Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 191 of 228
Found at i:56654418 original size:91 final size:90
Alignment explanation
Indices: 56654260--56654429 Score: 261
Period size: 91 Copynumber: 1.9 Consensus size: 90
56654250 ACACTCCTGC
* ** *
56654260 TTGTGGATGAACCACAAGTGTTGTAAGTTAATATGCTACCAGTAATTGTGAATACACAACGGGTT
1 TTGTGGATAAACCACAAGTGTTGTAAGTTAATACACTACCAGTAATTGTGAATACACAACGGATT
56654325 TGCAGATAAAAGTTGCCATTAAATG
66 TGCAGATAAAAGTTGCCATTAAATG
* *
56654350 TTGTGGATAAACCACAATTGTTTGTAGGTTAATACACTACCAGTAATTGTGAATACACAATC-GA
1 TTGTGGATAAACCACAAGTG-TTGTAAGTTAATACACTACCAGTAATTGTGAATACACAA-CGGA
56654414 TTTGCAGATAAAAGTT
64 TTTGCAGATAAAAGTT
56654430 ACTAGTAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
90 18 0.25
91 53 0.74
92 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (90 bp):
TTGTGGATAAACCACAAGTGTTGTAAGTTAATACACTACCAGTAATTGTGAATACACAACGGATT
TGCAGATAAAAGTTGCCATTAAATG
Found at i:56658324 original size:2 final size:2
Alignment explanation
Indices: 56658317--56658351 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
56658307 TTCAAGATAA
56658317 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
56658352 TGTATATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:56660663 original size:27 final size:27
Alignment explanation
Indices: 56660630--56660851 Score: 279
Period size: 27 Copynumber: 8.3 Consensus size: 27
56660620 CCCTAAAATA
56660630 GGTAAAATAACTGAAATACCCCCATAG
1 GGTAAAATAACTGAAATACCCCCATAG
* * *
56660657 AAG-AAAATAATTGAAATA-CCTCATAG
1 -GGTAAAATAACTGAAATACCCCCATAG
*
56660683 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATAACTGAAATACCCCCATAG
* * * * *
56660710 GATAAATTGACCGAAATACCACCATAG
1 GGTAAAATAACTGAAATACCCCCATAG
* ** *
56660737 GGTAAAATGACCAAAATA-CCCCTTAG
1 GGTAAAATAACTGAAATACCCCCATAG
*
56660763 GGTAAAATAACTGAAATACCCCTATAG
1 GGTAAAATAACTGAAATACCCCCATAG
*
56660790 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATAACTGAAATACCCCCATAG
56660817 GGTAAAATAACTGAAATACCCCCATAG
1 GGTAAAATAACTGAAATACCCCCATAG
56660844 GGTAAAAT
1 GGTAAAAT
56660852 GATTATTATA
Statistics
Matches: 167, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
25 1 0.01
26 41 0.25
27 124 0.74
28 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.19
Consensus pattern (27 bp):
GGTAAAATAACTGAAATACCCCCATAG
Found at i:56660865 original size:54 final size:54
Alignment explanation
Indices: 56660630--56660853 Score: 283
Period size: 53 Copynumber: 4.2 Consensus size: 54
56660620 CCCTAAAATA
* * * * *
56660630 GGTAAAATAACTGAAATACCCCCATAGAAG-AAAATAATTGAAATA-CCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG-GGTAAAATAACTGAAATACCCCCATAG
* * * * * *
56660683 GGTAAAATAACCGAAATACCCCCATAGGATAAATTGACCGAAATACCACCATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAG
* * *
56660737 GGTAAAATGACCAAAATA-CCCCTTAGGGTAAAATAACTGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAG
*
56660790 GGTAAAATGACTGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAG
56660844 GGTAAAATGA
1 GGTAAAATGA
56660854 TTATTATACC
Statistics
Matches: 146, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
53 81 0.55
54 65 0.45
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (54 bp):
GGTAAAATGACCGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAG
Found at i:56660882 original size:80 final size:79
Alignment explanation
Indices: 56660634--56660851 Score: 262
Period size: 80 Copynumber: 2.7 Consensus size: 79
56660624 AAAATAGGTA
* * * * *
56660634 AAATAACTGAAATACCCCCATAGAAG-AAAATAATTGAAATACCTCATAGGGTAAAATAACCGAA
1 AAATGACTGAAATACCCCCATAG-GGTAAAATAACTGAAATACCCCATAGGGTAAAATAACTGAA
56660698 ATACCCCCATA-GGAT
65 ATA-CCCCATAGGGAT
* * * ** *
56660713 AAATTGACCGAAATACCACCATAGGGTAAAATGACCAAAATACCCCTTAGGGTAAAATAACTGAA
1 AAA-TGACTGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCATAGGGTAAAATAACTGAA
56660778 ATACCCCTATAGGG-T
65 ATACCCC-ATAGGGAT
56660793 AAAATGACTGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAGGGTAAAAT
1 -AAATGACTGAAATACCCCCATAGGGTAAAATAACTGAAATA-CCCCATAGGGTAAAAT
56660852 GATTATTATA
Statistics
Matches: 116, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
79 8 0.07
80 88 0.76
81 20 0.17
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (79 bp):
AAATGACTGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCATAGGGTAAAATAACTGAAA
TACCCCATAGGGAT
Found at i:56668967 original size:10 final size:11
Alignment explanation
Indices: 56668943--56668975 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
56668933 TAAAAAGTGC
56668943 AGAGAAAACTA
1 AGAGAAAACTA
*
56668954 AGAGAAACCT-
1 AGAGAAAACTA
56668964 AGAGAAAACTA
1 AGAGAAAACTA
56668975 A
1 A
56668976 ACCTAAAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.61, C:0.12, G:0.18, T:0.09
Consensus pattern (11 bp):
AGAGAAAACTA
Found at i:56677780 original size:16 final size:16
Alignment explanation
Indices: 56677750--56677791 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
56677740 GATATTTATA
*
56677750 TTTTATTTTTATTAAAT
1 TTTTATTATTATT-AAT
56677767 TTTTATTATT-TTAAT
1 TTTTATTATTATTAAT
56677782 TTTTAATTAT
1 TTTT-ATTAT
56677792 CATGGAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 7 0.30
17 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTATTATTAAT
Found at i:56678293 original size:20 final size:20
Alignment explanation
Indices: 56678243--56678294 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
56678233 TTATTTTACC
56678243 TTTAAATTAAAAAAAATTAT
1 TTTAAATTAAAAAAAATTAT
* * *
56678263 TCTGAATTAAAAAATA-TAT
1 TTTAAATTAAAAAAAATTAT
56678282 TTTAAATATAAAA
1 TTTAAAT-TAAAA
56678295 TGTTAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTAAATTAAAAAAAATTAT
Found at i:56679857 original size:22 final size:22
Alignment explanation
Indices: 56679804--56679867 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
56679794 AACGTTTGAC
56679804 TTTTACAAT-TTATAATT-A-TA
1 TTTTA-AATATTATAATTAATTA
*
56679824 TTGTTAATTATTATAATTAATTA
1 TT-TTAAATATTATAATTAATTA
56679847 TTTTAAATATT-TAATTTAATT
1 TTTTAAATATTATAA-TTAATT
56679868 CAAATTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 4 0.11
21 14 0.38
22 15 0.41
23 4 0.11
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTAAATATTATAATTAATTA
Found at i:56688913 original size:21 final size:21
Alignment explanation
Indices: 56688889--56688941 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
56688879 CATTGTTTCT
*
56688889 AATCTCACCGCTAAAGTATCC
1 AATCTCACCGCTAAAGTAACC
* *
56688910 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTAAAGTAACC
56688931 AATCTCACCGC
1 AATCTCACCGC
56688942 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.36, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTAAAGTAACC
Found at i:56692342 original size:22 final size:24
Alignment explanation
Indices: 56692314--56692357 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
56692304 TAATTTCTAA
*
56692314 AAACAAA-TTTT-CTTTTTATTTC
1 AAACAAACTTTTAATTTTTATTTC
56692336 AAACAAACTTTTAATTTTTATT
1 AAACAAACTTTTAATTTTTATT
56692358 ATGATTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.52
Consensus pattern (24 bp):
AAACAAACTTTTAATTTTTATTTC
Found at i:56694324 original size:3 final size:3
Alignment explanation
Indices: 56694316--56694353 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
56694306 GTAAAAGGAA
56694316 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56694354 AGTTAACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:56696063 original size:44 final size:43
Alignment explanation
Indices: 56696014--56696536 Score: 182
Period size: 44 Copynumber: 12.2 Consensus size: 43
56696004 ATCTACTCTG
* * *
56696014 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTT-TTTCAATCTGCTCCA
* * ** * * *
56696058 CTGTAACTTCAGGGAGATAGGATAGTGTTTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* ***
56696101 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC-CTTTTTTCAATCTGCTCCA
* ** **
56696145 CTGTAACCTCAGGGAGATAAGATCCAAAATTCTTT-GGTCTATTCCA
1 CTGTAACCTCAGGGAGATAAGATCC----TTTTTTCAATCTGCTCCA
* ** * * * *
56696191 CTGTAATCTCAGGGAGATAAGA-CCTGATGT-GATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * *
56696232 CTGTAACTTCAGAGAGATAAGATCC---TTT-AATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * * * * * * *
56696271 TTGTAATCTCAAGGAGATAGGATTACTATCTTT-GATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-TCCT-TTTTTCAATCTGCTCCA
* ** *
56696315 CTGTAATCTCAGGGAGATAAGAT-CTAAAATTCTTT-GGTCTGTTCCA
1 CTGTAACCTCAGGGAGATAAGATCCT----TT-TTTCAATCTGCTCCA
* * ** * * * *
56696361 CTGTAATCTCAGAGAGATAAGA-CCTGATGT-GATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * *
56696402 CTGTAACTTCAGAGAGATAAGATCC---TTT-AATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * * * * ** * *
56696441 TTGTAATCTCAAGGAGATAGGATTACTATCCTT-GATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-TCCT-TTTTTCAATCTGCTCCA
* * * *
56696485 CTGTAATCTCAGGGAGATAAGATCTGCTTCTTT-AACCAGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC--CTTTTTTCAATCTGCTCCA
56696529 CTGTAACC
1 CTGTAACC
56696537 AATGAAGGCA
Statistics
Matches: 359, Mismatches: 96, Indels: 48
0.71 0.19 0.10
Matches are distributed among these distances:
39 50 0.14
40 4 0.01
41 58 0.16
42 6 0.02
43 34 0.09
44 136 0.38
45 6 0.02
46 62 0.17
47 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (43 bp):
CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
Found at i:56696118 original size:87 final size:87
Alignment explanation
Indices: 56696002--56696163 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
56695992 AGACCTGATG
