Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 2 of 240
Found at i:534217 original size:33 final size:33
Alignment explanation
Indices: 534134--534226 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
534124 TTGTTGTGAT
* * * *
534134 GGTGGTGGGTACTGCGGAGGCTGCTGTTGAGCA
1 GGTGGTGGGTATTGCGGTGGCTGTTGCTGAGCA
*
534167 GGTAGTGGGTATTGCGGTGGCTGTTGCTGAGCA
1 GGTGGTGGGTATTGCGGTGGCTGTTGCTGAGCA
*
534200 GGTGGTGGGTATTGCGGTGGTTGTTGC
1 GGTGGTGGGTATTGCGGTGGCTGTTGC
534227 GGCGGGAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.10, C:0.12, G:0.48, T:0.30
Consensus pattern (33 bp):
GGTGGTGGGTATTGCGGTGGCTGTTGCTGAGCA
Found at i:549725 original size:52 final size:52
Alignment explanation
Indices: 549647--549753 Score: 214
Period size: 52 Copynumber: 2.1 Consensus size: 52
549637 TTAGAAATCC
549647 ATCTTATCTATTGAAAGACACTAATATATGCAAGTGATGCCTATGAATTTAG
1 ATCTTATCTATTGAAAGACACTAATATATGCAAGTGATGCCTATGAATTTAG
549699 ATCTTATCTATTGAAAGACACTAATATATGCAAGTGATGCCTATGAATTTAG
1 ATCTTATCTATTGAAAGACACTAATATATGCAAGTGATGCCTATGAATTTAG
549751 ATC
1 ATC
549754 CCTCTCCTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (52 bp):
ATCTTATCTATTGAAAGACACTAATATATGCAAGTGATGCCTATGAATTTAG
Found at i:559885 original size:35 final size:35
Alignment explanation
Indices: 559846--559919 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
559836 GTACAAAAAC
559846 CATGCATTTCCATGTGTTTTAGCTTTTGGATTTGG
1 CATGCATTTCCATGTGTTTTAGCTTTTGGATTTGG
559881 CATGCATTTCCATGTGTTTTAGCTTTTGGATTTGG
1 CATGCATTTCCATGTGTTTTAGCTTTTGGATTTGG
559916 CATG
1 CATG
559920 TATCTTGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.47
Consensus pattern (35 bp):
CATGCATTTCCATGTGTTTTAGCTTTTGGATTTGG
Found at i:562875 original size:4 final size:4
Alignment explanation
Indices: 562868--562926 Score: 55
Period size: 4 Copynumber: 14.8 Consensus size: 4
562858 TACATACATA
* * * * * *
562868 TATG TATG TATG CATG CATG CATG TATA TATG TAGG TATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
562916 TATG TGTG TAT
1 TATG TATG TAT
562927 ATGTGCTGGT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (4 bp):
TATG
Found at i:562900 original size:24 final size:24
Alignment explanation
Indices: 562872--562918 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
562862 TACATATATG
*
562872 TATGTATGCATGCATGCATGTATA
1 TATGTAGGCATGCATGCATGTATA
* *
562896 TATGTAGGTATGCATGTATGTAT
1 TATGTAGGCATGCATGCATGTAT
562919 GTGTGTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (24 bp):
TATGTAGGCATGCATGCATGTATA
Found at i:562906 original size:28 final size:28
Alignment explanation
Indices: 562865--562920 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
562855 ATATACATAC
*
562865 ATATATGTATGTATGCATGCATGCATGT
1 ATATATGTAGGTATGCATGCATGCATGT
* *
562893 ATATATGTAGGTATGCATGTATGTATGT
1 ATATATGTAGGTATGCATGCATGCATGT
562921 GTGTATATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (28 bp):
ATATATGTAGGTATGCATGCATGCATGT
Found at i:562920 original size:20 final size:20
Alignment explanation
Indices: 562869--562920 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
562859 ACATACATAT
* *
562869 ATGTATGTATGCATGCATGC
1 ATGTATGTATGTAGGCATGC
* *
562889 ATGTATATATGTAGGTATGC
1 ATGTATGTATGTAGGCATGC
562909 ATGTATGTATGT
1 ATGTATGTATGT
562921 GTGTATATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.40
Consensus pattern (20 bp):
ATGTATGTATGTAGGCATGC
Found at i:562926 original size:20 final size:20
Alignment explanation
Indices: 562869--562926 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
562859 ACATACATAT
** *
562869 ATGTATGTATGCATGCATGC
1 ATGTATGTATGTGTGTATGC
*
562889 ATGTATATATGTAG-GTATGC
1 ATGTATGTATGT-GTGTATGC
562909 ATGTATGTATGTGTGTAT
1 ATGTATGTATGTGTGTAT
562927 ATGTGCTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (20 bp):
ATGTATGTATGTGTGTATGC
Found at i:574098 original size:24 final size:25
Alignment explanation
Indices: 574071--574117 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
574061 TTTATGAATT
*
574071 TTTATAATTCTTTTTA-AATTTTGA
1 TTTATAATTATTTTTATAATTTTGA
**
574095 TTTATTTTTATTTTTATAATTTT
1 TTTATAATTATTTTTATAATTTT
574118 TAGATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTATAATTATTTTTATAATTTTGA
Found at i:577652 original size:22 final size:22
Alignment explanation
Indices: 577594--577644 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
577584 CTTGAACTTG
577594 AACAAAT-ATT-AA-TAATGAA
1 AACAAATAATTAAATTAATGAA
577613 AACAAATAATTAAATTAAT-AA
1 AACAAATAATTAAATTAATGAA
577634 AACAAA-AATTA
1 AACAAATAATTA
577645 TGAATTAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.24
20 8 0.28
21 10 0.34
22 4 0.14
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (22 bp):
AACAAATAATTAAATTAATGAA
Found at i:578036 original size:18 final size:18
Alignment explanation
Indices: 578013--578055 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
578003 TTAATTTCAA
*
578013 AAATTATAAAATATCAGT
1 AAATTATAAAATATCACT
578031 AAATTATAAAATATCACT
1 AAATTATAAAATATCACT
578049 AAATTAT
1 AAATTAT
578056 TTAAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (18 bp):
AAATTATAAAATATCACT
Found at i:579321 original size:17 final size:17
Alignment explanation
Indices: 579299--579332 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
579289 ATCCACTAAT
*
579299 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
579316 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
579333 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:583961 original size:17 final size:17
Alignment explanation
Indices: 583939--583972 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
583929 ATCCACTAAT
*
583939 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
583956 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
583973 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:587299 original size:8 final size:7
Alignment explanation
Indices: 587263--587292 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
587253 AAACATAAAA
587263 TTTAATT
1 TTTAATT
587270 TTTAATT
1 TTTAATT
587277 TTTAATT
1 TTTAATT
587284 TTTAATT
1 TTTAATT
587291 TT
1 TT
587293 AATATTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTAATT
Found at i:596651 original size:10 final size:9
Alignment explanation
Indices: 596627--596680 Score: 54
Period size: 9 Copynumber: 5.6 Consensus size: 9
596617 ATTTTTGGCA
*
596627 TTTTATTTT
1 TTTTCTTTT
596636 TTTTCTTTT
1 TTTTCTTTT
596645 TTATTCTTTT
1 TT-TTCTTTT
*
596655 AACTTTCTTTT
1 --TTTTCTTTT
596666 TTTTCTTTAT
1 TTTTCTTT-T
596676 TTTTC
1 TTTTC
596681 ATTCTCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
9 17 0.45
10 13 0.34
11 7 0.18
12 1 0.03
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:598756 original size:12 final size:12
Alignment explanation
Indices: 598739--598764 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
598729 GAATAAAATT
598739 ATAATTTTTTTA
1 ATAATTTTTTTA
598751 ATAATTTTTTTA
1 ATAATTTTTTTA
598763 AT
1 AT
598765 TAAAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATAATTTTTTTA
Found at i:599739 original size:40 final size:42
Alignment explanation
Indices: 599693--599773 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 42
599683 AAAACAGGAA
599693 AACGCTTCCTCAAG-GAAGCGC-TT-TGTCCACGTGGACAAAT
1 AACGCTTCCTCAAGAG-AGCGCTTTGTGTCCACGTGGACAAAT
** *
599733 AACGCTTCCTTGAGAGAGTGCTTTGTGTCCACGTGGACAAA
1 AACGCTTCCTCAAGAGAGCGCTTTGTGTCCACGTGGACAAA
599774 ATGCTTCCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 16 0.46
41 3 0.09
42 16 0.46
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (42 bp):
AACGCTTCCTCAAGAGAGCGCTTTGTGTCCACGTGGACAAAT
Found at i:600054 original size:19 final size:19
Alignment explanation
Indices: 600030--600066 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
600020 CTTCTACCGT
600030 TTAAAATATATATTAAATA
1 TTAAAATATATATTAAATA
* *
600049 TTAAAATTTATGTTAAAT
1 TTAAAATATATATTAAAT
600067 TCCATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TTAAAATATATATTAAATA
Found at i:600415 original size:13 final size:14
Alignment explanation
Indices: 600385--600422 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
600375 TTTTATTTTT
600385 AATTTATTATTAAAA
1 AATTTATT-TTAAAA
*
600400 AA-TTATTTTAATA
1 AATTTATTTTAAAA
600413 AATTTATTTT
1 AATTTATTTT
600423 TTACTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 7 0.33
14 12 0.57
15 2 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTATTTTAAAA
Found at i:600593 original size:48 final size:49
Alignment explanation
Indices: 600540--600696 Score: 139
Period size: 49 Copynumber: 3.3 Consensus size: 49
600530 AAACTTCAAT
*
