAAGTAAAATCTTTGAGGG
Found at i:926691 original size:18 final size:18
Alignment explanation
Indices: 926668--926704 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
926658 AAGAGTTTGA
*
926668 TATTTGATTTATTCGAAT
1 TATTTGAGTTATTCGAAT
926686 TATTTGAGTTATTCGAAT
1 TATTTGAGTTATTCGAAT
926704 T
1 T
926705 CGAAAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (18 bp):
TATTTGAGTTATTCGAAT
Found at i:942827 original size:538 final size:536
Alignment explanation
Indices: 941046--943197 Score: 2725
Period size: 532 Copynumber: 4.0 Consensus size: 536
941036 ATTTTTACAA
* *
941046 GCACTTTCTTGGCAATGTTCAGGATCGATCTTGGAATTCAAGATGTCAGATTTGGTGCTGATTTA
1 GCACTTTCTTGGCAATGTTCAGGATCGATCTTGGAGTTCAAGATTTCAGATTTGGTGCTGATTTA
* * * * *
941111 GATGAGGACAAATGGAAGCAGTAGATTAAAGGAGATAGTGCACAATCTTTATACAAAAATAAGAA
66 GATGAAGATAAATGGAAGCAATAGATTAAAGGAGATAGTGCACAATCTTGATACAAAAAGAAGAA
* * *
941176 GAAAAAGATGGTAAAAGGGGAGGTGT-GGACGACAATAACAATGAAGGAAAGAAAAAAAA-AGTA
131 GAAAGAGATGGTAAAAGGGGAGGTGTAGG-CGACAACAACAATGGAGGAAAGAAAAAAAACA-T-
** * * *
941239 ATAAAATCAAAAAGAATTTG-AGGAAGAGAGGAATGGCAAGGATTAAAGGCTGATTAGTTGTGAA
193 -TAAAATCAAAAAGAATGAGAAGGAGGAGAGGAAT-GAAAGGATTAAAGGCTGATTATTTGTGAA
* * * *
941303 AAAATAATAATTATACCTAGGTTTACTAGGGTTGGACGGCACACACATT--AATACAAGGGAATT
256 AAAATAATACTTATACCTAGGTTTACTAGGCTTGGACGACACACACATTAAAATA-AAGGG-TTT
* ** *
941366 TTGTCAAAAAATTAAATTATTTAG-TAGAGAATAAGATTTGAACTTGGGACTGATTTAAATATGA
319 TTGTCAAAAAATTAAATTATTT-GCAAGAGAA-GGGATTTGAACTTGGGACTGATTTAAATACGA
*
941430 TTTAAAGACCTATTAAAAAA-TTGAAAAAATATATTTAAAATCATCAAAATTCTCCCAAATTCCA
382 TTTAAAGACCCATTAAAAAACTT--AAAAATATATTTAAAATCATCAAAATTCTCCCAAATTCCA
*
941494 AATCTGGAAATTTAGGTTTTTAATTGGCATA-ATTAATAAAAAATATTGAAGAAAGAAGAGCTC-
445 AATCTAGAAATTTAGGTTTTTAATTGGCA-AGATTAAT-AAAAA-ATTGAAGAAAGAAGAGCTCT
*
941557 TACCCAAGCTAGTTGAGAGAAACGATAATG
507 TACCCAAGCTAGTTGAAAGAAACGATAATG
* * *
941587 GCACTTTCTTGGCAATGTTCAGGATCGATCTTGGAGTACAAGATGTT-AGATTTGATCCTGATTT
1 GCACTTTCTTGGCAATGTTCAGGATCGATCTTGGAGTTCAAGAT-TTCAGATTTGGTGCTGATTT
*
941651 AGATGAAGATAAATGGAAGCAATAGATTAAAGGAGATAGTTCACAATCTTGATACAAAAAGAAGA
65 AGATGAAGATAAATGGAAGCAATAGATTAAAGGAGATAGTGCACAATCTTGATACAAAAAGAAGA
* *
941716 AGAAAGAGATGGTAAAAGGGGCA-GTGTAGGTGACAACAACAATAGAGGAAA-ATAAAAAAACAT
130 AGAAAGAGATGGTAAAAGGGG-AGGTGTAGGCGACAACAACAATGGAGGAAAGA-AAAAAAACAT
** ** *
941779 TAAAATCAAAAAGGCTGAGAA-GAGTTGA-G---GAAAGGATTAAAGGCTGATTATTTGTGACAA
193 TAAAATCAAAAAGAATGAGAAGGAGGAGAGGAATGAAAGGATTAAAGGCTGATTATTTGTGAAAA
* * * *
941839 AATAATACTTATACCTAGGTTTACTAGGCTTGGATGACACACACATTAAAACAAGGGGTTTTTAT
258 AATAATACTTATACCTAGGTTTACTAGGCTTGGACGACACACACATTAAAATAAAGGGTTTTTGT
*
941904 CAAAAATTTAAATTATTTGCAAGAGAAGGGATTTGAACTTGGGACTGATTTAAATACGATTTAAA
323 CAAAAAATTAAATTATTTGCAAGAGAAGGGATTTGAACTTGGGACTGATTTAAATACGATTTAAA
* * * * ** * *
941969 GACCCATTAAAAAACATATAAAATATATTTAAAGTCATAAAAATTCTCACAAATTATAAAT-AAA
388 GACCCATTAAAAAACTTA-AAAATATATTTAAAATCATCAAAATTCTCCCAAATTCCAAATCTAG
* * * *
