Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 223 of 226
Found at i:69604276 original size:12 final size:12
Alignment explanation
Indices: 69604259--69604283 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69604249 TATCCTTAAA
69604259 ACATATATATAT
1 ACATATATATAT
69604271 ACATATATATAT
1 ACATATATATAT
69604283 A
1 A
69604284 TTTCATATTT
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:69609210 original size:7 final size:7
Alignment explanation
Indices: 69609200--69609247 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
69609190 AAGATTCAAA
69609200 AAAAAAG
1 AAAAAAG
69609207 AAAAAAG
1 AAAAAAG
69609214 AAGAAAA-
1 AA-AAAAG
*
69609221 AAAGAAG
1 AAAAAAG
*
69609228 AGAAAAG
1 AAAAAAG
69609235 -AAAAAG
1 AAAAAAG
69609241 AAAAAAG
1 AAAAAAG
69609248 GAGAGGCCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 8 0.24
7 22 0.65
8 4 0.12
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:69609221 original size:11 final size:11
Alignment explanation
Indices: 69609197--69609246 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
69609187 GTTAAGATTC
69609197 AAAAAAA-AAG
1 AAAAAAAGAAG
69609207 -AAAAAAGAAG
1 AAAAAAAGAAG
69609217 AAAAAAAGAAG
1 AAAAAAAGAAG
*
69609228 AGAAAAGAAAAAG
1 A-AAAA-AAGAAG
69609241 AAAAAA
1 AAAAAA
69609247 GGAGAGGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
9 6 0.17
10 3 0.09
11 12 0.34
12 8 0.23
13 6 0.17
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:69609222 original size:18 final size:17
Alignment explanation
Indices: 69609197--69609247 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 17
69609187 GTTAAGATTC
69609197 AAAAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAG
*
69609214 AAGAAAAAAAG--AAGAG
1 AA-AAAAAAAGAAAAAAG
69609230 AAAAGAAAAAGAAAAAAG
1 AAAA-AAAAAGAAAAAAG
69609248 GAGAGGCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 2 0.07
16 12 0.43
17 2 0.07
18 12 0.43
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:69609251 original size:21 final size:20
Alignment explanation
Indices: 69609197--69609247 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
69609187 GTTAAGATTC
*
69609197 AAAAAAAAAGAAAAAAGAAG
1 AAAAAAAAAGAGAAAAGAAG
69609217 AAAAAAAGAAGAGAAAAGAA-
1 AAAAAAA-AAGAGAAAAGAAG
69609237 AAAGAAAAAAG
1 AAA-AAAAAAG
69609248 GAGAGGCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAGAAAAGAAG
Found at i:69609252 original size:23 final size:23
Alignment explanation
Indices: 69609197--69609246 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
69609187 GTTAAGATTC
*
69609197 AAAAAA-AA-AGAAAAAAGAAGA
1 AAAAAAGAAGAGAAAAAAAAAGA
69609218 AAAAAAGAAGAGAAAAGAAAAAGA
1 AAAAAAGAAGAGAAAA-AAAAAGA
69609242 AAAAA
1 AAAAA
69609247 GGAGAGGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 6 0.24
22 2 0.08
23 6 0.24
24 11 0.44
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAAAGAAGAGAAAAAAAAAGA
Found at i:69610679 original size:50 final size:50
Alignment explanation
Indices: 69610535--69611676 Score: 729
Period size: 50 Copynumber: 22.9 Consensus size: 50
69610525 GAAACCATAG
* * * * * * *
69610535 ATTGCAATTTAAAAGATTAAAGCCACAATGGCGAATCTTACTTCTCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* ** * * * * * ** *
69610585 AATGCAACGGAATAGATTGAAGCAACGACGGTGAATATCGCTTCCCTGAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * *
69610635 ATTGTAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
*** * * * *** *
69610685 GA-TGCAGCGGAACAGATTGAAACTACGACGGCGAATCTCGTTTCCCCAAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * *
69610735 ATTACAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTT-CCAGAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
*** * * *
69610784 GA-TGCAGCGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * *
69610834 ATTGTAATTTAAAAGATTGAAG-TCACAATGGCGAATCTTACTT-CCAGGC
1 ATTGCAATTGAAAAGATTGAAGCT-ACAACGGCGAATCTTACTTCCCCGAC
**** * *
69610883 GA-TGCTGCGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * *
69610933 ATTGTAATTTAAAAGATTGAAGCTATAACGGTGAATCTTACTT-CCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
*** * *
69610982 GA-TGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * *
69611032 ATTGCAATTTAAAAGATTGAAGCCACAACGACGAATCTTACTT-CCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * * * *
69611081 GA-TACAGTGGAACAGATTGAAGCTACGATGGCGAATCTTCCTTCCTCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * ** **
69611131 ATTGCAATTTAAAAGATTGAAG-TCACAACAGCGAATCTTACTTCCAGGTG
1 ATTGCAATTGAAAAGATTGAAGCT-ACAACGGCGAATCTTACTTCCCCGAC
* * * * *
69611181 ATGTAGC-A--GAACAGATTGAAGCTACAATGACGAATTTTGCTTCCCCGAC
1 AT-T-GCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * *
69611230 ATTACAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTTCCCAAGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-C
** * * * ** * * *
69611281 GGTGCAGTGGAACAGATTGAAGCTATGACGGCAAATCTTCCTTCCTCGAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * *
69611331 ATTGCAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTTCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
*** * *
69611381 GA-TGCAGCGGAACAA-ATTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
1 -ATTGCAATTGAA-AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * *
69611431 ATTGCAATTTAAAAGATTGAGGCCACAACGACGAATCTTACTT-CCCGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
*** * *
69611480 GA-TGCAGCAGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * *
69611530 ATTGCAATTTAAAAAATTGAAGCCACAACGGCGAATCTTACTTTCCCAAGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-C
** * * * *
69611581 GGTGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTTACTTCCCCGAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
*** *
69611631 ATTGTGGTT-AAATAGATTGAAGCTACAACAGCGAATCTTACTTCCC
1 ATTGCAATTGAAA-AGATTGAAGCTACAACGGCGAATCTTACTTCCC
69611677 TGGCGGTGAA
Statistics
Matches: 793, Mismatches: 266, Indels: 66
0.70 0.24 0.06
Matches are distributed among these distances:
47 1 0.00
48 2 0.00
49 220 0.28
50 489 0.62
51 79 0.10
52 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (50 bp):
ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
Found at i:69610843 original size:99 final size:99
Alignment explanation
Indices: 69610535--69611675 Score: 1546
Period size: 99 Copynumber: 11.5 Consensus size: 99
69610525 GAAACCATAG
* * * * *
69610535 ATTGCAATTTAAAAGATTAAAGCCACAATGGCGAATCTTACTTCTCAGGCAATGCAACGGAATAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTC-CAGGCGATGCAGCGGAACAG
* * * * *
69610600 ATTGAAGCAACGACGGTGAATATCGCTTCCCTGAC
65 ATTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
* *
69610635 ATTGTAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTT-CCAGGCGATGCAGCGGAACAG
* * * *
69610700 ATTGAAACTACGACGGCGAATCTCGTTTCCCCAAC
65 ATTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
* * *
69610735 ATTACAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCAGACGATGCAGCGGAACAGA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
* *
69610800 TTGAAGCTACAACGACGAATCTTGCTTCCCCGAC
66 TTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
* * * *
69610834 ATTGTAATTTAAAAGATTGAAGTCACAATGGCGAATCTTACTTCCAGGCGATGCTGCGGAACAGA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
*
69610899 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
66 TTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
* * * *
69610933 ATTGTAATTTAAAAGATTGAAGCTATAACGGTGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
*
69610998 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
66 TTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
* * *
69611032 ATTGCAATTTAAAAGATTGAAGCCACAACGACGAATCTTACTTCCAGGCGATACAGTGGAACAGA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
* * *
69611097 TTGAAGCTACGATGGCGAATCTTCCTTCCTCGAC
66 TTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
* * * * *
69611131 ATTGCAATTTAAAAGATTGAAGTCACAACAGCGAATCTTACTTCCAGGTGATGTAGCAGAACAGA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
* * * *
69611196 TTGAAGCTACAATGACGAATTTTGCTTCCCCGAC
66 TTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
* * * * *
69611230 ATTACAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTTCCCAAGCGGTGCAGTGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TT-CCAGGCGATGCAGCGGAACA
* * * *
69611295 GATTGAAGCTATGACGGCAAATCTTCCTTCCTCGAC
64 GATTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
* * *
69611331 ATTGCAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTTCCAGGCGATGCAGCGGAACAA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCAGGCGATGCAGCGGAACAG
69611396 ATTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
65 ATTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
* * * *
69611431 ATTGCAATTTAAAAGATTGAGGCCACAACGACGAATCTTACTTCCCGGCGATGCAGCAGAACAGA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
*
69611496 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
66 TTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
* * * *
69611530 ATTGCAATTTAAAAAATTGAAGCCACAACGGCGAATCTTACTTTCCCAAGCGGTGCAGTGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TT-CCAGGCGATGCAGCGGAACA
*
69611595 GATTGAAGCTACGACGGCGAATCTTACTTCCCCGAC
64 GATTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
*** * *
69611631 ATTG-TGGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCC
1 ATTGCAATTTAAA-AGATTGAAGCCACAACGGCGAATCTTACTTCC
69611676 CTGGCGGTGA
Statistics
Matches: 922, Mismatches: 113, Indels: 13
0.88 0.11 0.01
Matches are distributed among these distances:
99 538 0.58
100 221 0.24
101 163 0.18
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (99 bp):
ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
TTGAAGCTACGACGGCGAATCTTGCTTCCCCGAC
Found at i:69613810 original size:12 final size:12
Alignment explanation
Indices: 69613793--69613817 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69613783 TATCCTTAAA
69613793 ACATATATATAT
1 ACATATATATAT
69613805 ACATATATATAT
1 ACATATATATAT
69613817 A
1 A
69613818 TTTTTTCATA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:69624200 original size:15 final size:14
Alignment explanation
Indices: 69624180--69624216 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
69624170 TGATTAATAG
69624180 TTAATTAATTAAAC
1 TTAATTAATTAAAC
69624194 TTAAATTAATTAAAC
1 TT-AATTAATTAAAC
69624209 TTAATTAA
1 TTAATTAA
69624217 CTCATCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAATTAATTAAAC
Found at i:69629495 original size:31 final size:29
Alignment explanation
Indices: 69629434--69629495 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
69629424 AAAATTAAAG
69629434 GATTAAATTTCTAAAAGTAAAAATACAAA
1 GATTAAATTTCTAAAAGTAAAAATACAAA
*
69629463 GATTAAATTTC-AAATGTACGAAAACTACAAA
1 GATTAAATTTCTAAAAGTA--AAAA-TACAAA
69629494 GA
1 GA
69629496 ATAGGGTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 6 0.21
29 11 0.38
30 4 0.14
31 8 0.28
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (29 bp):
GATTAAATTTCTAAAAGTAAAAATACAAA
Found at i:69630494 original size:15 final size:15
Alignment explanation
Indices: 69630476--69630505 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
69630466 ATTAATAGTT
69630476 AATTAATTAAACTTA
1 AATTAATTAAACTTA
69630491 AATTAATTAAACTTA
1 AATTAATTAAACTTA
69630506 GTTAACTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTAATTAAACTTA
Found at i:69639441 original size:31 final size:30
Alignment explanation
Indices: 69639371--69639443 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
69639361 TATGATATGA
* *
69639371 TAATTAAATTAAATTAATTATTATTTAATG
1 TAATTAAATTAAATTAAATATTATATAATG
* * *
69639401 TGATTAAATTAAATTAAAATGTTATATATTG
1 TAATTAAATTAAATT-AAATATTATATAATG
69639432 TAATTAAATTAA
1 TAATTAAATTAA
69639444 GGTAATAGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 14 0.39
31 22 0.61
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (30 bp):
TAATTAAATTAAATTAAATATTATATAATG
Found at i:69639542 original size:31 final size:31
Alignment explanation
Indices: 69639500--69639578 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
69639490 TTTTTAGTAG
*
69639500 TTAATAAGGATATTTTAGGTAACATAAAAAA
1 TTAATAGGGATATTTTAGGTAACATAAAAAA
** *
69639531 TTAATAGGGATATTTTAGGTAGTATCAAAAA
1 TTAATAGGGATATTTTAGGTAACATAAAAAA
* * *
69639562 TCAATAGAGATAATTTA
1 TTAATAGGGATATTTTA
69639579 TTCCTTAGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.34
Consensus pattern (31 bp):
TTAATAGGGATATTTTAGGTAACATAAAAAA
Found at i:69641759 original size:28 final size:29
Alignment explanation
Indices: 69641728--69641786 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
69641718 AAAAAATATA
*
69641728 TTTTATAT-ACTTT-TAATAATTTTTAATT
1 TTTTAAATAACTTTATAAT-ATTTTTAATT
*
69641756 TTTTAAATAACTTTATAATTTTTTTAATT
1 TTTTAAATAACTTTATAATATTTTTAATT
69641785 TT
1 TT
69641787 CCAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 7 0.26
29 16 0.59
30 4 0.15
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTAAATAACTTTATAATATTTTTAATT
Found at i:69641764 original size:19 final size:19
Alignment explanation
Indices: 69641738--69641779 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
69641728 TTTTATATAC
*
69641738 TTTTAATAA-TTTTTAATT
1 TTTTAATAACTTTATAATT
69641756 TTTTAAATAACTTTATAATT
1 TTTT-AATAACTTTATAATT
69641776 TTTT
1 TTTT
69641780 TAATTTTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 5 0.24
20 12 0.57
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTAATAACTTTATAATT
Found at i:69642510 original size:2 final size:2
Alignment explanation
Indices: 69642505--69642531 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
69642495 ACAAAAGTTT
69642505 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
69642532 TAGTATTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:69642862 original size:2 final size:2
Alignment explanation
Indices: 69642855--69642902 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
69642845 ATTCAAAACA
69642855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69642897 AT AT AT
1 AT AT AT
69642903 GGGAAAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69645870 original size:187 final size:191
Alignment explanation
Indices: 69645551--69645899 Score: 472
Period size: 187 Copynumber: 1.8 Consensus size: 191
69645541 TTGAAGAACC
* * ** * *
69645551 AAATTATGTCAAAATTAAAATATAGATATTTAAAGCTCACATTTGAGCGAAATATAGGGATCGAA
1 AAATTATATCAAAATTAAAATATAGAAAACTAAAGCTCAAATTTGAGCGAAATATAGGGATCAAA
* * * * **
69645616 ATTGAAATTTAACCACTTTTATATAATCTTAAGAAAGTAGATGGATTAGAATTGAAATTGGCCAT
66 ATTGAAATTTAACCACTTTTATATAATCTTAAAAAAGTAGAGGGATTAAAATTAAAATTAACCAT
*
69645681 TATTT-TCTCATGTCAAAA-GAAAAAAAAGAAAAGAAAAGAAAAAGTATGAATAGGTGTCT
131 TATTTCCCTCATGTCAAAAGGAAAAAAAAGAAAAGAAAAGAAAAAGTATGAATAGGTGTCT
* * * *
69645740 AAATTATATCAAAATTAAAGTATA-AAAACTAAATCTCAAATTTGAGTGTAATATA-GGATCAAA
1 AAATTATATCAAAATTAAAATATAGAAAACTAAAGCTCAAATTTGAGCGAAATATAGGGATCAAA
** * *
69645803 ATTGAAATTTAATTATTTTTATATAATCTTAAAAAAGTATAGGGATTAAAATTAAAATTAACCAT
66 ATTGAAATTTAACCACTTTTATATAATCTTAAAAAAGTAGAGGGATTAAAATTAAAATTAACCAT
*
69645868 TATTTCCCTCATGTCAAAAGGAAAGAAAAGAA
131 TATTTCCCTCATGTCAAAAGGAAAAAAAAGAA
69645900 TGGACAGGTA
Statistics
Matches: 136, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
187 67 0.49
188 36 0.26
189 33 0.24
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (191 bp):
AAATTATATCAAAATTAAAATATAGAAAACTAAAGCTCAAATTTGAGCGAAATATAGGGATCAAA
ATTGAAATTTAACCACTTTTATATAATCTTAAAAAAGTAGAGGGATTAAAATTAAAATTAACCAT
TATTTCCCTCATGTCAAAAGGAAAAAAAAGAAAAGAAAAGAAAAAGTATGAATAGGTGTCT
Found at i:69647577 original size:20 final size:20
Alignment explanation
Indices: 69647552--69647599 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
69647542 TATTTTCTTA
*
69647552 ATTTTTAAATAAATATTTAT
1 ATTTTTAAACAAATATTTAT
** *
69647572 ATTTTTAAACATTTTTTTAT
1 ATTTTTAAACAAATATTTAT
69647592 ATTTTTAA
1 ATTTTTAA
69647600 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTTAAACAAATATTTAT
Found at i:69648557 original size:44 final size:42
Alignment explanation
Indices: 69648488--69648682 Score: 169
Period size: 44 Copynumber: 4.5 Consensus size: 42
69648478 AACCACCGAT
** *
69648488 AAATTTGCAGATAAACTGCTGTTGGGCTATGGATACACAGCA
1 AAATTTGCAGATAAACTGCCATTGGGCTGTGGATACACAGCA
* * *
69648530 AAATTTGCAAATGAGAACTGCCATTGGGTTGTGGATGCACAGCA
1 AAATTTGCAGAT-A-AACTGCCATTGGGCTGTGGATACACAGCA
** * * * * *
69648574 AAATTCACAGATAATATCTACTAGTGGGTTGTGGATACACAACA
1 AAATTTGCAGATAA-A-CTGCCATTGGGCTGTGGATACACAGCA
* *
69648618 AAATTTCGCA-ATTAAAATCTGCCACT-GGCTGTGGATGCACAGCA
1 AAATTT-GCAGA-T-AAA-CTGCCATTGGGCTGTGGATACACAGCA
69648662 AAATTTGCAGATAAACTGCCA
1 AAATTTGCAGATAAACTGCCA
69648683 CTCTTCCTCC
Statistics
Matches: 123, Mismatches: 22, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
41 6 0.05
42 15 0.12
43 7 0.06
44 83 0.67
45 10 0.08
46 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (42 bp):
AAATTTGCAGATAAACTGCCATTGGGCTGTGGATACACAGCA
Found at i:69648801 original size:38 final size:38
Alignment explanation
Indices: 69648759--69648898 Score: 190
Period size: 38 Copynumber: 3.7 Consensus size: 38
69648749 TCAACACTAG
*
69648759 CAATAGGCATGTTTAACATGTACTCAATTCATTATTAA
1 CAATAGACATGTTTAACATGTACTCAATTCATTATTAA
* *
69648797 CAATAGACATGTTTAACTTGTACTCAATTCATTAATAA
1 CAATAGACATGTTTAACATGTACTCAATTCATTATTAA
* * *
69648835 CAGTAGACATGTTTAATACGTACTCAATTCATTATTAA
1 CAATAGACATGTTTAACATGTACTCAATTCATTATTAA
* * * *
69648873 CAGTAGACATGCTTATCATGTTCTCA
1 CAATAGACATGTTTAACATGTACTCA
69648899 GTAGGGCGGT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 89 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (38 bp):
CAATAGACATGTTTAACATGTACTCAATTCATTATTAA
Found at i:69650721 original size:22 final size:22
Alignment explanation
Indices: 69650703--69650744 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
69650693 TAAATTTGTT
*
69650703 ATTTATATATATATTATTTTCA
1 ATTTATATATATATAATTTTCA
*
69650725 ATTTTTATATATATAATTTT
1 ATTTATATATATATAATTTT
69650745 TAAGGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTATATATATATAATTTTCA
Found at i:69650753 original size:24 final size:22
Alignment explanation
Indices: 69650708--69650756 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
69650698 TTGTTATTTA
* *
69650708 TATATATATTATTTTCAATTTT
1 TATATATATAATTTTCAAGTTT
*
69650730 TATATATATAATTTTTAAGGTTT
1 TATATATATAATTTTCAA-GTTT
69650753 TATA
1 TATA
69650757 ATTTATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TATATATATAATTTTCAAGTTT
Found at i:69657924 original size:20 final size:20
Alignment explanation
Indices: 69657899--69657939 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
69657889 AACACTCAGA
69657899 AGGGGCCTGTCATCCCTTTC
1 AGGGGCCTGTCATCCCTTTC
69657919 AGGGGCCTGTCATCCCTTTC
1 AGGGGCCTGTCATCCCTTTC
69657939 A
1 A
69657940 ACCAGCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.34, G:0.24, T:0.29
Consensus pattern (20 bp):
AGGGGCCTGTCATCCCTTTC
Found at i:69660574 original size:17 final size:18
Alignment explanation
Indices: 69660545--69660578 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
69660535 TAAATCTAGC
69660545 TATTAATTTTGACATTTT
1 TATTAATTTTGACATTTT
69660563 TATTAA-TTTGACATTT
1 TATTAATTTTGACATTT
69660579 ATTTGTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (18 bp):
TATTAATTTTGACATTTT
Found at i:69661019 original size:33 final size:35
Alignment explanation
Indices: 69660967--69661041 Score: 136
Period size: 33 Copynumber: 2.2 Consensus size: 35
69660957 TTATACCTAA
69660967 TTAAATCTATTTTTTATTTTATGTTTTCTTTTGTT
1 TTAAATCTATTTTTTATTTTATGTTTTCTTTTGTT
69661002 TTAAA-CTA-TTTTTATTTTATGTTTTCTTTTGTT
1 TTAAATCTATTTTTTATTTTATGTTTTCTTTTGTT
69661035 TTAAATC
1 TTAAATC
69661042 ATTGTCTCGT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
33 30 0.77
34 4 0.10
35 5 0.13
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (35 bp):
TTAAATCTATTTTTTATTTTATGTTTTCTTTTGTT
Found at i:69665634 original size:11 final size:11
Alignment explanation
Indices: 69665635--69665686 Score: 61
Period size: 11 Copynumber: 4.5 Consensus size: 11
69665625 TATTTTAAAA
69665635 TTAAAAA-ATAT
1 TTAAAAATAT-T
69665646 TTAAAAATATT
1 TTAAAAATATT
69665657 TTAAAAAAGTATT
1 TT-AAAAA-TATT
*
69665670 TTAAAAGTATT
1 TTAAAAATATT
69665681 TTAAAA
1 TTAAAA
69665687 TTAAAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 20 0.54
12 11 0.30
13 6 0.16
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:69665642 original size:18 final size:18
Alignment explanation
Indices: 69665619--69665653 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
69665609 ATAAATACCA
*
69665619 AAAAAATATTTTAAAATT
1 AAAAAATATTTAAAAATT
69665637 AAAAAATATTTAAAAAT
1 AAAAAATATTTAAAAAT
69665654 ATTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAAATATTTAAAAATT
Found at i:69665672 original size:24 final size:23
Alignment explanation