600540 CTAATTT-TTTAAAAATTTATAATTAATTTACTCAAGTAATCCTAAACC
1 CTAATTTATTTAAAAATTTATAATTAATTTACTCAAGTAAACCTAAACC
* * ** **
600588 CTAATTTATTT--AATTTTTTCTTTAA-AAACTC---TAAACACTAAACC
1 CTAATTTATTTAAAAATTTATAATTAATTTACTCAAGTAAAC-CTAAACC
* * *
600632 CTAATCTATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACC
1 CTAA--T-TTATTTAAAAATTTATAATTAATTTACTCAAGTAAACCTAAACC
600684 CTAATTTATTTAA
1 CTAATTTATTTAA
600697 TTTTTTATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
43 4 0.05
44 11 0.14
46 5 0.06
47 15 0.19
48 7 0.09
49 19 0.23
50 5 0.06
52 11 0.14
53 4 0.05
ACGTcount: A:0.39, C:0.16, G:0.01, T:0.43
Consensus pattern (49 bp):
CTAATTTATTTAAAAATTTATAATTAATTTACTCAAGTAAACCTAAACC
Found at i:600725 original size:44 final size:44
Alignment explanation
Indices: 600581--600732 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 44
600571 TCAAGTAATC
*
600581 CTAAACCCTAATTTATTTAATTTTTTCTTTAAAAACTC-TAAACA
1 CTAAACCCTAATTTATTTAATTTTTTATTT-AAAACTCATAAACA
* * * *
600625 CTAAACCCTAATCTATTT-TTTTAAAATTTATAATTAATTTACTCA-AGTAACC
1 CTAAACCCTAATTTATTTAATTT----TTTAT--TTAA--AACTCATA--AACA
* *
600677 CTAAACCCTAATTTATTTAATTTTTTATTTAAAACCCATAAACT
1 CTAAACCCTAATTTATTTAATTTTTTATTTAAAACTCATAAACA
600721 CTAAACCCTAAT
1 CTAAACCCTAAT
600733 CTAATTTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 26
0.70 0.08 0.21
Matches are distributed among these distances:
43 3 0.04
44 32 0.38
45 4 0.05
46 1 0.01
47 8 0.09
48 2 0.02
49 7 0.08
50 5 0.06
52 20 0.24
53 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.01, T:0.41
Consensus pattern (44 bp):
CTAAACCCTAATTTATTTAATTTTTTATTTAAAACTCATAAACA
Found at i:600798 original size:98 final size:97
Alignment explanation
Indices: 600512--600799 Score: 402
Period size: 96 Copynumber: 3.0 Consensus size: 97
600502 TGATTTTTCC
* * * *
600512 TTAAAAATCCTAAATACTAAA-CTTCAATCTAATTTTTTAAAAATTTATAATTAATTTACTCAAG
1 TTAAAAACCCTAAACACTAAACCCT-AATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAG
* *
600576 TAATCCTAAACCCTAATTTATTTAATTTTTTCT
65 TAACCCTAAACCCTAATTTATTTAATTTTTTAT
*
600609 TTAAAAACTCTAAACACTAAACCCTAATCT-ATTTTTTTAAAATTTATAATTAATTTACTCAAGT
1 TTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGT
600673 AACCCTAAACCCTAATTTATTTAATTTTTTAT
66 AACCCTAAACCCTAATTTATTTAATTTTTTAT
* * *
600705 TT-AAAACCCATAAACTCTAAACCCTAATCTAATTTTTTTTAAAATTTATAATTAATTTAATTAA
1 TTAAAAACCC-TAAACACTAAACCCTAATCTAA-TTTTTTTAAAATTTATAATTAATTTACTCAA
* * * *
600769 GAAACCCTAAACGCTTATTTAATTAATTTTT
64 GTAACCCTAAACCCTAATTTATTTAATTTTT
600800 CCTTGAAACC
Statistics
Matches: 172, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
95 6 0.03
96 84 0.49
97 24 0.14
98 58 0.34
ACGTcount: A:0.40, C:0.15, G:0.01, T:0.43
Consensus pattern (97 bp):
TTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGT
AACCCTAAACCCTAATTTATTTAATTTTTTAT
Found at i:600960 original size:42 final size:40
Alignment explanation
Indices: 600905--600987 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
600895 CAAGGAAGCA
*
600905 CTGTCCATATGGACACAAAGCGCTCCCTCAAGGAAGCGTTTT
1 CTGTCCACATGG--ACAAAGCGCTCCCTCAAGGAAGCGTTTT
* * **
600947 CTGTCCACGTGGACAAAGCGCTTCCTTGAGGAAGCGTTTT
1 CTGTCCACATGGACAAAGCGCTCCCTCAAGGAAGCGTTTT
600987 C
1 C
600988 CTGCTTTATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
40 26 0.72
42 10 0.28
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CTGTCCACATGGACAAAGCGCTCCCTCAAGGAAGCGTTTT
Found at i:607124 original size:149 final size:150
Alignment explanation
Indices: 606852--607131 Score: 427
Period size: 149 Copynumber: 1.9 Consensus size: 150
606842 TGATCCATCT
* * *
606852 TACCAATTGTTGTATTATCGTTTGGAGATCATTAGTCGAACTTAAAAAAGAAACCTTAACAACCC
1 TACCAATTGTCGTATTATCGTTTGGAGATCATTAGCCGAACTTAAAAAAGAAAACTTAACAACCC
* *
606917 AGTGACTTAAACAAAAACTTTTAAATAGTGCAGTGACCATATTGTAACTTTTTGAAATTGAGTGA
66 AGTGACTTAAACAAAAACTTTTAAATAGTACAGTGACCATATTGTAACTTTTTAAAATTGAGTGA
606982 CCAAAACATAAATTTACTAC
131 CCAAAACATAAATTTACTAC
* * *
607002 TACCAATTGTCGTATTGTCGTTTGGAGATCATTAGCCGAACTTAAAAAA-AAAACTTAATAACTC
1 TACCAATTGTCGTATTATCGTTTGGAGATCATTAGCCGAACTTAAAAAAGAAAACTTAACAACCC
* * * * * *
607066 AGTGATTTAAACAAAAATTTTTGAATAGTACTGTGACCATGTTGTATCTTTTTAAAATTGAGTGA
66 AGTGACTTAAACAAAAACTTTTAAATAGTACAGTGACCATATTGTAACTTTTTAAAATTGAGTGA
607131 C
131 C
607132 ACACTAAAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
149 70 0.60
150 46 0.40
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (150 bp):
TACCAATTGTCGTATTATCGTTTGGAGATCATTAGCCGAACTTAAAAAAGAAAACTTAACAACCC
AGTGACTTAAACAAAAACTTTTAAATAGTACAGTGACCATATTGTAACTTTTTAAAATTGAGTGA
CCAAAACATAAATTTACTAC
Found at i:607943 original size:19 final size:19
Alignment explanation
Indices: 607919--607957 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
607909 AAAGTTCAAT
607919 GATTAAAAGAGGTGAAAAA
1 GATTAAAAGAGGTGAAAAA
607938 GATTAAAAGAGGTGAAAAA
1 GATTAAAAGAGGTGAAAAA
607957 G
1 G
607958 CTAACAGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.15
Consensus pattern (19 bp):
GATTAAAAGAGGTGAAAAA
Found at i:607966 original size:18 final size:19
Alignment explanation
Indices: 607922--607967 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
607912 GTTCAATGAT
*
607922 TAAAAGAGGTGAAAAAGAT
1 TAAAAGAGGTGAAAAAGAC
607941 TAAAAGAGGTGAAAAAG-C
1 TAAAAGAGGTGAAAAAGAC
*
607959 TAACAGAGG
1 TAAAAGAGG
607968 GCTAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.54, C:0.04, G:0.28, T:0.13
Consensus pattern (19 bp):
TAAAAGAGGTGAAAAAGAC
Found at i:615493 original size:3 final size:3
Alignment explanation
Indices: 615487--615522 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
615477 GGTTATCATC
615487 AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
615523 AGAATCCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:631309 original size:1 final size:1
Alignment explanation
Indices: 631303--631404 Score: 186
Period size: 1 Copynumber: 102.0 Consensus size: 1
631293 TTGTATGTTT
631303 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
**
631368 AAAAAAAAAAAAAAAAAAAAAAAAAAATGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
631405 TGAGTTAAAA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 98 1.00
ACGTcount: A:0.98, C:0.00, G:0.01, T:0.01
Consensus pattern (1 bp):
A
Found at i:635145 original size:19 final size:20
Alignment explanation
Indices: 635106--635143 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
635096 AATTTACGTT
635106 AAAATATTAATTTAAATTTA
1 AAAATATTAATTTAAATTTA
635126 AAAATA-TAATTTGAAATT
1 AAAATATTAATTT-AAATT
635144 AATTAATCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAATATTAATTTAAATTTA
Found at i:641185 original size:9 final size:9
Alignment explanation
Indices: 641171--641212 Score: 57
Period size: 9 Copynumber: 4.3 Consensus size: 9
641161 TTTTAAGAAA
641171 CAACAATAT
1 CAACAATAT
641180 CAACAATAT
1 CAACAATAT
641189 CAAGACAATAAT
1 C-A-ACAAT-AT
641201 CAACAATAT
1 CAACAATAT
641210 CAA
1 CAA
641213 TGTCGCGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 15 0.50
10 6 0.20
11 6 0.20
12 3 0.10
ACGTcount: A:0.57, C:0.21, G:0.02, T:0.19
Consensus pattern (9 bp):
CAACAATAT
Found at i:641204 original size:21 final size:20
Alignment explanation
Indices: 641173--641212 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
641163 TTAAGAAACA
641173 ACAATATCAACAATATCAAG
1 ACAATATCAACAATATCAAG
641193 ACAATAATCAACAATATCAA
1 ACAAT-ATCAACAATATCAA
641213 TGTCGCGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (20 bp):
ACAATATCAACAATATCAAG
Found at i:644687 original size:20 final size:21
Alignment explanation
Indices: 644646--644692 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
644636 ATTAAATTAA
644646 ATATTTTAACACAAAATTTTT
1 ATATTTTAACACAAAATTTTT
644667 A-ATTTTATACACAAAA-TTTT
1 ATATTTTA-ACACAAAATTTTT
644687 ATATTT
1 ATATTT
644693 CTTTAGGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTTTAACACAAAATTTTT
Found at i:664904 original size:21 final size:18
Alignment explanation
Indices: 664868--664912 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
664858 TAAAATAAAT
664868 AATAATAAAACATTTTAA
1 AATAATAAAACATTTTAA
664886 AATAAGTACAAACAGTTTT-A
1 AATAA-TA-AAACA-TTTTAA
664906 AATAATA
1 AATAATA
664913 TATAGATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.21
19 4 0.17
20 11 0.46
21 4 0.17
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (18 bp):
AATAATAAAACATTTTAA
Found at i:665025 original size:15 final size:14
Alignment explanation
Indices: 664997--665036 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
664987 ACAGAAAATA
664997 AACAAAAAAAAAAC
1 AACAAAAAAAAAAC
665011 AACAAAAACAAAAAC
1 AACAAAAA-AAAAAC
665026 AA-AAATAAAAA