942033 AAATTTTAGGGTTTTAATTGGCAAGATTAATAAAAAATTGAAGAAAGACGAGCTCTTACTCAGGC
452 AAA-TTTAGGTTTTTAATTGGCAAGATTAATAAAAAATTGAAGAAAGAAGAGCTCTTACCCAAGC
* *
942098 TAGTTGAGAGAAACAATAATG
516 TAGTTGAAAGAAACGATAATG
* * * * * *
942119 GAACTTTCTTGGAAATGTTAAGGATCGATCTTGTAGTTCAAGATTTTAGAGTTGGTGCTGATTTA
1 GCACTTTCTTGGCAATGTTCAGGATCGATCTTGGAGTTCAAGATTTCAGATTTGGTGCTGATTTA
* * * * * *
942184 GATAAAAAAAAATGGAAGCCATAGATTAAAGGAGATGGTACACAATCTTGATACAAAAAGAAGAA
66 GATGAAGATAAATGGAAGCAATAGATTAAAGGAGATAGTGCACAATCTTGATACAAAAAGAAGAA
* * * * *
942249 GAAAGAGATGCTAAAAGGGGAGGTGTGGGGGATAACAACAATGGAGGAAAGAAAAAAGACATTAA
131 GAAAGAGATGGTAAAAGGGGAGGTGTAGGCGACAACAACAATGGAGGAAAGAAAAAAAACATTAA
*
942314 AATCAAAGAGAATGA-AAGGAGGAGAGGAATGAATAGGATTAAAGGCTGATTATTTGTGAAAAAA
196 AATCAAAAAGAATGAGAAGGAGGAGAGGAATGAA-AGGATTAAAGGCTGATTATTTGTGAAAAAA
**
942378 TAATACTTATACCTAGGTTTACTAGGCTTGGACGATGCACACATTAAAATAAAGGGTTTTTGTCA
260 TAATACTTATACCTAGGTTTACTAGGCTTGGACGACACACACATTAAAATAAAGGGTTTTTGTCA
* *
942443 AAAAATTAAATTATTTGCAAGAGAAGGGATTTGATCTTGGGACTGATTTAAATATGATTTAAAGA
325 AAAAATTAAATTATTTGCAAGAGAAGGGATTTGAACTTGGGACTGATTTAAATACGATTTAAAGA
* * **
942508 CCCA-TAAAAAGACTTAAAAATATATTTCAAATCATCACAATTCTTTCAAATTCCAAATCTAGAA
390 CCCATTAAAAA-ACTTAAAAATATATTTAAAATCATCAAAATTCTCCCAAATTCCAAATCTAGAA
*
942572 ATTTCA-GTTTTTAATTGGCATGATTAATAAAAAAAATTGAAGAAAGAAGAGCTCTTACCCAAGC
454 ATTT-AGGTTTTTAATTGGCAAGATTAAT--AAAAAATTGAAGAAAGAAGAGCTCTTACCCAAGC
*
942636 TAGTTCAAAGAAACGATAATG
516 TAGTTGAAAGAAACGATAATG
* *
942657 GC-CATTTCTTGGCAATGTTCAGGATTGATCTTGGAGTTCAAGATTTCAGATTTGGTGCTGATTC
1 GCAC-TTTCTTGGCAATGTTCAGGATCGATCTTGGAGTTCAAGATTTCAGATTTGGTGCTGATTT
* * * * * * *
942721 ATATGAGGATAAATGGAAGCAATAGATTAGAGGAGATGGTGCAAAATCTTGATATAAAAAGCAGA
65 AGATGAAGATAAATGGAAGCAATAGATTAAAGGAGATAGTGCACAATCTTGATACAAAAAGAAGA
*
942786 AGAAAGAGATGGTAAAATGGGAGGTGTAGGCGACAACAACAATGGAGGAAAGGAAAAAAAACATT
130 AGAAAGAGATGGTAAAAGGGGAGGTGTAGGCGACAACAACAATGGAGGAAA-GAAAAAAAACATT
* *
942851 AAAATCAAAGAGAATGAGAGGAGGAGAGGAATGACTAGGGCAATGAAGATGAGGATTAAAGGTTG
194 AAAATCAAAAAGAATGAGA--A-G-GAGG-A-G---A-GG-AATG-A-A--AGGATTAAAGGCTG
* * * ** * *
942916 ATTATTTGTAAAAAAATAATGCTTATACCAAGGTTTACTAGGCTTGGGTGACTCAGACATTAAAA
244 ATTATTTGTGAAAAAATAATACTTATACCTAGGTTTACTAGGCTTGGACGACACACACATTAAAA
** *
942981 CT-TGGGGTTTTTGTCAAAATAAATAAATTATTTGCAAGAGAAGGGATTTGAACTTGGGACTGAT
309 -TAAAGGGTTTTTGTCAAAA-AATTAAATTATTTGCAAGAGAAGGGATTTGAACTTGGGACTGAT
* * *
943045 TTAAATACGATTTAAAGACCCATT-AAAAACTGAAAAAATATATTTAAAATCTTCACAATTCTCC
372 TTAAATACGATTTAAAGACCCATTAAAAAACT-TAAAAATATATTTAAAATCATCAAAATTCTCC
* * *
943109 CAAATTCCAAATATGGAAATTTAGGTTTTTAATTGCCAAGATTAAT-AAAAATTGAAGAAAGAAG
436 CAAATTCCAAATCTAGAAATTTAGGTTTTTAATTGGCAAGATTAATAAAAAATTGAAGAAAGAAG
943173 AGCTCTTACCCAAGCTAGTTGAAAG
501 AGCTCTTACCCAAGCTAGTTGAAAG
943198 CGCACATTAA
Statistics
Matches: 1403, Mismatches: 158, Indels: 89
0.85 0.10 0.05
Matches are distributed among these distances:
531 23 0.02
532 222 0.16
533 112 0.08
534 100 0.07
535 4 0.00
536 69 0.05
537 164 0.12
