Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 3 of 173
Found at i:646954 original size:27 final size:27
Alignment explanation
Indices: 646891--646959 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
646881 TTTGAGAAAC
* *
646891 AAAT-TTAATTATTATTGATTTAATAT
1 AAATATTAATAATTATTGATTTAACAT
*
646917 AAATATAAATAATTATT-ATTTAACAT
1 AAATATTAATAATTATTGATTTAACAT
* *
646943 ATATAATTAATATTTAT
1 AAAT-ATTAATAATTAT
646960 ATTAATATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
26 15 0.43
27 20 0.57
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (27 bp):
AAATATTAATAATTATTGATTTAACAT
Found at i:651887 original size:20 final size:20
Alignment explanation
Indices: 651862--651936 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
651852 TCCCACTTTT
651862 TCAATTCACTCTCTACTCTC
1 TCAATTCACTCTCTACTCTC
* *
651882 TCAATTCATTCTCAATCCTCTC
1 TCAATTCACTCTC--TACTCTC
* * * * *
651904 TTAATTCTCACTCAATTCTC
1 TCAATTCACTCTCTACTCTC
*
651924 TCAGTTCACTCTC
1 TCAATTCACTCTC
651937 ATTTTTTATT
Statistics
Matches: 40, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
20 25 0.62
22 15 0.38
ACGTcount: A:0.21, C:0.36, G:0.01, T:0.41
Consensus pattern (20 bp):
TCAATTCACTCTCTACTCTC
Found at i:654230 original size:18 final size:19
Alignment explanation
Indices: 654207--654242 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
654197 TGCATATTTT
*
654207 ATTTTAT-TTTTTAAAAAG
1 ATTTTATATTTTCAAAAAG
654225 ATTTTATATTTTCAAAAA
1 ATTTTATATTTTCAAAAA
654243 ATAATTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTTTATATTTTCAAAAAG
Found at i:658396 original size:44 final size:39
Alignment explanation
Indices: 658348--658481 Score: 126
Period size: 39 Copynumber: 3.2 Consensus size: 39
658338 ATAAATACCA
*
658348 AAAATTATTTTAAAAATTAAAAAAAGTATTTTAAAATACTTTTT
1 AAAATTATTTT-AAAATTAAAAAAA-T-TTTAAAAATA--TTTT
658392 AAAATTTTATATTTTAAAATTAAAAAAATTTTAAAAATATTTT
1 AAAA---T-TATTTTAAAATTAAAAAAATTTTAAAAATATTTT
* * *
658435 AAAAATATTTTAAAATT-AAAAAATAATAAAAAAGTATTTT
1 AAAATTATTTTAAAATTAAAAAAAT-TTTAAAAA-TATTTT
658475 AAAATTA
1 AAAATTA
658482 AAAAATTTAA
Statistics
Matches: 79, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
38 7 0.09
39 18 0.23
40 12 0.15
43 8 0.10
44 4 0.05
45 9 0.11
46 1 0.01
47 14 0.18
48 6 0.08
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (39 bp):
AAAATTATTTTAAAATTAAAAAAATTTTAAAAATATTTT
Found at i:658427 original size:11 final size:11
Alignment explanation
Indices: 658411--658449 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
658401 TATTTTAAAA
*
658411 TTAAAAAAATT
1 TTAAAAATATT
658422 TTAAAAATATT
1 TTAAAAATATT
658433 TTAAAAATATT
1 TTAAAAATATT
658444 TTAAAA
1 TTAAAA
658450 TTAAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:658456 original size:29 final size:29
Alignment explanation
Indices: 658435--658495 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
658425 AAAATATTTT
658435 AAAAA-TATTTTAAAATTAAAAAATAATA
1 AAAAAGTATTTTAAAATTAAAAAATAATA
*
658463 AAAAAGTATTTTAAAATTAAAAAAT-TTA
1 AAAAAGTATTTTAAAATTAAAAAATAATA
658491 AAAAA
1 AAAAA
658496 TAAATATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAAAGTATTTTAAAATTAAAAAATAATA
Found at i:662533 original size:20 final size:20
Alignment explanation
Indices: 662508--662582 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
662498 TCTCACTTTT
662508 TCAATTCACTCTCTACTCTC
1 TCAATTCACTCTCTACTCTC
* *
662528 TCAATTCATTCTCAATCCTCTC
1 TCAATTCACTCTC--TACTCTC
* * * * *
662550 TTAATTCTCACTCAATTCTC
1 TCAATTCACTCTCTACTCTC
*
662570 TCAGTTCACTCTC
1 TCAATTCACTCTC
662583 ATTTTTTTAT
Statistics
Matches: 40, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
20 25 0.62
22 15 0.38
ACGTcount: A:0.21, C:0.36, G:0.01, T:0.41
Consensus pattern (20 bp):
TCAATTCACTCTCTACTCTC
Found at i:664451 original size:11 final size:11
Alignment explanation
Indices: 664435--664473 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
664425 TATTTTAAAA
664435 TTAAAAAAATT
1 TTAAAAAAATT
664446 TTAAAAAAATT
1 TTAAAAAAATT
*
664457 TTAAAAATATT
1 TTAAAAAAATT
664468 TTAAAA
1 TTAAAA
664474 TTAAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:664477 original size:28 final size:27
Alignment explanation
Indices: 664449--664521 Score: 110
Period size: 29 Copynumber: 2.6 Consensus size: 27
664439 AAAAATTTTA
*
664449 AAAAAATTTTAAAAATATTTTAAAATT
1 AAAAAATTTAAAAAATATTTTAAAATT
*
664476 AAAAAATAATAAAAAAGTATTTTAAAATT
1 AAAAAAT-TTAAAAAA-TATTTTAAAATT
664505 AAAAAATTTAAAAAATA
1 AAAAAATTTAAAAAATA
664522 AATATATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
27 9 0.22
28 13 0.32
29 19 0.46
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (27 bp):
AAAAAATTTAAAAAATATTTTAAAATT
Found at i:664491 original size:39 final size:40
Alignment explanation
Indices: 664424--664502 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 40
664414 TTAAAATTTT
* *
664424 ATATTTTAAAATTAAAAAAATTTTAAAAA-AATTTTAAAA
1 ATATTTTAAAATTAAAAAAATATAAAAAAGAATTTTAAAA
*
664463 ATATTTTAAAATT-AAAAAATAATAAAAAAGTATTTTAAAA
1 ATATTTTAAAATTAAAAAAAT-ATAAAAAAGAATTTTAAAA
664503 TTAAAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 7 0.20
39 19 0.54
40 9 0.26
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (40 bp):
ATATTTTAAAATTAAAAAAATATAAAAAAGAATTTTAAAA
Found at i:664503 original size:39 final size:39
Alignment explanation
Indices: 664424--664502 Score: 115
Period size: 38 Copynumber: 2.0 Consensus size: 39
664414 TTAAAATTTT
**
664424 ATATTTTAAAATTAAAAAAATTTTAAAAAAATTTTAAAA
1 ATATTTTAAAATTAAAAAAATAATAAAAAAATTTTAAAA
664463 ATATTTTAAAATT-AAAAAATAATAAAAAAGTATTTTAAAA
1 ATATTTTAAAATTAAAAAAATAATAAAAAA--ATTTTAAAA
664503 TTAAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 14 0.39
39 13 0.36
40 9 0.25
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (39 bp):
ATATTTTAAAATTAAAAAAATAATAAAAAAATTTTAAAA
Found at i:666679 original size:52 final size:49
Alignment explanation
Indices: 666594--666960 Score: 422
Period size: 46 Copynumber: 7.6 Consensus size: 49
666584 TTTGAGTACT
* **
666594 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
666640 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
666692 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
666738 TCTGATCAAGTGAC---AAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
666784 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
666836 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
666888 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
666934 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
666961 GCTACACTTA
Statistics
Matches: 288, Mismatches: 19, Indels: 28
0.86 0.06 0.08
Matches are distributed among these distances:
46 153 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 131 0.45
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:666714 original size:98 final size:97
Alignment explanation
Indices: 666594--666960 Score: 483
Period size: 98 Copynumber: 3.7 Consensus size: 97
666584 TTTGAGTACT
* *
666594 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
666659 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
666692 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* ** *
666752 AAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
666784 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
666849 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
666888 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
666953 GATAAGTG
65 GA-AAGTG
666961 GCTACACTTA
Statistics
Matches: 236, Mismatches: 19, Indels: 27
0.84 0.07 0.10
Matches are distributed among these distances:
92 39 0.17
95 1 0.00
96 1 0.00
98 145 0.61
99 10 0.04
101 1 0.00
104 39 0.17
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:666942 original size:196 final size:196
Alignment explanation
Indices: 666608--666961 Score: 609
Period size: 196 Copynumber: 1.8 Consensus size: 196
666598 ATCAAGTGAT
* * *
666608 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
666673 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
666738 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
666803 G
196 G
* *
666804 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
666869 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
666934 TCTGATCAAGAGACAAAGTGATAAGTGG
131 TCTGATCAAGAGACAAAGTGATAAGTGG
666962 CTACACTTAT
Statistics
Matches: 147, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 147 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:666968 original size:37 final size:37