1 AACAAA-AAAAA
665037 GTTAGTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.03
Consensus pattern (14 bp):
AACAAAAAAAAAAC
Found at i:665035 original size:12 final size:12
Alignment explanation
Indices: 664985--665036 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
664975 CTAAGAAACC
664985 AAACAGAAAATAA
1 AAACA-AAAATAA
664998 ACAA-AAAAA-AA
1 A-AACAAAAATAA
*
665009 ACAACAAAAACAA
1 A-AACAAAAATAA
665022 AAACAAAAATAA
1 AAACAAAAATAA
665034 AAA
1 AAA
665037 GTTAGTAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 6 0.17
12 22 0.63
13 5 0.14
14 2 0.06
ACGTcount: A:0.83, C:0.12, G:0.02, T:0.04
Consensus pattern (12 bp):
AAACAAAAATAA
Found at i:666497 original size:120 final size:120
Alignment explanation
Indices: 666361--666690 Score: 633
Period size: 120 Copynumber: 2.8 Consensus size: 120
666351 TTAATCATAT
666361 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
1 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
666426 ATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTA
66 ATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTA
*
666481 TTAAATATATTATAATTAAAAGATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
1 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
*
666546 ATTTATTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTA
66 ATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTA
*
666601 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGA
1 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
666666 ATTTACTCAAATCATAATATATGAT
66 ATTTACTCAAATCATAATATATGAT
666691 TGTTATTGCT
Statistics
Matches: 205, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 205 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
ATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTA
Found at i:666633 original size:14 final size:15
Alignment explanation
Indices: 666584--666635 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
666574 ATAAAATATA
666584 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
666599 TATTAAATATATTAT
1 AATTAAATATATTAT
666614 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
666627 AATTTAATA
1 AATTAAATA
666636 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:667512 original size:15 final size:15
Alignment explanation
Indices: 667492--667522 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
667482 ATCTGAGGAA
667492 AAGCAAGTCAAATGC
1 AAGCAAGTCAAATGC
667507 AAGCAAGTCAAATGC
1 AAGCAAGTCAAATGC
667522 A
1 A
667523 TAAGGAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
AAGCAAGTCAAATGC
Found at i:669115 original size:15 final size:15
Alignment explanation
Indices: 669092--669132 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
669082 TGAGCAATAC
669092 AAACATACAAAACAG
1 AAACATACAAAACAG
*
669107 AACCATACAAAACAG
1 AAACATACAAAACAG
669122 AAACA-ACAAAA
1 AAACATACAAAA
669133 GCTGCTACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.68, C:0.22, G:0.05, T:0.05
Consensus pattern (15 bp):
AAACATACAAAACAG
Found at i:676759 original size:30 final size:32
Alignment explanation
Indices: 676724--676786 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
676714 TTTAGCCCCA
*
676724 TTAAAAATGATAAAAATTT-AATTTA-ATTTT
1 TTAAAAATGATAAAAATTTGAAATTACATTTT
* *
676754 TTAAAAATTATAAAATTTTGAAATTACATTTT
1 TTAAAAATGATAAAAATTTGAAATTACATTTT
676786 T
1 T
676787 ACTATCCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 17 0.61
31 5 0.18
32 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
TTAAAAATGATAAAAATTTGAAATTACATTTT
Found at i:690341 original size:9 final size:9
Alignment explanation
Indices: 690327--690411 Score: 93
Period size: 9 Copynumber: 9.4 Consensus size: 9
690317 GTAGTGATTC
690327 AATTCGGTT
1 AATTCGGTT
*
690336 AATTCGGGT
1 AATTCGGTT
*
690345 AATTCAAG-T
1 AATTC-GGTT
690354 AATTCGGTT
1 AATTCGGTT
690363 AATTCAGG-T
1 AATTC-GGTT
*
690372 AATTCGGTA
1 AATTCGGTT
*
690381 AATTTGGTT
1 AATTCGGTT
*
690390 AATTCGATT
1 AATTCGGTT
690399 AATTCGGTT
1 AATTCGGTT
690408 AATT
1 AATT
690412 TTTAACCAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
8 3 0.05
9 57 0.90
10 3 0.05
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:695095 original size:6 final size:7
Alignment explanation
Indices: 695069--695094 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
695059 GATCAATTAA
695069 TAAAAAT
1 TAAAAAT
695076 TAAAAAT
1 TAAAAAT
695083 TAAAAAT
1 TAAAAAT
695090 TAAAA
1 TAAAA
695095 TAATTTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAAAT
Found at i:717327 original size:75 final size:75
Alignment explanation
Indices: 717239--717390 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 75
717229 TTACTGAAAT
717239 TTAAATCTAAAAAGTAATGTTGAGTTTTATAGATTAAGTTTAAAAATTAAATATTATTTTAAACG
1 TTAAATCTAAAAAGTAATGTTGAGTTTTATAGATTAAGTTTAAAAATTAAATATTATTTTAAACG
717304 AAAGAAATAG
66 AAAGAAATAG
*
717314 TTAAATCTAAAAAGTAATGTTGAGTTTTATAGATTAAGTTTAAAATTTAAATATTATTTTAAACG
1 TTAAATCTAAAAAGTAATGTTGAGTTTTATAGATTAAGTTTAAAAATTAAATATTATTTTAAACG
717379 AAAGAAATAG
66 AAAGAAATAG
717389 TT
1 TT
717391 CATAAATAAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.39
Consensus pattern (75 bp):
TTAAATCTAAAAAGTAATGTTGAGTTTTATAGATTAAGTTTAAAAATTAAATATTATTTTAAACG
AAAGAAATAG
Found at i:720757 original size:39 final size:40
Alignment explanation
Indices: 720600--720771 Score: 258
Period size: 40 Copynumber: 4.3 Consensus size: 40
720590 GCTCCTCGTT
* *
720600 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
720640 CAAATGCCTCCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
720680 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
720720 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
720759 CAAATGCCTTCGG
1 CAAATGCCTTCGG
720772 ATTTTCGTTT
Statistics
Matches: 122, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 34 0.28
40 86 0.70
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:733279 original size:21 final size:21
Alignment explanation
Indices: 733253--733295 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
733243 GGTTCGCTGT
*
733253 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
733274 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
733295 A
1 A
733296 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:733295 original size:16 final size:16
Alignment explanation
Indices: 733276--733308 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
733266 TGTATTGGAT
*
733276 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
733292 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
733308 T
1 T
733309 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:733353 original size:45 final size:44
Alignment explanation
Indices: 733287--733381 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
733277 GGATTAGAGG
* *
733287 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
733332 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
733376 TGTAAT
1 TGTAAT
733382 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:733564 original size:18 final size:17
Alignment explanation
Indices: 733543--733577 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
733533 TTATTATTTA
*
733543 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
733561 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
733578 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:733571 original size:28 final size:27
Alignment explanation
Indices: 733501--733573 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
733491 TTTATTATCA
*
733501 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
733529 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
733556 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
733574 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:733690 original size:144 final size:147
Alignment explanation
Indices: 733462--733733 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
733452 ATGATTATTG
733462 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
733527 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
733592 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
733611 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
733673 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
733734 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:733708 original size:18 final size:17
Alignment explanation
Indices: 733687--733721 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
733677 TTATTATTAA
*
733687 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
733705 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