538 204 0.15
539 48 0.03
540 3 0.00
541 165 0.12
542 6 0.00
543 1 0.00
544 4 0.00
545 1 0.00
546 1 0.00
549 1 0.00
550 2 0.00
551 4 0.00
552 43 0.03
553 1 0.00
554 89 0.06
555 135 0.10
556 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (536 bp):
GCACTTTCTTGGCAATGTTCAGGATCGATCTTGGAGTTCAAGATTTCAGATTTGGTGCTGATTTA
GATGAAGATAAATGGAAGCAATAGATTAAAGGAGATAGTGCACAATCTTGATACAAAAAGAAGAA
GAAAGAGATGGTAAAAGGGGAGGTGTAGGCGACAACAACAATGGAGGAAAGAAAAAAAACATTAA
AATCAAAAAGAATGAGAAGGAGGAGAGGAATGAAAGGATTAAAGGCTGATTATTTGTGAAAAAAT
AATACTTATACCTAGGTTTACTAGGCTTGGACGACACACACATTAAAATAAAGGGTTTTTGTCAA
AAAATTAAATTATTTGCAAGAGAAGGGATTTGAACTTGGGACTGATTTAAATACGATTTAAAGAC
CCATTAAAAAACTTAAAAATATATTTAAAATCATCAAAATTCTCCCAAATTCCAAATCTAGAAAT
TTAGGTTTTTAATTGGCAAGATTAATAAAAAATTGAAGAAAGAAGAGCTCTTACCCAAGCTAGTT
GAAAGAAACGATAATG
Found at i:943417 original size:227 final size:229
Alignment explanation
Indices: 942989--943421 Score: 723
Period size: 227 Copynumber: 1.9 Consensus size: 229
942979 AACTTGGGGT
* *
942989 TTTTGTCAAAATAAATAAATTATTTGCAAGAGAAGGGATTTGAACTTGGGACTGATTTAAATACG
1 TTTTGTCAAAATAAATAAATTATTTACAAGAGAAGGGATTTGAACTTGGGACTAATTTAAATACG
943054 ATTTAAAGACCCATTAAAAACTGAAAAAATATATTTAAAATCTTCACAATTCTCCCAAATTCCAA
66 ATTTAAAGACCCATTAAAAACTGAAAAAATATATTTAAAATCTTCACAATTCTCCCAAATTCCAA
* *
943119 ATATGGAAATTTAGGTTTTTAATTGCCAAGATTAATAAAAATTGAAGAAAGAAGAGCTCTTACCC
131 ATATGGAAATTTAGGTTTTTAATTGCCAAGATTAATAAAAATTGAAGAAAGAAGAACTCTGACCC
943184 AAGCTAGTTGAAAGCGCACATTAATACAATGGTG
196 AAGCTAGTTGAAAGCGCACATTAATACAATGGTG
* *
943218 TTTT-TCAAAA-AATTAAATTGTTTACAAGAGAAGGGATTTGAACTTGGGACTAATTTAAATACG
1 TTTTGTCAAAATAAATAAATTATTTACAAGAGAAGGGATTTGAACTTGGGACTAATTTAAATACG
*
943281 ATTTAAAGACCCATTTAAAACTG-AAAAATATATTTAAAATCTTCACAATTCTCCCAAATTCCAA
66 ATTTAAAGACCCATTAAAAACTGAAAAAATATATTTAAAATCTTCACAATTCTCCCAAATTCCAA
*
943345 ATCTGGAAATTTAGGTTTTTAACTTG-CAAGATTAATAAAAAATTTGAA-AAAGAAGAACTCTGA
131 ATATGGAAATTTAGGTTTTTAA-TTGCCAAGATTAAT-AAAAA-TTGAAGAAAGAAGAACTCTGA
*
943408 CCTAAGCTAGTTGA
193 CCCAAGCTAGTTGA
943422 GAGAAACGAT
Statistics
Matches: 192, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
226 72 0.38
227 105 0.55
228 11 0.06
229 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (229 bp):
TTTTGTCAAAATAAATAAATTATTTACAAGAGAAGGGATTTGAACTTGGGACTAATTTAAATACG
ATTTAAAGACCCATTAAAAACTGAAAAAATATATTTAAAATCTTCACAATTCTCCCAAATTCCAA
ATATGGAAATTTAGGTTTTTAATTGCCAAGATTAATAAAAATTGAAGAAAGAAGAACTCTGACCC
AAGCTAGTTGAAAGCGCACATTAATACAATGGTG
Found at i:944116 original size:538 final size:543
Alignment explanation
Indices: 943200--945605 Score: 2953
Period size: 538 Copynumber: 4.4 Consensus size: 543
943190 GTTGAAAGCG
* * * * *
943200 CACATTAATACAA-TGGTGTTTT-TCAAAAAATTAAATTGTTTACAAGAGAAGGGATTTGAACTT
1 CACATTAAAACAAGGGGT-TTTTGTCAAAAAATTAAATTATTTGCAAGAGAAGGGATTTAAACTT
* * * *
943263 GGGACTAATTTAAATACGATTTAAAGACCCATT-TAAAACT-GAAAAATATATTTAAAATCTTCA
65 GGGACTGATTTAAATACGATTTAAAGACCCATTAAAAAACTAAAAAAATATATTTAAAATCATCA
* *