Indices: 69665635--69665704 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 23
69665625 TATTTTAAAA
69665635 TTAAAAAATA-TTTAAAAATATT
1 TTAAAAAATATTTTAAAAATATT
*
69665657 TTAAAAAAGTATTTTAAAAGTATT
1 TTAAAAAA-TATTTTAAAAATATT
*
69665681 TTAAAATTAAAAATTTTAAAAATA
1 TT-AAA--AAATATTTTAAAAATA
69665705 AATATATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 8 0.20
23 2 0.05
24 13 0.32
25 3 0.08
26 11 0.28
27 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (23 bp):
TTAAAAAATATTTTAAAAATATT
Found at i:69673006 original size:15 final size:14
Alignment explanation
Indices: 69672975--69673018 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
69672965 GATTGATTAG
69672975 ATTAAAAAATTATTAA
1 ATTAAAAAATTA--AA
69672991 ATTTTAAAAAATTAAA
1 A--TTAAAAAATTAAA
69673007 ATTAAAAAATTA
1 ATTAAAAAATTA
69673019 GTTTAATCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.42
16 4 0.15
18 11 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTAAAAAATTAAA
Found at i:69675797 original size:15 final size:16
Alignment explanation
Indices: 69675762--69675801 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
69675752 AAATTTCTTA
69675762 AAATATCAAATACATCC
1 AAATATCAAATACA-CC
*
69675779 AAATATTAAATAC-CC
1 AAATATCAAATACACC
69675794 AAATATCA
1 AAATATCA
69675802 TGCACGTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATATCAAATACACC
Found at i:69676046 original size:51 final size:51
Alignment explanation
Indices: 69675986--69676099 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 51
69675976 ATTGGCCTGA
* ** * * *
69675986 TAACAAATTTAG-TCTTCAA-AGTTTCCATATTTTATCAATTTGGTCTTGATT
1 TAACAAATTTAGTTC-GCAACA-TTTCCATATGCTATCAATCTGATCCTGATT
*
69676037 TAACAAATTTAGTTCGCAACATTTTCATATGCTATCAATCTGATCCTGATT
1 TAACAAATTTAGTTCGCAACATTTCCATATGCTATCAATCTGATCCTGATT
69676088 TAACAAATTTAG
1 TAACAAATTTAG
69676100 CCCGTAATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 51 0.94
52 3 0.06
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (51 bp):
TAACAAATTTAGTTCGCAACATTTCCATATGCTATCAATCTGATCCTGATT
Found at i:69685695 original size:17 final size:17
Alignment explanation
Indices: 69685673--69685705 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
69685663 TTTATTTTGT
69685673 CAATGAAAACTCCACAA
1 CAATGAAAACTCCACAA
69685690 CAATGAAAACTCCACA
1 CAATGAAAACTCCACA
69685706 GGCAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.30, G:0.06, T:0.12
Consensus pattern (17 bp):
CAATGAAAACTCCACAA
Found at i:69687472 original size:78 final size:78
Alignment explanation
Indices: 69687343--69687499 Score: 296
Period size: 78 Copynumber: 2.0 Consensus size: 78
69687333 TTGCCAAGTC
*
69687343 TCTCAAACTTCAAAAATTTCAACTATATAATAAAATCTAAATGTTAGGTCTTTTTTAGATAGTTT
1 TCTCAAACTTCAAAAATTTCAACTATATAATAAAATCTAAATGTTAGGTCTTTTTTAGAGAGTTT
69687408 TAAATTCTGGGTT
66 TAAATTCTGGGTT
*
69687421 TCTCAAACTTCAGAAATTTCAACTATATAATAAAATCTAAATGTTAGGTCTTTTTTAGAGAGTTT
1 TCTCAAACTTCAAAAATTTCAACTATATAATAAAATCTAAATGTTAGGTCTTTTTTAGAGAGTTT
69687486 TAAATTCTGGGTT
66 TAAATTCTGGGTT
69687499 T
1 T
69687500 TTCTTTTTTG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (78 bp):
TCTCAAACTTCAAAAATTTCAACTATATAATAAAATCTAAATGTTAGGTCTTTTTTAGAGAGTTT
TAAATTCTGGGTT
Found at i:69701206 original size:9 final size:10
Alignment explanation
Indices: 69701171--69701213 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
69701161 TTGAGGTTTT
69701171 TATATATTTA
1 TATATATTTA
* *
69701181 TTTTTATTTA
1 TATATATTTA
69701191 TATATATTTA
1 TATATATTTA
*
69701201 -ATATATTTT
1 TATATATTTA
69701210 TATA
1 TATA
69701214 ATAGAAAGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATATATTTA
Found at i:69703107 original size:3 final size:3
Alignment explanation
Indices: 69703099--69703149 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
69703089 AAATTTGAGT
69703099 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
69703147 TAA
1 TAA
69703150 AGTACAACCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:69710512 original size:16 final size:16
Alignment explanation
Indices: 69710480--69710509 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
69710470 AATCCTGCAT
69710480 ATTTATTGAAAATTTA
1 ATTTATTGAAAATTTA
69710496 ATTTATT-AAAATTT
1 ATTTATTGAAAATTT
69710510 TAAATGAGGG
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:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATTTATTGAAAATTTA
Found at i:69712129 original size:20 final size:20
Alignment explanation
Indices: 69712104--69712147 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
69712094 AATTGTTTAT
* *
69712104 ATATTTTTGAATTTTACACA
1 ATATTTTTAAAATTTACACA
69712124 ATA-TTTTAAAATTTACACA
1 ATATTTTTAAAATTTACACA
69712143 ATATT
1 ATATT
69712148 ATGGACTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (20 bp):
ATATTTTTAAAATTTACACA
Found at i:69713372 original size:17 final size:18
Alignment explanation
Indices: 69713339--69713379 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
69713329 TTGAAAAAAT
69713339 ATTTAATTTTGTATAATA
1 ATTTAATTTTGTATAATA
* *
69713357 ATTTAATTTT-TTTAATT
1 ATTTAATTTTGTATAATA
69713374 ATTTAA
1 ATTTAA
69713380 ACAATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
ATTTAATTTTGTATAATA
Found at i:69730927 original size:25 final size:25
Alignment explanation
Indices: 69730891--69730951 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
69730881 GCTCGTGGAT
* *
69730891 AAGGTTCGCATGAATGTTCGCATTA
1 AAGGTTCACATGAATGTTCGCAATA
*
69730916 AAGGTTCACATGACTGTTCGCAATA
1 AAGGTTCACATGAATGTTCGCAATA
*
69730941 AGGGTTCACAT
1 AAGGTTCACAT
69730952 AAGGGTTTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (25 bp):
AAGGTTCACATGAATGTTCGCAATA
Found at i:69731000 original size:21 final size:22
Alignment explanation
Indices: 69730976--69731032 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 22
69730966 TAATATACAT
*
69730976 AAGGGTTCACATAATAG-TTAA
1 AAGGGATCACATAATAGCTTAA
*
69730997 AA-GGATCACATATTAGCTTTAA
1 AAGGGATCACATAATAGC-TTAA
* *
69731019 AAGGAATCGCATAA
1 AAGGGATCACATAA
69731033 CAATTCACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 12 0.43
21 2 0.07
22 6 0.21
23 8 0.29
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (22 bp):
AAGGGATCACATAATAGCTTAA
Found at i:69731007 original size:20 final size:21
Alignment explanation
Indices: 69730982--69731032 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
69730972 ACATAAGGGT
69730982 TCACATAATAG-TTAAAAGGA
1 TCACATAATAGCTTAAAAGGA
*
69731002 TCACATATTAGCTTTAAAAGGAA
1 TCACATAATAGC-TTAAAAGG-A
*
69731025 TCGCATAA
1 TCACATAA
69731033 CAATTCACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 10 0.40
22 8 0.32
23 7 0.28
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (21 bp):
TCACATAATAGCTTAAAAGGA
Found at i:69732870 original size:58 final size:58
Alignment explanation
Indices: 69732776--69732896 Score: 172
Period size: 58 Copynumber: 2.1 Consensus size: 58
69732766 ATTCCAAAAA
* * *
69732776 TAATAAATTTAATATTAAATTTAATTTAATACTTATCTTAAT-AGTATTTTATTAATT
1 TAATAAACTTAATATTAAATTTAATCTAATACTTATCTTAATGAGTATTATATTAATT
* * *
69732833 TAATAAGACTTAATATTAAATTTAATCTAATATTTATCTTGATGATTATTATATTAATT
1 TAATAA-ACTTAATATTAAATTTAATCTAATACTTATCTTAATGAGTATTATATTAATT
69732892 TAATA
1 TAATA
69732897 TTAAAGTGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 6 0.11
58 32 0.57
59 18 0.32
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (58 bp):
TAATAAACTTAATATTAAATTTAATCTAATACTTATCTTAATGAGTATTATATTAATT
Found at i:69733401 original size:46 final size:46
Alignment explanation
Indices: 69733329--69733465 Score: 157
Period size: 46 Copynumber: 3.0 Consensus size: 46
69733319 TTTCCAACAG
* * *
69733329 GGTTCGCATAAAATTTACTAAAGGGTTCACATAACATTCACTAAGA
1 GGTTCGCATAACATTCACTAAGGGGTTCACATAACATTCACTAAGA
* * * *
69733375 TGTTCGCATAACATTCAGTAAGGGGTTCACACAACATTCACAAAGA
1 GGTTCGCATAACATTCACTAAGGGGTTCACATAACATTCACTAAGA
* * *** *
69733421 GGTTCGCATAACGTTCATTAAGGGGTTTGTATAACATTCATTAAG
1 GGTTCGCATAACATTCACTAAGGGGTTCACATAACATTCACTAAG
69733466 GGGGTCATGC
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (46 bp):
GGTTCGCATAACATTCACTAAGGGGTTCACATAACATTCACTAAGA
Found at i:69733461 original size:23 final size:23
Alignment explanation
Indices: 69733328--69733468 Score: 138
Period size: 23 Copynumber: 6.1 Consensus size: 23
69733318 TTTTCCAACA
* * *
69733328 GGGTTCGCATAAAATTTACTAAA
1 GGGTTCGCATAACATTCACTAAG
*
69733351 GGGTTCACATAACATTCACTAAG
1 GGGTTCGCATAACATTCACTAAG
** *
69733374 ATGTTCGCATAACATTCAGTAAG
1 GGGTTCGCATAACATTCACTAAG
* * *
69733397 GGGTTCACACAACATTCACAAAG
1 GGGTTCGCATAACATTCACTAAG
* * *
69733420 AGGTTCGCATAACGTTCATTAAG
1 GGGTTCGCATAACATTCACTAAG
* * *
69733443 GGGTTTGTATAACATTCATTAAG
1 GGGTTCGCATAACATTCACTAAG
69733466 GGG
1 GGG
69733469 GTCATGCGGT
Statistics
Matches: 94, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 94 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (23 bp):
GGGTTCGCATAACATTCACTAAG
Found at i:69734125 original size:26 final size:26
Alignment explanation
Indices: 69734060--69734131 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
69734050 CAACCAATAG
*
69734060 AGTCCACTGGGACAATAAAAATGGGGT
1 AGTCCA-TCGGACAATAAAAATGGGGT
***
69734087 AGTCTGCCGGGACAATAAAAATGGGGT
1 AGTCCATC-GGACAATAAAAATGGGGT
69734114 AGTCCATCGGACAATAAA
1 AGTCCATCGGACAATAAA
69734132 CACAGGGTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 10 0.27
27 27 0.73
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.18
Consensus pattern (26 bp):
AGTCCATCGGACAATAAAAATGGGGT
Found at i:69736516 original size:20 final size:20
Alignment explanation
Indices: 69736488--69736541 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
69736478 AAAATACCCT
*
69736488 AAACCCTAACCTTAAAATAA
1 AAACCCTAACCCTAAAATAA
*
69736508 AAACTCTAACCCTAAAAT--
1 AAACCCTAACCCTAAAATAA
*
69736526 AAGCCCTAACCCTAAA
1 AAACCCTAACCCTAAA
69736542 GAGAAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 14 0.47
20 16 0.53
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.19
Consensus pattern (20 bp):
AAACCCTAACCCTAAAATAA
Found at i:69736595 original size:30 final size:30
Alignment explanation
Indices: 69736559--69736617 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
69736549 AAGTAAAACA
* * *
69736559 CATCCAATTGGACAAATTTTTTGGAAAGCG
1 CATCCAACTGGACAAACTTTTTAGAAAGCG
*
69736589 CATCCAACTGGACGAACTTTTTAGAAAGC
1 CATCCAACTGGACAAACTTTTTAGAAAGC