733722 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:733767 original size:61 final size:61
Alignment explanation
Indices: 733702--733889 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
733692 TTTTAATTAA
*
733702 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
733763 AATATATGATATT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
733822 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
733883 AATATAT
1 AATATAT
733890 GATTATAACT
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 7 0.07
59 29 0.30
60 16 0.17
61 37 0.39
62 7 0.07
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:733800 original size:120 final size:120
Alignment explanation
Indices: 733670--733892 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
733660 ATCATATTTA
* *
733670 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
733735 TATTCTTATATGAATTTACTCAAACCATAATATATGATATTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATATTGTAAAATATAAAAT
733790 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
733855 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
733893 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATATTGTAAAATATAAAAT
Found at i:733828 original size:18 final size:17
Alignment explanation
Indices: 733807--733841 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
733797 TTATTATTAA
733807 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
733825 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
733842 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:733904 original size:17 final size:16
Alignment explanation
Indices: 733882--733928 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
733872 ACTCAAATCA
733882 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
733899 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
733913 TAAATATATGATTTAA
1 T-AATATATGATTTAA
733929 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:733929 original size:17 final size:17
Alignment explanation
Indices: 733901--733934 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
733891 ATTATAACTA
*
733901 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
733918 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
733935 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:734077 original size:93 final size:92
Alignment explanation
Indices: 733967--734161 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
733957 GGTTATAGTT
* * *
733967 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
734030 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
734060 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
734125 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
734152 TATGAATTTA
1 TATGAATTTA
734162 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:743105 original size:34 final size:35
Alignment explanation
Indices: 743046--743112 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
743036 ATAACACCAG
* *
743046 AAAATATTTTTCAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTTCAGTAAATCATTTTACAGAAAAGT
* *
743081 AAAACATTTTTTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTTCAGTAAATCATTTTACAGAAAA
743113 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (35 bp):
AAAACATTTTTCAGTAAATCATTTTACAGAAAAGT
Found at i:751387 original size:24 final size:24
Alignment explanation
Indices: 751333--751389 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
751323 TAGATACTTA
*
751333 ATTAAAATAAAAAAACACTCAAAT
1 ATTAAAATTAAAAAACACTCAAAT
* * *
751357 ATT--AATTTAAAAATACTTAAAT
1 ATTAAAATTAAAAAACACTCAAAT
751379 ATTAAAATTAA
1 ATTAAAATTAA
751390 TATTAAAACT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
22 18 0.69
24 8 0.31
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (24 bp):
ATTAAAATTAAAAAACACTCAAAT
Found at i:761432 original size:17 final size:17
Alignment explanation
Indices: 761410--761442 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
761400 TAAAAACTTG
761410 TCACATCAGTTAATTAA
1 TCACATCAGTTAATTAA
*
761427 TCACATTAGTTAATTA
1 TCACATCAGTTAATTA
761443 GTGACTGTTT
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:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (17 bp):
TCACATCAGTTAATTAA
Found at i:762119 original size:21 final size:20
Alignment explanation
Indices: 762089--762132 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
762079 CGAAGATATT
*
762089 TTTATTTTTATATAAAATATAA
1 TTTATTTTTAAAT-AAATA-AA
762111 TTTA-TTTTAAATAAATAAA
1 TTTATTTTTAAATAAATAAA
762130 TTT
1 TTT
762133 TCGTTTCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 5 0.24
21 7 0.33
22 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTATTTTTAAATAAATAAA
Found at i:763980 original size:24 final size:24
Alignment explanation
Indices: 763921--764066 Score: 106
Period size: 24 Copynumber: 6.0 Consensus size: 24
763911 TGGGCTTAAA
*
763921 AACGGGAAGCTCACAAAGAGC-CTTT
1 AACGGGAAGCTC-CGAAGAGCAC-TT
* * *
763946 AACGGGTAGCTCTGAAGGGCACTT
1 AACGGGAAGCTCCGAAGAGCACTT
763970 AACGGGAAGCTCCGAAGAGCACTT
1 AACGGGAAGCTCCGAAGAGCACTT
* * *
763994 AATCAGAAAGCATCCG-ATAGC-CATAT
1 AA-CGGGAAGC-TCCGAAGAGCAC-T-T
*
764020 AACGGGAAG-TTC-AAGCGAGCAC-T
1 AACGGGAAGCTCCGAA--GAGCACTT
764043 AACGGGAAGCTCCGAAGAGCACTT
1 AACGGGAAGCTCCGAAGAGCACTT
764067 TAAAAGGAGG
Statistics
Matches: 94, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
23 19 0.20
24 34 0.36
25 33 0.35
26 8 0.09
ACGTcount: A:0.34, C:0.23, G:0.27, T:0.16
Consensus pattern (24 bp):
AACGGGAAGCTCCGAAGAGCACTT
Found at i:765969 original size:23 final size:23
Alignment explanation
Indices: 765942--765994 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
765932 AGTGTTATTG
765942 ATCAGTGGTAGCTTC-GACTACAT
1 ATCAGTGGTAGCTTCTG-CTACAT
*
765965 TTCAGTGGTAGCTTCTGCTACAT
1 ATCAGTGGTAGCTTCTGCTACAT
765988 ATCAGTG
1 ATCAGTG
765995 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCTGCTACAT
Found at i:770725 original size:14 final size:14
Alignment explanation
Indices: 770706--770732 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
770696 CATTTTTTAA
770706 TAATGAGAACAAAG
1 TAATGAGAACAAAG
770720 TAATGAGAACAAA
1 TAATGAGAACAAA
770733 ATGCAATCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.19, T:0.15
Consensus pattern (14 bp):
TAATGAGAACAAAG
Found at i:781712 original size:43 final size:43
Alignment explanation
Indices: 781665--781770 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 43
781655 GCGCTTCTAG
* *
781665 CACAAACGCCGCTGAAGACTAAGACCTTTAGCGGCGCTTTCCC
1 CACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCC
* * * * * **
781708 CACAAAAGCCGCTAAAGACCATGATCTTTAGGGGTGCTTTTTC
1 CACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCC
* *
781751 CGCAAACGCCGCGAAAGACC
1 CACAAACGCCGCTAAAGACC
781771 CTTATCTTTA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (43 bp):
CACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCC
Found at i:781988 original size:21 final size:21
Alignment explanation
Indices: 781964--782008 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
781954 ACTAACTCTT
*
781964 AACCCATATCCCTAAACCCCA
1 AACCCATACCCCTAAACCCCA
* *
781985 AACCCCTACCCCTAAACCCTA
1 AACCCATACCCCTAAACCCCA
782006 AAC
1 AAC
782009 ATTATTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (21 bp):
AACCCATACCCCTAAACCCCA
Found at i:782171 original size:89 final size:88
Alignment explanation
Indices: 781979--782179 Score: 255
Period size: 89 Copynumber: 2.3 Consensus size: 88
781969 ATATCCCTAA
* *
781979 ACCCCAAACCCCT-ACCCCTAAACCCTAAACATTATTTAATATATAAATTAAAAAATACTAATTA
1 ACCCCAAATCCCTAACCCCTAAACCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
*
782043 ATCTAAATCCTAAACCCTAACTCG
66 ATCTAAAT-CTAAACCCTAACCCG
* * *
782067 ACCCCGAATCACTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAAACACTAATT
1 ACCCCAAATCCCTAACCCCTAAACCCTAAACATTATTTAATATATAAATT-AAAAAACACTAATT
* *
782132 AATCTAAAT-T-AATCCTAAACCCT
65 AATCTAAATCTAAACCCT-AACCCG
* *
782155 AGCCCTAAATCCCTAACCCCAAAAC
1 A-CCCCAAATCCCTAACCCCTAAAC
782180 ATTATTTAAT
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
87 5 0.05
88 16 0.17
89 53 0.55
90 22 0.23
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.25
Consensus pattern (88 bp):
ACCCCAAATCCCTAACCCCTAAACCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
ATCTAAATCTAAACCCTAACCCG
Found at i:782976 original size:40 final size:40
Alignment explanation
Indices: 782852--782986 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
782842 GGGCTTAGGC
*
782852 TTTTT-GCGGCG-CTTTCCAAAAAACGCCGCTAATGCTT-A
1 TTTTTAGCGGCGTTTTTCC-AAAAACGCCGCTAATGCTTGA
* * * *
782890 TTTTTAGCGGCATTTTT-TAAAAATCGCCGCTAATGATCGA