Alignment explanation
Indices: 666924--667069 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
666914 GATAGCTTTA
*
666924 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
666961 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
666998 GCTACACTTATGTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
667035 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
667070 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:667013 original size:150 final size:143
Alignment explanation
Indices: 666594--666965 Score: 391
Period size: 144 Copynumber: 2.6 Consensus size: 143
666584 TTTGAGTACT
* * * *
666594 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-----
* * * * * * *
666659 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---A-T--AAAGTGATAAGT
61 GAAAGTGATAAGT--GAGCTACGACTACACTGATCAGAACAAGTGACAAGTGAAAAGTGATAAGT
666718 GATAGCTTCGGCTATACTTA
124 GATAGCTTCGGCTATACTTA
* * *
666738 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-----
* * * * *
666803 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
61 GAAAGTGATAAGTG--AGCTACGACTACACTGATCAGAACAAGTGACAAGTGAAAAGTGATAAGT
666868 GATAGCTTCGGCTATACTTA
124 GATAGCTTCGGCTATACTTA
666888 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-AAAG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACGAAAG
666952 TGATAAGTG-GCTAC
66 TGATAAGTGAGCTAC
666966 ACTTATCTGA
Statistics
Matches: 213, Mismatches: 7, Indels: 19
0.89 0.03 0.08
Matches are distributed among these distances:
141 4 0.02
144 118 0.55
147 1 0.00
148 1 0.00
150 89 0.42
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (143 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACGAAAG
TGATAAGTGAGCTACGACTACACTGATCAGAACAAGTGACAAGTGAAAAGTGATAAGTGATAGCT
TCGGCTATACTTA
Found at i:668503 original size:17 final size:17
Alignment explanation
Indices: 668481--668514 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
668471 CACACGGGCA
*
668481 ATCCACATGGCCATGTG
1 ATCCACACGGCCATGTG
*
668498 ATCCACACGGCCGTGTG
1 ATCCACACGGCCATGTG
668515 TACAGGGCGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (17 bp):
ATCCACACGGCCATGTG
Found at i:668757 original size:41 final size:43
Alignment explanation
Indices: 668712--668794 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 43
668702 TTTAATAAAT
*
668712 ATATATTTTTATTCTTA-TTTTTTAATTTTAAAAT-ATTTTTA
1 ATATACTTTTATTCTTATTTTTTTAATTTTAAAATAATTTTTA
* *
668753 ATATACTTTTATTTTTATTTTTTTATTTTTAAAATAATTTTT
1 ATATACTTTTATTCTTATTTTTTTAATTTTAAAATAATTTTT
668795 TGGTGTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 15 0.41
42 16 0.43
43 6 0.16
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (43 bp):
ATATACTTTTATTCTTATTTTTTTAATTTTAAAATAATTTTTA
Found at i:673273 original size:17 final size:17
Alignment explanation
Indices: 673253--673285 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
673243 CAATTCAATC
673253 CAAAATT-CATATTTTGA
1 CAAAATTAC-TATTTTGA
673270 CAAAATTACTATTTTG
1 CAAAATTACTATTTTG
673286 TCCCTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
CAAAATTACTATTTTGA
Found at i:675494 original size:27 final size:26
Alignment explanation
Indices: 675464--675545 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 26
675454 AACCTACTTC
675464 TAGGGGTATAATGGTCATTTTATCTAT
1 TAGGGGTATAATGGTCATTTTA-CTAT
* * *
675491 TAGGGGTAAAATAGTCATTTTACCATT
1 TAGGGGTATAATGGTCATTTTACTA-T
* **
675518 TAGGAGTATTTTGGTCATTTTACCTAT
1 TAGGGGTATAATGGTCATTTTA-CTAT
675545 T
1 T
675546 TTGAGGTCTC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
26 2 0.05
27 40 0.91
28 2 0.05
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.44
Consensus pattern (26 bp):
TAGGGGTATAATGGTCATTTTACTAT
Found at i:677678 original size:47 final size:48
Alignment explanation
Indices: 677624--677714 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
677614 TCATCTGCGA
* * *
677624 TTATGTGGTTGTTT-TCGGTAATT-ATGTGGTGGCTTGTCCACAATGTG
1 TTATGTGGCTGTTTATCGG-AATTAATGTGATGGCTTATCCACAATGTG
*
677671 TTATGTGGCTGTTTATCGGCATTAATGTGATGGCTTATCCACAA
1 TTATGTGGCTGTTTATCGGAATTAATGTGATGGCTTATCCACAA
677715 ATAGTGTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
47 16 0.42
48 22 0.58
ACGTcount: A:0.19, C:0.13, G:0.26, T:0.42
Consensus pattern (48 bp):
TTATGTGGCTGTTTATCGGAATTAATGTGATGGCTTATCCACAATGTG
Found at i:677802 original size:21 final size:21
Alignment explanation
Indices: 677776--677818 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
677766 ACAGATATGG
*
677776 GTAGGAAGTTCTTCAAAATGT
1 GTAGGAAATTCTTCAAAATGT
677797 GTAGGAAATTCTTCAAAATGT
1 GTAGGAAATTCTTCAAAATGT
677818 G
1 G
677819 CATTGTTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (21 bp):
GTAGGAAATTCTTCAAAATGT
Found at i:678301 original size:24 final size:24
Alignment explanation
Indices: 678274--678320 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
678264 TAACACAAGT
678274 ATTTTAATAAAAAGGAAC-TGATAA
1 ATTTTAATAAAAA-GAACTTGATAA
* *
678298 ATTTTATTGAAAAGAACTTGATA
1 ATTTTAATAAAAAGAACTTGATA
678321 TTTCCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.34
Consensus pattern (24 bp):
ATTTTAATAAAAAGAACTTGATAA
Found at i:684734 original size:30 final size:28
Alignment explanation
Indices: 684698--684771 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
684688 ATTTAATAAA
*
684698 TTTAGGTGCCAAATTAAACCTAAAAAAAAG
1 TTTAGGTACCAAATTAAACC--AAAAAAAG
** *
684728 TTTAGGTACCAAATTGGACCCAAAAAAG
1 TTTAGGTACCAAATTAAACCAAAAAAAG
684756 TTTAGGTACCAAATTA
1 TTTAGGTACCAAATTA
684772 GGAAAAAGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 22 0.56
30 17 0.44
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (28 bp):
TTTAGGTACCAAATTAAACCAAAAAAAG
Found at i:684847 original size:60 final size:59
Alignment explanation
Indices: 684737--684860 Score: 160
Period size: 60 Copynumber: 2.1 Consensus size: 59
684727 GTTTAGGTAC
* * * ** *
684737 CAAATTGGACCCAAAAAAGTTTAGGTACCAAATTAGGAAAAAGTGTCAAATTCAAGTAT
1 CAAATTGGACCAAAAAAAATTTAAGTACCAAATTAAAAAAAAATGTCAAATTCAAGTAT
*
684796 CAAATTGGACCAAAAAAATATTTAAGTACCAAATTAAAAAAAAAT-TCCAAATTCAGGTAT
1 CAAATTGGACCAAAAAAA-ATTTAAGTACCAAATTAAAAAAAAATGT-CAAATTCAAGTAT
684856 CAAAT
1 CAAAT
684861 GTTATAAAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
59 18 0.32
60 38 0.68
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24
Consensus pattern (59 bp):
CAAATTGGACCAAAAAAAATTTAAGTACCAAATTAAAAAAAAATGTCAAATTCAAGTAT
Found at i:690061 original size:8 final size:9
Alignment explanation
Indices: 689978--690061 Score: 61
Period size: 9 Copynumber: 9.4 Consensus size: 9
689968 TTTTTTTTGA
689978 AAAATATAT
1 AAAATATAT
*
689987 -AAATATTT
1 AAAATATAT
689995 AAAATATAT
1 AAAATATAT
*
690004 AATATATAACT
1 AAAATAT-A-T
690015 AAAA-AT-T
1 AAAATATAT
*
690022 AAAAT-TTT
1 AAAATATAT
*
690030 ATAAATTTAT
1 A-AAATATAT
690040 AAAAATATAT
1 -AAAATATAT
690050 AAAA-ATAT
1 AAAATATAT
690058 AAAA
1 AAAA
690062 GAACTAAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
7 6 0.10
8 17 0.28
9 21 0.34
10 12 0.20
11 5 0.08
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (9 bp):
AAAATATAT
Found at i:690220 original size:17 final size:17
Alignment explanation
Indices: 690170--690221 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
690160 CTTTTTTATA
690170 TATATATTTTTATCAA-TT
1 TATATATTTTT-T-AATTT
**
690188 TATATATTTTAAAATTT
1 TATATATTTTTTAATTT
690205 TATATATTTTTTAATTT
1 TATATATTTTTTAATTT
690222 CAAAATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 2 0.07
17 17 0.59
18 10 0.34
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TATATATTTTTTAATTT
Found at i:692761 original size:12 final size:12
Alignment explanation
Indices: 692744--692768 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
692734 AAAGTTGTGG
692744 GGGGACGCGGGT
1 GGGGACGCGGGT
692756 GGGGACGCGGGT
1 GGGGACGCGGGT
692768 G
1 G
692769 TTGTGCTATT
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:0.08, C:0.16, G:0.68, T:0.08
Consensus pattern (12 bp):
GGGGACGCGGGT
Found at i:693478 original size:2 final size:2
Alignment explanation
Indices: 693473--693500 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
693463 GATATATATA
693473 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
693501 GATTTTGCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:693885 original size:46 final size:46
Alignment explanation
Indices: 693792--693888 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 46