69736618 TCGTCTAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (30 bp):
CATCCAACTGGACAAACTTTTTAGAAAGCG
Found at i:69737872 original size:15 final size:14
Alignment explanation
Indices: 69737844--69737885 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
69737834 AGTTAGCATT
69737844 TGGGTGGGGAGGGG
1 TGGGTGGGGAGGGG
*
69737858 TGGGTGGGGGGGGGG
1 TGGGT-GGGGAGGGG
*
69737873 TGGG-GTGGAGGGG
1 TGGGTGGGGAGGGG
69737886 AGGTTGAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 7 0.29
14 5 0.21
15 12 0.50
ACGTcount: A:0.05, C:0.00, G:0.81, T:0.14
Consensus pattern (14 bp):
TGGGTGGGGAGGGG
Found at i:69746763 original size:20 final size:19
Alignment explanation
Indices: 69746740--69746795 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
69746730 AAAAATAGAA
*
69746740 AAAAATTCCAAATATTTTT
1 AAAAATTCCAAATATTTAT
**
69746759 CAAAAATTTAAAATATTTAT
1 -AAAAATTCCAAATATTTAT
69746779 AAAAATTCCAAA-ATTTA
1 AAAAATTCCAAATATTTA
69746796 GAAATTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 5 0.16
19 10 0.32
20 16 0.52
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCCAAATATTTAT
Found at i:69782842 original size:13 final size:13
Alignment explanation
Indices: 69782826--69782851 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69782816 CTTTACATAT
69782826 TGTCTTCAACAGG
1 TGTCTTCAACAGG
69782839 TGTCTTCAACAGG
1 TGTCTTCAACAGG
69782852 CTCACACTTT
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:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:69785810 original size:20 final size:20
Alignment explanation
Indices: 69785785--69785828 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
69785775 CAATTAAAGT
69785785 AAAATGTTAAAAAAAATCTA
1 AAAATGTTAAAAAAAATCTA
69785805 AAAATGTTAAAAAAAATCTA
1 AAAATGTTAAAAAAAATCTA
69785825 AAAA
1 AAAA
69785829 ATTCTCTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAATGTTAAAAAAAATCTA
Found at i:69787318 original size:50 final size:50
Alignment explanation
Indices: 69787243--69787343 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
69787233 AGGATTAGGC
*
69787243 TGCACAAGTACAATCCATATAGAACTACTCTTCTTCTATTTGACATTGAT
1 TGCACAAGTACAATCAATATAGAACTACTCTTCTTCTATTTGACATTGAT
* *
69787293 TGCACAAGTAGAATCAATATAGAACTACTCTTCTTTTATTTGACATTGAT
1 TGCACAAGTACAATCAATATAGAACTACTCTTCTTCTATTTGACATTGAT
69787343 T
1 T
69787344 ATAATAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.38
Consensus pattern (50 bp):
TGCACAAGTACAATCAATATAGAACTACTCTTCTTCTATTTGACATTGAT
Found at i:69787466 original size:44 final size:44
Alignment explanation
Indices: 69787417--69787505 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
69787407 TAAACGTTAG
69787417 TGAATTTTCTTCTCCTCTTCCCATGGTTTTTTCCTAAAAAGGTT
1 TGAATTTTCTTCTCCTCTTCCCATGGTTTTTTCCTAAAAAGGTT
69787461 TGAATTTTCTTCTCCTCTTCCCATGGTTTTTTCCTAAAAAGGTT
1 TGAATTTTCTTCTCCTCTTCCCATGGTTTTTTCCTAAAAAGGTT
69787505 T
1 T
69787506 CCACGTAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.18, C:0.22, G:0.11, T:0.48
Consensus pattern (44 bp):
TGAATTTTCTTCTCCTCTTCCCATGGTTTTTTCCTAAAAAGGTT
Found at i:69792573 original size:11 final size:11
Alignment explanation
Indices: 69792557--69792662 Score: 70
Period size: 11 Copynumber: 10.4 Consensus size: 11
69792547 ATTTTTTTAA
69792557 TTTTAAAATAC
1 TTTTAAAATAC
69792568 TTTTAAAATAC
1 TTTTAAAATAC
69792579 TTTTATTAAAT--
1 TTTTA--AAATAC
*
69792590 TTTT-TAA-A-
1 TTTTAAAATAC
*
69792598 TTTTAAAATAT
1 TTTTAAAATAC
69792609 TTTTAAAATAC
1 TTTTAAAATAC
*
69792620 TTTTTAAAT--
1 TTTTAAAATAC
* *
69792629 TTTT---TTAA
1 TTTTAAAATAC
*
69792637 TTTTAAAATAT
1 TTTTAAAATAC
69792648 TTTTAAAATAC
1 TTTTAAAATAC
69792659 TTTT
1 TTTT
69792663 TTAATTTTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 22
0.72 0.08 0.21
Matches are distributed among these distances:
6 1 0.01
8 10 0.13
9 6 0.08
10 1 0.01
11 54 0.71
13 4 0.05
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:69792600 original size:41 final size:40
Alignment explanation
Indices: 69792547--69792694 Score: 226
Period size: 39 Copynumber: 3.6 Consensus size: 40
69792537 ATTATTTTTT
*
69792547 ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTATTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTT-TTAA
*
69792588 ATTTTTTAAATTTTAAAATATTTTTAAAATAC-TTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
69792627 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
*
69792667 TTTTTATTTTAATTTTTAAAATATTTTT
1 -ATTT-TTTTAA-TTTTAAAATATTTTT
69792695 TTGGTATTTA
Statistics
Matches: 99, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
39 35 0.35
40 10 0.10
41 33 0.33
42 6 0.06
43 15 0.15
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:69792603 original size:30 final size:29
Alignment explanation
Indices: 69792568--69792654 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
69792558 TTTAAAATAC
*
69792568 TTTTAAAATACTTTTATTAAAT-TTTTTAAA
1 TTTTAAAATA-TTTT-TAAAATATTTTTAAA
69792598 TTTTAAAATATTTTTAAAATACTTTTTAAA
1 TTTTAAAATATTTTTAAAATA-TTTTTAAA
** *
69792628 TTTT--TTTAATTTTAAAATATTTTTAAA
1 TTTTAAAATATTTTTAAAATATTTTTAAA
69792655 ATACTTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
27 8 0.16
28 17 0.33
29 4 0.08
30 22 0.43
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTTAAAATATTTTTAAAATATTTTTAAA
Found at i:69792705 original size:32 final size:32
Alignment explanation
Indices: 69792646--69792707 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
69792636 ATTTTAAAAT
*
69792646 ATTTTTAAAATACTTTTTTAATTTTTATTTTA
1 ATTTTTAAAATACTTTTTTAATATTTATTTTA
* **
69792678 ATTTTTAAAATATTTTTTTGGTATTTATTT
1 ATTTTTAAAATACTTTTTTAATATTTATTT
69792708 AAAAAAACGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (32 bp):
ATTTTTAAAATACTTTTTTAATATTTATTTTA
Found at i:69794763 original size:30 final size:28
Alignment explanation
Indices: 69794728--69794785 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
69794718 ATCTTTTCGC
69794728 TAAATTTAACTC-TCAACCTTTCGTAAAAAT
1 TAAATTTAAC-CATCAACCTTT--TAAAAAT
*
69794758 TAAATTTGACCATCAACCTTTTAAAAAT
1 TAAATTTAACCATCAACCTTTTAAAAAT
69794786 AGTCAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 7 0.27
29 1 0.04
30 18 0.69
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.36
Consensus pattern (28 bp):
TAAATTTAACCATCAACCTTTTAAAAAT
Found at i:69795103 original size:22 final size:22
Alignment explanation
Indices: 69795061--69795104 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
69795051 TTTTCATTAA
*
69795061 AAAAGATAAATTGACACTTTTT
1 AAAAGATAAATTGACAATTTTT
* *
69795083 AAAAGATTAA-TGACAAATTTT
1 AAAAGATAAATTGACAATTTTT
69795104 A
1 A
69795105 GTTCAAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (22 bp):
AAAAGATAAATTGACAATTTTT
Found at i:69798881 original size:18 final size:17
Alignment explanation
Indices: 69798860--69798896 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
69798850 TTTAGGATGA
*
69798860 TTTTATTTTAATATTTAT
1 TTTTATTTAAATA-TTAT
69798878 TTTTATTTAAATATTAT
1 TTTTATTTAAATATTAT
69798895 TT
1 TT
69798897 GTAAAGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTATTTAAATATTAT
Found at i:69798886 original size:17 final size:18
Alignment explanation
Indices: 69798860--69798896 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
69798850 TTTAGGATGA
69798860 TTTTATTTT-AATATTTAT
1 TTTTATTTTAAATA-TTAT
69798878 TTTTA-TTTAAATATTAT
1 TTTTATTTTAAATATTAT
69798895 TT
1 TT
69798897 GTAAAGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATTTTAAATATTAT
Found at i:69800431 original size:20 final size:20
Alignment explanation
Indices: 69800406--69800449 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
69800396 AACTCCTTTA
69800406 CTTTTCAATATTTTCAATTC
1 CTTTTCAATATTTTCAATTC
69800426 CTTTTCAATATTTTCAATTC
1 CTTTTCAATATTTTCAATTC
69800446 CTTT
1 CTTT
69800450 ACTGTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (20 bp):
CTTTTCAATATTTTCAATTC
Found at i:69800900 original size:20 final size:20
Alignment explanation
Indices: 69800875--69800912 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
69800865 CATATCTGGG
* *
69800875 ATTTTTATTTCTTTTTTTAA
1 ATTTTTAGTTATTTTTTTAA
69800895 ATTTTTAGTTATTTTTTT
1 ATTTTTAGTTATTTTTTT
69800913 TCTTTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (20 bp):
ATTTTTAGTTATTTTTTTAA
Found at i:69800928 original size:28 final size:29
Alignment explanation
Indices: 69800875--69800945 Score: 117
Period size: 29 Copynumber: 2.4 Consensus size: 29
69800865 CATATCTGGG
69800875 ATTTTTATTTCTTTTTTTAAATTTTTAGTT
1 ATTTTT-TTTCTTTTTTTAAATTTTTAGTT
69800905 ATTTTTTTTCTTTTTTTAAATTTTTAGTT
1 ATTTTTTTTCTTTTTTTAAATTTTTAGTT
*
69800934 -TTTTTTCTCTTT
1 ATTTTTTTTCTTT
69800946 CCCAATAACA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 11 0.28
29 23 0.57
30 6 0.15
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (29 bp):
ATTTTTTTTCTTTTTTTAAATTTTTAGTT
Found at i:69816048 original size:2 final size:2
Alignment explanation
Indices: 69816000--69816029 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
69815990 TGTATGAGAA
69816000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69816030 GATCTGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69820435 original size:9 final size:9
Alignment explanation
Indices: 69820415--69820444 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
69820405 AAAACTTTAG
69820415 ATTATTTATT
1 ATTATTT-TT
69820425 ATTATTTTT
1 ATTATTTTT
69820434 ATTATTTTT
1 ATTATTTTT
69820443 AT
1 AT
69820445 AACCCTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
ATTATTTTT
Found at i:69822827 original size:21 final size:20
Alignment explanation
Indices: 69822794--69822832 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
69822784 CGAAAAGTGG
* *
69822794 TTTTTTAATAAACGATTTGA
1 TTTTTTAAAAAACAATTTGA
69822814 TTTTATTAAAAAACAATTT
1 TTTT-TTAAAAAACAATTT
69822833 TGGTCCACGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
TTTTTTAAAAAACAATTTGA
Found at i:69825236 original size:8 final size:7
Alignment explanation
Indices: 69825223--69825266 Score: 51
Period size: 6 Copynumber: 6.7 Consensus size: 7
69825213 TTAAAAAGGT
69825223 ATAAATGA
1 ATAAAT-A
69825231 ATAAATA
1 ATAAATA
69825238 AT-AATA
1 ATAAATA
69825244 AT-AATA
1 ATAAATA
69825250 AT-AATA
1 ATAAATA
69825256 AT-AATA
1 ATAAATA
69825262 ATAAA
1 ATAAA
69825267 AGAAGATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 24 0.69
7 5 0.14
8 6 0.17
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (7 bp):