943326 CAATTCTCCCAAATTCCAAATCTGGAAATTTAGGTTTTTAACTT-GCAAGATTAATAAAAAATTT
130 AAATTCTCCCAAATTCCAAATCTGGAAATTTAGGTTTTTAA-TTGGCAAGATTAATAAAAAAATT
* * * * *
943390 GAA-AAAGAAGAACTCTGACCTAAGCTAGTTGAGAGAAACGATAATGGAACTTTCTTGGCAATGT
194 AAAGAAAGAAGAGCTCTTACCCAAGCTAGTTGAGAGAAACGATAATGGCACTTTCTTGGCAATGT
* * * * * * *
943454 TCAGGATCGATCTTGAAATTCAAGATTTTATATTTGGTGCTAATTTAGATGAGGAAAAATGGAAC
259 TCAGGATCGATCTTGGAGTTCAAGATTTCAAATTTGGTGCTGATTTAGATGAGGATAAATGGAAG
* *
943519 CAATAGATTAAAGGAGATAGTGCACAATC-TG-TAACAAAAAGAAGAAGAAATACATGGTAAAAG
324 CAATAGATTAAAGGAGATAGTGCACAATCTTGAT-ACAAAAAGAAGAAGAAAGAGATGGTAAAAG
* * * **
943582 GGGGGGTGTGGGCGACAACAACAATGGAGGAAAGAAAAAAAACAATAAAATCAAAGAGAATTTGA
388 GGGAGGTGTAGGCGACAACAACAATGGAGGAAAGAAAAAAAACATTAAAATCAAAGAGAATGAGA
* *
943647 GAAAGAGAGGAATGACTAG-GATTAA-AGGA-T-A-ATTATTTGTGACAAAATAATACTTATACC
453 GGAGGAGAGGAATGACTAGAGATTAAGAGGAGTAAGATTATTTGTGACAAAATAATACTTATACC
* *
943707 TAGGTTTACTAGCCTTGGATGACACA
518 TAGGTTTACTAGGCTTGGACGACACA
* * *
943733 TACATTAAAACAAGGGGTTTTTGTCAAAAAATTAAATTGTTTGCAAGAGAAGGGTTTTAAACTTG
1 CACATTAAAACAAGGGGTTTTTGTCAAAAAATTAAATTATTTGCAAGAGAAGGGATTTAAACTTG
* * * *
943798 GGACTGATTTAAATACGATTTACAA-ACCTATTCAGAAACTAAAAAAATATATTTCAAATCATCA
66 GGACTGATTTAAATACGATTTA-AAGACCCATTAAAAAACTAAAAAAATATATTTAAAATCATCA
*
943862 AAATTCTCCCAAATTCCAAATCTAGAAATTTAGGTTTTTAATTGGCAAGATTAATAAAAAAAATT
130 AAATTCTCCCAAATTCCAAATCTGGAAATTTAGGTTTTTAATTGGCAAGATTAAT-AAAAAAATT
* * *
943927 AAAGAGAGAAGAGCTCTAACCCAAGCTAGTTGAGAGAAACGATAAGGGCACTTTCTTGGCAATGT
194 AAAGAAAGAAGAGCTCTTACCCAAGCTAGTTGAGAGAAACGATAATGGCACTTTCTTGGCAATGT
* * * * *
943992 TCAGGATCTATCTTGGATTTTAAGATTTCAAATTTGGTGTTGATTTAGACGAGGATAAATGGAAG
259 TCAGGATCGATCTTGGAGTTCAAGATTTCAAATTTGGTGCTGATTTAGATGAGGATAAATGGAAG
* * *
944057 CAATAGATTAAAGGATAT-GATGCACAATCTTGAT-CAAAAAGAAGAAGAATGTGATGGTAAAAG
324 CAATAGATTAAAGGAGATAG-TGCACAATCTTGATACAAAAAGAAGAAGAAAGAGATGGTAAAAG
*
944120 GGTAGGTGTAGGCGACAACAACAATGGAGGAAAGGAAAAAAAAAACATTAAAATCAAA-AGAATG
388 GGGAGGTGTAGGCGACAACAACAATGGAGGAAA-G--AAAAAAAACATTAAAATCAAAGAGAATG
* * *
944184 AGAGGAGGAGAGGAATGACTATGACAATAAGGAGGAGGATGAAAGGCTGATTATTTGTGAAAAAA
450 AGAGGAGGAGAGGAATGACTA-GAGATTAA-GAGGA-G-T--AA----GATTATTTGTGACAAAA
944249 TAATACTTATACCTAGGTTTACTAGGCTTGGACGACACA
505 TAATACTTATACCTAGGTTTACTAGGCTTGGACGACACA
* * * *
944288 CACATTAAAACAAAGGG-CTTTCTCAAAAAATTAAATTATTTGCAAGAGAAGGGATTTGAACTTG
1 CACATTAAAACAAGGGGTTTTTGTCAAAAAATTAAATTATTTGCAAGAGAAGGGATTTAAACTTG
* ** * * * *
944352 GGATTGATTTAAATACGATTTAAAGACAAATGAAAAAACTTAAAAAATATATATAACATCATCAA
66 GGACTGATTTAAATACGATTTAAAGACCCATTAAAAAACTAAAAAAATATATTTAAAATCATCAA
* * * * * * *
944417 AATTATCCCAACTTCAAAATTTGGAAATTTAGGTTTTTACTTGGCAAGATTAATTAAAAAATTGA
131 AATTCTCCCAAATTCCAAATCTGGAAATTTAGGTTTTTAATTGGCAAGATTAATAAAAAAATTAA
* * *
944482 AGAAAGAAGAGCTCTTACTCAAGCTAGTTAAGAGAAATGATAATGGCACTTTCTTGGCAATGTTC
196 AGAAAGAAGAGCTCTTACCCAAGCTAGTTGAGAGAAACGATAATGGCACTTTCTTGGCAATGTTC
* * * *
944547 AAGATCGATCGTGGAGTTCAAGATTTCAAATTTGGTGCTGACTTAGATGAGGATAAATGGAAGCC