693782 TGAGATTCTT
* *
693792 ATTC-TTTGAGCTTCAACGTGCCACAGGGAATACTTTAGATGTAAG
1 ATTCTTTTGAGCTTCAACGTGCCACAGGGAATACTTCAGAAGTAAG
* * * *
693837 ATTCTTTTGAGCTTCAACGTGCCATAGTGAGTACTTCA-AAGCTCAG
1 ATTCTTTTGAGCTTCAACGTGCCACAGGGAATACTTCAGAAG-TAAG
693883 ATTCTT
1 ATTCTT
693889 ATTCTTTTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
45 6 0.14
46 38 0.86
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (46 bp):
ATTCTTTTGAGCTTCAACGTGCCACAGGGAATACTTCAGAAGTAAG
Found at i:700902 original size:23 final size:23
Alignment explanation
Indices: 700870--700913 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
700860 ACTATCATTT
700870 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
700893 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
700914 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:700906 original size:13 final size:11
Alignment explanation
Indices: 700874--700916 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
700864 TCATTTTCTA
*
700874 AATAAAATAAT
1 AATAAAATATT
700885 AAT-AAATATCT
1 AATAAAATAT-T
700896 AAGTAAAATATT
1 AA-TAAAATATT
700908 AATAAAATA
1 AATAAAATA
700917 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:709107 original size:15 final size:15
Alignment explanation
Indices: 709083--709118 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
709073 GGCATTTGTT
709083 TTTAAATTTCAAAAC
1 TTTAAATTTCAAAAC
* *
709098 TTTAATTTTCAAAAT
1 TTTAAATTTCAAAAC
709113 TTTAAA
1 TTTAAA
709119 AACAATTACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAATTTCAAAAC
Found at i:717735 original size:24 final size:24
Alignment explanation
Indices: 717703--717749 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
717693 ATGTTATAAA
717703 TTTTTTTATTTACCAAAAAATATT
1 TTTTTTTATTTACCAAAAAATATT
* *
717727 TTTTTTTATTTATCAAAATATAT
1 TTTTTTTATTTACCAAAAAATAT
717750 CAAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTTTTATTTACCAAAAAATATT
Found at i:717849 original size:27 final size:27
Alignment explanation
Indices: 717811--717885 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
717801 TCCCTGGTGG
*
717811 AGGGAACACTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
*
717838 AGGGAACCCTGTTGGCGACACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
** *
717865 A-GGTTCCCTGTTGGCTGCACC
1 AGGGAACCCTGTTGGCGGCACC
717886 CCGTTTTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 16 0.38
27 26 0.62
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.16
Consensus pattern (27 bp):
AGGGAACCCTGTTGGCGGCACCAAACA
Found at i:717978 original size:19 final size:19
Alignment explanation
Indices: 717930--717981 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
717920 AAAATATATA
** *
717930 TAATATTTTGGTATTTTTT
1 TAATATTTTATTATTTTTG
717949 TAATATTTTATTATTTTTG
1 TAATATTTTATTATTTTTG
*
717968 TAATGTTTTATTAT
1 TAATATTTTATTAT
717982 GAGTTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:718006 original size:13 final size:13
Alignment explanation
Indices: 717988--718013 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
717978 TTATGAGTTT
717988 TATAAAAAAATAA
1 TATAAAAAAATAA
718001 TATAAAAAAATAA
1 TATAAAAAAATAA
718014 AAAATTACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TATAAAAAAATAA
Found at i:718070 original size:28 final size:28
Alignment explanation
Indices: 718018--718086 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
718008 AAATAAAAAA
*
718018 TTACCAAAATAT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAAATTTTTTTAT
718045 TTACCAAAATATATATAAATTTTTTTAT
1 TTACCAAAATATATATAAATTTTTTTAT
718073 TTACCAAAATATAT
1 TTACCAAAATATAT
718087 CAAAAAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 12 0.30
28 28 0.70
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (28 bp):
TTACCAAAATATATATAAATTTTTTTAT
Found at i:718806 original size:28 final size:28
Alignment explanation
Indices: 718775--718830 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
718765 TTTCGGTTTT
718775 TTTTTTTGATATATTTTGGTAAATAAAA
1 TTTTTTTGATATATTTTGGTAAATAAAA
*
718803 TTTTTTTTATATATTTTGGTAAATAAAA
1 TTTTTTTGATATATTTTGGTAAATAAAA
718831 AAAAGTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (28 bp):
TTTTTTTGATATATTTTGGTAAATAAAA
Found at i:719075 original size:18 final size:18
Alignment explanation
Indices: 719041--719075 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
719031 TTTTTTTCTG
* *
719041 GTTTTTTTTTATTTTTTT
1 GTTTTTTTATATATTTTT
719059 GTTTTTTTATATATTTT
1 GTTTTTTTATATATTTT
719076 GGTAAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (18 bp):
GTTTTTTTATATATTTTT
Found at i:719096 original size:27 final size:29
Alignment explanation
Indices: 719066--719135 Score: 119
Period size: 28 Copynumber: 2.5 Consensus size: 29
719056 TTTGTTTTTT
719066 TATATATTTTGGTAAAT-AAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
719093 TATATATTTTGGTAAATAAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
719122 TA-ATATTTTGGTAA
1 TATATATTTTGGTAA
719136 TTTTTTATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 17 0.41
28 19 0.46
29 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAAGTTA
Found at i:721516 original size:15 final size:16
Alignment explanation
Indices: 721498--721527 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
721488 TGTAACTAAA
721498 TTTCA-AGTAAAAAAT
1 TTTCATAGTAAAAAAT
721513 TTTCATAGTAAAAAA
1 TTTCATAGTAAAAAA
721528 GAATTTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (16 bp):
TTTCATAGTAAAAAAT
Found at i:721966 original size:69 final size:69
Alignment explanation
Indices: 721849--721984 Score: 227
Period size: 69 Copynumber: 2.0 Consensus size: 69
721839 CTACAACTCT
* *
721849 ATCATTATCCATATCTATAAGATAAGATAAGATTACACCAACCCATAACACGTGAACACATGTAA
1 ATCATTATCCATATCTATAAGATAAGATAAGATCACACCAACCAATAACACGTGAACACATGTAA
721914 CATA
66 CATA
* * *
721918 ATCATTATCCATATCTATAAGATAAGATAAGATCATACTAACCAATAACATGTGAACACATGTAA
1 ATCATTATCCATATCTATAAGATAAGATAAGATCACACCAACCAATAACACGTGAACACATGTAA
721983 CA
66 CA
721985 GTTTGATGAG
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.26
Consensus pattern (69 bp):
ATCATTATCCATATCTATAAGATAAGATAAGATCACACCAACCAATAACACGTGAACACATGTAA
CATA
Found at i:728154 original size:19 final size:19
Alignment explanation
Indices: 728126--728163 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
728116 GAGTTGATAG
* *
728126 AATTTTATTTTATTATTTT
1 AATTTAATTTAATTATTTT
728145 AATTTAATTTAATTATTTT
1 AATTTAATTTAATTATTTT
728164 TAATAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
AATTTAATTTAATTATTTT
Found at i:729852 original size:14 final size:14
Alignment explanation
Indices: 729833--729859 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
729823 ATCGAGTCGA
729833 ATCGAGTTAAATTG
1 ATCGAGTTAAATTG
729847 ATCGAGTTAAATT
1 ATCGAGTTAAATT
729860 AAAATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (14 bp):
ATCGAGTTAAATTG
Found at i:731005 original size:77 final size:76
Alignment explanation
Indices: 730904--731048 Score: 200
Period size: 77 Copynumber: 1.9 Consensus size: 76
730894 AACACATGAC
* * * * *
730904 ATTAAAAATTAATATATATAAAGATTTTAAGGTAGTGATTCCATATATTAATTTATATATAAGAG
1 ATTAAAAATTAATATATATAAAGATTTTAAGGAAATCATTCAACATATTAATTTATATATAAGAG
730969 TGTATGTATTT
66 TGTATGTATTT
* * * *
730980 ATTAAAAACTTAGTATATATAAAGATTTTAAGGAAATCATTTAACATGTTAATTTATATATAAGG
1 ATTAAAAA-TTAATATATATAAAGATTTTAAGGAAATCATTCAACATATTAATTTATATATAAGA
731045 GTGT
65 GTGT
731049 GTAGAGGTGT
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
76 8 0.14
77 51 0.86
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.41
Consensus pattern (76 bp):
ATTAAAAATTAATATATATAAAGATTTTAAGGAAATCATTCAACATATTAATTTATATATAAGAG
TGTATGTATTT
Found at i:731479 original size:166 final size:166
Alignment explanation
Indices: 731205--731541 Score: 665
Period size: 166 Copynumber: 2.0 Consensus size: 166
731195 ATATTTAATA
731205 ATTTTATACATTTTTTATTTATTAAAAAAATTTATATAGTCATCTTAACATTATTTTAATGTTTA
1 ATTTTATACATTTTTTATTTATTAAAAAAATTTATATAGTCATCTTAACATTATTTTAATGTTTA
*
731270 TATTAGAGTAGTTTTATATATTTAATACATGTTTAATTTTTTAATATGTTCTAAATTACATCGGC
66 TATTAGAGTAGTTTTATATATTTAATAAATGTTTAATTTTTTAATATGTTCTAAATTACATCGGC
731335 CCGGGCTTGAGCCCGACCTATATTTTAAACGAACCT
131 CCGGGCTTGAGCCCGACCTATATTTTAAACGAACCT
731371 ATTTTATACATTTTTTATTTATTAAAAAAATTTATATAGTCATCTTAACATTATTTTAATGTTTA
1 ATTTTATACATTTTTTATTTATTAAAAAAATTTATATAGTCATCTTAACATTATTTTAATGTTTA
731436 TATTAGAGTAGTTTTATATATTTAATAAATGTTTAATTTTTTAATATGTTCTAAATTACATCGGC