* * * * *
56696002 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
56696066 TCAGGGAGATAGGATAGTGTTTT
65 TCAGGGAGATAGGATAGTGTTTT
* * * * *
56696089 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
56696154 CAGGGAGATA
66 CAGGGAGATA
56696164 AGATCCAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTTTT
Found at i:56696332 original size:83 final size:83
Alignment explanation
Indices: 56696232--56696508 Score: 280
Period size: 83 Copynumber: 3.3 Consensus size: 83
56696222 ATCTTCTCTA
56696232 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
1 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
56696297 TATCTTTGATCTGCTCCG
66 TATCTTTGATCTGCTCCG
* ** * * *
56696315 CTGTAA-TCTCAGGGAGATAAGATCTAAAATTCTTTGGTCTGTTCCACTGTAATCTC-AGAGAGA
1 CTGTAACT-TCAGAGAGATAAGATC-------CTTTAATCCGCTCCATTGTAATCTCAAG-GAGA
* * * * **
56696378 TAAGA--CCTGA--TGTGATCTTCTCTA
57 TAGGATTACT-ATCTTTGATCTGCTCCG
56696402 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
1 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
*
56696467 TATCCTTGATCTGCTCCG
66 TATCTTTGATCTGCTCCG
*
56696485 CTGTAA-TCTCAGGGAGATAAGATC
1 CTGTAACT-TCAGAGAGATAAGATC
56696509 TGCTTCTTTA
Statistics
Matches: 151, Mismatches: 26, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
80 28 0.19
81 3 0.02
82 4 0.03
83 51 0.34
87 31 0.21
88 3 0.02
89 3 0.02
90 28 0.19
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (83 bp):
CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
TATCTTTGATCTGCTCCG
Found at i:56696367 original size:46 final size:44
Alignment explanation
Indices: 56696052--56696507 Score: 195
Period size: 44 Copynumber: 10.7 Consensus size: 44
56696042 ATTTTAATCC
* ***
56696052 GCTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGT-TTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTAAAATCTTT-GATCT
* **** **
56696095 GCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TAAAATCTTTGATCT
* * *
56696139 GCTCCACTGTAACCTCAGGGAGATAAGATCCAAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TAAAA-TCTTTGATCT
** * * *
56696185 ATTCCACTGTAATCTCAGGGAGATAAGACCT--GA--TGTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGA-TTAAAATCTTTGATCT
* * * * * *
56696226 TCTCTACTGTAA-CTTCAGAGAGATAAGA-T----CCTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTAAAATCTTTGATCT
* * * **
56696265 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTAAAATCTTTGATCT
* *
56696309 GCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TAAAA-TCTTTGATCT
* * * * *
56696355 GTTCCACTGTAATCTCAGAGAGATAAGACCT--GA--TGTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGA-TTAAAATCTTTGATCT
* * * * * *
56696396 TCTCTACTGTAA-CTTCAGAGAGATAAGA-T----CCTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTAAAATCTTTGATCT
* * * ** *
56696435 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTAAAATCTTTGATCT
*
56696479 GCTCCGCTGTAATCTCAGGGAGATAAGAT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT
56696508 CTGCTTCTTT
Statistics
Matches: 311, Mismatches: 74, Indels: 55
0.71 0.17 0.12
Matches are distributed among these distances:
39 52 0.17
40 6 0.02
41 57 0.18
43 24 0.08
44 100 0.32
45 6 0.02
46 66 0.21
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTAAAATCTTTGATCT
Found at i:56696509 original size:170 final size:170
Alignment explanation
Indices: 56696135--56696509 Score: 696
Period size: 170 Copynumber: 2.2 Consensus size: 170
56696125 TCTGGCTTCA
* * *
56696135 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCAAAATTCTTTGGTCTATTCCACTGTAATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTTGGTCTATTCCACTGTAATCT
*
56696200 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
66 CAGAGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
*
56696265 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTG
131 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
*
56696305 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTTGGTCTGTTCCACTGTAATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTTGGTCTATTCCACTGTAATCT
56696370 CAGAGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
66 CAGAGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
56696435 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
131 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
56696475 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
56696510 GCTTCTTTAA
Statistics
Matches: 199, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
170 199 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (170 bp):
ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTTGGTCTATTCCACTGTAATCT
CAGAGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
Found at i:56697679 original size:21 final size:21
Alignment explanation
Indices: 56697653--56697699 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
56697643 GGTATAGCAG
56697653 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** * *
56697674 GATCACTTCATGCCCTATTCT
1 GATCACCACATGCCCCAATCT
56697695 GATCA
1 GATCA
56697700 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:56698718 original size:7 final size:8
Alignment explanation
Indices: 56698693--56698722 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
56698683 CTATTTTGAC
56698693 TTTGATTTT
1 TTTGA-TTT
56698702 TTTGATTT
1 TTTGATTT
56698710 TTTGATTT
1 TTTGATTT
56698718 TTTGA
1 TTTGA
56698723 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (8 bp):
TTTGATTT
Found at i:56701330 original size:19 final size:20
Alignment explanation
Indices: 56701301--56701349 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
56701291 CACTTCGTGA
* *
56701301 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
56701320 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
56701340 AAATG-AATGC
1 AAATGTAATGC
56701350 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:56703729 original size:3 final size:3
Alignment explanation
Indices: 56703721--56703755 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
56703711 GTAAAAGGAA
*
56703721 AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56703756 AGTTAACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:56707744 original size:25 final size:24
Alignment explanation
Indices: 56707706--56707763 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
56707696 ATGTTCAAGC
* *
56707706 GAGCTATATTAGGAAGCTCAAAAA
1 GAGCTACATCAGGAAGCTCAAAAA
* *
56707730 GAGCATACATCAGGACGCTCATAAA
1 GAGC-TACATCAGGAAGCTCAAAAA
56707755 GAGCTACAT
1 GAGCTACAT
56707764 TTGTGTCTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (24 bp):
GAGCTACATCAGGAAGCTCAAAAA
Found at i:56709607 original size:16 final size:17
Alignment explanation
Indices: 56709580--56709615 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
56709570 GAAAAATAGA
56709580 CCCGTTTAAAAAACGGG
1 CCCGTTTAAAAAACGGG
56709597 CCCGTTTAAAAAACGGG
1 CCCGTTTAAAAAACGGG
56709614 CC
1 CC
56709616 GAGCCTCGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.22, T:0.17
Consensus pattern (17 bp):
CCCGTTTAAAAAACGGG
Found at i:56710057 original size:29 final size:30
Alignment explanation
Indices: 56710011--56710068 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
56710001 ATGTTGGTTG
*
56710011 TGATTTTGATTTTTGCTGTTAATGGTGTTC
1 TGATTTGGATTTTTGCTGTTAATGGTGTTC
*
56710041 TGATTTGGA-TTTTGCTGTTAATGTTGTT
1 TGATTTGGATTTTTGCTGTTAATGGTGTT
56710069 AATGGTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.14, C:0.05, G:0.24, T:0.57
Consensus pattern (30 bp):
TGATTTGGATTTTTGCTGTTAATGGTGTTC
Found at i:56711332 original size:13 final size:13
Alignment explanation
Indices: 56711314--56711444 Score: 126
Period size: 13 Copynumber: 10.2 Consensus size: 13
56711304 ATTTTTAATG
56711314 TAATATACTGTTT
1 TAATATACTGTTT
*
56711327 TAATATACTGTTA
1 TAATATACTGTTT
*
56711340 TAA-A-A-T-TTG
1 TAATATACTGTTT
56711349 TAATATACTGTTT
1 TAATATACTGTTT
*
56711362 TAATATACTATTAT
1 TAATATACTGTT-T
* *
56711376 AAATATACTTTTT
1 TAATATACTGTTT
*
56711389 TAATATATTGTTT
1 TAATATACTGTTT
* *
56711402 TAATATACTATTA
1 TAATATACTGTTT
*
56711415 TAATTATATTGTTT
1 TAA-TATACTGTTT
*
56711429 TAATATAATGTTT
1 TAATATACTGTTT
56711442 TAA
1 TAA
56711445 CTTTTAACTT
Statistics
Matches: 96, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
9 5 0.05
10 2 0.02
11 2 0.02
12 2 0.02
13 64 0.67
14 21 0.22
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:56711404 original size:40 final size:39
Alignment explanation
Indices: 56711314--56711444 Score: 171
Period size: 40 Copynumber: 3.4 Consensus size: 39
56711304 ATTTTTAATG
* *
56711314 TAATATACTGTTTTAATATACTGTTAT-AA-A-A-TTTG
1 TAATATACTGTTTTAATATACTATTATAAATATATTTTT
56711349 TAATATACTGTTTTAATATACTATTATAAATATACTTTTT
1 TAATATACTGTTTTAATATACTATTATAAATATA-TTTTT
* *
56711389 TAATATATTGTTTTAATATACTATTATAATTATATTGTTT
1 TAATATACTGTTTTAATATACTATTATAAATATATT-TTT
*
56711429 TAATATAATGTTTTAA
1 TAATATACTGTTTTAA
56711445 CTTTTAACTT
Statistics
Matches: 85, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
35 26 0.31
36 2 0.02
37 1 0.01
38 1 0.01
39 2 0.02
40 53 0.62
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (39 bp):
TAATATACTGTTTTAATATACTATTATAAATATATTTTT
Found at i:56711430 original size:27 final size:26
Alignment explanation
Indices: 56711314--56711435 Score: 108
Period size: 27 Copynumber: 4.8 Consensus size: 26
56711304 ATTTTTAATG
* *
56711314 TAATATACTGTTTTAATATACTGTTA
1 TAATATATTGTTTTAATATACTATTA
* * *
56711340 TAA-A-A-T-TTGTAATATACTGTTT
1 TAATATATTGTTTTAATATACTATTA
* * * * *
56711362 TAATATACTATTATAAATATACTTTTT
1 TAATATATTGTT-TTAATATACTATTA
56711389 TAATATATTGTTTTAATATACTATTA