261 AGGATCGATCTTGGAGTTCAAGATTTCAAATTTGGTGCTGATTTAGATGAGGATAAATGGAAGCA
* *
944612 ATAGATTAAAGGAGATGGTGCACAATCTTGATACAAATAGAAGAAGAAAGAGATGGTAAAAGGGG
326 ATAGATTAAAGGAGATAGTGCACAATCTTGATACAAAAAGAAGAAGAAAGAGATGGTAAAAGGGG
* * *
944677 AGGTGTAGGTGACAACAACAATGGAGGAAAGGAAAAAAACATTAAAATCAAAGAGAATAAGAGGA
391 AGGTGTAGGCGACAACAACAATGGAGGAAAGAAAAAAAACATTAAAATCAAAGAGAATGAGAGGA
* *
944742 GGAGAGGAATGACTAG-GATTAA-A-GACT--GATTTTTTTGTGACAAAATAATACTTATACCTA
456 GGAGAGGAATGACTAGAGATTAAGAGGAGTAAGA-TTATTTGTGACAAAATAATACTTATACCTA
* *
944802 GGTTTACTAGGGTTGGACGACGCA
520 GGTTTACTAGGCTTGGACGACACA
* * * *
944826 CACATTAAAATAAGGGGTTTTTATGAAAAAATTAAATTATTTGCAAGAGAAGGGATTTTAACTTG
1 CACATTAAAACAAGGGGTTTTTGTCAAAAAATTAAATTATTTGCAAGAGAAGGGATTTAAACTTG
944891 GGACTGATTTAAATACGATTTAAAGACCCATTAAAAAACTAAAAAAATATATTTAAAATCATCAA
66 GGACTGATTTAAATACGATTTAAAGACCCATTAAAAAACTAAAAAAATATATTTAAAATCATCAA
* * * * * * *
944956 AATCCTTCCAGATTCCAAATCTGGAAATTTAGATTTTGAATTGGCAAGATTAATTAAAAAATTGA
131 AATTCTCCCAAATTCCAAATCTGGAAATTTAGGTTTTTAATTGGCAAGATTAATAAAAAAATTAA
* * * * * * * *
945021 AGAAATAAGAGCTTTTACTCAAGCTAGATGAGAGAAACAATAATGACACTTTTTTGGTAATGTTC
196 AGAAAGAAGAGCTCTTACCCAAGCTAGTTGAGAGAAACGATAATGGCACTTTCTTGGCAATGTTC
* * * * *** * * *
945086 A-G---GATCTTGGAGTTTAATATTTTAGATTTGAAACAGATTTAGATGAGGACAAATGGAAGGA
261 AGGATCGATCTTGGAGTTCAAGATTTCAAATTTGGTGCTGATTTAGATGAGGATAAATGGAAGCA
* * * *
945147 ATAGATTAAAGCAAATAGTGCACAATCTTGATACAAAAAGAAAAAGAAAGAGATGGCAAAAGGGG
326 ATAGATTAAAGGAGATAGTGCACAATCTTGATACAAAAAGAAGAAGAAAGAGATGGTAAAAGGGG
* * * *
945212 AGGTGTAGGCGACAACAACAATGGTGGAAAGGAAAAAAACATTAAAATTAAAGAAAATGAGAGGA
391 AGGTGTAGGCGACAACAACAATGGAGGAAAGAAAAAAAACATTAAAATCAAAGAGAATGAGAGGA
* * *
945277 GGAGAGGAATGATTAGAGAAATGAAGAGGAGGGTTAAAGACTGATTATTTGTGACAAATTAATAC
456 GGAGAGGAATGACTAGAG--ATTAAGAGGA--G-T--A-A--GATTATTTGTGACAAAATAATAC
* * *
945342 TTATACCTAGCTTTACTAGGCTTGGACAATACA
511 TTATACCTAGGTTTACTAGGCTTGGACGACACA
* * *
945375 TACATTAAAACAAGGGGTTTTTGTCAAAAAATTAACTTATTTGCAAGAGAAGGGATTTAAAGTTG
1 CACATTAAAACAAGGGGTTTTTGTCAAAAAATTAAATTATTTGCAAGAGAAGGGATTTAAACTTG
* * * * * *
945440 GGATTGATTTAAATACGATTTAAAGACCTATTAAAAAATTGAAAAAATATATGTAAAATCATCAC
66 GGACTGATTTAAATACGATTTAAAGACCCATTAAAAAACTAAAAAAATATATTTAAAATCATCAA
* * *
945505 AATTCTCCCAAATTCAAAATCAT-GAAATTTAGGTTTTTAATTAGCAAGATTAATCAAAAAATTG
131 AATTCTCCCAAATTCCAAATC-TGGAAATTTAGGTTTTTAATTGGCAAGATTAATAAAAAAATT-
* * * * * *
945569 AAA-AAAGAATAGTTGTTACCCAAACTTGTTGGGAGAA
194 AAAGAAAGAAGAGCTCTTACCCAAGCTAGTTGAGAGAA
945606 GGTTTAAGTA
Statistics
Matches: 1617, Mismatches: 204, Indels: 88
0.85 0.11 0.05
Matches are distributed among these distances:
533 15 0.01
534 69 0.04
535 189 0.12
536 71 0.04
537 13 0.01
538 260 0.16
539 217 0.13
540 26 0.02
541 21 0.01
542 4 0.00
543 1 0.00
544 4 0.00
545 1 0.00
547 3 0.00
548 1 0.00
549 242 0.15
550 10 0.01
551 21 0.01
552 26 0.02
553 156 0.10
554 200 0.12
555 67 0.04
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.27
Consensus pattern (543 bp):