66 TATTAGAGTAGTTTTATATATTTAATAAATGTTTAATTTTTTAATATGTTCTAAATTACATCGGC
731501 CCGGGCTTGAGCCCGACCTATATTTTAAACGAACCT
131 CCGGGCTTGAGCCCGACCTATATTTTAAACGAACCT
731537 ATTTT
1 ATTTT
731542 TTTTGTCTAG
Statistics
Matches: 170, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 170 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (166 bp):
ATTTTATACATTTTTTATTTATTAAAAAAATTTATATAGTCATCTTAACATTATTTTAATGTTTA
TATTAGAGTAGTTTTATATATTTAATAAATGTTTAATTTTTTAATATGTTCTAAATTACATCGGC
CCGGGCTTGAGCCCGACCTATATTTTAAACGAACCT
Found at i:736323 original size:21 final size:20
Alignment explanation
Indices: 736299--736337 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
736289 TATAGTTTTT
736299 AATTAATTTAAAATTTAAATA
1 AATTAA-TTAAAATTTAAATA
*
736320 AATTTATTAAAATTTAAA
1 AATTAATTAAAATTTAAA
736338 ATTATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTAATTAAAATTTAAATA
Found at i:748825 original size:28 final size:29
Alignment explanation
Indices: 748767--748826 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
748757 AATTAAATTG
* * *
748767 TTTTTTTATATATATATATATTTTTATAA
1 TTTTTTTATACATATATATATTTTAAGAA
748796 TTTTTTTATACA-AT-TGATATTTTAAGAA
1 TTTTTTTATACATATAT-ATATTTTAAGAA
748824 TTT
1 TTT
748827 AACCATCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.04
28 15 0.56
29 11 0.41
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTTTTTATACATATATATATTTTAAGAA
Found at i:752921 original size:20 final size:21
Alignment explanation
Indices: 752898--752939 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
752888 ATAAATATTT
752898 AATTAGATAA-AAAAATTAAA
1 AATTAGATAATAAAAATTAAA
*
752918 AATTAGATAATAGAAATTAAA
1 AATTAGATAATAAAAATTAAA
752939 A
1 A
752940 TAACATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (21 bp):
AATTAGATAATAAAAATTAAA
Found at i:752993 original size:26 final size:26
Alignment explanation
Indices: 752964--753040 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 26
752954 TAATTTAATT
*
752964 TTTATTTTTTGA-ATTTTAATAATTTA
1 TTTATTTTTT-ATATTTTAAAAATTTA
*
752990 TTTATTTTTTATATTTTAAAAATTGTTT
1 TTTATTTTTTATATTTTAAAAA-T-TTA
*
753018 TTTATTTTATTTTTATTTTAAAA
1 TTTA-TTT-TTTATATTTTAAAA
753041 GTTTTAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
25 1 0.02
26 19 0.44
27 1 0.02
28 6 0.14
29 3 0.07
30 13 0.30
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTATTTTTTATATTTTAAAAATTTA
Found at i:764343 original size:21 final size:20
Alignment explanation
Indices: 764317--764360 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
764307 TCCGCTGATG
764317 ATTGTATGC-ACCTCTTCGAAC
1 ATTGTA-GCTACC-CTTCGAAC
*
764338 ATTGTAGCTGCCCTTCGAAC
1 ATTGTAGCTACCCTTCGAAC
764358 ATT
1 ATT
764361 TGACTAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (20 bp):
ATTGTAGCTACCCTTCGAAC
Found at i:766324 original size:19 final size:20
Alignment explanation
Indices: 766287--766324 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
766277 TTTTTTTAAA
766287 ATAAAAATTTTGAAATTTTT
1 ATAAAAATTTTGAAATTTTT
*
766307 ATAAATATTTTG-AATTTT
1 ATAAAAATTTTGAAATTTT
766325 GAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
ATAAAAATTTTGAAATTTTT
Found at i:766330 original size:18 final size:18
Alignment explanation
Indices: 766289--766360 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
766279 TTTTTAAAAT
* *
766289 AAAAATTTTGAAATTTTT
1 AAAATTTTTGAAATTTTG
766307 ATAAATATTTTG-AATTTTG
1 A-AAAT-TTTTGAAATTTTG
* **
766326 AAAATTATTGAGTTTTTG
1 AAAATTTTTGAAATTTTG
* *
766344 AATATTTTTGTAATTTT
1 AAAATTTTTGAAATTTT
766361 TGTTGAGAGA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
17 4 0.10
18 22 0.54
19 10 0.24
20 5 0.12
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (18 bp):
AAAATTTTTGAAATTTTG
Found at i:766334 original size:19 final size:20
Alignment explanation
Indices: 766287--766330 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
766277 TTTTTTTAAA
* *
766287 ATAAAAATTTTGAAATTTTT
1 ATAAATATTTTGAAATTTTG
766307 ATAAATATTTTG-AATTTTG
1 ATAAATATTTTGAAATTTTG
766326 A-AAAT
1 ATAAAT
766331 TATTGAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
20 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
ATAAATATTTTGAAATTTTG
Found at i:769656 original size:14 final size:14
Alignment explanation
Indices: 769637--769672 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
769627 TTGTTTCACT
*
769637 GAAAATGGTTTCCG
1 GAAAATGATTTCCG
*
769651 GAAAATGATTTCTG
1 GAAAATGATTTCCG
769665 GAAAATGA
1 GAAAATGA
769673 CTTATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:769702 original size:19 final size:20
Alignment explanation
Indices: 769659--769704 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
769649 CGGAAAATGA
*
769659 TTTCTGGAAAATGACTTATT
1 TTTCTGGAAAATGACTAATT
769679 TTTCTGGAAAA-G-CTAATAT
1 TTTCTGGAAAATGACTAAT-T
769698 TTTCTGG
1 TTTCTGG
769705 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 9 0.38
20 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.43
Consensus pattern (20 bp):
TTTCTGGAAAATGACTAATT
Found at i:778115 original size:46 final size:45
Alignment explanation
Indices: 777975--778436 Score: 256
Period size: 44 Copynumber: 10.7 Consensus size: 45
777965 TTTTAACCCA
* * * *
777975 CTCCACTGTAACTTCAGGGAGATAGGA--T-AGTGCCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTCAAT-TCTTCGATCTG
* * * * *
778018 CTCCGCTGTAATCTCGGGGAGATAAGATCTC--TGGCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTCAAT-TCTTCGATCTG
* * * *
778062 CTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-CAATTCTTCGATCTG
* * * *
778108 CTCCACTGTAACCTCAGAGAGATAAGATC-CGA---TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTCAATTCTTCGATCTG
* * * ** * *
778149 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTCAATTCTTCGATCTG
*
778193 CTCCACTGTAACCTCAGGGAGATAGGAT-T--ATATCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTCAAT-TCTTCGATCTG
* * *
778236 CTCCGCTGTAACCTCAGGGAGACAAGATCTGCAATTCTTCGGTCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-CAATTCTTCGATCTG
* * * * * *
778282 TTCCACTGTAATCTCAGGGAGATAAGACCT-GA-T-GT-GATCTT
1 CTCCACTGTAACCTCAGGGAGATAAGATCTCAATTCTTCGATCTG
* * * * *
778323 CTCTACTGTAACTTCAGAGAGATAAGATC-C---T-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTCAATTCTTCGATCTG
* * * * * *
778362 CTCCATTGTAATCTCAAGGAGATAGGAT-T-ACTATCTTTGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTCAAT-TCTTCGATCTG
* *
778406 CTCCGCTGTAATCTCAGGGAGATAAGATCTC
1 CTCCACTGTAACCTCAGGGAGATAAGATCTC
778437 TTCTTTAACT
Statistics
Matches: 320, Mismatches: 72, Indels: 51
0.72 0.16 0.12
Matches are distributed among these distances:
39 26 0.08
40 2 0.01
41 61 0.19
42 6 0.02
43 55 0.17
44 95 0.30
45 4 0.01
46 68 0.21
47 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTCAATTCTTCGATCTG
Found at i:778157 original size:87 final size:87
Alignment explanation
Indices: 777975--778351 Score: 311
Period size: 87 Copynumber: 4.3 Consensus size: 87
777965 TTTTAACCCA
* * * * * * *
777975 CTCCACTGTAACTTCAGGGAGATAGGATAGTGC----CTTCGATCTGCTCCGCTGTAATCTCGGG
1 CTCCACTGTAACTTCAGAGAGATAAGAT-CTGCAATTCTTCGGTCTGCTCCACTGTAACCTCAGG
* * *
778036 GAGATAAGATCTCTGGCTTCAATCTG
65 GAGATAAGATC-C--GATGCGATCTG
* * * *
778062 CTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAG
1 CTCCACTGTAACTTCAGAGAGATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAACCTCAGGG
*
778127 AGATAAGATCCGATGCGATCTA
66 AGATAAGATCCGATGCGATCTG
* ** ** *
778149 CTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAACCTCAGG
1 CTCCACTGTAACTTCAGAGAGATAAGAT-CTGCAATTCTTCGGTCTGCTCCACTGTAACCTCAGG
* *** *
778211 GAGATAGGATTATATCTTCGATCTG
65 GAGATAAGATCCGA--TGCGATCTG
* * * * * *
778236 CTCCGCTGTAACCTCAGGGAGACAAGATCTGCAATTCTTCGGTCTGTTCCACTGTAATCTCAGGG
1 CTCCACTGTAACTTCAGAGAGATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAACCTCAGGG
* *
778301 AGATAAGA-CCTGATGTGATCTT
66 AGATAAGATCC-GATGCGATCTG
*
778323 CTCTACTGTAACTTCAGAGAGATAAGATC
1 CTCCACTGTAACTTCAGAGAGATAAGATC
778352 CTTTAATCCG
Statistics
Matches: 226, Mismatches: 53, Indels: 22
0.75 0.18 0.07
Matches are distributed among these distances:
85 29 0.13
86 7 0.03
87 124 0.55
88 4 0.02
89 29 0.13
90 33 0.15
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (87 bp):
CTCCACTGTAACTTCAGAGAGATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAACCTCAGGG
AGATAAGATCCGATGCGATCTG
Found at i:778247 original size:174 final size:170
Alignment explanation
Indices: 778052--778435 Score: 549