1 TTTTTAGCGGCGTTTTTCCAAAAA-CGCCGCTAATGCTTGA
** * *
782930 CCTTTAGCGGCGTTTTTCCAAAAGCGCCGCTACTGCTTGA
1 TTTTTAGCGGCGTTTTTCCAAAAACGCCGCTAATGCTTGA
*
782970 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
782987 TTGTCCAAAC
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 10 0.13
39 17 0.22
40 45 0.59
41 4 0.05
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCCAAAAACGCCGCTAATGCTTGA
Found at i:793232 original size:17 final size:21
Alignment explanation
Indices: 793182--793227 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
793172 AATTTTTTTC
793182 TTTTATATTCTTTCAACTTTA
1 TTTTATATTCTTTCAACTTTA
*
793203 TTTTATATTCTTTCAACTTTT
1 TTTTATATTCTTTCAACTTTA
793224 TTTT
1 TTTT
793228 TCTTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATATTCTTTCAACTTTA
Found at i:802727 original size:15 final size:15
Alignment explanation
Indices: 802704--802734 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
802694 GGGTAGTAGT
802704 CTAGAAGCGGCGGCA
1 CTAGAAGCGGCGGCA
*
802719 CTAGCAGCGGCGGCA
1 CTAGAAGCGGCGGCA
802734 C
1 C
802735 GAATATCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.32, G:0.39, T:0.06
Consensus pattern (15 bp):
CTAGAAGCGGCGGCA
Found at i:804436 original size:21 final size:21
Alignment explanation
Indices: 804412--804454 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
804402 TATATTTTAG
804412 ATATCAAATAATTA-AATATAA
1 ATAT-AAATAATTATAATATAA
* *
804433 ATATTAATAATTATATTATAA
1 ATATAAATAATTATAATATAA
804454 A
1 A
804455 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATAAATAATTATAATATAA
Found at i:806899 original size:30 final size:29
Alignment explanation
Indices: 806865--806923 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
806855 GAATTGGATC
* *
806865 AAATCAAAATTTAATGTATAAAATTGCACA
1 AAATC-AAAGTTAATGTATAAAATTACACA
*
806895 AAATCAAAGTTCATGTATAAAATTACACA
1 AAATCAAAGTTAATGTATAAAATTACACA
806924 TTAAACTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.29
Consensus pattern (29 bp):
AAATCAAAGTTAATGTATAAAATTACACA
Found at i:807406 original size:5 final size:5
Alignment explanation
Indices: 807382--807420 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
807372 CCCGAGTCGT
**
807382 TTTTA TTATTA TAATA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
807421 ATATATTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:807414 original size:15 final size:15
Alignment explanation
Indices: 807382--807425 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
807372 CCCGAGTCGT
807382 TTTTATTATTATAATA
1 TTTTATT-TTATAATA
**
807398 TTTTATTTTATTTTA
1 TTTTATTTTATAATA
807413 TTTTATTTATATA
1 TTTTATTT-TATA
807426 TTATGTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTATTTTATAATA
Found at i:809488 original size:7 final size:7
Alignment explanation
Indices: 809476--809504 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
809466 TATAATTTCA
809476 GCAATGG
1 GCAATGG
809483 GCAATGG
1 GCAATGG
809490 GCAATGG
1 GCAATGG
809497 GCAATGG
1 GCAATGG
809504 G
1 G
809505 TGTGATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.45, T:0.14
Consensus pattern (7 bp):
GCAATGG
Found at i:813119 original size:5 final size:5
Alignment explanation
Indices: 813106--813135 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
813096 AAGCTTACAA
*
813106 AAAAG AAAAT AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
813136 TGGGTTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:822697 original size:22 final size:23
Alignment explanation
Indices: 822664--822706 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
822654 TAAATTTGAT
*
822664 TTTTAAAAAAATATGTATATTCA
1 TTTTAAAAAAATATATATATTCA
*
822687 TTTT-AAAAAATGTATATATT
1 TTTTAAAAAAATATATATATT
822707 GAATTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (23 bp):
TTTTAAAAAAATATATATATTCA
Found at i:822713 original size:22 final size:22
Alignment explanation
Indices: 822669--822714 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
822659 TTGATTTTTA
* *
822669 AAAAAATATGTATATTCATTTT
1 AAAAAATATATATATTCAATTT
* *
822691 AAAAAATGTATATATTGAATTT
1 AAAAAATATATATATTCAATTT
822713 AA
1 AA
822715 TATAATATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (22 bp):
AAAAAATATATATATTCAATTT
Found at i:828363 original size:19 final size:20
Alignment explanation
Indices: 828339--828376 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
828329 TTTATTTGTA
*
828339 AAAAAATT-ATAATATAATT
1 AAAAAATTCATAAAATAATT
828358 AAAAAATTCATAAAATAAT
1 AAAAAATTCATAAAATAAT
828377 CAAAGTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAAATTCATAAAATAATT
Found at i:835450 original size:2 final size:2
Alignment explanation
Indices: 835443--835472 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
835433 CGAATGCAAC
*
835443 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
835473 CTATCAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:835451 original size:30 final size:32
Alignment explanation
Indices: 835391--835454 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
835381 CACTTATTTT
835391 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
835424 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
835455 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:835726 original size:41 final size:41
Alignment explanation
Indices: 835681--835836 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
835671 ACCGGCTCTT
*
835681 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
835722 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
835763 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
835804 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
835837 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:838975 original size:103 final size:104
Alignment explanation
Indices: 838731--838996 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
838721 GTTGTACATA
** *
838731 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
838796 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
838835 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
838900 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
838938 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
838997 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:846333 original size:26 final size:26
Alignment explanation
Indices: 846298--846348 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
846288 AATGTGAAAG
*
846298 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
846324 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
846349 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:846435 original size:26 final size:26
Alignment explanation
Indices: 846400--846449 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
846390 AAATAAAAAG
*
846400 GGGGTTGCTATGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
846426 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
846450 GATTAAGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:846461 original size:102 final size:103
Alignment explanation
Indices: 846219--846482 Score: 422
Period size: 102 Copynumber: 2.6 Consensus size: 103
846209 GTTGTACATA
** *
846219 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
846284 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCC
* *
846322 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
846387 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCC
* * *
846424 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
846483 AATAACGGTT
Statistics
Matches: 148, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 82 0.55
103 66 0.45
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCC
Found at i:852883 original size:16 final size:18
Alignment explanation
Indices: 852858--852894 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
852848 ATTGACCCAC
*
852858 TATTTTATATT-A-AAAA
1 TATTTCATATTGATAAAA
852874 TATTTCATATTGATAAAA
1 TATTTCATATTGATAAAA
852892 TAT
1 TAT
852895 ATTTTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 1 0.06
18 7 0.39
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
TATTTCATATTGATAAAA
Found at i:878548 original size:37 final size:37
Alignment explanation
Indices: 878487--878632 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
878477 TACGTATGAT
* *
878487 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
878522 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
878559 CACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
878596 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
878633 TAAAACTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:878649 original size:46 final size:46