1 TAATATATTGTTTTAATATACTATTA
56711415 TAATTATATTGTTTTAATATA
1 TAA-TATATTGTTTTAATATA
56711436 ATGTTTTAAC
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
22 17 0.21
23 2 0.03
24 2 0.03
25 2 0.03
26 19 0.24
27 38 0.47
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (26 bp):
TAATATATTGTTTTAATATACTATTA
Found at i:56711500 original size:15 final size:15
Alignment explanation
Indices: 56711480--56711513 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
56711470 AAATATACAT
56711480 TTAATTTGTAACACA
1 TTAATTTGTAACACA
56711495 TTAATTTGTAACACA
1 TTAATTTGTAACACA
56711510 TTAA
1 TTAA
56711514 ATTTTAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (15 bp):
TTAATTTGTAACACA
Found at i:56711538 original size:14 final size:14
Alignment explanation
Indices: 56711516--56711551 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
56711506 CACATTAAAT
*
56711516 TTTAGTTTCTATAC
1 TTTATTTTCTATAC
56711530 TTTATTTTCTATAC
1 TTTATTTTCTATAC
56711544 TTTATTTT
1 TTTATTTT
56711552 TTAACATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.19, C:0.11, G:0.03, T:0.67
Consensus pattern (14 bp):
TTTATTTTCTATAC
Found at i:56711674 original size:328 final size:326
Alignment explanation
Indices: 56711202--56711826 Score: 1115
Period size: 328 Copynumber: 1.9 Consensus size: 326
56711192 AAATGATTAA
*
56711202 ACTTTAGTTTCTATACTTTATTTTTAACATAAATTGGTGCTTATATTTTATAATGTTATTAACTA
1 ACTTTAGTTTCTATACTTTATTTTTAACATAAAATGGTGCTTATATTTTATAATGTTATTAACTA
*
56711267 AATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTGTTTTAATA
66 AATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTATTTTAATA
*
56711332 TACTGTTATAAAATTTGTAATATACTGTTTTAATATACTATTATAAATATACTTTTTTAATATAT
131 TACTGTTATAAAATTTATAATATACTGTTTTAATATACTATTATAAATATACTTTTTTAATATAT
* * * * *
56711397 TGTTTTAATATACTATTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAACTTTTAGTAT
196 TGTTTTAATATACTATTATAATTATATTGTTTTAATATAATATTTTAAATTTTAAATTTGAATAT
56711462 ACCGTTATAAATATACATTTAATTTGTAACACATTAATTTGTAACACATTAAATTTTAGTTTCTA
261 ACCGTTATAAATATACATTTAATTTGTAACACATTAATTTGTAACACATTAAATTTTAGTTTCTA
56711527 T
326 T
*
56711528 ACTTTATTTTCTATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATGTTATTAAC
1 ACTTTAGTTTCTATACTTTA-TTTTTAACATAAAATGGTGCTTATA-TTTTATAATGTTATTAAC
56711593 TAAATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTATTTTAA
64 TAAATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTATTTTAA
* *
56711658 TATACTGTTTTAAAATTTATAATATATTGTTTTAATATACTATTATAAATATACTTTTTTAATAT
129 TATACTGTTATAAAATTTATAATATACTGTTTTAATATACTATTATAAATATACTTTTTTAATAT
*
56711723 ATTGTTTTAATATACTGTTATAATTATATTGTTTTAATATAATATTTTAAATTTTAAATTTGAAT
194 ATTGTTTTAATATACTATTATAATTATATTGTTTTAATATAATATTTTAAATTTTAAATTTGAAT
*
56711788 ATACTGTTATAAATATACATTTAATTTGTAACACATTAA
259 ATACCGTTATAAATATACATTTAATTTGTAACACATTAA
56711827 ATGTTGATGT
Statistics
Matches: 284, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
326 19 0.07
327 24 0.08
328 241 0.85
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (326 bp):
ACTTTAGTTTCTATACTTTATTTTTAACATAAAATGGTGCTTATATTTTATAATGTTATTAACTA
AATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTATTTTAATA
TACTGTTATAAAATTTATAATATACTGTTTTAATATACTATTATAAATATACTTTTTTAATATAT
TGTTTTAATATACTATTATAATTATATTGTTTTAATATAATATTTTAAATTTTAAATTTGAATAT
ACCGTTATAAATATACATTTAATTTGTAACACATTAATTTGTAACACATTAAATTTTAGTTTCTA
T
Found at i:56711732 original size:40 final size:40
Alignment explanation
Indices: 56711677--56711772 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
56711667 TTAAAATTTA
56711677 TAATATATTGTTTTAATATACTATTATAAATATACTT-TTT
1 TAATATATTGTTTTAATATACTATTATAAATATA-TTGTTT
* *
56711717 TAATATATTGTTTTAATATACTGTTATAATTATATTGTTT
1 TAATATATTGTTTTAATATACTATTATAAATATATTGTTT
* *
56711757 TAATATAATATTTTAA
1 TAATATATTGTTTTAA
56711773 ATTTTAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.04
40 49 0.96
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (40 bp):
TAATATATTGTTTTAATATACTATTATAAATATATTGTTT
Found at i:56711758 original size:27 final size:26
Alignment explanation
Indices: 56711642--56711763 Score: 99
Period size: 27 Copynumber: 4.8 Consensus size: 26
56711632 ATTTTTAATG
* * *
56711642 TAATATACTATTTTAATATACTGTTT
1 TAATATATTGTTTTAATATACTGTTA
* * *
56711668 TAA-A-A-T-TTATAATATATTGTTT
1 TAATATATTGTTTTAATATACTGTTA
* * * * *
56711690 TAATATACTATTATAAATATACTTTTT
1 TAATATATTGTT-TTAATATACTGTTA
56711717 TAATATATTGTTTTAATATACTGTTA
1 TAATATATTGTTTTAATATACTGTTA
56711743 TAATTATATTGTTTTAATATA
1 TAA-TATATTGTTTTAATATA
56711764 ATATTTTAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
22 17 0.22
23 2 0.03
24 2 0.03
25 2 0.03
26 19 0.24
27 37 0.47
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (26 bp):
TAATATATTGTTTTAATATACTGTTA
Found at i:56711772 original size:13 final size:13
Alignment explanation
Indices: 56711642--56711763 Score: 117
Period size: 13 Copynumber: 9.5 Consensus size: 13
56711632 ATTTTTAATG
*
56711642 TAATATACTATTT
1 TAATATACTGTTT
56711655 TAATATACTGTTT
1 TAATATACTGTTT
*
56711668 TAA-A-A-T-TTA
1 TAATATACTGTTT
*
56711677 TAATATATTGTTT
1 TAATATACTGTTT
*
56711690 TAATATACTATTAT
1 TAATATACTGTT-T
* *
56711704 AAATATACTTTTT
1 TAATATACTGTTT
*
56711717 TAATATATTGTTT
1 TAATATACTGTTT
*
56711730 TAATATACTGTTA
1 TAATATACTGTTT
*
56711743 TAATTATATTGTTT
1 TAA-TATACTGTTT
56711757 TAATATA
1 TAATATA
56711764 ATATTTTAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
9 5 0.06
10 2 0.02
11 2 0.02
12 2 0.02
13 56 0.63
14 22 0.25
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:56714241 original size:9 final size:9
Alignment explanation
Indices: 56714227--56714272 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
56714217 GGTTGCAAAA
56714227 AGGACGATG
1 AGGACGATG
56714236 AGGACGATG
1 AGGACGATG
*
56714245 ACGACGATG
1 AGGACGATG
*
56714254 ACGACGATG
1 AGGACGATG
*
56714263 AGGATGATG
1 AGGACGATG
56714272 A
1 A
56714273 TGTTTCTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.39, T:0.13
Consensus pattern (9 bp):
AGGACGATG
Found at i:56714681 original size:19 final size:19
Alignment explanation
Indices: 56714657--56714727 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
56714647 AATATTTAAA
56714657 TTGACAGTTTTGGTATTAT
1 TTGACAGTTTTGGTATTAT
* * *
56714676 TTGACAGTTTTTTTGCAGTTTT
1 TTGACAG--TTTTGGTA-TTAT
*
56714698 TTTACAGTTTTGGTATTAT
1 TTGACAGTTTTGGTATTAT
*
56714717 TTAACAGTTTT
1 TTGACAGTTTT
56714728 TTTGGTATTA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
19 20 0.49
20 6 0.15
21 6 0.15
22 9 0.22
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.56
Consensus pattern (19 bp):
TTGACAGTTTTGGTATTAT
Found at i:56714696 original size:11 final size:11
Alignment explanation
Indices: 56714675--56714708 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
56714665 TTTGGTATTA
56714675 TTTGACAGTTTT
1 TTTG-CAGTTTT
56714687 TTTGCAGTTTT
1 TTTGCAGTTTT
*
56714698 TTTACAGTTTT
1 TTTGCAGTTTT
56714709 GGTATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.62
Consensus pattern (11 bp):
TTTGCAGTTTT
Found at i:56714733 original size:22 final size:22
Alignment explanation
Indices: 56714664--56714737 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
56714654 AAATTGACAG
*
56714664 TTTTGGTATTATTTGACAGTTT
1 TTTTGGTATTATTTAACAGTTT
*
56714686 TTTTGCAGT-TT-TTTTACAG---
1 TTTTG--GTATTATTTAACAGTTT
56714705 TTTTGGTATTATTTAACAGTTT
1 TTTTGGTATTATTTAACAGTTT
56714727 TTTTGGTATTA
1 TTTTGGTATTA
56714738 CTTGTATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
17 2 0.05
18 2 0.05
19 12 0.28
22 23 0.53
23 2 0.05
24 2 0.05
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.59
Consensus pattern (22 bp):
TTTTGGTATTATTTAACAGTTT
Found at i:56716117 original size:21 final size:21
Alignment explanation
Indices: 56716093--56716236 Score: 104
Period size: 21 Copynumber: 7.0 Consensus size: 21
56716083 ACCAAAAACA
*
56716093 TACAATTAAATGATAAAAAAG
1 TACAACTAAATGATAAAAAAG
56716114 TACAACT-AA--A-AAAAAAG
1 TACAACTAAATGATAAAAAAG
*
56716131 TTACAACTAAATGAT-TAAAAG
1 -TACAACTAAATGATAAAAAAG
* * *
56716152 TACAAGTAAA-AACAAAAAAG
1 TACAACTAAATGATAAAAAAG
56716172 TTACAACTAAATGACTAAAAAAG
1 -TACAACTAAATGA-TAAAAAAG
* * *
56716195 TACAAATAAA-AACAAAAAAG
1 TACAACTAAATGATAAAAAAG
* *
56716215 TTATAACTAAATGTTGAAAAAA
1 -TACAACTAAATGAT-AAAAAA
56716237 AATGCAACTC
Statistics
Matches: 94, Mismatches: 17, Indels: 22
0.71 0.13 0.17
Matches are distributed among these distances:
17 7 0.07
18 8 0.09
19 3 0.03
20 23 0.24
21 30 0.32
22 10 0.11
23 13 0.14
ACGTcount: A:0.62, C:0.09, G:0.08, T:0.20
Consensus pattern (21 bp):
TACAACTAAATGATAAAAAAG
Found at i:56716177 original size:80 final size:83
Alignment explanation
Indices: 56716073--56716227 Score: 217
Period size: 80 Copynumber: 1.9 Consensus size: 83
56716063 ATAATAATAA
* * *
56716073 ACAACTAAAAACCAAAAACATACAATTAAATGA-TAAAAAAGTACAACT-AAA-AAAAAAGTTAC
1 ACAACTAAAAACAAAAAACATACAACTAAATGACTAAAAAAGTACAAATAAAACAAAAAAGTTAC
56716135 AACTAAATGATTAAAAGT
66 AACTAAATGATTAAAAGT
* **
56716153 ACAAGTAAAAACAAAAAAGTTACAACTAAATGACTAAAAAAGTACAAATAAAAACAAAAAAGTTA
1 ACAACTAAAAACAAAAAACATACAACTAAATGACTAAAAAAGTACAAAT-AAAACAAAAAAGTTA
*
56716218 TAACTAAATG
65 CAACTAAATG
56716228 TTGAAAAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 28 0.44
81 14 0.22
83 3 0.05
84 19 0.30
ACGTcount: A:0.63, C:0.12, G:0.07, T:0.18
Consensus pattern (83 bp):
ACAACTAAAAACAAAAAACATACAACTAAATGACTAAAAAAGTACAAATAAAACAAAAAAGTTAC
AACTAAATGATTAAAAGT
Found at i:56716207 original size:43 final size:42
Alignment explanation