ATAAATA
Found at i:69825242 original size:3 final size:3
Alignment explanation
Indices: 69825234--69825265 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
69825224 TAAATGAATA
69825234 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
69825266 AAGAAGATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:69828367 original size:25 final size:24
Alignment explanation
Indices: 69828328--69828382 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
69828318 GGTTAATCGC
69828328 GTTTATTCTATTTTCATTTTTACTTT
1 GTTT-TTCTATTTTCATTTTTA-TTT
* * *
69828354 TTTTTTCTCTTTTCTTTTTTATTT
1 GTTTTTCTATTTTCATTTTTATTT
69828378 GTTTT
1 GTTTT
69828383 GTGAAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 7 0.28
25 15 0.60
26 3 0.12
ACGTcount: A:0.09, C:0.11, G:0.04, T:0.76
Consensus pattern (24 bp):
GTTTTTCTATTTTCATTTTTATTT
Found at i:69828905 original size:10 final size:10
Alignment explanation
Indices: 69828890--69828916 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
69828880 ATTATTACTA
69828890 TATTATTTAT
1 TATTATTTAT
69828900 TATTATTTAT
1 TATTATTTAT
69828910 TATTATT
1 TATTATT
69828917 CCTATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTATTTAT
Found at i:69828996 original size:27 final size:27
Alignment explanation
Indices: 69828939--69828996 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
69828929 CACGCATTTT
* ***
69828939 CTTTATATAGTATATATATACATATTT
1 CTTTATATAATATATATATACATAAAC
* *
69828966 CTTTATATAATATATATATTCTTAAAC
1 CTTTATATAATATATATATACATAAAC
69828993 CTTT
1 CTTT
69828997 TTAAATACAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (27 bp):
CTTTATATAATATATATATACATAAAC
Found at i:69830778 original size:16 final size:16
Alignment explanation
Indices: 69830757--69830787 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69830747 GTTTCACTTT
69830757 GACTGCATAGCATTTA
1 GACTGCATAGCATTTA
*
69830773 GACTGCATGGCATTT
1 GACTGCATAGCATTT
69830788 CATTATAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (16 bp):
GACTGCATAGCATTTA
Found at i:69833183 original size:20 final size:20
Alignment explanation
Indices: 69833142--69833183 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
69833132 GCAAATGTTC
* *
69833142 TTTCATTCTTTACAATTTTT
1 TTTCATTCCTTACAATTCTT
69833162 TTTCATTCCTT-CAGATTCTT
1 TTTCATTCCTTACA-ATTCTT
69833182 TT
1 TT
69833184 CTGCCAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.17, C:0.19, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTCATTCCTTACAATTCTT
Found at i:69835481 original size:45 final size:45
Alignment explanation
Indices: 69835417--69836319 Score: 382
Period size: 44 Copynumber: 19.8 Consensus size: 45
69835407 AGCAGGTTGA
*
69835417 AAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 AAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* *** * *
69835462 AAAGAAAGTAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
1 AAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* * *
69835506 AGAGATAA-CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATC
1 AAAGA-AAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* *** * *
69835551 GAAGGAAAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
1 -AA--AGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* * * * *
69835598 AGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATC
1 AAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* * ** ** *
69835643 GAAGAAAGCAGATCTTGTCTTCCCATACTTGTCTTCCCA-TACTGGT-
1 AAAGAAAGCAGATCTTGTCTTCCCATACTGGT-GGCGAAGTA--GATC
** ** **** ** * ** * * * *
69835689 AGCG-AAGCAGATCAAAGAAAGCAGAT-CTTGTCTTCATGTACTAGCGTG
1 AAAGAAAGCAGATC-TTGTCTTCCCATACTGGT-GGC--GAAGTAG-ATC
* * * *
69835737 AAGTAGATCAG-AGATACTAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATC
1 AA--AGA-AAGCAGAT-CT---T-GT--CTTCCCATACTGGTGGCGAAGTAGATC
* *** * *
69835791 AAAGAAAGTAGATCTTGTCTTCATGTACTGG-AGTGAAGTAGATC
1 AAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* * * ** *
69835835 AGAGATACCAGATCTTACCTTCCCATACTGGTGGCGAAGCAGATC
1 AAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* * *** * *
69835880 AAAGAAAGTAGATCTTTTCTTCATGTACTGG-CGTGAAGTAGATC
1 AAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* * * *
69835924 AGAGATAA-CAGATCTTGCCTTCCTATACTGGTGGCGAAGCAGATC
1 AAAGA-AAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* *** * *
69835969 GAAGGAAAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
1 -AA--AGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* * * *
69836016 AGAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATC
1 AAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
*** * * *
69836061 AAAGAAAGCAGATCTTGTCTTCATGTACTAG-CGTGAAGTAGATC
1 AAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* * * * *
69836105 AGAGATAA-CAAATCTTGCCTTCCCATACTGGTGGCGAAGCAGATTG
1 AAAGA-AAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA-TC
* *** * *
69836151 AAGGAAAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
1 AA--AGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* * * * * *
69836197 AGAGATACCAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATC
1 AAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
*** * * *
69836242 AAAGAAAGCAGATCTTGTCTTCATGTACTAG-CGTGAAGTAGATC
1 AAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
* * *
69836286 AGAGATA-CTAGATCTTGCCTTCCCATACTGGTGG
1 AAAGAAAGC-AGATCTTGTCTTCCCATACTGGTGG
69836320 NNNNNNNNNN
Statistics
Matches: 610, Mismatches: 202, Indels: 92
0.67 0.22 0.10
Matches are distributed among these distances:
43 1 0.00
44 227 0.37
45 226 0.37
46 16 0.03
47 40 0.07
48 67 0.11
50 1 0.00
51 8 0.01
52 10 0.02
54 3 0.00
55 3 0.00
57 4 0.01
58 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
AAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
Found at i:69835601 original size:92 final size:90
Alignment explanation
Indices: 69835419--69835664 Score: 406
Period size: 92 Copynumber: 2.7 Consensus size: 90
69835409 CAGGTTGAAA
* * * * *
69835419 AGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAG-AAAGTAGATCTTGTCTT
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAAGCAGATCTTGTCTT
69835483 CATGTACTGGCGTGAAGTAGATCAG
66 CATGTACTGGCGTGAAGTAGATCAG
69835508 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAA-G-AAAAGCAGATCTTGTC
69835573 TTCATGTACTGGCGTGAAGTAGATCAG
64 TTCATGTACTGGCGTGAAGTAGATCAG
*
69835600 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAG-AAAGCAGATCTTGTCTT
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAAGCAGATCTTGTCTT
69835664 C
66 C
69835665 CCATACTTGT
Statistics
Matches: 148, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
89 60 0.41
90 1 0.01
91 1 0.01
92 86 0.58
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (90 bp):
AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAAGCAGATCTTGTCTT
CATGTACTGGCGTGAAGTAGATCAG
Found at i:69835673 original size:14 final size:14
Alignment explanation
Indices: 69835656--69835685 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
69835646 GAAAGCAGAT
69835656 CTTGTCTTCCCATA
1 CTTGTCTTCCCATA
69835670 CTTGTCTTCCCATA
1 CTTGTCTTCCCATA
69835684 CT
1 CT
69835686 GGTAGCGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.37, G:0.07, T:0.43
Consensus pattern (14 bp):
CTTGTCTTCCCATA
Found at i:69835688 original size:59 final size:59
Alignment explanation
Indices: 69835611--69835723 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 59
69835601 GATACCAGAT
* *
69835611 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCCCATA
1 CTTGCCTTCCCATACTGGTAGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCCCATA
*
69835670 CTTGTCTTCCCATACTGGTAGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTC
1 CTTGCCTTCCCATACTGGTAGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTC
69835724 ATGTACTAGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
CTTGCCTTCCCATACTGGTAGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCCCATA
Found at i:69835772 original size:148 final size:150
Alignment explanation
Indices: 69835519--69835812 Score: 493
Period size: 148 Copynumber: 2.0 Consensus size: 150
69835509 GATAACAGAT
* *
69835519 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTG
1 CTTGCCTTCCCATACTGGTAGCGAAGCAGATCGAA-GAAAAAGCAGATCTTGTCTTCATGTACTA
* *
69835584 GCGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAA
65 GCGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAA
69835649 AGCAGATCTTGTCTTCCCATA
130 AGCAGATCTTGTCTTCCCATA
* *
69835670 CTTGTCTTCCCATACTGGTAGCGAAGCAGATC-AA-AGAAAGCAGATCTTGTCTTCATGTACTAG
1 CTTGCCTTCCCATACTGGTAGCGAAGCAGATCGAAGAAAAAGCAGATCTTGTCTTCATGTACTAG
*
69835733 CGTGAAGTAGATCAGAGATACTAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAA
66 CGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAA
*
69835798 GTAGATCTTGTCTTC
131 GCAGATCTTGTCTTC
69835813 ATGTACTGGA
Statistics
Matches: 135, Mismatches: 8, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
148 103 0.76
150 2 0.01
151 30 0.22
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (150 bp):
CTTGCCTTCCCATACTGGTAGCGAAGCAGATCGAAGAAAAAGCAGATCTTGTCTTCATGTACTAG
CGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAA
GCAGATCTTGTCTTCCCATA
Found at i:69835804 original size:89 final size:89
Alignment explanation
Indices: 69835670--69836319 Score: 1048
Period size: 89 Copynumber: 7.2 Consensus size: 89
69835660 TCTTCCCATA
* * *
69835670 CTTGTCTTCCCATACTGGTAGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCG
*
69835735 TGAAGTAGATCAGAGATACTAGAT
66 TGAAGTAGATCAGAGATACCAGAT
* * *
69835759 CTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAGTAGATCTTGTCTTCATGTACTGGAG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCG
69835824 TGAAGTAGATCAGAGATACCAGAT
66 TGAAGTAGATCAGAGATACCAGAT
* * *
69835848 CTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTTTCTTCATGTACTGGCG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCG
*
69835913 TGAAGTAGATCAGAGATAACAGAT
66 TGAAGTAGATCAGAGATACCAGAT
* *
69835937 CTTGCCTTCCTATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATC-AA--AGAAAGCAGATCTTGTCTTCATGTACTG
69836002 GCGTGAAGTAGATCAGAGATACCAGAT
63 GCGTGAAGTAGATCAGAGATACCAGAT
* *
69836029 CTTGTCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCG
* *
69836094 TGAAGTAGATCAGAGATAACAAAT
66 TGAAGTAGATCAGAGATACCAGAT
* *
69836118 CTTGCCTTCCCATACTGGTGGCGAAGCAGATTGAAGGAAAAAGCAGATCTTGTCTTCATGTACTG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGA-TCAA--AGAAAGCAGATCTTGTCTTCATGTACTG