Alignment explanation
Indices: 878596--878962 Score: 428
Period size: 46 Copynumber: 7.6 Consensus size: 46
878586 TAAGTGCAGC
* * ** *
878596 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAACTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
878642 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
878688 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
878740 CACTTATCACTTTATTACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
878786 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
878838 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
878884 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
878936 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
878963 AGTACTCAAA
Statistics
Matches: 283, Mismatches: 20, Indels: 36
0.83 0.06 0.11
Matches are distributed among these distances:
46 152 0.54
48 2 0.01
49 2 0.01
50 2 0.01
52 125 0.44
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:878715 original size:52 final size:52
Alignment explanation
Indices: 878639--878956 Score: 444
Period size: 52 Copynumber: 6.3 Consensus size: 52
878629 TAGCTAAAAC
* *
878639 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
878692 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
878744 TATCAC-TTT-A--T-T-ACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
878790 TATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
878842 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
878888 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
878940 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
878957 ATCAGAAGTA
Statistics
Matches: 238, Mismatches: 14, Indels: 26
0.86 0.05 0.09
Matches are distributed among these distances:
46 80 0.34
47 5 0.02
48 3 0.01
50 3 0.01
51 6 0.03
52 123 0.52
53 18 0.08
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:878761 original size:98 final size:98
Alignment explanation
Indices: 878607--878962 Score: 586
Period size: 98 Copynumber: 3.6 Consensus size: 98
878597 ACTTATCACT
* * * * * *
878607 TTGTCTCTTGATCAGATAAGTGTAGCTAAAACTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
* *
878672 GTATAGCCGAAGCTATCACTTATCACTTTTCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
* *
878705 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATTACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
878770 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
*
878803 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
878868 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
* * *
878901 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGA
878963 AGTACTCAAA
Statistics
Matches: 243, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 243 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
GTATAGCCGAAGCTATTACTTATCACTTTCCAC
Found at i:890860 original size:21 final size:21
Alignment explanation
Indices: 890836--890876 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
890826 AGACGAGTAA
* *
890836 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
890857 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
890877 TTGAGCTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:896488 original size:21 final size:21
Alignment explanation
Indices: 896462--896510 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
896452 TACCTCCACT
896462 ACACCTATCCCATCACATTCA
1 ACACCTATCCCATCACATTCA
896483 ACACCTATCCCATCACATTCA
1 ACACCTATCCCATCACATTCA
896504 ACACCTA
1 ACACCTA
896511 CCTCCACTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (21 bp):
ACACCTATCCCATCACATTCA
Found at i:900865 original size:178 final size:178
Alignment explanation
Indices: 900558--901431 Score: 1301
Period size: 178 Copynumber: 4.9 Consensus size: 178
900548 TCAAGCTGCG
* **
900558 ATTATCTGTTTTACGACTTTTTACCGGGTAAAGCTGAGTTCTTCCAGCAATGGTTTGGATTATGA
1 ATTATCTGTTTTACGACTTTTTTCCGGGTAAAGCTGAGTTCTTCCAGCAAAAGTTTGGATTATGA
* *
900623 ---ATGTTTTGTAGTAAGTGCAGCGATGATTAAAATGAGGTTTAGGGTTAATGAGGCAAGGCTTT
66 GTGTTGTTTTGTAGCAAGTGCAGCGATGATTAAAATGAGGTTTAGGGTTAATGAGGCAAGGCTTT
900685 GCCTTAGCTATGATTACAATATAATCTCTAATGAGCTGCTTTTATGCT
131 GCCTTAGCTATGATTACAATATAATCTCTAATGAGCTGCTTTTATGCT
900733 ATTATCTGTTTTACGACTTTTTTCCGGGTAAAGCTGAGTTCTTCCAGCAAAAGTTTGGATTATGA
1 ATTATCTGTTTTACGACTTTTTTCCGGGTAAAGCTGAGTTCTTCCAGCAAAAGTTTGGATTATGA
*
900798 GTGTTGTTTTGTAGCAAGTGCAGCGATGATTAAAATGAGGTTTAGGGTTAACGAGGCAAGGCTTT
66 GTGTTGTTTTGTAGCAAGTGCAGCGATGATTAAAATGAGGTTTAGGGTTAATGAGGCAAGGCTTT
900863 GCCTTAGCTATGATTACAATATAATCTCTAATGAGCTGCTTTTATGCT
131 GCCTTAGCTATGATTACAATATAATCTCTAATGAGCTGCTTTTATGCT
*
900911 ATTATCTGTTTTACGACTTTTTTCCGGATAAAGCTGAGTTCTTCCAGCAAAAGTTTGGATTATGA
1 ATTATCTGTTTTACGACTTTTTTCCGGGTAAAGCTGAGTTCTTCCAGCAAAAGTTTGGATTATGA
* *
900976 GTGTTGTTTTGTAGCAAGTGCAGCGATGATTAAAATGAGGTTTAGGCTTAACGAGGCAAGGCTTT
66 GTGTTGTTTTGTAGCAAGTGCAGCGATGATTAAAATGAGGTTTAGGGTTAATGAGGCAAGGCTTT
901041 GCCTTAGCTATGATTACAATATAATCTCTAATGAGCTGCTTTTATGCT
131 GCCTTAGCTATGATTACAATATAATCTCTAATGAGCTGCTTTTATGCT
* * *
901089 ATTATCTGTTTTATGACTTTTTTCCGGGTAAAGCTTAGTTCTTCCAGCAAAGGTTTGGATTATGA
1 ATTATCTGTTTTACGACTTTTTTCCGGGTAAAGCTGAGTTCTTCCAGCAAAAGTTTGGATTATGA
*
901154 GTGTTGTTTTGTAGTAAGTGCAGCGATGATTAAAATGAGGTTTAGGGTTAATGAGGCAAGGCTTT
66 GTGTTGTTTTGTAGCAAGTGCAGCGATGATTAAAATGAGGTTTAGGGTTAATGAGGCAAGGCTTT
* *
901219 GCCTTAGCTATGATTACAATATAATCTTTAATGAGCTTCTTTTAT-C-
131 GCCTTAGCTATGATTACAATATAATCTCTAATGAGCTGCTTTTATGCT
* * * * * * * ** *
901265 -TT-TC----TAACGACGTTTTTCCGGCTGAATGTTCAAGATT-TAT-AAATAAATGTTTGG-TT
1 ATTATCTGTTTTACGACTTTTTTCCGGGT-AAAGCT-GAG-TTCT-TCCAGCAAAAGTTTGGATT
* * *
901321 TTCGAGTGTTGTTTTGTAG-TAGTTGCAGCGATGATTAAAATGAGGTTTAGGGTTGTAATGAGCC
62 AT-GAGTGTTGTTTTGTAGCAAG-TGCAGCGATGATTAAAATGAGGTTTAGGG-T-TAATGAGGC
* *
901385 AAGGTTTTGCCTAAGCTATGATTACAATATAATCTCTAATGAGCTGC
123 AAGGCTTTGCCTTAGCTATGATTACAATATAATCTCTAATGAGCTGC
901432 CGTATCTTTT
Statistics
Matches: 653, Mismatches: 35, Indels: 23
0.92 0.05 0.03
Matches are distributed among these distances:
170 15 0.02
171 9 0.01
172 58 0.09
173 4 0.01
174 53 0.08
175 64 0.10
177 1 0.00
178 449 0.69
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (178 bp):
ATTATCTGTTTTACGACTTTTTTCCGGGTAAAGCTGAGTTCTTCCAGCAAAAGTTTGGATTATGA
GTGTTGTTTTGTAGCAAGTGCAGCGATGATTAAAATGAGGTTTAGGGTTAATGAGGCAAGGCTTT
GCCTTAGCTATGATTACAATATAATCTCTAATGAGCTGCTTTTATGCT
Found at i:901712 original size:180 final size:175
Alignment explanation
Indices: 901136--901712 Score: 528
Period size: 173 Copynumber: 3.3 Consensus size: 175
901126 GTTCTTCCAG
* * * * * *
901136 CAAAGGTTTGGATTATGAGTGTTGTTTTGTAGTAAGTGCAGCGATGATT--AAAATGAGGTTTAG
1 CAAATGTTTGGTTTTTGAGTGTTGTTTTGTAGTAATTGCAGCGATGATTAAAAAATAAGGTGTAG
* * * * ** * **
901199 GG-T-TAATGAGGCAAGGCTTTGCCTTAGCTATGATTACAATATAATCTTTAATGAGCTTCTTTT
66 GGTTATAACGAGCCAAGGTTTTGCCTAAGCTATGATTACAATATAATCGCTAATGAGCTGC-CGT
* * * * ** * *
901262 ATCTTTCTAACGACGTTTTTCCGGCTGAATGTTCAAGATTTAT-AAA
130 ATCTTTTTTACAACGTTCTTCCAACCGAATGTTCAAAATTT-TCAAA
* * * * *
901308 TAAATGTTTGGTTTTCGAGTGTTGTTTTGTAGTAGTTGCAGCGATGATT--AAAATGAGGTTTAG
1 CAAATGTTTGGTTTTTGAGTGTTGTTTTGTAGTAATTGCAGCGATGATTAAAAAATAAGGTGTAG
* * *
901371 GGTTGTAATGAGCCAAGGTTTTGCCTAAGCTATGATTACAATATAATCTCTAATGAGCTGCCGTA
66 GGTTATAACGAGCCAAGGTTTTGCCTAAGCTATGATTACAATATAATCGCTAATGAGCTGCCGTA
* * *
901436 TCTTTTTTACAACGTTTTTCCGACCGAATGTTCAAAATTTTTAAA
131 TCTTTTTTACAACGTTCTTCCAACCGAATGTTCAAAATTTTCAAA
*
901481 CAAATGTTTGGTTTTTGAGTGTTGTTTTGTGGTAATTGCAGCGATGATTAAAGTAAATTAAGGTG
1 CAAATGTTTGGTTTTTGAGTGTTGTTTTGTAGTAATTGCAGCGATGATTAAA--AAA-TAAGGTG
* * * * * *
901546 TAGGGTTATAACGATCGAA-GTTTGTGCCTAAGCTATGTTTACAATATATTCGCTAATTAGGTGC
63 TAGGGTTATAACGAGCCAAGGTTT-TGCCTAAGCTATGATTACAATATAATCGCTAATGAGCTGC
** ** **
901610 CGTAAAGTC-TTTTTACGGCGTTCTTCCAATTGGAA-GTTCAAGGTTTTCAAA
127 CGT--A-TCTTTTTTACAACGTTCTTCCAA-CCGAATGTTCAAAATTTTCAAA
* * *
901661 CAATTGTTCT-GTTTTTGAGTGTTGTCTTGTAGTAATCGCAGCGATGATTAAA
1 CAAATGTT-TGGTTTTTGAGTGTTGTTTTGTAGTAATTGCAGCGATGATTAAA
901713 TTAAGGTTTA
Statistics
Matches: 343, Mismatches: 48, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
172 59 0.17
173 85 0.25
174 51 0.15
175 1 0.00
177 7 0.02
178 58 0.17
180 76 0.22
181 6 0.02
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (175 bp):
CAAATGTTTGGTTTTTGAGTGTTGTTTTGTAGTAATTGCAGCGATGATTAAAAAATAAGGTGTAG
GGTTATAACGAGCCAAGGTTTTGCCTAAGCTATGATTACAATATAATCGCTAATGAGCTGCCGTA
TCTTTTTTACAACGTTCTTCCAACCGAATGTTCAAAATTTTCAAA
Found at i:903858 original size:153 final size:151
Alignment explanation
Indices: 903597--904510 Score: 1066
Period size: 151 Copynumber: 6.0 Consensus size: 151
903587 AAAAATAGTT