Indices: 56716073--56716236 Score: 201
Period size: 43 Copynumber: 4.0 Consensus size: 42
56716063 ATAATAATAA
* ** *
56716073 ACAACTAAAAACCAAAAACATACAATTAAATGATAAAAAAGT
1 ACAACTAAAAACAAAAAAGTTACAACTAAATGATAAAAAAGT
*
56716115 ACAACT--AAA-AAAAAAGTTACAACTAAATGAT-TAAAAGT
1 ACAACTAAAAACAAAAAAGTTACAACTAAATGATAAAAAAGT
*
56716153 ACAAGTAAAAACAAAAAAGTTACAACTAAATGACTAAAAAAGT
1 ACAACTAAAAACAAAAAAGTTACAACTAAATGA-TAAAAAAGT
* * *
56716196 ACAAATAAAAACAAAAAAGTTATAACTAAATGTTGAAAAAA
1 ACAACTAAAAACAAAAAAGTTACAACTAAATGAT-AAAAAA
56716237 AATGCAACTC
Statistics
Matches: 106, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
38 11 0.10
39 18 0.17
40 6 0.06
41 21 0.20
42 8 0.08
43 42 0.40
ACGTcount: A:0.63, C:0.11, G:0.07, T:0.18
Consensus pattern (42 bp):
ACAACTAAAAACAAAAAAGTTACAACTAAATGATAAAAAAGT
Found at i:56724541 original size:24 final size:24
Alignment explanation
Indices: 56724514--56724562 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
56724504 TGAAACCTAC
56724514 ATTGTAGTTAAAAAAATTGTAACA
1 ATTGTAGTTAAAAAAATTGTAACA
*
56724538 ATTGTAGTTAAAAAAATTGTTACA
1 ATTGTAGTTAAAAAAATTGTAACA
56724562 A
1 A
56724563 GTGACCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.35
Consensus pattern (24 bp):
ATTGTAGTTAAAAAAATTGTAACA
Found at i:56726498 original size:29 final size:27
Alignment explanation
Indices: 56726460--56726513 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
56726450 ATTTTGAATT
*
56726460 AATAAATTCTTTTTGAGTTTTCTTTTTTC
1 AATAAATTC-TCTTGAG-TTTCTTTTTTC
*
56726489 AATAATTTCTCTTGAGTTTCTTTTT
1 AATAAATTCTCTTGAGTTTCTTTTT
56726514 GAAGACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 6 0.26
29 8 0.35
ACGTcount: A:0.20, C:0.11, G:0.07, T:0.61
Consensus pattern (27 bp):
AATAAATTCTCTTGAGTTTCTTTTTTC
Found at i:56728964 original size:18 final size:18
Alignment explanation
Indices: 56728938--56728980 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
56728928 GAAGAGGTGG
*
56728938 AGAAGAAGAAGGAGAAGA
1 AGAAAAAGAAGGAGAAGA
56728956 AGAAAAAGAAGGAGAAGA
1 AGAAAAAGAAGGAGAAGA
*
56728974 GGAAAAA
1 AGAAAAA
56728981 TAGAGATGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (18 bp):
AGAAAAAGAAGGAGAAGA
Found at i:56733024 original size:6 final size:6
Alignment explanation
Indices: 56733009--56733067 Score: 66
Period size: 6 Copynumber: 9.8 Consensus size: 6
56732999 AACCAAACTG
* * * *
56733009 AAATCA AAATCT AAATCT AAATCT AAATCG AGATCA AAAT-T GAAATCT
1 AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT -AAATCT
56733057 AAATCT AAATC
1 AAATCT AAATC
56733068 AGAATCAGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
6 44 0.98
7 1 0.02
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (6 bp):
AAATCT
Found at i:56733047 original size:30 final size:30
Alignment explanation
Indices: 56733011--56733067 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
56733001 CCAAACTGAA
56733011 ATCAAAATCT-AAATCTAAATCTAAATCGAG
1 ATCAAAAT-TGAAATCTAAATCTAAATCGAG
56733041 ATCAAAATTGAAATCTAAATCTAAATC
1 ATCAAAATTGAAATCTAAATCTAAATC
56733068 AGAATCAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (30 bp):
ATCAAAATTGAAATCTAAATCTAAATCGAG
Found at i:56733093 original size:6 final size:6
Alignment explanation
Indices: 56733084--56733150 Score: 80
Period size: 6 Copynumber: 11.2 Consensus size: 6
56733074 AGTGAGTGTT
* * * *
56733084 TCAAAA TCAAAA TCGAAA TCAAAA TCAAAA TCAGAA TCAGAA TCGAAA
1 TCAAAA TCAAAA TCAAAA TCAAAA TCAAAA TCAAAA TCAAAA TCAAAA
**
56733132 TCAAAA TTGAAA TCAAAA T
1 TCAAAA TCAAAA TCAAAA T
56733151 AACCCTAAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.58, C:0.15, G:0.07, T:0.19
Consensus pattern (6 bp):
TCAAAA
Found at i:56733642 original size:21 final size:21
Alignment explanation
Indices: 56733616--56733655 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
56733606 AACGTGGCAA
56733616 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAGCTG
*
56733637 GTTAACTTGCCACGTCAGC
1 GTTAACTTGCCACATCAGC
56733656 GGTCCAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTG
Found at i:56735296 original size:6 final size:6
Alignment explanation
Indices: 56735287--56735326 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
56735277 ATAGGAATAG
*
56735287 GTATAT GTATAT GTATAT GTATAT GTATAT GCATAT GTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTAT
56735327 CCATATACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (6 bp):
GTATAT
Found at i:56736491 original size:28 final size:28
Alignment explanation
Indices: 56736459--56736519 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
56736449 GTCTGGATGC
*
56736459 GGTACTTACCAAAATAGATTAATCTCGT
1 GGTACTTACCAAAATAGATTAATCTCAT
*
56736487 GGTACTTACCAAAATAGATTAATTTCAT
1 GGTACTTACCAAAATAGATTAATCTCAT
56736515 GGTAC
1 GGTAC
56736520 GGGTTATCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (28 bp):
GGTACTTACCAAAATAGATTAATCTCAT
Found at i:56738205 original size:28 final size:25
Alignment explanation
Indices: 56738165--56738218 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 25
56738155 TTGCGTTGAG
56738165 ATTTCGTTATCACTAATGTAATTTTATT
1 ATTTCGTTATCACT-AT-T-ATTTTATT
56738193 ATTTCGTTATCACTATTATTTTATT
1 ATTTCGTTATCACTATTATTTTATT
56738218 A
1 A
56738219 ATCAAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 9 0.35
26 1 0.04
27 2 0.08
28 14 0.54
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.56
Consensus pattern (25 bp):
ATTTCGTTATCACTATTATTTTATT
Found at i:56739154 original size:13 final size:13
Alignment explanation
Indices: 56739136--56739164 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
56739126 TCAGTGCGGT
56739136 GTCAGCAAAACGC
1 GTCAGCAAAACGC
56739149 GTCAGCAAAACGC
1 GTCAGCAAAACGC
56739162 GTC
1 GTC
56739165 CTTAGGAGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.31, G:0.24, T:0.10
Consensus pattern (13 bp):
GTCAGCAAAACGC
Found at i:56739437 original size:11 final size:11
Alignment explanation
Indices: 56739407--56739470 Score: 67
Period size: 11 Copynumber: 5.7 Consensus size: 11
56739397 AAACTAATCC
56739407 TCTCTCAATTAT
1 TCTCTCAATT-T
*
56739419 TTTCTCAATTT
1 TCTCTCAATTT
56739430 TCTCTCAATTT
1 TCTCTCAATTT
*
56739441 GCTCTCAATTT
1 TCTCTCAATTT
* *
56739452 CCT-TCCAAATT
1 TCTCT-CAATTT
56739463 TCTCTCAA
1 TCTCTCAA
56739471 ATCCATATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
10 1 0.02
11 33 0.75
12 10 0.23
ACGTcount: A:0.22, C:0.28, G:0.02, T:0.48
Consensus pattern (11 bp):
TCTCTCAATTT
Found at i:56740628 original size:7 final size:7
Alignment explanation
Indices: 56740616--56740662 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
56740606 TAGTCGATTG
56740616 GTATTTA
1 GTATTTA
56740623 GTATTTA
1 GTATTTA
56740630 GTATTTA
1 GTATTTA
56740637 GTATTTA
1 GTATTTA
56740644 GTATTTA
1 GTATTTA
56740651 GTATTTA
1 GTATTTA
56740658 GTATT
1 GTATT
56740663 ATATATATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:56741225 original size:30 final size:30
Alignment explanation
Indices: 56741159--56741232 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
56741149 GATGACGACG
56741159 CAGGCCCATCAACAAGGCCCAGAAATTCAC
1 CAGGCCCATCAACAAGGCCCAGAAATTCAC
* * * * *
56741189 CCGGCCCATCATC-AGCGCCCATAACTTCAT
1 CAGGCCCATCAACAAG-GCCCAGAAATTCAC
*
56741219 CAGGCCCAGCAACA
1 CAGGCCCATCAACA
56741233 GTACCGACAC
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
29 2 0.06
30 32 0.94
ACGTcount: A:0.31, C:0.41, G:0.16, T:0.12
Consensus pattern (30 bp):
CAGGCCCATCAACAAGGCCCAGAAATTCAC
Found at i:56741342 original size:17 final size:19
Alignment explanation
Indices: 56741310--56741352 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
56741300 TATCAGGTGC
*
56741310 GTATCCTAGCCCCTTA-AT
1 GTATCCTAGACCCTTATAT
56741328 GTATCCTA-ACCCTTATAT
1 GTATCCTAGACCCTTATAT
*
56741346 GTTTCCT
1 GTATCCT
56741353 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.40
Consensus pattern (19 bp):
GTATCCTAGACCCTTATAT
Found at i:56741899 original size:21 final size:21
Alignment explanation
Indices: 56741865--56741914 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
56741855 CAAAAACCCT
*
56741865 AACCCTAACTCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
56741886 AACTCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
56741907 AACCCTAA
1 AACCCTAA
56741915 ACTAATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:56742011 original size:22 final size:21
Alignment explanation
Indices: 56741975--56742081 Score: 135
Period size: 21 Copynumber: 5.0 Consensus size: 21
56741965 CAAAAACCCT
*
56741975 AACCCTAACCGTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
56741996 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
56742018 AACCCTAACCGTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
56742039 AACCCCAACCCTTAACATAAA
1 AACCCTAACCCTTAACTTAAA
56742060 AACCCCATAACCC-TAATCTTAA
1 AA-CCC-TAACCCTTAA-CTTAA
56742082 CAAAAACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
21 40 0.53
22 26 0.35
23 9 0.12
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:56742026 original size:43 final size:42
Alignment explanation
Indices: 56741975--56742064 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 42
56741965 CAAAAACCCT
*
56741975 AACCCTAACCGTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCGTTAACTTAAAAACCC-AAACCCTTAACATAAA
*
56742018 AACCCTAACCGTTAACTTAAAAACCCCAACCCTTAACATAAA
1 AACCCTAACCGTTAACTTAAAAACCCAAACCCTTAACATAAA
56742060 AACCC
1 AACCC
56742065 CATAACCCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 19 0.42
43 26 0.58
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.20
Consensus pattern (42 bp):