CACATTAAAACAAGGGGTTTTTGTCAAAAAATTAAATTATTTGCAAGAGAAGGGATTTAAACTTG
GGACTGATTTAAATACGATTTAAAGACCCATTAAAAAACTAAAAAAATATATTTAAAATCATCAA
AATTCTCCCAAATTCCAAATCTGGAAATTTAGGTTTTTAATTGGCAAGATTAATAAAAAAATTAA
AGAAAGAAGAGCTCTTACCCAAGCTAGTTGAGAGAAACGATAATGGCACTTTCTTGGCAATGTTC
AGGATCGATCTTGGAGTTCAAGATTTCAAATTTGGTGCTGATTTAGATGAGGATAAATGGAAGCA
ATAGATTAAAGGAGATAGTGCACAATCTTGATACAAAAAGAAGAAGAAAGAGATGGTAAAAGGGG
AGGTGTAGGCGACAACAACAATGGAGGAAAGAAAAAAAACATTAAAATCAAAGAGAATGAGAGGA
GGAGAGGAATGACTAGAGATTAAGAGGAGTAAGATTATTTGTGACAAAATAATACTTATACCTAG
GTTTACTAGGCTTGGACGACACA
Found at i:949253 original size:559 final size:554
Alignment explanation
Indices: 947947--950040 Score: 3203
Period size: 555 Copynumber: 3.8 Consensus size: 554
947937 AGTGGCCATC
947947 ACTAGGCTTGGACGACACACACATTAAAATAAAGGGGTTTTTGTCAAAAATTTAAATTATTTAG-
1 ACTAGGCTTGGACGACACACACATTAAAAT-AAGGGGTTTTTGTCAAAAA-TTAAATTATTT-GC
* * * *
948011 AAGAGAAGGGATTTGAACTTGGGACTGATTTAAATATGATTTAAAGACCCAGTAAAAAATTGAAA
63 AAGAGAAGGGATTTGAACTTGGGACTAATTTAAATACGATTTAAAGACCCATTAAAAAACTGAAA
* * * * * *
948076 AAATATATTTAAAATCATCAAACTTCTCTCAAATTCCGAATCTAGAAATTTAGGTTATTAATTGG
128 AAATATATTAAAAATCATCAAAATTCTCCCAAATTCCAAATCTGGAAATTTAGGTTTTTAATTGG
* * *
948141 CAAGATTAATCAAAAAATTTAAGAAAGAAGAACTCTTACCCAAGCTAGTTGATAGAAACGATAAT
193 CAAGATTAATCAAAAAATTGAAGAAAGAAGAGCTCTTACCCAAGCTAGTTGAAAGAAACGATAAT
* * * *
948206 GGCACTTTCTTGGCAATGTTCAGGATCAATCTTGGAGTTTAAGATTTCAGATTTGATGC---TTT
258 GGCACTTTCTTGGCAATGTTCAGAATCGATCTTGGAGTTCAAGATTTCAGATTTGGTGCTGATTT
* * * *
948268 AGATGA-CA-AAA-GAAAGCAATAGATTAAAGGAAATGGTGCACAATCTTGATACAAAAAGAAGA
323 AAATGAGGATAAATGGAAGCAATAGATTAAAGGAGATGGTGCACAATCTTGATACAAAAAGAAGA
*
948330 AGAAAGAGATGGTAAAATGGGAGGTGTAGGCAACAACAACAATGGAGGAAAGG-AAAAAAAACAT
388 AGAAAGAGATGGTAAAATGAGAGGTGTAGGCAACAACAACAATGGAGGAAAGGAAAAAAAAACAT
* *
948394 TAAAATCAAAGAGAATGAGGGGAGGAGAGGAATGACTAGTGCAATGAGGAGGAGGATTAAAGGCT
453 TAAAATCAAAGAGAATGAGAGGAGGAGAGGAATGACTAGGGCAATGAGGAGGAGGATTAAAGGCT
*
948459 TATTATTTGTAAAAAAATAATACTTATACCTTGGTTT
518 TATTATTTGTAAAAAAATAATACTTATACCTAGGTTT
*
948496 ACTAGGCTTGGACGACACACACATTAAAATAAGGGATTTTTGTCAAAAAATTAAATTATTTGCAA
1 ACTAGGCTTGGACGACACACACATTAAAATAAGGGGTTTTTGTC-AAAAATTAAATTATTTGCAA
* * * *
948561 TAGAAGGGATTTGAACTTGGGACTGATTTAAATGCGATTTAAAGACCCATTAAAAAAAT-AAAAA
65 GAGAAGGGATTTGAACTTGGGACTAATTTAAATACGATTTAAAGACCCATTAAAAAACTGAAAAA
* *
948625 ATATATTAAAAATCATCAAAATTCTCCCAAAATTCCAAAGCT-GAATATTTAGGTTTTTCATTGG
130 ATATATTAAAAATCATCAAAATTCTCCC-AAATTCCAAATCTGGAA-ATTTAGGTTTTTAATTGG
* *
948689 CAAGATTAATCAAAAAATTGAAGAAATAAGAGCTCTTACCCAAGCTAGTTGAAAGAAACGATTAT
193 CAAGATTAATCAAAAAATTGAAGAAAGAAGAGCTCTTACCCAAGCTAGTTGAAAGAAACGATAAT
* * *
948754 GGCACTTTCTTGGCAATGTTCAGGATCGATTTTGGAGTTCAAGATTTTAGATTTGGTGCTGATTT
258 GGCACTTTCTTGGCAATGTTCAGAATCGATCTTGGAGTTCAAGATTTCAGATTTGGTGCTGATTT
* * * *
948819 AGATGAGGATAAATGGAAGAAATAGATTAAAGGAGATGATGCGCAATCTTGATACAAAAAGAAGA
323 AAATGAGGATAAATGGAAGCAATAGATTAAAGGAGATGGTGCACAATCTTGATACAAAAAGAAGA
*