* * * * *
903597 GAAATAAGGGTTTTTTTAAAAATTT-ATTT---AAGCACACTAAATGAAAATATTTTAAATATAA
1 GAAATAAGGGTTTTTTT--AAATTTCATTTAAAAAACACACTAAATGAATACATTTCAAACATAA
* * *
903658 TGTATTAAAATAATGTAAAATAATAAGATTAGAAAATATTATATTTTTTAAAAGTAATAAAATTC
64 TGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTT-AAAGTAATAAAA-TC
*
903723 GGGGAAAAAATACGAATAAAGGGCC
127 GGGGAAAAAATACGAACAAAGGGCC
** * * *
903748 GAAATAATAGTTTTTTTAAAATTT-ATTTAAAAAACACAGTAAATTAATACATTTCAAATATAAT
1 GAAATAAGGGTTTTTTT-AAATTTCATTTAAAAAACACACTAAATGAATACATTTCAAACATAAT
* * **
903812 GTATTAAAATAATAT-AAATAATAAAATTAGAAAATAATATATTTTTTAAAGTAATAAAATTTAG
65 GTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTTAAAGTAATAAAA-TCGG
** * *
903876 AAAAAAAATACGAATAAAGAGCC
129 GGAAAAAATACGAACAAAGGGCC
* * * *
903899 GAAATAA-GGATTTTTTAAATTT-ATTT-AAAAACACAATAAATTAATGCATTTCAAACATAATG
1 GAAATAAGGGTTTTTTTAAATTTCATTTAAAAAACACACTAAATGAATACATTTCAAACATAATG
* *
903961 TACTAAAATAATGTAAAATAATAAAATACAAAAAATAATATATTTTTATTGAAAGTAATAAAATC
66 TACTAAAATAATGTAAAATAATAAAAT-TAGAAAATAATATA-TTTT-TT-AAAGTAATAAAATC
***
904026 -TAAAAAAAATACGAACAAAGGGCC
127 GGGGAAAAAATACGAACAAAGGGCC
* * * *
904050 GAAATAATGGTTTTTTTTAATTTCA-ATAAAAAACACACTAAACGAATACATTTCAAACATAATG
1 GAAATAAGGGTTTTTTTAAATTTCATTTAAAAAACACACTAAATGAATACATTTCAAACATAATG
* ** *
904114 TACTAAAATAATGTAAAATAATAAAACTAGAAAATTGTAT-TTTTTTAAAGTAATAAAATCCGGG
66 TACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTTAAAGTAATAAAATCGGGG
***
904178 AAAAAATACGAACAATTTGCC
131 AAAAAATACGAACAAAGGGCC
* * * *
904199 GAAATAAGAGTTTTTTTTAAATTTCAATAAAAAAATACACTAAATGAATACATTTCAAACATAAT
1 GAAATAAG-GGTTTTTTTAAATTTCATTTAAAAAACACACTAAATGAATACATTTCAAACATAAT
* *
904264 GTATTAAAATAATGTAAAATAATAAAACTAGAAAATAGA-ATATTTTTTAAAAGTAATAAAATTC
65 GTACTAAAATAATGTAAAATAATAAAATTAGAAAATA-ATATATTTTTT-AAAGTAATAAAA-TC
* * *
904328 GGGGGAAAAATACGAATAAAGGGCT
127 GGGGAAAAAATACGAACAAAGGGCC
* * *
904353 GAAATGAGGGTTTTTTTTTTAAATTTCAATAAAAAAACACACTAAATGAATACATTTCAAACATA
1 GAAATAAGGG---TTTTTTTAAATTTCATTTAAAAAACACACTAAATGAATACATTTCAAACATA
*
904418 ATGTACTAAAATAATGTAAAATAATAAAAATAGAAAATAATAT-TTTTTT-AAGTAATAAAATCG
63 ATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTTAAAGTAATAAAATCG
*
904481 GGGAAAAAATACGAACAAAGGGCT
128 GGGAAAAAATACGAACAAAGGGCC
904505 GAAATA
1 GAAATA
904511 GGAACATGTT
Statistics
Matches: 669, Mismatches: 72, Indels: 43
0.85 0.09 0.05
Matches are distributed among these distances:
148 59 0.09
149 49 0.07
150 49 0.07
151 160 0.24
152 92 0.14
153 136 0.20
154 27 0.04
155 7 0.01
156 90 0.13
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (151 bp):
GAAATAAGGGTTTTTTTAAATTTCATTTAAAAAACACACTAAATGAATACATTTCAAACATAATG
TACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTTAAAGTAATAAAATCGGGG
AAAAAATACGAACAAAGGGCC
Found at i:904101 original size:301 final size:305
Alignment explanation
Indices: 903629--904510 Score: 1074
Period size: 301 Copynumber: 2.9 Consensus size: 305
903619 TTTATTTAAG
* * * * * * * *
903629 CACACTAAATGAAAATATTTTAAATATAATGTATTAAAATAATGTAAAATAATAAGAT-TAGAAA
1 CACAATAAATGAATACATTTCAAACATAATGTATTAAAATAATGTAAAATAATAAAATACAAAAA
* * *
903693 ATATTATATTTTT-TAAAAGTAATAAAATTCGGGGAAAAAATACGAATAAAGGGCCGAAATAATA
66 ATAATATATTTTTATTAAAGTAATAAAATTCGGGGAAAAAATACGAATAAAGGGCCGAAATAATG
* * * * * *
903757 GTTTTTTTAAAATTT-ATTTAAAAAACACAGTAAATTAATACATTTCAAATATAATGTATTAAAA
131 GTTTTTTT-TAATTTCA-ATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAA
* * *
903821 TAATAT-AAATAATAAAATTAGAAAATAATATATTTTTTAAAGTAATAAAATTTAGAAAAAAAAT
194 TAATGTAAAATAATAAAAATAGAAAATAATAT-TTTTTTAAAGTAATAAAATTCAGAAAAAAAAT
* **
903885 ACGAATAAAGAGCCGAAATAAG-G-ATTTTTTAAATTT-ATTTAAAAA
258 ACGAACAAAGAGCCGAAATAAGAGTATTTTTTAAATTTAATAAAAAAA
* * *
903930 CACAATAAATTAATGCATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACAAAAA
1 CACAATAAATGAATACATTTCAAACATAATGTATTAAAATAATGTAAAATAATAAAATACAAAAA
*** *
903995 ATAATATATTTTTATTGAAAGTAATAAAA-TC-TAAAAAAAATACGAACAAAGGGCCGAAATAAT
66 ATAATATATTTTTATT-AAAGTAATAAAATTCGGGGAAAAAATACGAATAAAGGGCCGAAATAAT
*
904058 GGTTTTTTTTAATTTCAATAAAAAACACACTAAACGAATACATTTCAAACATAATGTACTAAAAT
130 GGTTTTTTTTAATTTCAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAAT
* ** * **
904123 AATGTAAAATAATAAAACTAGAAAATTGTATTTTTTTAAAGTAATAAAA-TCCGGGAAAAAATAC
195 AATGTAAAATAATAAAAATAGAAAATAATATTTTTTTAAAGTAATAAAATTCAGAAAAAAAATAC
*** *
904187 GAACAATTTGCCGAAATAAGAGTTTTTTTTAAATTTCAATAAAAAAA
260 GAACAAAGAGCCGAAATAAGAGTATTTTTTAAATTT-AATAAAAAAA
* * *
904234 TACACTAAATGAATACATTTCAAACATAATGTATTAAAATAATGTAAAATAATAAAACTAGAAAA
1 CACAATAAATGAATACATTTCAAACATAATGTATTAAAATAATGTAAAATAATAAAA-TACAAAA
* * * * * *
904299 TAGAATAT-TTTTTA--AAAGTAATAAAATTCGGGGGAAAAATACGAATAAAGGGCTGAAATGAG
65 AATAATATATTTTTATTAAAGTAATAAAATTCGGGGAAAAAATACGAATAAAGGGCCGAAATAAT
904361 GGTTTTTTTTTTAAATTTCAATAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTA
130 GG--TTTTTTTT-AATTTCAAT-AAAAAACACACTAAATGAATACATTTCAAACATAATGTACTA
* **
904426 AAATAATGTAAAATAATAAAAATAGAAAATAATATTTTTTT-AAGTAATAAAA-TCGGGGAAAAA
191 AAATAATGTAAAATAATAAAAATAGAAAATAATATTTTTTTAAAGTAATAAAATTCAGAAAAAAA
* *
904489 ATACGAACAAAGGGCTGAAATA
256 ATACGAACAAAGAGCCGAAATA
904511 GGAACATGTT
Statistics
Matches: 500, Mismatches: 65, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
300 27 0.05
301 131 0.26
302 89 0.18
303 29 0.06
304 77 0.15
305 20 0.04
306 48 0.10
307 79 0.16
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (305 bp):
CACAATAAATGAATACATTTCAAACATAATGTATTAAAATAATGTAAAATAATAAAATACAAAAA
ATAATATATTTTTATTAAAGTAATAAAATTCGGGGAAAAAATACGAATAAAGGGCCGAAATAATG
GTTTTTTTTAATTTCAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATA
ATGTAAAATAATAAAAATAGAAAATAATATTTTTTTAAAGTAATAAAATTCAGAAAAAAAATACG
AACAAAGAGCCGAAATAAGAGTATTTTTTAAATTTAATAAAAAAA
Found at i:910978 original size:22 final size:22
Alignment explanation
Indices: 910953--910995 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
910943 ATTTTAAAAA
910953 ATATTTTTAT-ATTAACATTTAT
1 ATATTTTTATAATTAA-ATTTAT
910975 ATATTTTTATAATTAAATTTA
1 ATATTTTTATAATTAAATTTA
910996 AATTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTAT
Found at i:930299 original size:19 final size:19
Alignment explanation
Indices: 930275--930316 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
930265 TAAGGACAAG
930275 TTTTAAAGTTATATAT-TAA
1 TTTTAAAGTTA-ATATGTAA
*
930294 TTTT-AATTTAATATGTAA
1 TTTTAAAGTTAATATGTAA
930312 TTTTA
1 TTTTA
930317 TACCAACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.20
18 12 0.60
19 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTAAAGTTAATATGTAA
Found at i:930591 original size:158 final size:154
Alignment explanation
Indices: 930210--930613 Score: 385
Period size: 152 Copynumber: 2.6 Consensus size: 154
930200 TTGATAGGAA
* ** *
930210 TTAGTTTCTCACTTTGATTTTCAACTTTTACAAAATAATACATTTTTTTAATATTTAAGG-ACAA
1 TTAGTTTCTCACTCTGATTTAGAATTTTTACAAAAT-A-ACATTTTTTTAATATTTAAGGTA-AA
* * * * * * *
930274 GTTTTAAAGTTATATATTAATTTTAATTTAATATGTAATTTTATACCAACTCAATCATGAGTTCT
63 -TTTTAAAATTATACATGAATTTTAATTTAATATATAATTTTATACCAACTCAATAATAAATTCT
*
930339 ATTAATAGTATAGATATTTCAAGAAAAG
127 ATTAATAGTATAGATATTTCAACAAAAG
* * * * *
930367 ---GTTTCTCA-TGTCAATTTAGAATTTTCATAAAATGATACA--TTTTTAATATTTAAAGATAA
1 TTAGTTTCTCACTCT-GATTTAGAATTTTTACAAAAT-A-ACATTTTTTTAATATTT-AAGGTAA
**
930426 ATTTTAAAATTATACATGAATTTTAATTTAATATATAATTTTATATACCAACTCGGTTAATAAAT
62 ATTTTAAAATTATACATGAATTTTAATTTAATATATAA-TTT-TATACCAACTC-AATAATAAAT
*
930491 T-TATT-ATAGTATAGATATTTCAACAAGAG
124 TCTATTAATAGTATAGATATTTCAACAAAAG
* * *
930520 TTAGTTTTTCACTCTGATTTAGAATTTTTACAAAATAAGCATTTTTTTTAATGTTTAACGGTGAA
1 TTAGTTTCTCACTCTGATTTAGAATTTTTACAAAATAA-CA-TTTTTTTAATATTTAA-GGTAAA
* * *
930585 TTTTAAAATTTTACATGATTTTTTATTTA
63 TTTTAAAATTATACATGAATTTTAATTTA
930614 TCAAGGTATC
Statistics
Matches: 201, Mismatches: 31, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
152 45 0.22
153 32 0.16
154 45 0.22
155 9 0.04
156 25 0.12
157 4 0.02
158 41 0.20
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.46
Consensus pattern (154 bp):
TTAGTTTCTCACTCTGATTTAGAATTTTTACAAAATAACATTTTTTTAATATTTAAGGTAAATTT
TAAAATTATACATGAATTTTAATTTAATATATAATTTTATACCAACTCAATAATAAATTCTATTA
ATAGTATAGATATTTCAACAAAAG
Found at i:935003 original size:16 final size:16
Alignment explanation
Indices: 934970--935003 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
934960 TCTAGGTGTT
* *
934970 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
934986 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
935002 AA
1 AA
935004 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:939549 original size:40 final size:40