AACCCTAACCGTTAACTTAAAAACCCAAACCCTTAACATAAA
Found at i:56751518 original size:23 final size:23
Alignment explanation
Indices: 56751492--56751536 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
56751482 GAATTTTTAT
56751492 ATATCTTAAAGATTT-TAAAAATA
1 ATAT-TTAAAGATTTATAAAAATA
* *
56751515 ATATTTATATATTTATAAAAAT
1 ATATTTAAAGATTTATAAAAAT
56751537 TTGAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
ATATTTAAAGATTTATAAAAATA
Found at i:56751545 original size:33 final size:31
Alignment explanation
Indices: 56751486--56751573 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 31
56751476 AAATTAGAAT
* * * *
56751486 TTTTATATATCT-TAAAGATTTTAAAAATAA
1 TTTTATATATTTATAAAAATTTGAAAAAAAA
56751516 TATTTATATATTTATAAAAATTTGAAAAAAAA
1 T-TTTATATATTTATAAAAATTTGAAAAAAAA
* * *
56751548 TTATATAAATATTATGAAAATTTGAA
1 TTTTATATAT-TTATAAAAATTTGAA
56751574 GATTATTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 1 0.02
31 17 0.35
32 30 0.62
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.43
Consensus pattern (31 bp):
TTTTATATATTTATAAAAATTTGAAAAAAAA
Found at i:56756389 original size:36 final size:36
Alignment explanation
Indices: 56756313--56756389 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
56756303 ATATCAAAAG
* * *
56756313 AATTTGGATTATTAAAATTTAATATTTACATCATTT
1 AATTTGAATTATTAAAATTTAATATTTACATCAATC
* * * *
56756349 AATTTGAATTGTTAAAATTTAATGTTTACGTGAATC
1 AATTTGAATTATTAAAATTTAATATTTACATCAATC
56756385 AATTT
1 AATTT
56756390 CAATCTAATC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (36 bp):
AATTTGAATTATTAAAATTTAATATTTACATCAATC
Found at i:56758322 original size:10 final size:10
Alignment explanation
Indices: 56758254--56758326 Score: 56
Period size: 10 Copynumber: 7.2 Consensus size: 10
56758244 ACTGGAGGAG
* *
56758254 AAGAATGAAG
1 AAGAAAGAAA
56758264 AAGAAAGAAA
1 AAGAAAGAAA
56758274 AAGAAAGAAA
1 AAGAAAGAAA
* * *
56758284 AGGAAAGGAG
1 AAGAAAGAAA
**
56758294 AAGAAGAGGGA
1 AAGAA-AGAAA
**
56758305 GGGAAAGAAA
1 AAGAAAGAAA
56758315 AAGAAAGAAA
1 AAGAAAGAAA
56758325 AA
1 AA
56758327 AAATAAGTAA
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
10 42 0.88
11 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:56758367 original size:20 final size:20
Alignment explanation
Indices: 56758342--56758380 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
56758332 AGTAAAGGTA
56758342 AATTTTTTTTGTATTATTTT
1 AATTTTTTTTGTATTATTTT
56758362 AATTTTTTTTGTATTATTT
1 AATTTTTTTTGTATTATTT
56758381 GTGTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
AATTTTTTTTGTATTATTTT
Found at i:56758764 original size:132 final size:132
Alignment explanation
Indices: 56758611--56758850 Score: 331
Period size: 132 Copynumber: 1.8 Consensus size: 132
56758601 ATAAAATATG
* *
56758611 AAAATAATGTAAAATAATAAAATACAAAAATAAAATATTTTTTGAAAATAAT-AAAATCCGG-AA
1 AAAATAACGTAAAATAATAAAATACAAAAATAAAATATTTTTTG-AAACAATGAAAATCCGGTAA
* **
56758674 AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTACAAAATTAATGCATTTCAAACATAATG
65 AAAAATACAAACAAAGGGCCGAAATAAAAG-TTTTTTACAAAATTAATGCATTTCAAACATAATG
56758739 TAAT
129 TAAT
* * * *** *
56758743 AAAATAACGTAAAATGATAAAATACGAAAATAATATATTTTTTGAAACAATGAGGCTTCGGTAAA
1 AAAATAACGTAAAATAATAAAATACAAAAATAAAATATTTTTTGAAACAATGAAAATCCGGTAAA
*
56758808 AAAATACAAACAAAGGGCCGAAATAAAAGTTTTTTACTAAATT
66 AAAATACAAACAAAGGGCCGAAATAAAAGTTTTTTACAAAATT
56758851 TATTTTAAAA
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
131 6 0.06
132 58 0.62
133 29 0.31
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.27
Consensus pattern (132 bp):
AAAATAACGTAAAATAATAAAATACAAAAATAAAATATTTTTTGAAACAATGAAAATCCGGTAAA
AAAATACAAACAAAGGGCCGAAATAAAAGTTTTTTACAAAATTAATGCATTTCAAACATAATGTA
AT
Found at i:56763564 original size:18 final size:20
Alignment explanation
Indices: 56763517--56763564 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
56763507 AAAGTCATAG
*
56763517 TTTATAAAGAAAATTATTTT
1 TTTAAAAAGAAAATTATTTT
56763537 TTTAGCAAAAG-AAATTA-TTT
1 TTTA--AAAAGAAAATTATTTT
56763557 TTTAAAAA
1 TTTAAAAA
56763565 TTTATCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
20 11 0.44
21 6 0.24
22 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (20 bp):
TTTAAAAAGAAAATTATTTT
Found at i:56765711 original size:39 final size:40
Alignment explanation
Indices: 56765657--56765765 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 40
56765647 AGGGTTATCA
* * * *
56765657 AAGTACAAACA-GAGCACGTATGTGTATTTAGGGGTATTG
1 AAGTACAAACAGGAGCACATATGTGCATTCAGGGGTACTG
*
56765696 AAGTACAAA-AGGAGCACATATCTGCATTCAGGGGTACTG
1 AAGTACAAACAGGAGCACATATGTGCATTCAGGGGTACTG
*
56765735 AAGTACAAATAGGAGCACATATGTGCATTCA
1 AAGTACAAACAGGAGCACATATGTGCATTCA
56765766 TACAATAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
38 1 0.02
39 41 0.66
40 20 0.32
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (40 bp):
AAGTACAAACAGGAGCACATATGTGCATTCAGGGGTACTG
Found at i:56767843 original size:17 final size:18
Alignment explanation
Indices: 56767806--56767845 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
56767796 AATACTTTTC
* *
56767806 AAAAGTGCTTTTAAGCCA
1 AAAAGTACTTTTAAGCAA
56767824 AAAAGTACTTTTAAG-AA
1 AAAAGTACTTTTAAGCAA
56767841 AAAAG
1 AAAAG
56767846 CTAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (18 bp):
AAAAGTACTTTTAAGCAA
Found at i:56777238 original size:20 final size:22
Alignment explanation
Indices: 56777196--56777238 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
56777186 CTTGGAAAAT
*
56777196 TTATTGTGTTGAATAGTAGTGG
1 TTATTGTGTTGAATAATAGTGG
*
56777218 TTATTGT-TTTAATAATA-TGG
1 TTATTGTGTTGAATAATAGTGG
56777238 T
1 T
56777239 ATGATGGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (22 bp):
TTATTGTGTTGAATAATAGTGG
Found at i:56781747 original size:16 final size:16
Alignment explanation
Indices: 56781710--56781751 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
56781700 TTAATCATAT
*
56781710 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
56781726 TT-AAATATATTATAA
1 TTAAAATATATTATAA
56781741 TTAAAATATAT
1 TTAAAATATAT
56781752 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:56781758 original size:14 final size:15
Alignment explanation
Indices: 56781719--56781760 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
56781709 TTTAAACATA
*
56781719 ATTATTATTAAATAT
1 ATTATAATTAAATAT
56781734 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
56781748 A-TATAATTTAATA
1 ATTATAATTAAATA
56781761 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:56781869 original size:16 final size:16
Alignment explanation
Indices: 56781825--56781871 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
56781815 TACTATAAAA
*
56781825 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
56781841 TATTATT-AAATATAT
1 TATAATTAAAATATAT
56781856 TATAATTAAAATATAT
1 TATAATTAAAATATAT
56781872 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:56781989 original size:16 final size:16
Alignment explanation
Indices: 56781946--56781991 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
56781936 ACTATAAAAG
*
56781946 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
56781962 ATTATT-AAATATATT
1 ATAATTAAAATATATT
56781977 ATAATTAAAATATAT
1 ATAATTAAAATATAT
56781992 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:56781998 original size:14 final size:15
Alignment explanation
Indices: 56781946--56782000 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
56781936 ACTATAAAAG
56781946 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
56781962 ATTATTAAATATATT
1 ATAATTAAATATATT
56781977 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
56781990 ATAATTTAATA
1 ATAATTAAATA
56782001 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:56782051 original size:59 final size:57
Alignment explanation
Indices: 56781748--56782051 Score: 180
Period size: 57 Copynumber: 5.1 Consensus size: 57
56781738 TAATTAAAAT
56781748 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAT-AATATTCTTATATGAATTTACTCAAAT-ATA
* * * * * * *
56781807 ATAT-ATGATACTATAAAATATAATTTAA-CATAATTATTATTAAAT-ATATTATAATTAAA-AT
1 ATATAAT-TTA--ATAAAAT-T--CTTAATAATAA-TATTCTTATATGA-ATT-TACTCAAATAT
56781868 -
57 A
56781868 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATTATA
1 ATATAATTTAATAAAATTCTTAATAA-TAATATTCTTATATGAATTTACTCAAA-TATA
* * * * * *
56781927 ATATATGATACTATAA-AAGATAAT-TTAA-CATAATTATTATTAAAT-ATATTATAATTAAA-A
1 ATATA--AT--T-TAATAA-A-ATTCTTAATAATAA-TATTCTTATATGA-ATT-TACTCAAATA
56781987 T-
56 TA
*
56781988 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAT-AATATTCTTATATGAATTTACTCAAAT-ATA
56782047 ATATA
1 ATATA
56782052 TGATACTATA
Statistics
Matches: 185, Mismatches: 26, Indels: 68
0.66 0.09 0.24
Matches are distributed among these distances:
55 2 0.01
56 24 0.13
57 30 0.16
58 14 0.08
59 25 0.14
61 20 0.11
62 14 0.08
63 30 0.16
64 24 0.13
65 2 0.01
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (57 bp):
ATATAATTTAATAAAATTCTTAATAATAATATTCTTATATGAATTTACTCAAATATA
Found at i:56782063 original size:61 final size:61
Alignment explanation
Indices: 56781758--56782065 Score: 244
Period size: 61 Copynumber: 5.1 Consensus size: 61
56781748 ATATAATTTA
* *
56781758 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATTATAATATATGATACT
* * * * * * * * *
56781819 ATAAAA-T-ATAATTTAA-C-ATAATTATTAT-TAAATATATTATAATTAAAATATATAAT-TT
1 ATAAAATTCTTAA--TAATCAAT-ATTCTTATATGAATTTACTAAAATTATAATATATGATACT
* *
56781877 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATTATAATATATGATACT
1 -ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATTATAATATATGATACT
** * * * * * * * *
56781939 ATAAAA--GATAATTTAA-C-ATAATTATTAT-TAAATATATTATAATTAAAATATATAAT-TT
1 ATAAAATTCTTAA--TAATCAAT-ATTCTTATATGAATTTACTAAAATTATAATATATGATACT
*
56781997 AATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATTATAATATATGATACT
56782059 ATAAAAT
1 ATAAAAT
56782066 ATAATTTGAA
Statistics
Matches: 182, Mismatches: 45, Indels: 40
0.68 0.17 0.15
Matches are distributed among these distances:
58 2 0.01
59 69 0.38
60 32 0.18
61 77 0.42
62 2 0.01
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATTATAATATATGATACT
Found at i:56782119 original size:120 final size:120
Alignment explanation
Indices: 56781708--56782104 Score: 715
Period size: 120 Copynumber: 3.3 Consensus size: 120
56781698 ATTTAATCAT
56781708 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
56781773 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
56781829 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* * *
56781894 TTAATATTCTTATATGAATTTACTCAAATTATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
56781949 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
56782014 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* *
56782069 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAA
56782105 TATTAAATAA
Statistics
Matches: 266, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
120 260 0.98
121 6 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:56786678 original size:32 final size:32
Alignment explanation
Indices: 56786642--56786705 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
56786632 TATTACATAG
56786642 ATTTAAAATATAATTTTATGCTAAAAATTTAT
1 ATTTAAAATATAATTTTATGCTAAAAATTTAT
56786674 ATTTAAAATATAATTTTATGCTAAAAATTTAT
1 ATTTAAAATATAATTTTATGCTAAAAATTTAT
56786706 TTAATTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (32 bp):
ATTTAAAATATAATTTTATGCTAAAAATTTAT
Found at i:56786701 original size:19 final size:18
Alignment explanation
Indices: 56786645--56786699 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
56786635 TACATAGATT
56786645 TAAAATATAATTTTATGC
1 TAAAATATAATTTTATGC
* *
56786663 TAAAA-AT--TTATAT-T
1 TAAAATATAATTTTATGC
56786677 TAAAATATAATTTTATGC
1 TAAAATATAATTTTATGC
56786695 TAAAA
1 TAAAA
56786700 ATTTATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 5 0.17
15 7 0.24
17 7 0.24
18 10 0.34
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (18 bp):
TAAAATATAATTTTATGC
Found at i:56787464 original size:18 final size:18
Alignment explanation
Indices: 56787441--56787475 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56787431 GCCAGGTGCA
*
56787441 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
56787459 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
56787476 ATTTCCTTTT
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:0.26, C:0.29, G:0.06, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:56787482 original size:18 final size:18
Alignment explanation
Indices: 56787440--56787482 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
56787430 TGCCAGGTGC
*
56787440 ATATCCTAGCCCTTATAT
1 ATATCCTAACCCTTATAT
*
56787458 GTATCCTAACCCTTATAT
1 ATATCCTAACCCTTATAT
*
56787476 ATTTCCT
1 ATATCCT
56787483 TTTCCCAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.42
Consensus pattern (18 bp):
ATATCCTAACCCTTATAT
Found at i:56787993 original size:63 final size:59
Alignment explanation
Indices: 56787876--56787997 Score: 138
Period size: 63 Copynumber: 2.0 Consensus size: 59
56787866 TTGTACAAAC
* ****
56787876 TATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTGAATATTTTAATAGTAAAT
1 TATTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG-AAAT
*
56787936 TATTTTTATATT-TTGTCACATTTAATAAAAATAGAAGTTCTTTTGAATAAGGCAATAGAAAT
1 TATTTTTATATTGTT-T--CATTTAAT-AAAATAAAAGTTCTTTTGAATAAGGCAATAGAAAT
56787998 AATGCAACAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
59 2 0.04
60 13 0.25
62 12 0.23
63 25 0.48
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (59 bp):
TATTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAGAAAT
Found at i:56790449 original size:23 final size:23
Alignment explanation
Indices: 56790416--56790513 Score: 142
Period size: 23 Copynumber: 4.3 Consensus size: 23
56790406 ATAAGTGCAA
* *
56790416 CACTGATATGTAGCTGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
56790439 CACTAAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
**
56790462 CACTGTTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
56790485 CACTGAAACGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
56790508 CACTGA
1 CACTGA
56790514 TCAATAACAC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 66 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:56790483 original size:46 final size:46
Alignment explanation
Indices: 56790416--56790514 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
56790406 ATAAGTGCAA
* *
56790416 CACTGATATGTAGCTGAAGCTACCACTAAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTACCACTAAAACGTAGCCGAAGCTAC
* *
56790462 CACTGTTATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTACCACTAAAACGTAGCCGAAGCTAC
56790508 CACTGAT
1 CACTGAT
56790515 CAATAACACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (46 bp):
CACTGATATGTAGCCGAAGCTACCACTAAAACGTAGCCGAAGCTAC
Found at i:56797854 original size:23 final size:23
Alignment explanation
Indices: 56797828--56797949 Score: 172
Period size: 23 Copynumber: 5.3 Consensus size: 23
56797818 ATAAGTGCAA
56797828 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
56797851 CACTGTTATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
56797874 TACTAAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
56797897 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
56797920 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
56797943 CACTGAT
1 CACTGAT
56797950 CAATAACACT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 84 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:56797902 original size:46 final size:46
Alignment explanation
Indices: 56797835--56797947 Score: 190
Period size: 46 Copynumber: 2.5 Consensus size: 46
56797825 CAACACTGAT
* *
56797835 ATGTAGCCGAAGCTACCACTGTTATGTAGCTGAAGCTACTACTAAA
1 ATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTACCACTAAA
*
56797881 ATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTACCACTAAA
*
56797927 ACGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTG
56797948 ATCAATAACA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTACCACTAAA
Found at i:56800299 original size:36 final size:36
Alignment explanation
Indices: 56800259--56800332 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
56800249 ATCATTTTTA
* * * * *
56800259 AATATTACAATTATATCATTATGCCGAATCACTTAT
1 AATATTACAAATACATCAATAGGCCAAATCACTTAT
*
56800295 AATATTACAAATACATCAATAGGTCAAATCACTTAT
1 AATATTACAAATACATCAATAGGCCAAATCACTTAT
56800331 AA
1 AA
56800333 GTTCAATTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (36 bp):
AATATTACAAATACATCAATAGGCCAAATCACTTAT
Found at i:56800605 original size:43 final size:43
Alignment explanation
Indices: 56800538--56800657 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
56800528 CTCGTACAAC
* * * *
56800538 GCCAACGTCCCAGACGTGGTCTTACATGTAATCATATA-TTGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-AGTCGAT
56800581 GCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTCGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAGTCGAT
*
56800624 GCCAACGTCCCAGACGTGGTCTTACACGAAAACA
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAACA
56800658 TATATCGAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
42 4 0.06
43 60 0.90
44 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAGTCGAT
Found at i:56803238 original size:42 final size:43
Alignment explanation
Indices: 56803140--56803280 Score: 221
Period size: 43 Copynumber: 3.3 Consensus size: 43
56803130 TTTAGATAAA
* * *
56803140 AAACGCCGCTAAAGACCAAGACTTTTAGCGGCGCTTTTTCTAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTCCAC
* *
56803183 AAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTCCAC
*
56803226 AAACGCC-CTAAAGACCAGGACCTTTAGCGGCGCTTTTTCGAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTCCAC
56803268 AAACGCCGCTAAA
1 AAACGCCGCTAAA
56803281 AACATGACTT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 39 0.44
43 50 0.56
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTCCAC
Found at i:56803504 original size:18 final size:18
Alignment explanation
Indices: 56803481--56803540 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
56803471 TTAAAACAAG
56803481 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
56803499 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
56803516 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
56803534 TTACATT
1 TTACATT
56803541 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:56809520 original size:7 final size:7
Alignment explanation
Indices: 56809510--56809554 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
56809500 CACTAACTCT
56809510 TAACCCC
1 TAACCCC
*
56809517 TAACCTC
1 TAACCCC
56809524 TAACCCC
1 TAACCCC
56809531 TAACCCC
1 TAACCCC
**
56809538 TAACTAC
1 TAACCCC
56809545 TAACCCC
1 TAACCCC
56809552 TAA
1 TAA
56809555 ATCTTATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
TAACCCC
Found at i:56809526 original size:21 final size:21
Alignment explanation
Indices: 56809510--56809554 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
56809500 CACTAACTCT
56809510 TAACCCCTAACCTCTAACCCC
1 TAACCCCTAACCTCTAACCCC
56809531 TAACCCCTAA-CTACTAACCCC
1 TAACCCCTAACCT-CTAACCCC