948884 CGAAAGAGATGGTAAAATGAGAGGTGTAGGCAACAACAACAACAATGGAGGAAAGGAAAAAAAAA
388 AGAAAGAGATGGTAAAATGAGAGGTGTAGG---CAACAACAACAATGGAGGAAAGG-AAAAAAAA
948949 ACATTAAAATCAAAGAGAATGAGAGGAGGAGAGGAATGACTAGGGCAATGAGGAGGAGGATTAAA
449 ACATTAAAATCAAAGAGAATGAGAGGAGGAGAGGAATGACTAGGGCAATGAGGAGGAGGATTAAA
* *
949014 GGCTGATTATTTGT-AAAAAATAATACTTATACCTAAGTTT
514 GGCTTATTATTTGTAAAAAAATAATACTTATACCTAGGTTT
* * *
949054 ACTAGGCTTGGACAACACATACATTAAAACAAGGAGG-TTTTGTCAAAACATTAAATTATTTGCA
1 ACTAGGCTTGGACGACACACACATTAAAATAAGG-GGTTTTTGTCAAAA-ATTAAATTATTTGCA
* *
949118 AGAGAAAGGATTTGAAGTTAGGG-CTAATTTAAATACGATTTAAAGACCCATTAAAAAACTGAAA
64 AGAGAAGGGATTTGAACTT-GGGACTAATTTAAATACGATTTAAAGACCCATTAAAAAACTG-AA
*
949182 AAAATATATTAAAAATCATCAAAATTCTCCCAAATTCCAAATCTGGAAATTTAGGTTTTTAGTTG
127 AAAATATATTAAAAATCATCAAAATTCTCCCAAATTCCAAATCTGGAAATTTAGGTTTTTAATTG
* *
949247 GCAAGATTAATCAAAAAATTGAAGAAAGAAGAGTTCTTACCCAAGCTAGTTGAAAGAAATGATAA
192 GCAAGATTAATCAAAAAATTGAAGAAAGAAGAGCTCTTACCCAAGCTAGTTGAAAGAAACGATAA
* * * *
949312 TGGCACATTCTTGGCAATGTTCAGAATCGATCTTGGAGTTTAAAACTTCAGATTTGGTGCTGATT
257 TGGCACTTTCTTGGCAATGTTCAGAATCGATCTTGGAGTTCAAGATTTCAGATTTGGTGCTGATT
*
949377 TAAATGAGGATAAATGGAAGCAATAGATTAAAGGAGATGGTGCACAATCTTGATACAAAAAGAGG
322 TAAATGAGGATAAATGGAAGCAATAGATTAAAGGAGATGGTGCACAATCTTGATACAAAAAGAAG
* * * *
949442 AAGAAAGAGATAGTAAAATGGGAGGTGTAGGCGACAACAACAATGGAGAAAAGGAAAAAAAAACA
387 AAGAAAGAGATGGTAAAATGAGAGGTGTAGGCAACAACAACAATGGAGGAAAGGAAAAAAAAACA
*
949507 TTAAAATCAAAGAGAATGAGAGAAGGAGAGGAATGACTAGGGCAATGAGGAGGAGGATTAAAGGC
452 TTAAAATCAAAGAGAATGAGAGGAGGAGAGGAATGACTAGGGCAATGAGGAGGAGGATTAAAGGC
*
949572 TTATTATTTGTGAAAAAATAATACTTATACCTAGGTTT
517 TTATTATTTGTAAAAAAATAATACTTATACCTAGGTTT
* *
949610 ACTAAGG-TTGGATGACACACACATTAAAATAAGGGGTTTTTGTCGAAAAATTAAATTATTTGAA
1 ACT-AGGCTTGGACGACACACACATTAAAATAAGGGGTTTTTGTC-AAAAATTAAATTATTTGCA
* *
949674 AGTGAATGGATTTGAACTTGGGACTAATTTAAATACGATTTAAA-ACCCATTAAAAAACTGAAAA
64 AGAGAAGGGATTTGAACTTGGGACTAATTTAAATACGATTTAAAGACCCATTAAAAAACTG-AAA
*
949738 AAATATATTAAAAATCATCAAAATTCTCCCAAATTCCAAATCTGGAAATTTAGGTTTTTAATTTG
128 AAATATATTAAAAATCATCAAAATTCTCCCAAATTCCAAATCTGGAAATTTAGGTTTTTAATTGG
* * * * * *
949803 CAAGATTAATCAAAAACTTGAAGAAATAATAGTTCTTACCCAAGCTAGTTGAGAGAAATGATAAT
193 CAAGATTAATCAAAAAATTGAAGAAAGAAGAGCTCTTACCCAAGCTAGTTGAAAGAAACGATAAT
* *
949868 GGGACTTTCTTGGCAATGTTCAGAATCGATCTTGGAGTTCAAGATTTCAGATTTGGTGTTGATTT
258 GGCACTTTCTTGGCAATGTTCAGAATCGATCTTGGAGTTCAAGATTTCAGATTTGGTGCTGATTT
*
949933 AAATGAGGATAAATGGAAGCAATAGATTAAAGAAGATGGTGCACAATCTTGATACAAAAAGAAGA
323 AAATGAGGATAAATGGAAGCAATAGATTAAAGGAGATGGTGCACAATCTTGATACAAAAAGAAGA
* *
949998 AGAAAGAGATGGTAAAAT-AGAAGGTTTAGGCGACAACAACAAT
388 AGAAAGAGATGGTAAAATGAG-AGGTGTAGGCAACAACAACAAT
950041 AAAGGTTTAT
Statistics
Matches: 1420, Mismatches: 98, Indels: 48
0.91 0.06 0.03
Matches are distributed among these distances:
547 34 0.02
548 221 0.16
549 35 0.02
551 9 0.01
552 1 0.00
553 3 0.00
554 75 0.05
555 394 0.28
556 130 0.09
557 34 0.02
558 127 0.09