69836183 GCGTGAAGTAGATCAGAGATACCAGAT
63 GCGTGAAGTAGATCAGAGATACCAGAT
* *
69836210 CTTGCCTTCCCATACTGGTGGTGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCG
*
69836275 TGAAGTAGATCAGAGATACTAGAT
66 TGAAGTAGATCAGAGATACCAGAT
69836299 CTTGCCTTCCCATACTGGTGG
1 CTTGCCTTCCCATACTGGTGG
69836320 NNNNNNNNNN
Statistics
Matches: 520, Mismatches: 35, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
89 349 0.67
90 5 0.01
91 5 0.01
92 161 0.31
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (89 bp):
CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCG
TGAAGTAGATCAGAGATACCAGAT
Found at i:69836065 original size:181 final size:181
Alignment explanation
Indices: 69835670--69836319 Score: 1112
Period size: 181 Copynumber: 3.6 Consensus size: 181
69835660 TCTTCCCATA
* *
69835670 CTTGTCTTCCCATACTGGTAGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
* *
69835735 TGAAGTAGATCAGAGATACTAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATC-AA--AGAA
66 TGAAGTAGATCAGAGATACTAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAA
* *
69835797 AGTAGATCTTGTCTTCATGTACTGGAGTGAAGTAGATCAGAGATACCAGAT
131 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
* * * *
69835848 CTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTTTCTTCATGTACTGGCG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
*
69835913 TGAAGTAGATCAGAGATAAC-AGATCTTGCCTTCCTATACTGGTGGCGAAGCAGATCGAAGGAAA
66 TGAAGTAGATCAGAGAT-ACTAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAA
69835977 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
130 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
*
69836029 CTTGTCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
* *
69836094 TGAAGTAGATCAGAGATAAC-AAATCTTGCCTTCCCATACTGGTGGCGAAGCAGATTGAAGGAAA
66 TGAAGTAGATCAGAGAT-ACTAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAA
69836158 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
130 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
*
69836210 CTTGCCTTCCCATACTGGTGGTGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
69836275 TGAAGTAGATCAGAGATACTAGATCTTGCCTTCCCATACTGGTGG
66 TGAAGTAGATCAGAGATACTAGATCTTGCCTTCCCATACTGGTGG
69836320 NNNNNNNNNN
Statistics
Matches: 445, Mismatches: 22, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
178 110 0.25
179 4 0.01
180 2 0.00
181 329 0.74
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (181 bp):
CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
TGAAGTAGATCAGAGATACTAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAA
AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
Found at i:69836252 original size:270 final size:267
Alignment explanation
Indices: 69835670--69836319 Score: 1066
Period size: 270 Copynumber: 2.4 Consensus size: 267
69835660 TCTTCCCATA
* *
69835670 CTTGTCTTCCCATACTGGTAGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
*
69835735 TGAAGTAGATCAGAGATACTAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAGT
66 TGAAGTAGATCAGAGATACTAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAGC
* * *
69835800 AGATCTTGTCTTCATGTACTGGAGTGAAGTAGATCAGAGATACCAGATCTTACCTTCCCATACTG
131 AGATCTTGTCTTCATGTACTAGAGTGAAGTAGATCAGAGATAACAAATCTTACCTTCCCATACTG
* * *
69835865 GTGGCGAAGCAGATCAAAGAAAGTAGATCTTTTCTTCATGTACTGGCGTGAAGTAGATCAGAGAT
196 GTGGCGAAGCAGATCAAAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGAT
69835930 AACAGAT
261 AACAGAT
* * *
69835937 CTTGCCTTCCTATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATC-AA--AGAAAGCAGATCTTGTCTTCATGTACTA
* * *
69836002 GCGTGAAGTAGATCAGAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCAAAGAA
63 GCGTGAAGTAGATCAGAGATACTAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAA
* *
69836067 AGCAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAGAGATAACAAATCTTGCCTTCCCATA
128 AGCAGATCTTGTCTTCATGTACTAGAGTGAAGTAGATCAGAGATAACAAATCTTACCTTCCCATA
*
69836132 CTGGTGGCGAAGCAGATTGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
193 CTGGTGGCGAAGCAGA-TCAA--AAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
*
69836197 AGAGATACCAGAT
255 AGAGATAACAGAT
*
69836210 CTTGCCTTCCCATACTGGTGGTGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
1 CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
69836275 TGAAGTAGATCAGAGATACTAGATCTTGCCTTCCCATACTGGTGG
66 TGAAGTAGATCAGAGATACTAGATCTTGCCTTCCCATACTGGTGG
69836320 NNNNNNNNNN
Statistics
Matches: 352, Mismatches: 25, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
267 29 0.08
268 2 0.01
270 235 0.67
271 3 0.01
272 2 0.01
273 81 0.23
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (267 bp):
CTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCG
TGAAGTAGATCAGAGATACTAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAGC
AGATCTTGTCTTCATGTACTAGAGTGAAGTAGATCAGAGATAACAAATCTTACCTTCCCATACTG
GTGGCGAAGCAGATCAAAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGAT
AACAGAT
Found at i:69836787 original size:45 final size:44
Alignment explanation
Indices: 69836723--69836999 Score: 250
Period size: 44 Copynumber: 6.2 Consensus size: 44
69836713 NNNNNNNNNN
* * **
69836723 AGATCAAAGATAA-CAGATCTTGTCTTCCCATACTGGTGGTGAAAC
1 AGATCGAAGA-AACCAGATCTTGTCTTCCCATACTGG-CGTGAAGT
* ***
69836768 AGATCGAAGAAAGCAGATCTTGTCTTCGTGTACTGGCGTGAAGT
1 AGATCGAAGAAACCAGATCTTGTCTTCCCATACTGGCGTGAAGT
* * *** *
69836812 AGATCAAAGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGT
1 AGATCGAAGAAACCAGATCTTGTCTTCCCATACTGGCGTGAAGT
* *** *
69836856 AGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGT
1 AGATCGAAGAAACCAGATCTTGTCTTCCCATACTGGCGTGAAGT
* * * * *
69836900 AGATCAAAGATACCCGATCTTGTCTTCCCATACTGGTGGCGAAGT
1 AGATCGAAGAAACCAGATCTTGTCTTCCCATACTGG-CGTGAAGT
* * * * *
69836945 AGATCGAAGAAAGCGGATCTTGTCTTCCCATACTGGTGACGAAGC
1 AGATCGAAGAAACCAGATCTTGTCTTCCCATACTGGCG-TGAAGT
69836990 AGATCGAAGA
1 AGATCGAAGA
69837000 TGGCGGATTT
Statistics
Matches: 198, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
44 116 0.59
45 82 0.41
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
AGATCGAAGAAACCAGATCTTGTCTTCCCATACTGGCGTGAAGT
Found at i:69836877 original size:88 final size:89
Alignment explanation
Indices: 69836723--69836971 Score: 365
Period size: 88 Copynumber: 2.8 Consensus size: 89
69836713 NNNNNNNNNN
* **
69836723 AGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAACAGATCGAAGAAAGCAGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCT
*
69836788 TGTCTTCGTGTACTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
*** * * *
69836812 AGATCAAAGATACCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAACAGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCT
*
69836876 TGTCTTCATGTATTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
* * *
69836900 AGATCAAAGATACCCGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCGGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCT
69836965 TGTCTTC
66 TGTCTTC
69836972 CCATACTGGT
Statistics
Matches: 139, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
88 77 0.55
89 62 0.45
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (89 bp):
AGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCT
TGTCTTCATGTACTGGCGTGAAGT
Found at i:69838308 original size:3 final size:3
Alignment explanation
Indices: 69838288--69838353 Score: 55
Period size: 3 Copynumber: 21.3 Consensus size: 3
69838278 GGGTCCCTTG
** *
69838288 TTA TTAA TTA TT- TTA TTA TTA AAA TTA TTTA TTT TTA TTA -TA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
69838333 TTTA TTA TTA TTGA TTA TTA T
1 -TTA TTA TTA TT-A TTA TTA T
69838354 CATATTTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 4 0.08
3 35 0.69
4 12 0.24
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:69838341 original size:10 final size:10
Alignment explanation
Indices: 69838311--69838353 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
69838301 TATTATTAAA
69838311 ATTATTTATT
1 ATTATTTATT
*
69838321 TTTA-TTA-T
1 ATTATTTATT
69838329 ATTATTTATT
1 ATTATTTATT
*
69838339 ATTATTGATT
1 ATTATTTATT
69838349 ATTAT
1 ATTAT
69838354 CATATTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 4 0.14
9 6 0.21
10 18 0.64
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTATTTATT
Found at i:69838343 original size:15 final size:15
Alignment explanation
Indices: 69838288--69838343 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
69838278 GGGTCCCTTG
* *
69838288 TTATTAATTATTTTA
1 TTATTTATTATTATA
**
69838303 TTA-TTAAAATTAT-
1 TTATTTATTATTATA
69838316 TTATTT-TTATTATA
1 TTATTTATTATTATA
69838330 TTATTTATTATTAT
1 TTATTTATTATTAT
69838344 TGATTATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
13 8 0.25
14 14 0.44
15 10 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTATTATTATA
Found at i:69838349 original size:22 final size:20
Alignment explanation
Indices: 69838289--69838350 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 20
69838279 GGTCCCTTGT
*
69838289 TATTAATTATTTTATTATTAA
1 TATTATTTATTTTATTATT-A
*
69838310 AATTATTTA-TTT-TTATTA
1 TATTATTTATTTTATTATTA
69838328 TATTATTTATTATTATTGATTA
1 TATTATTTATT-TTATT-ATTA
69838350 T
1 T
69838351 TATCATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 9 0.26
19 6 0.18
20 5 0.15
21 9 0.26
22 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTATTTATTTTATTATTA
Found at i:69838412 original size:33 final size:30
Alignment explanation
Indices: 69838370--69838444 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 30
69838360 TTCTATACAT
69838370 ATATATATATACGCATAGTTTTTTTTATATATA-
1 ATATATATATA-GC--A-TTTTTTTTATATATAG
69838403 ATATATATATGAGCATTTTTTTTATATATAG
1 ATATATATAT-AGCATTTTTTTTATATATAG
*
69838434 GTATATATATA
1 ATATATATATA
69838445 TTTTTAAGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
30 16 0.41
31 10 0.26
33 12 0.31
34 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (30 bp):
ATATATATATAGCATTTTTTTTATATATAG
Found at i:69854312 original size:19 final size:18
Alignment explanation
Indices: 69854276--69854314 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
69854266 TTTTTAAATT
* *
69854276 ATTATTTAATTAATTATA
1 ATTAATTAATTAAGTATA
69854294 ATTAATTAACTTAAGTATA
1 ATTAATTAA-TTAAGTATA
69854313 AT
1 AT
69854315 GCGAGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTAATTAATTAAGTATA
Found at i:69854448 original size:17 final size:18