56809552 TAA
1 TAA
56809555 ATCTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (21 bp):
TAACCCCTAACCTCTAACCCC
Found at i:56809607 original size:55 final size:54
Alignment explanation
Indices: 56809544--56809656 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
56809534 CCCCTAACTA
* * *
56809544 CTAACCCCTAAATCTTATTTAATATATAAATTA-AAAACATTAATTAATCTAGACC
1 CTAACCCCTAAACCTTA-TTAA-ATATAAATTAGAAAACACTAATTAATCTAAACC
* * *
56809599 CTAACCCCTACACCTTATTCAATATAAATTAGAACACACTAATTAATCTAAACC
1 CTAACCCCTAAACCTTATTAAATATAAATTAGAAAACACTAATTAATCTAAACC
56809653 CTAA
1 CTAA
56809657 ACTCTAACCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 10 0.20
54 26 0.51
55 15 0.29
ACGTcount: A:0.44, C:0.23, G:0.02, T:0.31
Consensus pattern (54 bp):
CTAACCCCTAAACCTTATTAAATATAAATTAGAAAACACTAATTAATCTAAACC
Found at i:56809855 original size:14 final size:14
Alignment explanation
Indices: 56809833--56809869 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
56809823 ATCCTAAATT
56809833 AACCATATACCCTA
1 AACCATATACCCTA
*
56809847 AATCATATACCCTA
1 AACCATATACCCTA
56809861 AACCATATA
1 AACCATATA
56809870 TATTAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:56810304 original size:41 final size:41
Alignment explanation
Indices: 56810240--56810524 Score: 507
Period size: 41 Copynumber: 7.0 Consensus size: 41
56810230 TCAAAAACGG
* * *
56810240 GCATTAGCGGCGCTTTTTAAAAAATGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
56810281 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
56810322 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
56810363 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
56810404 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
56810445 GCATTAGCGGCGCTTATTCAAAAATGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
56810486 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
56810525 CAAAAACTCA
Statistics
Matches: 233, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 233 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.19
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:56812270 original size:125 final size:126
Alignment explanation
Indices: 56812013--56812785 Score: 978
Period size: 126 Copynumber: 6.2 Consensus size: 126
56812003 TAAGGCCAAG
* ** **
56812013 CAGGAACTACTGTAGAAAAAGAGCACCCACGTATGA-CCATTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * *
56812077 ATCCTGTTTGAAGCATTTTTGACACTATTATTTCAAAAACGTCTTCTGAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAAACGTCTTCTCAAAATTATTTTTT
* * * * *
56812138 CAGGAACTACTGTAGAAAAAGATCACCCACGTGTGACCATTTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
*
56812203 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAAACGTCTTCTAAAAATTA-TTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAAACGTCTTCTCAAAATTATTTTTT
* * * * *
56812263 CAAGAACTACTGTAGAAAAAGAGCTTTCACGTGGGAACTTTTTTCAGTAATTTTGCTGATAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * * *
56812328 ATTCTGCTTGAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTTTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAAACGTCTTCTCAAAATTATTTTTT
*
56812389 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * * * *
56812454 ATCCTGCTTGAAGCGTTTTTTACACTATTTTTTTAGAACCGTCTTTTCGAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAAACGTCTTCTCAAAATTATTTTTT
* * * * * *
56812515 CAGGAACTACTGTAGAAAAAAAGCATCGACATGGGAGCTTTTTTCAATAATTTTGCTTATAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * *
56812580 ATCCTGCTTGAAACATTTTTGACACTA-TTTTTC-AGAACTGTCTTCTCTAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAAAC-GTCTTCTCAAAATTATTTTTT
* * * * * * * *
56812640 CATGAACTACTTTAGAAAAAGAGCGTCCATGTGGGAGCTTTATTCAGTAATTTTACTAACAGTAC
1 CAGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* ** * * * *
56812705 ATCCTGCTTGAAGCGTTTTTGACATTATTTTTTCCGAACCTTTTTCTCAAAATTAATTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAAACGTCTTCTCAAAATTATTTTTT
* *
56812766 CTGAAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
56812786 AAACAAAATT
Statistics
Matches: 569, Mismatches: 74, Indels: 9
0.87 0.11 0.01
Matches are distributed among these distances:
124 2 0.00
125 244 0.43
126 321 0.56
127 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAAACGTCTTCTCAAAATTATTTTTT
Found at i:56812509 original size:251 final size:250
Alignment explanation
Indices: 56812016--56812785 Score: 1008
Period size: 251 Copynumber: 3.1 Consensus size: 250
56812006 GGCCAAGCAG
* ** ** *
56812016 GAACTACTGTAGAAAAAGAGCACCCACGTATG-ACCATTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCA-TCACGTGGGAACTTTTTTCAGTAATTTTGCTGATAGTGCATC
* * * * *
56812080 CTGTTTGAAGCATTTTTGACACTATTATTTCAAAAACGTCTTCTGAAAATTATTTTTTCAGGAAC
65 CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAAC
* ** * * *
56812145 TACTGTAGAAAAAGATCACCCACGTGTGACCATTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
130 TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
* * * *
56812210 TTGAAGCGTTTTTGACACTATTTTTTCAAAAACGTCTTCTAAAAATTATTTTTCAA
195 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTTTCAAAATTATTTTTCAA
* *
56812266 GAACTACTGTAGAAAAAGAGCTTTCACGTGGGAACTTTTTTCAGTAATTTTGCTGATAGTGCATT
1 GAACTACTGTAGAAAAAGAGC-ATCACGTGGGAACTTTTTTCAGTAATTTTGCTGATAGTGCATC
* * *
56812331 CTGCTTGAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTTTCAAAATTATTTTTTCAGGAAC
65 CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAAC
56812396 TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
130 TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
* * * *
56812461 TTGAAGCGTTTTTTACACTATTTTTTTAGAACCGTCTTTTCGAAATTATTTTTTCAG
195 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTTTCAAAATTA-TTTTTCAA
* * * * *
56812518 GAACTACTGTAGAAAAAAAGCATCGACATGGGAGCTTTTTTCAATAATTTTGCTTATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATC-ACGTGGGAACTTTTTTCAGTAATTTTGCTGATAGTGCATC
* * * *
56812583 CTGCTTGAAACATTTTTGACACTA-TTTTTCAGAACTGTCTTCTCTAAATTATTTTTTCATGAAC
65 CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAAC
* * * * * *
56812647 TACTTTAGAAAAAGAGCGTCCATGTGGGAGCTTTATTCAGTAATTTTACTAACAGTACATCCTGC
130 TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
* * * *
56812712 TTGAAGCGTTTTTGACATTATTTTTTCCGAACC-TTTTTCTCAAAATTAATTTTTC-T
195 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTT-TCAAAATT-ATTTTTCAA
56812768 GAAACTACTGTAGAAAAA
1 G-AACTACTGTAGAAAAA
56812786 AAACAAAATT
Statistics
Matches: 456, Mismatches: 57, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
250 32 0.07
251 339 0.74
252 85 0.19
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (250 bp):
GAACTACTGTAGAAAAAGAGCATCACGTGGGAACTTTTTTCAGTAATTTTGCTGATAGTGCATCC
TGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAACT
ACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
TGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTTTCAAAATTATTTTTCAA
Found at i:56812915 original size:34 final size:33
Alignment explanation
Indices: 56812871--56812976 Score: 119
Period size: 34 Copynumber: 3.2 Consensus size: 33
56812861 TAACACAAAA
56812871 TTATTTTTTAAAAAACATAAACCCTAATTTAAT
1 TTATTTTTTAAAAAACATAAACCCTAATTTAAT
** * **
56812904 TTATTTATTTAAAATCCCTAAAATCTAATTTAAT
1 TTATTT-TTTAAAAAACATAAACCCTAATTTAAT
*
56812938 TAATTTTTT-AAAAACTATAAACCCTAATTT-AT
1 TTATTTTTTAAAAAAC-ATAAACCCTAATTTAAT
56812970 TT-TTTTT
1 TTATTTTT
56812977 AAATTCCTAA
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
31 5 0.08
32 7 0.12
33 20 0.34
34 27 0.46
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (33 bp):
TTATTTTTTAAAAAACATAAACCCTAATTTAAT
Found at i:56825373 original size:7 final size:6
Alignment explanation
Indices: 56825354--56825397 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
56825344 GGAAACAATC
*
56825354 TTTCTT TTTCTT TTTCCT TTTCTTT TTTCTT TTT-TT TTT-TT TTT
1 TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT TTT
56825398 GGGGGGGGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
5 10 0.29
6 20 0.57
7 5 0.14
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTCTT
Found at i:56828530 original size:21 final size:21
Alignment explanation
Indices: 56828502--56828541 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
56828492 TATAATTTTG
*
56828502 TAAAAAATT-ATTAAAATTTA
1 TAAAAAATTAAATAAAATTTA
56828522 TAAATAAATTAAATAAAATT
1 TAAA-AAATTAAATAAAATT
56828542 CAAAAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAAATTAAATAAAATTTA
Found at i:56835566 original size:18 final size:20
Alignment explanation
Indices: 56835530--56835568 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
56835520 GAAATTGAAG
*
56835530 AAAGAACTTAGAAATAATAT
1 AAAGAACTTAGAAAAAATAT
56835550 AAAG-ACTT-GAAAAAATAT
1 AAAGAACTTAGAAAAAATAT
56835568 A
1 A
56835569 TTAAAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 4 0.22
20 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (20 bp):
AAAGAACTTAGAAAAAATAT
Found at i:56838467 original size:21 final size:21
Alignment explanation
Indices: 56838441--56838482 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
56838431 TTATTAAGCT
56838441 TTCATTTATAATCCTTACTAA
1 TTCATTTATAATCCTTACTAA
56838462 TTCATTTATAATCCTTACTAA
1 TTCATTTATAATCCTTACTAA
56838483 CTTGACTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (21 bp):
TTCATTTATAATCCTTACTAA
Found at i:56838770 original size:21 final size:21
Alignment explanation
Indices: 56838746--56838786 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56838736 TCCAATTCAT
56838746 TATCA-ATACACATATATCTAA
1 TATCATATA-ACATATATCTAA
*
56838767 TATCATATAACATATTTCTA