Period size: 174 Copynumber: 2.2 Consensus size: 170
778042 AGATCTCTGG
* * *
778052 CTTCAATCTGCTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCGCTGTAACTTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGT
778117 AACCTCAGAGAGATAAGATCC-GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTT
66 AACCTCAGAGAGATAAGA-CCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC--
*
778181 TATTTTAATCCGCTCCACTGTAACCTCAGGGAGATAGGATTA-TAT
128 ---TTTAATCCGCTCCACTGTAACCTCAAGGAGATAGGATTACTAT
* * **
778226 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGACAAGATCTGCAATTCTTCGGTCTGTTCCACTGT
1 CTTCGATCTGCTCCGCTGTAACTTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGT
* * * *
778291 AATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTT
66 AACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
* *
778356 AATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTAT
131 AATCCGCTCCACTGTAACCTCAAGGAGATAGGATTACTAT
*
778396 CTTTGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCT
1 CTTCGATCTGCTCCGCTGTAACT-TCAGGGAGATAAGATCT
778436 CTTCTTTAAC
Statistics
Matches: 190, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
169 36 0.19
170 39 0.21
173 2 0.01
174 113 0.59
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (170 bp):
CTTCGATCTGCTCCGCTGTAACTTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGT
AACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
AATCCGCTCCACTGTAACCTCAAGGAGATAGGATTACTAT
Found at i:779858 original size:1 final size:1
Alignment explanation
Indices: 779852--779884 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
779842 CTCTCCAAAG
779852 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
779885 AGGAAGCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:789246 original size:13 final size:14
Alignment explanation
Indices: 789211--789253 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
789201 TGTTATTGCC
789211 TTCTTTGTTGTTCTTG
1 TTCTTT-TT-TTCTTG
789227 TTCTTTTTTTCTTG
1 TTCTTTTTTTCTTG
789241 -TCTTTTTTGTCTT
1 TTCTTTTTT-TCTT
789254 TGAGTTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.31
14 10 0.38
15 2 0.08
16 6 0.23
ACGTcount: A:0.00, C:0.14, G:0.12, T:0.74
Consensus pattern (14 bp):
TTCTTTTTTTCTTG
Found at i:800937 original size:4 final size:4
Alignment explanation
Indices: 800928--800959 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
800918 AAAATAGTAA
*
800928 TTAG TTAG TTAA TTAG TTAG TTAG TTAG TTAG
1 TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG
800960 ATTATGAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (4 bp):
TTAG
Found at i:800940 original size:12 final size:12
Alignment explanation
Indices: 800925--800959 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
800915 ATAAAAATAG
800925 TAATTAGTTAGT
1 TAATTAGTTAGT
800937 TAATTAGTTAGT
1 TAATTAGTTAGT
*
800949 TAGTTAGTTAG
1 TAATTAGTTAG
800960 ATTATGAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (12 bp):
TAATTAGTTAGT
Found at i:804054 original size:31 final size:31
Alignment explanation
Indices: 804019--804148 Score: 126
Period size: 31 Copynumber: 4.3 Consensus size: 31
804009 TTAATATAAT
* * * *
804019 ATTTGGTACTTAAATTTAATATTTTTTCTTA
1 ATTTGGTACCTAAACTTGATACTTTTTCTTA
*
804050 ATTTGGTACCTAAACTT--T--TTTTGGTC-CA
1 ATTTGGTACCTAAACTTGATACTTTT--TCTTA
* * *
804078 ATTTGATACCCAAACTTGACACTTTTTCTTA
1 ATTTGGTACCTAAACTTGATACTTTTTCTTA
804109 ATTTGGTACCTAAACTTGATACTTTTTCTTA
1 ATTTGGTACCTAAACTTGATACTTTTTCTTA
*
804140 AGTTGGTAC
1 ATTTGGTAC
804149 TTAAGCTTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
27 4 0.05
28 16 0.20
29 3 0.04
30 2 0.02
31 52 0.64
32 4 0.05
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGATACTTTTTCTTA
Found at i:804204 original size:89 final size:90
Alignment explanation
Indices: 804021--804210 Score: 231
Period size: 90 Copynumber: 2.1 Consensus size: 90
804011 AATATAATAT
* * * * *
804021 TTGGTACTTAAATTTAATATTTTTTCTTAATTTGGTACCTAAACTTTTTTTGGTCCAATTTGATA
1 TTGGTACCTAAACTTAATACTTTTTCTTAAGTTGGTACCTAAACTTTTTTGGGTCCAATTTGATA
* * *
804086 CCCAAACTTGACACTTTTTCTTAAT
66 CCCAAACTTAACACTTTTTCCTAAC
* * *
804111 TTGGTACCTAAACTTGATACTTTTTCTTAAGTTGGTACTTAAGCTTTTTTGGGAT-C-ATTTGAT
1 TTGGTACCTAAACTTAATACTTTTTCTTAAGTTGGTACCTAAACTTTTTTGGG-TCCAATTTGAT
** *
804174 ACCTGAACTTAACTCTTTTTCCTAAC
65 ACCCAAACTTAACACTTTTTCCTAAC
804200 TTGGTACCTAA
1 TTGGTACCTAA
804211 TCTTTTTTTT
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
89 38 0.45
90 46 0.54
91 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (90 bp):
TTGGTACCTAAACTTAATACTTTTTCTTAAGTTGGTACCTAAACTTTTTTGGGTCCAATTTGATA
CCCAAACTTAACACTTTTTCCTAAC
Found at i:809692 original size:23 final size:23
Alignment explanation
Indices: 809666--809715 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
809656 CACTGGATCA
809666 ATTTTCCTAGATGAAGACTTGAG
1 ATTTTCCTAGATGAAGACTTGAG
*
809689 ATTTTCCTAGTTGAAGACTTGAG
1 ATTTTCCTAGATGAAGACTTGAG
809712 ATTT
1 ATTT
809716 GAGGTTGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (23 bp):
ATTTTCCTAGATGAAGACTTGAG
Found at i:813894 original size:17 final size:16
Alignment explanation
Indices: 813864--813909 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
813854 TAATGTATTA
813864 TATTTTTAAAAAAAAT
1 TATTTTTAAAAAAAAT
*
813880 TATTTTTAACTAAAAAT
1 TATTTTTAA-AAAAAAT
*
813897 TAATTTTAAAAAA
1 TATTTTTAAAAAA
813910 TCAAATATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTTTTAAAAAAAAT
Found at i:819111 original size:67 final size:68
Alignment explanation
Indices: 819018--819145 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 68
819008 CTTTTGGGAC
* *
819018 AAAAGCATTCCTAAACAAGATGCTTTTTGAGAGAAAGAGTAC-TCTCTCAAGCCAAAAATTAGCC
1 AAAAGCATTCCTAAACAAGATGCTTTTTGAGAGAAAAAATACTTCTCTCAAGCCAAAAATTAGCC
819082 AAT
66 AAT
* * * *
819085 AAAAGCATTCTTAAATAAGCTGCTTTTTGAGAGAAAAAATACTTCTCTCAAGCTAAAAATT
1 AAAAGCATTCCTAAACAAGATGCTTTTTGAGAGAAAAAATACTTCTCTCAAGCCAAAAATT
819146 GACCCAAAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
67 37 0.69
68 17 0.31
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.27
Consensus pattern (68 bp):
AAAAGCATTCCTAAACAAGATGCTTTTTGAGAGAAAAAATACTTCTCTCAAGCCAAAAATTAGCC
AAT
Found at i:832250 original size:23 final size:22
Alignment explanation
Indices: 832217--832274 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
832207 TAGTTTCGTA
* *
832217 ACAAATGTATATTACATTTACAT
1 ACAAATATATATT-CAATTACAT
832240 ACAAATATATA-TCAATTACAT
1 ACAAATATATATTCAATTACAT
832261 --AAATATATATTCAA
1 ACAAATATATATTCAA
832275 ATATAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 9 0.28
20 4 0.12
21 8 0.25
22 1 0.03
23 10 0.31
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (22 bp):
ACAAATATATATTCAATTACAT
Found at i:835970 original size:26 final size:26
Alignment explanation
Indices: 835934--835986 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
835924 GGCAAGAATG
835934 AGATTATTATCAAGATTTTAAAGCAA
1 AGATTATTATCAAGATTTTAAAGCAA
*
835960 AGATTATTATCAAGTTTTTAAAGCAA
1 AGATTATTATCAAGATTTTAAAGCAA
835986 A
1 A
835987 TTGCACCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (26 bp):
AGATTATTATCAAGATTTTAAAGCAA
Found at i:839115 original size:23 final size:23
Alignment explanation
Indices: 839089--839135 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
839079 TATTGAAAAG
839089 ATAAAATGATTGAAGACTCATCA
1 ATAAAATGATTGAAGACTCATCA
839112 ATAAAATGATTGAAGACTCATCA
1 ATAAAATGATTGAAGACTCATCA
839135 A
1 A
839136 GTTGCATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.26
Consensus pattern (23 bp):
ATAAAATGATTGAAGACTCATCA
Found at i:841325 original size:16 final size:16
Alignment explanation
Indices: 841304--841335 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
841294 GTCCATTTGT
841304 CGTTAAATGGACGGGG
1 CGTTAAATGGACGGGG
841320 CGTTAAATGGACGGGG
1 CGTTAAATGGACGGGG
841336 GTGCTCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.44, T:0.19
Consensus pattern (16 bp):
CGTTAAATGGACGGGG
Found at i:841671 original size:14 final size:14
Alignment explanation
Indices: 841652--841678 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
841642 TAAACTTTTA
841652 ATTCGGTTAATTCT
1 ATTCGGTTAATTCT
841666 ATTCGGTTAATTC
1 ATTCGGTTAATTC
841679 AGTCAAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (14 bp):
ATTCGGTTAATTCT
Found at i:842802 original size:20 final size:19
Alignment explanation
Indices: 842779--842851 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