Alignment explanation
Indices: 939494--939575 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
939484 TGAAAATCTC
*
939494 CACTTGATATTATAAATTTGGAAGCCTTACTATGAGTAGA
1 CACTTGATATTATAAATTTGGAAGCCTTACTATAAGTAGA
939534 CACTTGATATTATAAATTTGGAAGCCTTACTATAAGTAGA
1 CACTTGATATTATAAATTTGGAAGCCTTACTATAAGTAGA
939574 CA
1 CA
939576 ATCATAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (40 bp):
CACTTGATATTATAAATTTGGAAGCCTTACTATAAGTAGA
Found at i:940009 original size:20 final size:17
Alignment explanation
Indices: 939980--940023 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 17
939970 AAATTCCAGG
939980 AAAAAAAACATAATATTTT
1 AAAAAAAACA-AA-ATTTT
939999 AAAAAACAACAAAATTTT
1 AAAAAA-AACAAAATTTT
940017 AAAAAAA
1 AAAAAAA
940024 CTATATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.04
18 11 0.46
19 8 0.33
20 4 0.17
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAAAAACAAAATTTT
Found at i:945316 original size:14 final size:14
Alignment explanation
Indices: 945293--945323 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
945283 GAAATGAGAA
945293 TATGAACCCACATG
1 TATGAACCCACATG
*
945307 TATGATCCCACATG
1 TATGAACCCACATG
945321 TAT
1 TAT
945324 TTTAGCAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (14 bp):
TATGAACCCACATG
Found at i:951742 original size:40 final size:40
Alignment explanation
Indices: 951687--951783 Score: 167
Period size: 40 Copynumber: 2.4 Consensus size: 40
951677 CCACGTCAGT
*
951687 GCGATTTGTTGACGTGGACACAAATAGCGCCCTCTAAGAC
1 GCGATTTGCTGACGTGGACACAAATAGCGCCCTCTAAGAC
* *
951727 GCGATTTACTGACGTGGACACAAATAGCTCCCTCTAAGAC
1 GCGATTTGCTGACGTGGACACAAATAGCGCCCTCTAAGAC
951767 GCGATTTGCTGACGTGG
1 GCGATTTGCTGACGTGG
951784 CATGAACAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
GCGATTTGCTGACGTGGACACAAATAGCGCCCTCTAAGAC
Found at i:953551 original size:20 final size:20
Alignment explanation
Indices: 953528--953567 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
953518 TATTTTTCGA
953528 AAAATGATTTACTTTTCTGG
1 AAAATGATTTACTTTTCTGG
953548 AAAATGATTTACTTTTCTGG
1 AAAATGATTTACTTTTCTGG
953568 TGTTTGGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
AAAATGATTTACTTTTCTGG
Found at i:953675 original size:20 final size:20
Alignment explanation
Indices: 953650--953687 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
953640 GTTTTTACAT
953650 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
953670 ATATTAATAATTTTATAT
1 ATATTAATAAATTTATAT
953688 TTTAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:953888 original size:41 final size:43
Alignment explanation
Indices: 953842--953922 Score: 148
Period size: 41 Copynumber: 1.9 Consensus size: 43
953832 TATATTTGCA
953842 TTAATAATTTTTTGAGAAA-T-TAAGCTACTTTCTTTGTAATT
1 TTAATAATTTTTTGAGAAATTATAAGCTACTTTCTTTGTAATT
953883 TTAATAATTTTTTGAGAAATTATAAGCTACTTTCTTTGTA
1 TTAATAATTTTTTGAGAAATTATAAGCTACTTTCTTTGTA
953923 TCAATACTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 19 0.50
42 1 0.03
43 18 0.47
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (43 bp):
TTAATAATTTTTTGAGAAATTATAAGCTACTTTCTTTGTAATT
Found at i:953903 original size:21 final size:21
Alignment explanation
Indices: 953842--953903 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
953832 TATATTTGCA
953842 TTAATAATTTTTTGAGAAA--
1 TTAATAATTTTTTGAGAAATT
* *
953861 TTAAGCTACTTTCTTT--GTAATT
1 TTAA--TAATTT-TTTGAGAAATT
953883 TTAATAATTTTTTGAGAAATT
1 TTAATAATTTTTTGAGAAATT
953904 ATAAGCTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
19 7 0.22
20 8 0.25
21 10 0.31
22 7 0.22
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.52
Consensus pattern (21 bp):
TTAATAATTTTTTGAGAAATT
Found at i:962630 original size:18 final size:18
Alignment explanation
Indices: 962603--962695 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
962593 CCCAACTACT
* *
962603 GTATATGTGAACAGTACC
1 GTATACGTGAATAGTACC
962621 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* **
962639 GTATACGTAAATAGTATT
1 GTATACGTGAATAGTACC
* * *
962657 GTATACATAAATAGTGCC
1 GTATACGTGAATAGTACC
962675 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
962693 GTA
1 GTA
962696 AACGGTCGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:966902 original size:47 final size:47
Alignment explanation
Indices: 966844--966934 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
966834 ATTCGGTGAG
*
966844 TTAGTACCCATCAAAAAGTAGAAAAATCCTAAGTCAATTCGACACTA
1 TTAGTACCCATCAAAAAGTAGAAAAATCATAAGTCAATTCGACACTA
* *
966891 TTAGTATCCATCAAAAAGTAGAAGAATCATAAGTCAATTCGACA
1 TTAGTACCCATCAAAAAGTAGAAAAATCATAAGTCAATTCGACA
966935 GTTAGTGTCG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (47 bp):
TTAGTACCCATCAAAAAGTAGAAAAATCATAAGTCAATTCGACACTA
Found at i:969364 original size:22 final size:23
Alignment explanation
Indices: 969336--969404 Score: 90
Period size: 22 Copynumber: 3.1 Consensus size: 23
969326 TATGCACTAT
969336 TAAACAGAGAGCACTAAA-GTGC
1 TAAACAGAGAGCACTAAATGTGC
*
969358 TATACAGAGAGCAC-AAATGTGC
1 TAAACAGAGAGCACTAAATGTGC
* *
969380 TAAACGGAGAGCACT-AATATGC
1 TAAACAGAGAGCACTAAATGTGC
969402 TAA
1 TAA
969405 TAATTGAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.07
22 38 0.93
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (23 bp):
TAAACAGAGAGCACTAAATGTGC
Found at i:972842 original size:23 final size:23
Alignment explanation
Indices: 972789--972843 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
972779 AATTCAATTT
*
972789 AACTTACATTTTGTAAGTTATCA
1 AACTTACCTTTTGTAAGTTATCA
972812 AACTTACCTTTTGTAAGTTATCA
1 AACTTACCTTTTGTAAGTTATCA
972835 AACTTACCT
1 AACTTACCT
972844 CAACACATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (23 bp):
AACTTACCTTTTGTAAGTTATCA
Found at i:972985 original size:22 final size:22
Alignment explanation
Indices: 972959--973025 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
972949 TGCACTATTG
972959 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* * * *
972981 TACAGAGAACACGAATGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
973003 AAC-GAAGAGCACTAATA-TGCTA
1 AACAG-AGAGCACTAA-AGTGCTA
973025 A
1 A
973026 TAATCGAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:974519 original size:15 final size:15
Alignment explanation
Indices: 974499--974530 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
974489 TTCTTACAAA
974499 AGTCATTTCCAAATT
1 AGTCATTTCCAAATT
*
974514 AGTCATTTTCAAATT
1 AGTCATTTCCAAATT
974529 AG
1 AG
974531 GTACATATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (15 bp):
AGTCATTTCCAAATT
Found at i:991069 original size:24 final size:24
Alignment explanation
Indices: 991041--991098 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
991031 GCCTGAACTT
* *
991041 GGTGGAGGAGCCCCTTATGGTGCC
1 GGTGGAGGAGCCCCATACGGTGCC
*
991065 GGTGGAGCAGCCCCATACGGTGCC
1 GGTGGAGGAGCCCCATACGGTGCC
* *
991089 GATGAAGGAG
1 GGTGGAGGAG
991099 GTGCATATGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.24, G:0.41, T:0.16
Consensus pattern (24 bp):
GGTGGAGGAGCCCCATACGGTGCC
Found at i:991930 original size:16 final size:16
Alignment explanation
Indices: 991906--991959 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
991896 TTTGGTTCGC
* *
991906 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
991922 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
991938 TGTAATGGAATATAGG
1 TGTAATGGAATAGAGG
991954 TGTAAT
1 TGTAAT
991960 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:992004 original size:45 final size:44
Alignment explanation
Indices: 991938--992032 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
991928 GGAATAGAGG
* *
991938 TGTAATGGAATATAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
991983 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
992027 TGTAAT
1 TGTAAT
992033 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 22 0.50
45 22 0.50
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:992213 original size:18 final size:17
Alignment explanation
Indices: 992192--992226 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
992182 TTATTATTAA
*
992192 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
992210 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
992227 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:992872 original size:6 final size:6
Alignment explanation
Indices: 992861--992896 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
992851 ATTTTCAGGA
992861 CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT
1 CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT
992897 TAATTTCAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (6 bp):
CTGCAT
Done.