1 TATCATATAACATATATCTA
56838787 TCCATTGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (21 bp):
TATCATATAACATATATCTAA
Found at i:56841690 original size:55 final size:55
Alignment explanation
Indices: 56841630--56841741 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 55
56841620 TTAGTTAATC
* * *
56841630 TTAAATTTATCATTAATAGAAATCATCATCAAAATCTACTAAATATTATTCCAAA
1 TTAAATTTATCATTAATAGAAATCATCACCAAAATATACTAAATACTATTCCAAA
*
56841685 TTAAATTTATCATTAATAGAAATCATCACCAAAATATACTAAATACTATTCTAAA
1 TTAAATTTATCATTAATAGAAATCATCACCAAAATATACTAAATACTATTCCAAA
56841740 TT
1 TT
56841742 GGTTTATTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (55 bp):
TTAAATTTATCATTAATAGAAATCATCACCAAAATATACTAAATACTATTCCAAA
Found at i:56844074 original size:20 final size:20
Alignment explanation
Indices: 56844049--56844088 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
56844039 TAGGATCTAG
56844049 TGCCCTTAGTAATTCTAAAT
1 TGCCCTTAGTAATTCTAAAT
56844069 TGCCCTTAGTAATTCTAAAT
1 TGCCCTTAGTAATTCTAAAT
56844089 AGACATCTTT
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:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
TGCCCTTAGTAATTCTAAAT
Found at i:56848383 original size:16 final size:19
Alignment explanation
Indices: 56848348--56848390 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 19
56848338 ATTTGACAAA
56848348 ATTTTAATGTATTATTTTC
1 ATTTTAATGTATTATTTTC
56848367 ATTTTAAT-T-TT-TTTTC
1 ATTTTAATGTATTATTTTC
56848383 ATTTTAAT
1 ATTTTAAT
56848391 CCTTATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.54
17 2 0.08
18 1 0.04
19 8 0.33
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTAATGTATTATTTTC
Found at i:56850913 original size:21 final size:21
Alignment explanation
Indices: 56850881--56850921 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
56850871 AGGCTCGAGG
56850881 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
56850902 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
56850922 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:56862390 original size:18 final size:19
Alignment explanation
Indices: 56862359--56862400 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
56862349 TATTTGATCA
56862359 ATTTTTAATGTATTATTTT-
1 ATTTTTAATGTATT-TTTTC
*
56862378 ATTTTTTAT-TATTTTTTC
1 ATTTTTAATGTATTTTTTC
56862396 ATTTT
1 ATTTT
56862401 AATTCTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 9 0.43
19 8 0.38
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
ATTTTTAATGTATTTTTTC
Found at i:56862412 original size:18 final size:18
Alignment explanation
Indices: 56862359--56862412 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
56862349 TATTTGATCA
56862359 ATTTTTAATGTATTATTTT
1 ATTTTTAAT-TATTATTTT
*
56862378 ATTTTTTATTATT-TTTT
1 ATTTTTAATTATTATTTT
*
56862395 CA-TTTTAATTCTTATTTT
1 -ATTTTTAATTATTATTTT
56862413 TTTCCATACT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 13 0.43
18 9 0.30
19 8 0.27
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (18 bp):
ATTTTTAATTATTATTTT
Found at i:56864481 original size:16 final size:16
Alignment explanation
Indices: 56864460--56864490 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56864450 AATGCTTGTC
56864460 ATGTGATTTTAATATA
1 ATGTGATTTTAATATA
*
56864476 ATGTGATTTTCATAT
1 ATGTGATTTTAATAT
56864491 CTTGTATCTG
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:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (16 bp):
ATGTGATTTTAATATA
Found at i:56865907 original size:22 final size:23
Alignment explanation
Indices: 56865872--56865916 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
56865862 TTATTTTTAA
* *
56865872 TAATAATT-TTTTTATAAATTTT
1 TAATAATTGATTTAATAAATTTT
*
56865894 TAATAATTGATTTAATTAATTTT
1 TAATAATTGATTTAATAAATTTT
56865917 AAAACCTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TAATAATTGATTTAATAAATTTT
Found at i:56871036 original size:18 final size:20
Alignment explanation
Indices: 56871013--56871050 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
56871003 ACTTTTAATA
56871013 ATTTTTG-TT-TTTATTTAT
1 ATTTTTGTTTATTTATTTAT
56871031 ATTTTTGTTTATTTATTTAT
1 ATTTTTGTTTATTTATTTAT
56871051 TTCTGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
ATTTTTGTTTATTTATTTAT
Found at i:56874619 original size:66 final size:65
Alignment explanation
Indices: 56874507--56874644 Score: 170
Period size: 66 Copynumber: 2.1 Consensus size: 65
56874497 GCAAATTGCT
* * * * *
56874507 CAACTTAAAGTGGAGGCAGCATCGACAGAAGTAGAGGCTCAAAGAAAATATGAAGAATTCCAGCT
1 CAACTTAAAGCGGAGGCAACATCGACAGAAGCAGAGGC-CAAAGAAAACATGAAGAACTCCAGCT
56874572 A
65 A
** *
56874573 CAACTTAAAGCGGAGGCAACATCGAGGGAAGCAGAGG-CAAGTAGAAAACATGACGAACTCCAGC
1 CAACTTAAAGCGGAGGCAACATCGACAGAAGCAGAGGCCAA--AGAAAACATGAAGAACTCCAGC
56874637 TA
64 TA
56874639 CAACTT
1 CAACTT
56874645 CAGAATATGA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 3 0.05
66 59 0.95
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (65 bp):
CAACTTAAAGCGGAGGCAACATCGACAGAAGCAGAGGCCAAAGAAAACATGAAGAACTCCAGCTA
Found at i:56875013 original size:42 final size:43
Alignment explanation
Indices: 56874933--56875019 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 43
56874923 ATTTTTCCAC
* * *
56874933 AAACGCTGCCAAAGAACATGACTTTTAGCGGCGCTTTTACTAA
1 AAACGCAGCCAAAGAACATGACCTTTAGCGGCACTTTTACTAA
* * *
56874976 AAACGCAG-CAAAGAATATGACCTTTAGCGGCATTTTTAGTAA
1 AAACGCAGCCAAAGAACATGACCTTTAGCGGCACTTTTACTAA
56875018 AA
1 AA
56875020 GTGCCGCTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
42 31 0.82
43 7 0.18
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCAGCCAAAGAACATGACCTTTAGCGGCACTTTTACTAA
Found at i:56875046 original size:43 final size:44
Alignment explanation
Indices: 56874997--56875105 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
56874987 AGAATATGAC
* * *
56874997 CTTTAGCGGCATTTT-TAGTAAAAGTGCCGCTAAAGATCATGTT
1 CTTTAGCGGCATTTTGTAGGAAAAGCGCCACTAAAGATCATGTT
* * * *
56875040 GTTTAGCGGCGTTTTGTGGGAAAAGCGCCACTAAAGGTCATGTT
1 CTTTAGCGGCATTTTGTAGGAAAAGCGCCACTAAAGATCATGTT
*
56875084 CTTTAGCGGCA-TTTGTGGGAAA
1 CTTTAGCGGCATTTTGTAGGAAA
56875106 GGTACTTTAG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 24 0.43
44 32 0.57
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (44 bp):
CTTTAGCGGCATTTTGTAGGAAAAGCGCCACTAAAGATCATGTT
Found at i:56885452 original size:8 final size:9
Alignment explanation
Indices: 56885412--56885453 Score: 52
Period size: 8 Copynumber: 4.7 Consensus size: 9
56885402 GTACTTCATG
56885412 TATTTTTTA
1 TATTTTTTA
56885421 TA-TTTTTA
1 TATTTTTTA
56885429 TGAATTTTTTA
1 T--ATTTTTTA
56885440 TATTTTTTA
1 TATTTTTTA
56885449 -ATTTT
1 TATTTT
56885454 GAGTTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 12 0.40
9 10 0.33
10 1 0.03
11 7 0.23
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (9 bp):
TATTTTTTA
Found at i:56886791 original size:25 final size:24
Alignment explanation
Indices: 56886763--56886809 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
56886753 ATTAAAAATA
*
56886763 AAACATATGAATAAAAAATATATAT
1 AAACATAT-AATAAAAAACATATAT
*
56886788 AAACATATACTAAAAAACATAT
1 AAACATATAATAAAAAACATAT
56886810 GTGCATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (24 bp):
AAACATATAATAAAAAACATATAT
Found at i:56886823 original size:22 final size:23
Alignment explanation
Indices: 56886793--56886844 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
56886783 TATATAAACA
*
56886793 TATACTAAAAAACATATGTGCAT-
1 TATA-TAAAAAACATATGCGCATG
*
56886816 TATATAAAAAACCTATGCGCATG
1 TATATAAAAAACATATGCGCATG
56886839 TATATA
1 TATATA
56886845 CAGTAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (23 bp):
TATATAAAAAACATATGCGCATG
Found at i:56896784 original size:64 final size:64
Alignment explanation
Indices: 56896660--56896825 Score: 185
Period size: 64 Copynumber: 2.6 Consensus size: 64
56896650 ATATGGTGTT
* * * *
56896660 TGAACTATCAAT-ATGTGTTTTATTATGGTATTTGTACTTTCATAAAATGTTCAATTTGGTACC
1 TGAACTATCAATAATGTGTTTTATTATGGTATTTGTACTTTCACAAAATATCCAATGTGGTACC
* * * *
56896723 TGAACTATTAATAATGTATTTTATTATGGTATTTGTATTTTCAC-AAATAATCCAATGTGGTACT
1 TGAACTATCAATAATGTGTTTTATTATGGTATTTGTACTTTCACAAAAT-ATCCAATGTGGTACC
* * * *
56896787 TAAACTATCAATATTG-GTTTTATTAAGGTACTTTATACT
1 TGAACTATCAATAATGTGTTTTATTATGGTA-TTTGTACT
56896826 AACAGTACCA
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
63 27 0.32
64 58 0.68
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (64 bp):
TGAACTATCAATAATGTGTTTTATTATGGTATTTGTACTTTCACAAAATATCCAATGTGGTACC
Found at i:56897115 original size:15 final size:15
Alignment explanation
Indices: 56897095--56897129 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
56897085 TAGAAAATGG
56897095 CGTTTTGTTTATGTA
1 CGTTTTGTTTATGTA
56897110 CGTTTTGTTTATGTA
1 CGTTTTGTTTATGTA
*
56897125 AGTTT
1 CGTTT
56897130 AGTATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.06, G:0.20, T:0.60
Consensus pattern (15 bp):
CGTTTTGTTTATGTA
Found at i:56926406 original size:36 final size:36
Alignment explanation
Indices: 56926313--56926406 Score: 88
Period size: 35 Copynumber: 2.7 Consensus size: 36
56926303 GCCCATTTTT
* *
56926313 AATAAACATTAAA-AAAT-TATTTTAAAAATAAAAA
1 AATAAAAATAAAATAAATATATTTTAAAAATAAAAA
*** *
56926347 AATAAAAATATTTTAAA-AGTATTTT-AAAATTAAAA
1 AATAAAAATAAAATAAATA-TATTTTAAAAATAAAAA
56926382 AATAAAAATAAAAATAAATATATTT
1 AATAAAAAT-AAAATAAATATATTT
56926407 ATTATATTCG
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
34 8 0.17
35 21 0.46
36 16 0.35
37 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (36 bp):
AATAAAAATAAAATAAATATATTTTAAAAATAAAAA
Done.