842769 AAATATATAA
*
842779 ATTTTGAAAATTTTATAAAT
1 ATTTTG-AAATTTTAAAAAT
*
842799 ATTTTG-AATTCTAAAAAT
1 ATTTTGAAATTTTAAAAAT
*
842817 CATTTTGAATTTTTGAAAAAT
1 -ATTTTGAAATTTT-AAAAAT
842838 ATTTTGAATATTTT
1 ATTTTGAA-ATTTT
842852 TTGTAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.23
19 6 0.14
20 18 0.41
21 10 0.23
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTTTGAAATTTTAAAAAT
Found at i:848879 original size:20 final size:21
Alignment explanation
Indices: 848825--848880 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
848815 ATCACTGCAT
* * *
848825 AATACAGAAGTTGAAAAATGAG
1 AATA-AGAACTTGAAAAAAGAA
*
848847 AATAA-AACATGAAAAAAGAA
1 AATAAGAACTTGAAAAAAGAA
848867 AATAAGAA-TTGAAA
1 AATAAGAACTTGAAA
848881 TGACAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 21 0.75
21 3 0.11
22 4 0.14
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (21 bp):
AATAAGAACTTGAAAAAAGAA
Found at i:863600 original size:20 final size:21
Alignment explanation
Indices: 863563--863602 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
863553 TCATATTGTA
* *
863563 CTCATTTTCTTTTTATTTTCC
1 CTCATTTTCTTCTCATTTTCC
863584 CTCA-TTTCTTCTCATTTTC
1 CTCATTTTCTTCTCATTTTC
863603 TTCACTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (21 bp):
CTCATTTTCTTCTCATTTTCC
Found at i:864654 original size:20 final size:18
Alignment explanation
Indices: 864631--864669 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
864621 TGAAGCCAGA
864631 AAAAGAAAAAGAAAAATAGG
1 AAAAG-AAAAGAAAAA-AGG
864651 AAAAGAAAAGAAAAAAGG
1 AAAAGAAAAGAAAAAAGG
864669 A
1 A
864670 GGAAAATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAGAAAAAAGG
Found at i:864666 original size:21 final size:20
Alignment explanation
Indices: 864631--864675 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
864621 TGAAGCCAGA
* *
864631 AAAAGAAAAAGAAAAATAGG
1 AAAAGAAAAAAAAAAAGAGG
*
864651 AAAAGAAAAGAAAAAAGGAGG
1 AAAAGAAAA-AAAAAAAGAGG
864672 AAAA
1 AAAA
864676 TGAGGGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAAAAAAAAGAGG
Found at i:889001 original size:20 final size:20
Alignment explanation
Indices: 888976--889017 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
888966 AAAACGGATG
888976 AGGACACTTGTAGTTAATCT
1 AGGACACTTGTAGTTAATCT
888996 AGGACACTTGTAGTTAATCT
1 AGGACACTTGTAGTTAATCT
889016 AG
1 AG
889018 TACATGTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (20 bp):
AGGACACTTGTAGTTAATCT
Found at i:893647 original size:27 final size:27
Alignment explanation
Indices: 893608--893659 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
893598 AAATAAAAAT
* *
893608 AATTAAATTAAAATTTTTAAATATATA
1 AATTAAATTAAAAATATTAAATATATA
893635 AATT-AATTAAAAAATATTAAATATA
1 AATTAAATT-AAAAATATTAAATATA
893660 GATGAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
AATTAAATTAAAAATATTAAATATATA
Found at i:894066 original size:14 final size:14
Alignment explanation
Indices: 894047--894073 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
894037 ATAAAATGAT
894047 AAGAAGGAAAAAAG
1 AAGAAGGAAAAAAG
894061 AAGAAGGAAAAAA
1 AAGAAGGAAAAAA
894074 CAACCATAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGAAGGAAAAAAG
Found at i:896418 original size:15 final size:15
Alignment explanation
Indices: 896377--896411 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
896367 TCTAATTTTG
*
896377 ATTAATGTTTAATTA
1 ATTAATGTTTAATGA
896392 ATTAATGTTTAATGA
1 ATTAATGTTTAATGA
896407 ATTAA
1 ATTAA
896412 GATTTAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (15 bp):
ATTAATGTTTAATGA
Found at i:898313 original size:43 final size:42
Alignment explanation
Indices: 898236--898318 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 42
898226 ATATATATTA
898236 TAAATACTTAAAGTTAATATATATATTATAATATTATAATAT
1 TAAATACTTAAAGTTAATATATATATTATAATATTATAATAT
*
898278 TAAA-ACTTAAAAGTTAAGTATATATATTATTATATTATAAT
1 TAAATACTT-AAAGTTAA-TATATATATTATAATATTATAAT
898319 GATAAAGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
41 4 0.11
42 12 0.32
43 22 0.58
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (42 bp):
TAAATACTTAAAGTTAATATATATATTATAATATTATAATAT
Found at i:898376 original size:17 final size:17
Alignment explanation
Indices: 898354--898402 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
898344 AAAAAGAAGG
*
898354 AGAGAAAGAAACGAAAC
1 AGAGAAGGAAACGAAAC
*
898371 AGAGAAGGAAACGAAAT
1 AGAGAAGGAAACGAAAC
898388 AGAGAAGGAAA-GAAA
1 AGAGAAGGAAACGAAA
898403 GAAAAGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 4 0.13
17 26 0.87
ACGTcount: A:0.63, C:0.06, G:0.29, T:0.02
Consensus pattern (17 bp):
AGAGAAGGAAACGAAAC
Found at i:899281 original size:41 final size:41
Alignment explanation
Indices: 899234--899369 Score: 165
Period size: 40 Copynumber: 3.4 Consensus size: 41
899224 CGACGTCGAG
899234 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAT
* * * * *
899275 TCGATGAGGCACTGGGTGCCAA--T-TTACTTCAGTTTAAC
1 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAT
*
899313 T-GATGAGACACTGGGTGTCAATTTATTACTTCGAATT-AT
1 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAT
* *
899352 CCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
899370 CCAAACTGGT
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
37 18 0.23
38 13 0.17
39 3 0.04
40 24 0.31
41 20 0.26
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAT
Found at i:899327 original size:37 final size:38
Alignment explanation
Indices: 899234--899337 Score: 129
Period size: 37 Copynumber: 2.7 Consensus size: 38
899224 CGACGTCGAG
* *
899234 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGTCAA--T-TTACTTCAGATTAAC
* * *
899275 TCGATGAGGCACTGGGTGCCAATTTACTTCAGTTTAAC
1 TCGATGAGACACTGGGTGTCAATTTACTTCAGATTAAC
899313 T-GATGAGACACTGGGTGTCAATTTA
1 TCGATGAGACACTGGGTGTCAATTTA
899338 TTACTTCGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 22 0.39
38 13 0.23
39 1 0.02
41 20 0.36
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (38 bp):
TCGATGAGACACTGGGTGTCAATTTACTTCAGATTAAC
Found at i:915365 original size:68 final size:68
Alignment explanation
Indices: 915200--915368 Score: 216
Period size: 68 Copynumber: 2.5 Consensus size: 68
915190 CTTGCATTGC
* **
915200 TGCTGATTTATGTTGTCCAAAGCTAGACATATTAGTGGTGTAATAACTATTTAATGCTTTGTTTT
1 TGCTGATTTATGTTGTCCAAAGCTAGACATATTAATGGTGTAATAACTATTTAATGCCCTGTTTT
915265 GTT
66 GTT
* * * *** *
915268 TGTTGATTTATGTTGTCCAAAGCCAGACATATTAATGGTGTTATTGTTGTTTAATGCCCTGTTGT
1 TGCTGATTTATGTTGTCCAAAGCTAGACATATTAATGGTGTAATAACTATTTAATGCCCTGTT-T
915333 T-TT
65 TGTT
915336 TGCTGATTTATGTTGTCCAAAG-TAGGACATATT
1 TGCTGATTTATGTTGTCCAAAGCTA-GACATATT
915369 GATTTCGTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
67 1 0.01
68 84 0.97
69 2 0.02
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (68 bp):
TGCTGATTTATGTTGTCCAAAGCTAGACATATTAATGGTGTAATAACTATTTAATGCCCTGTTTT
GTT
Found at i:915394 original size:68 final size:68
Alignment explanation
Indices: 915200--915400 Score: 183
Period size: 68 Copynumber: 3.0 Consensus size: 68
915190 CTTGCATTGC
* * * ** ** ** *
915200 TGCTGATTTATGTTGTCCAAAGCTAGACATATTAGTGGTGTAATAACTATTTAATGCTTTGTT-T
1 TGCTGATTTATGTTGTCCAAAGCCAGACATATTAATGGTGTTATTGCTGCTTAATGCCCTATTGT
915264 TGTT
66 T-TT
* * * *
915268 TGTTGATTTATGTTGTCCAAAGCCAGACATATTAATGGTGTTATTGTTGTTTAATGCCCTGTTGT
1 TGCTGATTTATGTTGTCCAAAGCCAGACATATTAATGGTGTTATTGCTGCTTAATGCCCTATTGT
915333 TTT
66 TTT
* * * * *
915336 TGCTGATTTATGTTGTCCAAAG-TAGGACATATTGAT-TTCGTTTTTGCTGCTTAGTGCCCTATT
1 TGCTGATTTATGTTGTCCAAAGCCA-GACATATTAATGGT-GTTATTGCTGCTTAATGCCCTATT
915399 GT
64 GT
915401 ATTACTCTTA
Statistics
Matches: 111, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
67 2 0.02
68 107 0.96
69 2 0.02
ACGTcount: A:0.21, C:0.12, G:0.20, T:0.46
Consensus pattern (68 bp):
TGCTGATTTATGTTGTCCAAAGCCAGACATATTAATGGTGTTATTGCTGCTTAATGCCCTATTGT
TTT
Found at i:915741 original size:72 final size:70
Alignment explanation
Indices: 915593--915730 Score: 195
Period size: 72 Copynumber: 1.9 Consensus size: 70
915583 GGATTGATAG
*
915593 AGGGAAGATAATTTAAGAAATGGAAAATGGCTTTGCAGAGGTTCAGAAGTGTTGATCAAAGTTTA
1 AGGGAAGATAATTTAAGAAATGGAAAATGGCTTTGCAGAGGTTCAGAAGGGTTGATCAAAGTTTA
915658 AACAA
66 AACAA
* * * * **
915663 AGGGAAGATATTTTGAAGAAGTGGAAAAATGGCTTTGCGGAGGTTCGGAAGGGTTGATCGGAGTT
1 AGGGAAGATAATTT-AAGAAATGG-AAAATGGCTTTGCAGAGGTTCAGAAGGGTTGATCAAAGTT
915728 TAA
64 TAA
915731 GAATGAGGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 13 0.22
71 8 0.14