Alignment explanation
Indices: 69854421--69854455 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
69854411 TAATTGGGTT
69854421 GAAATATAATTTAATTAA
1 GAAATATAATTTAATTAA
69854439 GAAA-ATAATTTAATTAA
1 GAAATATAATTTAATTAA
69854456 TTTATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
GAAATATAATTTAATTAA
Found at i:69858567 original size:109 final size:110
Alignment explanation
Indices: 69858373--69858582 Score: 287
Period size: 109 Copynumber: 1.9 Consensus size: 110
69858363 TTAAAGTTGC
* * * * * * *
69858373 ATAACAAGTGGTTAAAATCTAAACAATGAATCAAACCCCAAATTTGTGGTCTATTGATTGACTGC
1 ATAACAAATGATTAAAATCTAAACAATGAACCAAACCCCAAAGTTGTGATCCATTGATCGACTGC
*
69858438 CTATTTTCTATAAAAATAGCCTAAATTCGAGTCATCTATGCACCT
66 CTATTTTCTATAAAAATAGCCTAAATTCAAGTCATCTATGCACCT
* * * *
69858483 ATAACAAATGATTAAAATCTAAATAATGAACCAAACCGC-AAGTTGTGATCCATTGATCGAGTGT
1 ATAACAAATGATTAAAATCTAAACAATGAACCAAACCCCAAAGTTGTGATCCATTGATCGACTGC
* *
69858547 TTATTTTCTATAAAAATAGCCTAGATTCAAGTCATC
66 CTATTTTCTATAAAAATAGCCTAAATTCAAGTCATC
69858583 GATGTGCCTA
Statistics
Matches: 86, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
109 52 0.60
110 34 0.40
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (110 bp):
ATAACAAATGATTAAAATCTAAACAATGAACCAAACCCCAAAGTTGTGATCCATTGATCGACTGC
CTATTTTCTATAAAAATAGCCTAAATTCAAGTCATCTATGCACCT
Found at i:69860859 original size:8 final size:8
Alignment explanation
Indices: 69860848--69860878 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
69860838 TTTCAAAATA
69860848 TTATTTTT
1 TTATTTTT
69860856 TTATTTTT
1 TTATTTTT
*
69860864 TTATTTAT
1 TTATTTTT
69860872 TTATTTT
1 TTATTTT
69860879 CTCAATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
TTATTTTT
Found at i:69862657 original size:18 final size:17
Alignment explanation
Indices: 69862623--69862660 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
69862613 ATAATAATAA
*
69862623 ATAAAACAAATATATAT
1 ATAAAACAAAAATATAT
69862640 ATAAAACGAAAAATATAT
1 ATAAAAC-AAAAATATAT
69862658 ATA
1 ATA
69862661 TAAAGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (17 bp):
ATAAAACAAAAATATAT
Found at i:69866038 original size:106 final size:104
Alignment explanation
Indices: 69865901--69866112 Score: 302
Period size: 106 Copynumber: 2.0 Consensus size: 104
69865891 CTTAAACCTA
* * * *
69865901 TACTTTGAAACTTTAAAAGGGTATTTGGCTATTTGG-CTAA-AAGAGAAATCGAAACCCAGCTCA
1 TACTTGGAAACTTTAAAAGGATATTTGGCTATTTGGTCGAACAA-A-AAATCGAAACCCAGCACA
*
69865964 TTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCT
64 TTAGGGCACG-TTT-TCAAATTTCCAAACGCAAAATATTGCCT
*
69866007 TACTTGGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAAAAAATCGAAACCCAGCACAT
1 TACTTGGAAACTTTAAAAGGATATTTGGCTATTTGGTCGAAC-AAAAAATCGAAACCCAGCACAT
*
69866072 TAGGGCACGTTTTCAAATTTCCAAATGCAAAATATTGCCT
65 TAGGGCACGTTTTCAAATTTCCAAACGCAAAATATTGCCT
69866112 T
1 T
69866113 TATTATTTTT
Statistics
Matches: 96, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
105 27 0.28
106 36 0.38
107 30 0.31
108 1 0.01
109 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (104 bp):
TACTTGGAAACTTTAAAAGGATATTTGGCTATTTGGTCGAACAAAAAATCGAAACCCAGCACATT
AGGGCACGTTTTCAAATTTCCAAACGCAAAATATTGCCT
Found at i:69866876 original size:15 final size:16
Alignment explanation
Indices: 69866843--69866876 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
69866833 TTTATGCAAG
*
69866843 TATGTATATACACGTT
1 TATGTATATACAAGTT
69866859 TATGTATATA-AAGTT
1 TATGTATATACAAGTT
69866874 TAT
1 TAT
69866877 AAAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (16 bp):
TATGTATATACAAGTT
Found at i:69867222 original size:11 final size:11
Alignment explanation
Indices: 69867206--69867324 Score: 78
Period size: 11 Copynumber: 11.4 Consensus size: 11
69867196 ATTTTTTTAA
69867206 TTTTAAAATAT
1 TTTTAAAATAT
69867217 TTTTAAAATACT
1 TTTTAAAATA-T
**
69867229 TTTTTTAAT-T
1 TTTTAAAATAT
*
69867239 TTTT-TAA-A-
1 TTTTAAAATAT
69867247 TTTTAAAATAT
1 TTTTAAAATAT
*
69867258 TTTTAAAATAC
1 TTTTAAAATAT
69867269 TTTTAAAATACTT
1 TTTTAAAATA--T
*
69867282 TTTTTAAAT-T
1 TTTTAAAATAT
*
69867292 TTTT----TAA
1 TTTTAAAATAT
69867299 TTTTAAAATA-
1 TTTTAAAATAT
69867309 TTTTAAAATACT
1 TTTTAAAATA-T
69867321 TTTT
1 TTTT
69867325 TTAAGTTTTA
Statistics
Matches: 87, Mismatches: 7, Indels: 27
0.72 0.06 0.22
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
8 4 0.05
9 5 0.06
10 21 0.24
11 32 0.37
12 12 0.14
13 8 0.09
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:69867263 original size:52 final size:51
Alignment explanation
Indices: 69867205--69867324 Score: 197
Period size: 52 Copynumber: 2.3 Consensus size: 51
69867195 TATTTTTTTA
69867205 ATTTTAAAATATTTTTAAAATACTTTTTTT-AATTTTTTTAAATTTTAAAAT
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTT-AATTTTAAAAT
*
69867256 ATTTTTAAAATACTTTTAAAATACTTTTTTTAAATTTTTTTAATTTTAAAAT
1 A-TTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTTAATTTTAAAAT
69867308 ATTTTAAAATACTTTTT
1 ATTTTAAAATA-TTTTT
69867325 TTAAGTTTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
51 11 0.17
52 44 0.69
53 9 0.14
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (51 bp):
ATTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTTAATTTTAAAAT
Found at i:69867284 original size:41 final size:42
Alignment explanation
Indices: 69867197--69867348 Score: 161
Period size: 41 Copynumber: 3.6 Consensus size: 42
69867187 AATTTATTTA
* **
69867197 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT--
1 TTTTTTAAATTTTAAAATATTTTTAAAATAC-TTTTAAAATAC
69867238 TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTAAAATAC
1 TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTAAAATAC
** *
69867280 TTTTTTTAAATTTT--TTTAATTTTAAAATA-TTTTAAAATAC
1 -TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTAAAATAC
*
69867320 TTTTTTTAAGTTTTAAAATAAATTTTTAA
1 -TTTTTTAAATTTTAAAAT--ATTTTTAA
69867349 TATTTATTAA
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
40 31 0.33
41 42 0.45
42 1 0.01
43 13 0.14
44 7 0.07
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (42 bp):
TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTAAAATAC
Found at i:69868035 original size:5 final size:5
Alignment explanation
Indices: 69868025--69868051 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
69868015 GTGGATCCTC
69868025 CGGGT CGGGT CGGGT CGGGT CGGGT CG
1 CGGGT CGGGT CGGGT CGGGT CGGGT CG
69868052 ACGCGCGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.22, G:0.59, T:0.19
Consensus pattern (5 bp):
CGGGT
Found at i:69868414 original size:17 final size:17
Alignment explanation
Indices: 69868389--69868421 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
69868379 ACTTCGAATA
*
69868389 AAAATAAAAATAAAAAC
1 AAAACAAAAATAAAAAC
69868406 AAAACAAAAATAAAAA
1 AAAACAAAAATAAAAA
69868422 GAAGAGTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAACAAAAATAAAAAC
Found at i:69869143 original size:18 final size:18
Alignment explanation
Indices: 69869120--69869156 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
69869110 ACTACTGCTT
69869120 AGGGAGACAGAATCTGCA
1 AGGGAGACAGAATCTGCA
69869138 AGGGAGACAGAATCTGCA
1 AGGGAGACAGAATCTGCA
69869156 A
1 A
69869157 TCTTTAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.32, T:0.11
Consensus pattern (18 bp):
AGGGAGACAGAATCTGCA
Found at i:69869423 original size:44 final size:44
Alignment explanation
Indices: 69869375--69869711 Score: 202
Period size: 44 Copynumber: 7.7 Consensus size: 44
69869365 CTTCGATCTG
* * *
69869375 CTCCACTACTACTTAGGGAGACAAAATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
* * *
69869419 CTCCACTACTGCTTAGGGAGATAGGA-C-A-AATGACTTAAATCTGCTT
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAAT--CTTCAA-C--CTA
* * * *
69869465 CTCCACTA-T-CTT-GGGAAGATAAGAT-TCACCATCTTCGATCTG
1 CTCCACTACTGCTTAGGG-AGATAAGATCT-ACAATCTTCAACCTA
* * *
69869507 CTCCACTACTGCTTAGGGAGA-CAGAATCTTCAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAG-ATCTACAATCTTCAACCTA
* *
69869551 CTCCACTACTGCTTAGGGAGATAAGA-CT--AATGGCTTAAATCTGCTT
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAAT--CTTCAA-C--CTA
* * * *
69869597 CTCCACTA-T-CTT-GGGAAGATAAGAT-TCACCATCTTCGATCTG
1 CTCCACTACTGCTTAGGG-AGATAAGATCT-ACAATCTTCAACCTA
* * *
69869639 CTTCACTACTGCTTAGGGGGAT-AGAATCTGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAG-ATCTACAATCTTCAACCTA
* *
69869683 CTCCACTACTACTTAGGGAGATAGGATCT
1 CTCCACTACTGCTTAGGGAGATAAGATCT
69869712 GTAATCTTTA
Statistics
Matches: 222, Mismatches: 39, Indels: 64
0.68 0.12 0.20
Matches are distributed among these distances:
41 6 0.03
42 20 0.09
43 24 0.11
44 126 0.57
45 21 0.09
46 21 0.09
47 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
Found at i:69869522 original size:132 final size:132
Alignment explanation
Indices: 69869283--69869708 Score: 717
Period size: 132 Copynumber: 3.2 Consensus size: 132
69869273 GAGACAGAAT
*
69869283 CCTACTCCACTACTGCTTAGGGAGATAGGACTGATGGCTTAAATCTGCTTCTCCACTATCTTGGG
1 CCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGG
* * * *
69869348 AAGAGAAGATTCACGATCTTCGATCTGCTCCACTACTACTTAGGGAGACAAAATCTACAATCTTC
66 AAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTC
69869413 AA
131 AA
* *
69869415 CCTACTCCACTACTGCTTAGGGAGATAGGACAAATGACTTAAATCTGCTTCTCCACTATCTTGGG
1 CCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGG
* *
69869480 AAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTTCAATTTTC
66 AAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTC
69869545 AA
131 AA
*
69869547 CCTACTCCACTACTGCTTAGGGAGATAAGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGG
1 CCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGG
* * * *
69869612 AAGATAAGATTCACCATCTTCGATCTGCTTCACTACTGCTTAGGGGGATAGAATCTGCAATCTTC
66 AAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTC
69869677 AA
131 AA
*
69869679 CCTACTCCACTACTACTTAGGGAGATAGGA
1 CCTACTCCACTACTGCTTAGGGAGATAGGA
69869709 TCTGTAATCT
Statistics
Matches: 275, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 275 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (132 bp):
CCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGG
AAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTC
AA
Found at i:69869789 original size:62 final size:62
Alignment explanation
Indices: 69869722--69869843 Score: 149
Period size: 62 Copynumber: 2.0 Consensus size: 62
69869712 GTAATCTTTA
*