559 321 0.23
560 36 0.03
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (554 bp):
ACTAGGCTTGGACGACACACACATTAAAATAAGGGGTTTTTGTCAAAAATTAAATTATTTGCAAG
AGAAGGGATTTGAACTTGGGACTAATTTAAATACGATTTAAAGACCCATTAAAAAACTGAAAAAA
TATATTAAAAATCATCAAAATTCTCCCAAATTCCAAATCTGGAAATTTAGGTTTTTAATTGGCAA
GATTAATCAAAAAATTGAAGAAAGAAGAGCTCTTACCCAAGCTAGTTGAAAGAAACGATAATGGC
ACTTTCTTGGCAATGTTCAGAATCGATCTTGGAGTTCAAGATTTCAGATTTGGTGCTGATTTAAA
TGAGGATAAATGGAAGCAATAGATTAAAGGAGATGGTGCACAATCTTGATACAAAAAGAAGAAGA
AAGAGATGGTAAAATGAGAGGTGTAGGCAACAACAACAATGGAGGAAAGGAAAAAAAAACATTAA
AATCAAAGAGAATGAGAGGAGGAGAGGAATGACTAGGGCAATGAGGAGGAGGATTAAAGGCTTAT
TATTTGTAAAAAAATAATACTTATACCTAGGTTT
Found at i:963532 original size:128 final size:129
Alignment explanation
Indices: 963372--963629 Score: 493
Period size: 128 Copynumber: 2.0 Consensus size: 129
963362 TGGCAGGCCG
963372 TCAGGCCGATGCTGTCTGCCACCGACATGATCTGTCGGTCACGGTTCGGGTTTCAATACTTGATA
1 TCAGGCCGATGCTGTCTGCCACCGACATGATCTGTCGGTCACGGTTCGGGTTTCAATACTTGATA
963437 AATTTATTACATCCGATTCTTTTTC-AACTTTAACTTCAAAAAATATATAATATAAATATTATAT
66 AATTTATTACATCCGATTCTTTTTCAAAC-TTAACTTCAAAAAATATATAATATAAATATTATAT
963501 TCAGGCCGATG-TGTCTGCCACCGACATGATCTGTCGGTCACGGTTCGGGTTTCAATACTTGATA
1 TCAGGCCGATGCTGTCTGCCACCGACATGATCTGTCGGTCACGGTTCGGGTTTCAATACTTGATA
963565 AATTTATTACATCCGATTCTTTTTCAAACTTAACTTCAAAAAATATATAATATAAATATTATAT
66 AATTTATTACATCCGATTCTTTTTCAAACTTAACTTCAAAAAATATATAATATAAATATTATAT
963629 T
1 T
963630 TATTATTATA
Statistics
Matches: 128, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
128 114 0.89
129 14 0.11
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (129 bp):
TCAGGCCGATGCTGTCTGCCACCGACATGATCTGTCGGTCACGGTTCGGGTTTCAATACTTGATA
AATTTATTACATCCGATTCTTTTTCAAACTTAACTTCAAAAAATATATAATATAAATATTATAT
Found at i:991847 original size:33 final size:32
Alignment explanation
Indices: 991744--991847 Score: 79
Period size: 33 Copynumber: 3.2 Consensus size: 32
991734 ATTGAGACGA
*
991744 ATCATCATCTAAACATTCTAAATACAAACAACT
1 ATCATCATCTAAACATTGTAAATAC-AACAACT
* * * **
991777 ATCATCAACATAAAGCA--GCAAATATATGAA-T
1 ATCATCATC-TAAA-CATTGTAAATACAACAACT
991808 GAATCATCATCTAAACATTGTAAATACACACAACT
1 --ATCATCATCTAAACATTGTAAATACA-ACAACT
991843 ATCAT
1 ATCAT
991848 ACTTAGTTCA
Statistics
Matches: 52, Mismatches: 11, Indels: 16
0.66 0.14 0.20
Matches are distributed among these distances:
31 3 0.06
32 7 0.13
33 33 0.63
34 6 0.12
35 3 0.06
ACGTcount: A:0.48, C:0.21, G:0.05, T:0.26
Consensus pattern (32 bp):
ATCATCATCTAAACATTGTAAATACAACAACT
Found at i:992518 original size:24 final size:24
Alignment explanation
Indices: 992490--992543 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
992480 GGTACACGAT
*
992490 CGTGTGACAAGC-CGTGTCCCAGGC
1 CGTGTGACAA-CTCGTGTCCCAAGC
992514 CGTGTGACAACTCGTGTCCCAAGC
1 CGTGTGACAACTCGTGTCCCAAGC
*
992538 TGTGTG
1 CGTGTG
992544 CATCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.17, C:0.30, G:0.31, T:0.22
Consensus pattern (24 bp):
CGTGTGACAACTCGTGTCCCAAGC
Done.