72 38 0.64
ACGTcount: A:0.36, C:0.07, G:0.31, T:0.26
Consensus pattern (70 bp):
AGGGAAGATAATTTAAGAAATGGAAAATGGCTTTGCAGAGGTTCAGAAGGGTTGATCAAAGTTTA
AACAA
Found at i:923254 original size:27 final size:30
Alignment explanation
Indices: 923194--923259 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
923184 TTTTTAAAAT
*
923194 TTTTTAATTAATAAACATGTTATTTTCAAG
1 TTTTTAATTAACAAACATGTTATTTTCAAG
923224 TTTTTAATTAACAAACATG-T-TTTT-AAG
1 TTTTTAATTAACAAACATGTTATTTTCAAG
923251 TTTTTAATT
1 TTTTTAATT
923260 TTATTTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 12 0.34
28 4 0.11
29 1 0.03
30 18 0.51
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (30 bp):
TTTTTAATTAACAAACATGTTATTTTCAAG
Found at i:925648 original size:17 final size:16
Alignment explanation
Indices: 925623--925661 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
925613 CTAATACTAA
*
925623 AATAAATAAATTAAAG
1 AATAAATAAACTAAAG
*
925639 AATAACATAAACTAAAT
1 AATAA-ATAAACTAAAG
925656 AATAAA
1 AATAAA
925662 CAACTAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (16 bp):
AATAAATAAACTAAAG
Found at i:925766 original size:24 final size:23
Alignment explanation
Indices: 925724--925803 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 23
925714 AATAGTAAGG
*
925724 ATAATAATAAATAAA-ATAATAAA
1 ATAATAA-AAACAAATATAATAAA
* *
925747 ACTAATAAAACCAAATATAATGAAT
1 A-TAATAAAAACAAATATAAT-AAA
* *
925772 ATAATAAAAATAAATAAAAT-AA
1 ATAATAAAAACAAATATAATAAA
925794 ATAATAAAAA
1 ATAATAAAAA
925804 GAAAAAGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
22 11 0.23
23 6 0.13
24 27 0.57
25 3 0.06
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.24
Consensus pattern (23 bp):
ATAATAAAAACAAATATAATAAA
Found at i:930812 original size:21 final size:20
Alignment explanation
Indices: 930763--930812 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
930753 ATGCAAAAAT
* *
930763 TAAATAAATATTAAAAATAT
1 TAAATAAAAATTAAAAATAC
*
930783 TAAATTAAAAATTAAAAATGGC
1 TAAA-TAAAAATTAAAAAT-AC
930805 TAAATAAA
1 TAAATAAA
930813 TGAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (20 bp):
TAAATAAAAATTAAAAATAC
Found at i:932816 original size:39 final size:40
Alignment explanation
Indices: 932682--932818 Score: 172
Period size: 39 Copynumber: 3.5 Consensus size: 40
932672 TGTTTTTGAA
* *
932682 TATTGCGATATATGCTTGAATGTTATGTGATTATATGA-G
1 TATTGTGATATATGCTTAAATGTTATGTGATTATATGATG
* * ** *
932721 TATTGTGATATGTGCTTGAACATTATGTAATTATATGAT-
1 TATTGTGATATATGCTTAAATGTTATGTGATTATATGATG
*
932760 TATTGTGATATATGCTTAAATGTTATGCGATTATAT-ATG
1 TATTGTGATATATGCTTAAATGTTATGTGATTATATGATG
*
932799 TAATGTGATATATGCTTAAA
1 TATTGTGATATATGCTTAAA
932819 AGTGAACATG
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
38 2 0.02
39 82 0.98
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (40 bp):
TATTGTGATATATGCTTAAATGTTATGTGATTATATGATG
Found at i:942854 original size:11 final size:11
Alignment explanation
Indices: 942781--942856 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
942771 ATTTCAAAAA
*
942781 TAATATTATTT
1 TAATATTAATT
942792 TAATAGTTTAATTT
1 TAATA--TTAA-TT
*
942806 TAATTTTAATT
1 TAATATTAATT
942817 TAATACTT-ATCT
1 TAATA-TTAAT-T
*
942829 TAATAAT-ATT
1 TAATATTAATT
942839 T--TATTAATT
1 TAATATTAATT
942848 TAATATTAA
1 TAATATTAA
942857 AGTGATTATC
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 22 0.42
12 12 0.23
13 3 0.06
14 6 0.12
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (11 bp):
TAATATTAATT
Found at i:944116 original size:16 final size:15
Alignment explanation
Indices: 944095--944124 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
944085 ATTCACCCTA
944095 AATATTGATTTAATTT
1 AATATTG-TTTAATTT
944111 AATATTGTTTAATT
1 AATATTGTTTAATT
944125 ATTTAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
AATATTGTTTAATTT
Found at i:945468 original size:25 final size:25
Alignment explanation
Indices: 945434--945483 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
945424 TTTAAAGTAT
945434 TAGGGTTTTTCCATTGATGAATATG
1 TAGGGTTTTTCCATTGATGAATATG
945459 TAGGGTTTTTCCATTGATGAATATG
1 TAGGGTTTTTCCATTGATGAATATG
945484 CTTGAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (25 bp):
TAGGGTTTTTCCATTGATGAATATG
Found at i:945946 original size:3 final size:3
Alignment explanation
Indices: 945933--946001 Score: 72
Period size: 3 Copynumber: 23.7 Consensus size: 3
945923 TATACATAAA
* * * *
945933 TAT TA- TAT TAT TAT TAT AAT TAT TAAC CAT TAT TAT TGT T-T TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
945976 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
946002 AATAAAGTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
2 6 0.11
3 48 0.87
4 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:946751 original size:16 final size:18
Alignment explanation
Indices: 946718--946751 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
946708 TAGAAATTTT
946718 GATTAGAATTGATAAAAG
1 GATTAGAATTGATAAAAG
946736 GATTA-AATTG-TAAAAG
1 GATTAGAATTGATAAAAG
946752 AAACTATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
GATTAGAATTGATAAAAG
Found at i:948883 original size:25 final size:25
Alignment explanation
Indices: 948845--948899 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
948835 CACACCACAA
*
948845 CTCGTATGAGCTTC-CTAATTTACAG
1 CTCGTATGAACTTCTC-AATTTACAG
*
948870 CTCGTATGAACTTCTCGATTTACAG
1 CTCGTATGAACTTCTCAATTTACAG
948895 CTCGT
1 CTCGT
948900 GAGAGCATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (25 bp):
CTCGTATGAACTTCTCAATTTACAG
Found at i:956563 original size:38 final size:38
Alignment explanation
Indices: 956512--956592 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
956502 ATTACGCTTT
956512 TTTGGCATGAATATCGATTGTAAATAGATTTAAGTTTG
1 TTTGGCATGAATATCGATTGTAAATAGATTTAAGTTTG
956550 TTTGGCATGAATATCGATTGTAAATAGATTTAAGTTTG
1 TTTGGCATGAATATCGATTGTAAATAGATTTAAGTTTG
956588 TTTGG
1 TTTGG
956593 AAAGATTGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (38 bp):
TTTGGCATGAATATCGATTGTAAATAGATTTAAGTTTG
Found at i:959574 original size:19 final size:20
Alignment explanation
Indices: 959537--959576 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
959527 TCAAGGTAGA
959537 ATATGATTGCTTTGGTCTGC
1 ATATGATTGCTTTGGTCTGC
*
959557 ATATGATT-CTTTGTTCTGC
1 ATATGATTGCTTTGGTCTGC
959576 A
1 A
959577 GACTGAAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.47
Consensus pattern (20 bp):
ATATGATTGCTTTGGTCTGC
Found at i:963907 original size:14 final size:14
Alignment explanation
Indices: 963888--963917 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
963878 CAAAAATTTT
963888 AAAAAACTACCAAA
1 AAAAAACTACCAAA
*
963902 AAAAAAGTACCAAA
1 AAAAAACTACCAAA
963916 AA
1 AA
963918 TTGAGAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.17, G:0.03, T:0.07
Consensus pattern (14 bp):
AAAAAACTACCAAA
Found at i:965199 original size:3 final size:3
Alignment explanation
Indices: 965191--965234 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
965181 ATGTTTAAAT
965191 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
965235 TTTTTGTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:968807 original size:25 final size:23
Alignment explanation
Indices: 968779--968833 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 23
968769 ATAACTTTAG
968779 AATTTTTTTAAGATTTAAATAATAT
1 AATTTTTTTAAGATTT--ATAATAT
*
968804 AATTTTTTTTAGGATTTATAATAT
1 AA-TTTTTTTAAGATTTATAATAT
968828 AATTTT
1 AATTTT
968834 AGAAAGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 4 0.14
24 9 0.32
25 2 0.07
26 13 0.46
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (23 bp):
AATTTTTTTAAGATTTATAATAT
Found at i:968824 original size:24 final size:25
Alignment explanation
Indices: 968781--968833 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
968771 AACTTTAGAA
968781 TTTTTTTAAGATTTAAATAATATAAT
1 TTTTTTTAAGATTT-AATAATATAAT
*
968807 TTTTTTTAGGATTT-ATAATATAAT
1 TTTTTTTAAGATTTAATAATATAAT
968831 TTT
1 TTT
968834 AGAAAGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 13 0.50
26 13 0.50
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (25 bp):
TTTTTTTAAGATTTAATAATATAAT
Found at i:975431 original size:19 final size:19
Alignment explanation
Indices: 975407--975457 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
975397 TTAAATTGAT
975407 AATAATTTTATCTCA-TTTA
1 AATAATTTTAT-TCACTTTA
975426 AATAATTTGT-TTCACTTTA
1 AATAATTT-TATTCACTTTA
975445 ATATAATTTTATT
1 A-ATAATTTTATT