69869722 ATCTGCTTTGCTGCAAACT-ATGATGTCTTCGATCTACTTCACT-GTCAGTACAGGAAGGCAAG
1 ATCTGCTAT-CTGCAAACTGATGATGTCTTCGATCTACTTC-CTCGTCAGTACAGGAAGGCAAG
* ** * * *
69869784 ATCTGCTATCTTCAGTCTGATGGTGTCTTTGATCTACTTCGTCGTCAGTACAGGAAGGCA
1 ATCTGCTATCTGCAAACTGATGATGTCTTCGATCTACTTCCTCGTCAGTACAGGAAGGCA
69869844 GGGCTGGTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
61 7 0.14
62 44 0.86
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (62 bp):
ATCTGCTATCTGCAAACTGATGATGTCTTCGATCTACTTCCTCGTCAGTACAGGAAGGCAAG
Found at i:69870970 original size:89 final size:89
Alignment explanation
Indices: 69869827--69870971 Score: 1574
Period size: 89 Copynumber: 12.9 Consensus size: 89
69869817 CTACTTCGTC
* *
69869827 GTCAGTACAGGAAGGCAGGGCTGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
* *
69869892 CTGCTATCTTTAGTCTGCTCTGCT
66 CTGCTATCTTCAGTCTGCTCCGCT
* * *
69869916 GTCAGTACAGGAAGGTAAGGCTGGTGTCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGAT
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
*
69869981 CTGCTATCTTCAGTTTGCTCCGCT
66 CTGCTATCTTCAGTCTGCTCCGCT
* * * * * * *
69870005 GTCAGTACGGGAAGGCAAGGCTGGTGTCTTCGATATGCTTCGCTGTCAGTATAGGAAGGAAAAAT
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
*
69870070 CTGCTATTTTCAGTCTGCTCCGCT
66 CTGCTATCTTCAGTCTGCTCCGCT
* * *
69870094 GTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTACTTCGCAGTCAGTACAGGAAGGCAAGAT
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
*
69870159 CTGCTATCTTCAGTCTGCTCCGTT
66 CTGCTATCTTCAGTCTGCTCCGCT
* * * * * *
69870183 GTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGA-CATGCTTCGCTGTCAATATAGGAAGGTAAAA
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATC-TGCTTCGCCGTCAGTACAGGAAGGCAAGA
* * * *
69870247 TCTGCTATTTTAAATTTGCTCCGCT
65 TCTGCTATCTTCAGTCTGCTCCGCT
* *
69870272 GTCAGTACAGGAAGGCAAGGTTGGTTTCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGAT
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
69870337 CTGCTATCTTCAGTCTGCTCCGCT
66 CTGCTATCTTCAGTCTGCTCCGCT
* * *
69870361 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCACCGTTAGTACAGGAAAGCAAGAT
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
*
69870426 CTGCTATCTTCAGTCTGTTCCGCT
66 CTGCTATCTTCAGTCTGCTCCGCT
* *
69870450 GTCAGTACAGGAAGGCAAGGCGGGTTTCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGAT
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
* *
69870515 CTGCTATATTTAGTCTGCTCCGCT
66 CTGCTATCTTCAGTCTGCTCCGCT
* * * * * * *
69870539 GTCAGTACAGGAAGGCAAGGTTGGTGTCTCCGATCTGCTTCGCTGCCAGTATAGGAAGGCATGAT
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
* * * *
69870604 TTGCTATCTTTAGTCTACTTCGCT
66 CTGCTATCTTCAGTCTGCTCCGCT
* * * *
69870628 GTCAGTACAGGAAGGCAAGACTGGTTTCTTCGATCTGCTTCGCCGTTAGTACAGGGAGGCATGAT
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
*
69870693 CTGCTATCCTT-AGTCTGCTTCGCT
66 CTGCTAT-CTTCAGTCTGCTCCGCT
* * * * * * *
69870717 GTCAGTATAAGAAGGCAAGACTGGCTTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCATGAT
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
* * *
69870782 CTACTATCTTTAGTCTGCTTCGCT
66 CTGCTATCTTCAGTCTGCTCCGCT
* * * * * *
69870806 GTCAATATAGGAAGGCAAGACTGGTTTCTTTGATCTGCTTCGCCATCAGTACAGGAAGGCATGAT
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
69870871 CTGCTATCTTCAGTCTGCTCCGCT
66 CTGCTATCTTCAGTCTGCTCCGCT
* * *
69870895 GTCAGTACAGGAAGGTAAGACTAGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
1 GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
*
69870960 CTGCAATCTTCA
66 CTGCTATCTTCA
69870972 TTGATCTGTG
Statistics
Matches: 944, Mismatches: 108, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
88 4 0.00
89 936 0.99
90 4 0.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (89 bp):
GTCAGTACAGGAAGGCAAGGCTGGTTTCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGAT
CTGCTATCTTCAGTCTGCTCCGCT
Found at i:69873199 original size:25 final size:25
Alignment explanation
Indices: 69873146--69873217 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 25
69873136 GATTTGGAAG
* *
69873146 AAAGAATGAAAGAATAATTATTCATA
1 AAAGGATGAAAGAAT-ATTACTCATA
69873172 AAAGGATGAAAGAATATTAGCTCA-A
1 AAAGGATGAAAGAATATTA-CTCATA
*
69873197 AAATGATCGCAAAGATATATT
1 AAAGGAT-G-AAAGA-ATATT
69873218 TCATTAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
25 11 0.28
26 18 0.46
27 5 0.13
28 5 0.13
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAGGATGAAAGAATATTACTCATA
Found at i:69874639 original size:19 final size:19
Alignment explanation
Indices: 69874615--69874654 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
69874605 TTTAAAATAC
69874615 AAAACATGATGAAAACTAT
1 AAAACATGATGAAAACTAT
69874634 AAAACATGATGAAAACTAT
1 AAAACATGATGAAAACTAT
69874653 AA
1 AA
69874655 CTCAAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (19 bp):
AAAACATGATGAAAACTAT
Found at i:69877160 original size:6 final size:6
Alignment explanation
Indices: 69877149--69877187 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
69877139 TACTTCAGAA
* *
69877149 AAAAAT AAAAAT AAAAAT AAAAAT -GAAAC AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
69877188 CGAAGAGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 3 0.11
6 25 0.89
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:69882584 original size:16 final size:16
Alignment explanation
Indices: 69882563--69882594 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
69882553 TTCTTAAATT
69882563 TAATTTATACTTTTTA
1 TAATTTATACTTTTTA
69882579 TAATTTATACTTTTTA
1 TAATTTATACTTTTTA
69882595 AAAATATTTT
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:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTTATACTTTTTA
Found at i:69885651 original size:30 final size:30
Alignment explanation
Indices: 69885592--69885669 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
69885582 TGGACATTAC
* *
69885592 CATGCTTCAGCTGTGTT-CCTGGTTACTTG
1 CATGCTGCAGCTGTGTTGCATGGTTACTTG
*
69885621 CATGCTGCAGCTGTGTTGCATGGTTTCTTG
1 CATGCTGCAGCTGTGTTGCATGGTTACTTG
* *
69885651 CATGTTGCTGCTGTGTTGC
1 CATGCTGCAGCTGTGTTGC
69885670 CACCTTTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 16 0.37
30 27 0.63
ACGTcount: A:0.09, C:0.22, G:0.28, T:0.41
Consensus pattern (30 bp):
CATGCTGCAGCTGTGTTGCATGGTTACTTG
Found at i:69886253 original size:5 final size:5
Alignment explanation
Indices: 69886243--69886272 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
69886233 GAGCATTCGG
69886243 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA
69886273 AATTTTCGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
TCGAA
Found at i:69887890 original size:9 final size:9
Alignment explanation
Indices: 69887873--69887903 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
69887863 TCGAGTTGAT
69887873 TCGAATAAC
1 TCGAATAAC
*
69887882 TCGATTAAC
1 TCGAATAAC
69887891 TCGAATAAC
1 TCGAATAAC
69887900 TCGA
1 TCGA
69887904 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:69889298 original size:42 final size:44
Alignment explanation
Indices: 69889206--69889300 Score: 149
Period size: 46 Copynumber: 2.2 Consensus size: 44
69889196 TTTTTAAACT
*
69889206 ATTAATCGTTTGAATAAATAAAACATACACATGGATTAAATTAGC
1 ATTAATCATTTGAATAAATAAAACATACACATGGATTAAATTA-C
69889251 TATTAATCATTTGAATAAATAAAACATACACATGGATT-AATTA-
1 -ATTAATCATTTGAATAAATAAAACATACACATGGATTAAATTAC
69889294 ATTAATC
1 ATTAATC
69889301 CACAAGCAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
42 7 0.15
45 5 0.10
46 36 0.75
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (44 bp):
ATTAATCATTTGAATAAATAAAACATACACATGGATTAAATTAC
Found at i:69892118 original size:72 final size:72
Alignment explanation
Indices: 69892042--69892262 Score: 290
Period size: 72 Copynumber: 3.1 Consensus size: 72
69892032 GAATTGACAA
* *
69892042 TGGAATTTGTCCACTCAATTTGTTCCATCCCAATTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCCATCCCAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
69892107 ATGATCT
66 ATGATCT
* *
69892114 TGGAATTTGTCCCCTCAATTGGTT-C-TGCCACAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCC
1 TGGAATTTGTCCACTCAATTGGTTCCAT-CC-CAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCC
* *
69892177 CAACGAACT
64 CAATGATCT
*
69892186 TGGAATTTCTCCACTCAATTGGTTCTGCGAT---AAGTCTAAATGAGTGAGTTGCAAGAGGTTCC
1 TGGAATTTGTCCACTCAATTGGTTC--C-ATCCCAAGTCTAAATGAGTGAGTTGCAAGAGGTTCC
*
69892248 TCAATGATCT
63 CCAATGATCT
69892258 TGGAA
1 TGGAA
69892263 CCGGTCCTGA
Statistics
Matches: 130, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
70 1 0.01
71 3 0.02
72 124 0.95
75 1 0.01
77 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCCATCCCAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:69901000 original size:14 final size:14
Alignment explanation
Indices: 69900981--69901028 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
69900971 TTGTTTCACT
69900981 AAAAATAATTTTTA
1 AAAAATAATTTTTA
*
69900995 AAAAATGATTTTTA
1 AAAAATAATTTTTA
* * *
69901009 GAAAGTAATTTTTG
1 AAAAATAATTTTTA
69901023 AAAAAT
1 AAAAAT
69901029 GGTTAGAAGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:69907381 original size:72 final size:72
Alignment explanation
Indices: 69907275--69907423 Score: 201
Period size: 72 Copynumber: 2.1 Consensus size: 72
69907265 GAATTGACAA
* * * *
69907275 TGGAATTTGTCCACTCAATTGGTTATGCCACAAGTATAAATCAGTGAGTTGCAAGAGGTTACCCA
1 TGGAATTTGTCCACTCAAATGGTTACGCCACAAGTATAAATCACTAAGTTGCAAGAGGTTACCCA
69907340 ATGATCT
66 ATGATCT
* * * *
69907347 TGGAATTTGTCCACTCAAATGGTT-CGCCGTCAAGTCTAAATGACTAAGTTGCAAGAGGTTTCCC
1 TGGAATTTGTCCACTCAAATGGTTACGCC-ACAAGTATAAATCACTAAGTTGCAAGAGGTTACCC
*
69907411 AGTGATCT
65 AATGATCT
69907419 TGGAA
1 TGGAA
69907424 GCGGTCCTGA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
71 3 0.04
72 64 0.96
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAAATGGTTACGCCACAAGTATAAATCACTAAGTTGCAAGAGGTTACCCA
ATGATCT
Found at i:69909398 original size:32 final size:33
Alignment explanation
Indices: 69909335--69909402 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
69909325 ATAGTTAATT
* * * * *
69909335 TTTTTTGGTGTTTAGATAAATTTGTGTAAAATA
1 TTTTTTGATGTTTAAAAAAATTCGAGTAAAATA
69909368 TTTTTTGATGTTTAAAAAAATTCGAG-AAAATA
1 TTTTTTGATGTTTAAAAAAATTCGAGTAAAATA
69909400 TTT
1 TTT
69909403 CATAAAAGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 9 0.30
33 21 0.70
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (33 bp):
TTTTTTGATGTTTAAAAAAATTCGAGTAAAATA
Done.