975458 TTAAAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.11
19 15 0.54
20 10 0.36
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (19 bp):
AATAATTTTATTCACTTTA
Found at i:975640 original size:16 final size:15
Alignment explanation
Indices: 975619--975669 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
975609 TACCAAACCT
975619 AAATGACTCGAACATG
1 AAATGACTCGAAC-TG
* *
975635 AAATGATTCAAACTCG
1 AAATGACTCGAACT-G
975651 AAATGACTCGAACTTG
1 AAATGACTCGAAC-TG
975667 AAA
1 AAA
975670 CTAACCCAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.22
Consensus pattern (15 bp):
AAATGACTCGAACTG
Found at i:980035 original size:20 final size:20
Alignment explanation
Indices: 979992--980035 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
979982 TTAAAATACT
* *
979992 TTTAAAATAATTTTTTTATT
1 TTTAAAATAATTTTTTAATG
980012 TTTAAAATAATTTTTTAATG
1 TTTAAAATAATTTTTTAATG
980032 TTTA
1 TTTA
980036 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTAAAATAATTTTTTAATG
Found at i:983646 original size:41 final size:41
Alignment explanation
Indices: 983592--983746 Score: 184
Period size: 41 Copynumber: 3.8 Consensus size: 41
983582 TTAATTAAAA
* * * * *
983592 CAGATTCAACGGCACTTAGCCTGCTAGACTTATAGCTTAATT
1 CAGA-TCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
**
983634 CAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
* **
983675 CAGATCACCAGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
* **
983716 CATATCACCGGCAATTAGCCTGCTAGACTTA
1 CAGATCACCGGCACGTAGCCTGCTAGACTTA
983747 AAGTCTGAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 95 0.96
42 4 0.04
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
Found at i:984553 original size:12 final size:12
Alignment explanation
Indices: 984536--984560 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
984526 ATTCTAGCAT
984536 TATATATATACA
1 TATATATATACA
984548 TATATATATACA
1 TATATATATACA
984560 T
1 T
984561 GCTTATTCGA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATATACA
Found at i:998491 original size:34 final size:34
Alignment explanation
Indices: 998448--998516 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
998438 CATGTAAAGT
998448 TACCAGTCTAGGCTAAACATTTAAAACAACATCA
1 TACCAGTCTAGGCTAAACATTTAAAACAACATCA
998482 TACCAGTCTAGGCTAAACATTTAAAACAACATCA
1 TACCAGTCTAGGCTAAACATTTAAAACAACATCA
998516 T
1 T
998517 GTTGCTGGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.25
Consensus pattern (34 bp):
TACCAGTCTAGGCTAAACATTTAAAACAACATCA
Found at i:1001049 original size:8 final size:8
Alignment explanation
Indices: 1001036--1001062 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1001026 CAGCCTCTAC
1001036 AAAAAACA
1 AAAAAACA
1001044 AAAAAACA
1 AAAAAACA
1001052 AAAAAACA
1 AAAAAACA
1001060 AAA
1 AAA
1001063 CTTGAAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:1006396 original size:31 final size:29
Alignment explanation
Indices: 1006361--1006419 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
1006351 ATTGTCATGT
1006361 TTGAGTTGGCAAAATTTGGCAACAAATTATC
1 TTGAGTT-G-AAAATTTGGCAACAAATTATC
* *
1006392 TTGAGTTGTAATTTTGGCAACAAATTAT
1 TTGAGTTGAAAATTTGGCAACAAATTAT
1006420 TTTGGGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 18 0.69
30 1 0.04
31 7 0.27
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (29 bp):
TTGAGTTGAAAATTTGGCAACAAATTATC
Found at i:1012304 original size:43 final size:43
Alignment explanation
Indices: 1012256--1012427 Score: 281
Period size: 43 Copynumber: 4.0 Consensus size: 43
1012246 TCAAAAGTAC
* * * *
1012256 TTCTCAAAATCATTTTTCAAAAGCATTTTTTACAAGAACTTCT
1 TTCTCAAAATCATTTTTCGAAAGCACTTTTTAAAAGCACTTCT
1012299 TTCTCAAAATCATTTTTCGAAAGCACTTTTTAAAAGCACTTCT
1 TTCTCAAAATCATTTTTCGAAAGCACTTTTTAAAAGCACTTCT
*
1012342 TTCTCAAAATTATTTTTCGAAAGCACTTTTTAAAAGCACTTCT
1 TTCTCAAAATCATTTTTCGAAAGCACTTTTTAAAAGCACTTCT
* *
1012385 TTCTCAAAATTATTTTTTGAAAGCACTTTTTAAAAGCACTTCT
1 TTCTCAAAATCATTTTTCGAAAGCACTTTTTAAAAGCACTTCT
1012428 CAAAAGCAAT
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 123 1.00
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (43 bp):
TTCTCAAAATCATTTTTCGAAAGCACTTTTTAAAAGCACTTCT
Found at i:1012334 original size:13 final size:13
Alignment explanation
Indices: 1012318--1012435 Score: 67
Period size: 13 Copynumber: 8.5 Consensus size: 13
1012308 TCATTTTTCG
1012318 AAAGCACTTTTTA
1 AAAGCACTTTTTA
1012331 AAAGCACTTCTTTCTCA
1 AAAGCAC-T-TTT-T-A
** *
1012348 AAATTA-TTTTTCG
1 AAAGCACTTTTT-A
1012361 AAAGCACTTTTTA
1 AAAGCACTTTTTA
1012374 AAAGCACTTCTTTCTCA
1 AAAGCAC-T-TTT-T-A
** * *
1012391 AAATTATTTTTTG
1 AAAGCACTTTTTA
1012404 AAAGCACTTTTTA
1 AAAGCACTTTTTA
* *
1012417 AAAGCACTTCTCA
1 AAAGCACTTTTTA
1012430 AAAGCA
1 AAAGCA
1012436 ATGCTAAACA
Statistics
Matches: 80, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
13 46 0.57
14 11 0.14
15 10 0.12
16 3 0.04
17 10 0.12
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAGCACTTTTTA
Found at i:1012359 original size:86 final size:86
Alignment explanation
Indices: 1012256--1012606 Score: 356
Period size: 86 Copynumber: 4.0 Consensus size: 86
1012246 TCAAAAGTAC
* *
1012256 TTCTCAAAATCATTTTTCAAAAGCATTTTTTACAAGAACTTCTTTCTCAAAATCATTTTTCGAAA
1 TTCTCAAAATCATTTTTCAAAAGCACTTTTTAAAAGAACTTCTTTCTCAAAATCATTTTTCGAAA
1012321 GCACTTTTTAAAAGCACTTCT
66 GCACTTTTTAAAAGCACTTCT
* * * * *
1012342 TTCTCAAAATTATTTTTCGAAAGCACTTTTTAAAAGCACTTCTTTCTCAAAATTATTTTTTGAAA
1 TTCTCAAAATCATTTTTCAAAAGCACTTTTTAAAAGAACTTCTTTCTCAAAATCATTTTTCGAAA
1012407 GCACTTTTTAAAAGCA---C-
66 GCACTTTTTAAAAGCACTTCT
* * ** * ** *
1012424 TTCTCAAAAGCAATGCT-AAACACTCAAATCTTAAACCA-AACTTTTCAAAAGTACTTCTCAAAA
1 TTCTCAAAATCATTTTTCAAA-A-GCACTTTTTAAA--AGAAC--TTC-----T--TTCTCAAAA
* *
1012487 TCATTTTTCAAAAGCACTTTTTAAAAGTACTTCT
53 TCATTTTTCGAAAGCACTTTTTAAAAGCACTTCT
* *
1012521 TTCTCAAAATCATTTTTCGAAAA-CACTTTTTAAAAGCACTTCTTTCTCAAAATCAATTTTCGAA
1 TTCTCAAAATCATTTTTC-AAAAGCACTTTTTAAAAGAACTTCTTTCTCAAAATCATTTTTCGAA
1012585 AGCACTTTTTAAAAGCACTTCT
65 AGCACTTTTTAAAAGCACTTCT
1012607 CAAAAGCAAT
Statistics
Matches: 212, Mismatches: 33, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
81 2 0.01
82 13 0.06
83 9 0.04
84 2 0.01
85 1 0.00
86 117 0.55
88 1 0.00
91 1 0.00
93 37 0.17
94 1 0.00
95 2 0.01
96 9 0.04
97 13 0.06
98 1 0.00
99 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (86 bp):
TTCTCAAAATCATTTTTCAAAAGCACTTTTTAAAAGAACTTCTTTCTCAAAATCATTTTTCGAAA
GCACTTTTTAAAAGCACTTCT
Found at i:1012512 original size:179 final size:179
Alignment explanation
Indices: 1012299--1012623 Score: 587
Period size: 179 Copynumber: 1.8 Consensus size: 179
1012289 AAGAACTTCT
* *
1012299 TTCTCAAAATCATTTTTCGAAAGCACTTTTTAAAAGCACTTCTTTCTCAAAATTATTTTTCGAAA
1 TTCTCAAAATCATTTTTCAAAAGCACTTTTTAAAAGCACTTCTTTCTCAAAATCATTTTTCGAAA
* * * *
1012364 GCACTTTTTAAAAGCACTTCTTTCTCAAAATTATTTTTTGAAAGCACTTTTTAAAAGCACTTCTC
66 ACACTTTTTAAAAGCACTTCTTTCTCAAAATCAATTTTCGAAAGCACTTTTTAAAAGCACTTCTC
1012429 AAAAGCAATGCTAAACACTCAAATCTTAAACCAAACTTTTCAAAAGTAC
131 AAAAGCAATGCTAAACACTCAAATCTTAAACCAAACTTTTCAAAAGTAC
*
1012478 TTCTCAAAATCATTTTTCAAAAGCACTTTTTAAAAGTACTTCTTTCTCAAAATCATTTTTCGAAA
1 TTCTCAAAATCATTTTTCAAAAGCACTTTTTAAAAGCACTTCTTTCTCAAAATCATTTTTCGAAA
1012543 ACACTTTTTAAAAGCACTTCTTTCTCAAAATCAATTTTCGAAAGCACTTTTTAAAAGCACTTCTC
66 ACACTTTTTAAAAGCACTTCTTTCTCAAAATCAATTTTCGAAAGCACTTTTTAAAAGCACTTCTC
1012608 AAAAGCAATGCTAAAC
131 AAAAGCAATGCTAAAC
1012624 TAACCCTAAG
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
179 139 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.36
Consensus pattern (179 bp):
TTCTCAAAATCATTTTTCAAAAGCACTTTTTAAAAGCACTTCTTTCTCAAAATCATTTTTCGAAA
ACACTTTTTAAAAGCACTTCTTTCTCAAAATCAATTTTCGAAAGCACTTTTTAAAAGCACTTCTC
AAAAGCAATGCTAAACACTCAAATCTTAAACCAAACTTTTCAAAAGTAC
Found at i:1012538 original size:43 final size:43
Alignment explanation
Indices: 1012478--1012606 Score: 215
Period size: 43 Copynumber: 3.0 Consensus size: 43
1012468 TCAAAAGTAC
*
1012478 TTCTCAAAATCATTTTTCAAAAGCACTTTTTAAAAGTACTTCT
1 TTCTCAAAATCATTTTTCAAAAGCACTTTTTAAAAGCACTTCT
1012521 TTCTCAAAATCATTTTTCGAAAA-CACTTTTTAAAAGCACTTCT
1 TTCTCAAAATCATTTTTC-AAAAGCACTTTTTAAAAGCACTTCT
* *
1012564 TTCTCAAAATCAATTTTCGAAAGCACTTTTTAAAAGCACTTCT
1 TTCTCAAAATCATTTTTCAAAAGCACTTTTTAAAAGCACTTCT
1012607 CAAAAGCAAT
Statistics
Matches: 81, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
42 3 0.04
43 74 0.91
44 4 0.05
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (43 bp):
TTCTCAAAATCATTTTTCAAAAGCACTTTTTAAAAGCACTTCT
Done.