Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 207 of 310
Found at i:67893484 original size:5 final size:5
Alignment explanation
Indices: 67893476--67893500 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
67893466 GATTTGATTT
67893476 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
67893501 AAATTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:67893649 original size:35 final size:34
Alignment explanation
Indices: 67893594--67893665 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
67893584 TACTTTGGGA
67893594 TTCCTACTTCAATTCGGAATTTG-ATTATTCTCTCTT
1 TTCCTACTTCAATTCGGAA-TTGAATTATT-T-TCTT
* *
67893630 TTCCTATTTCTATT-GGAATTGAATTATTTTCTT
1 TTCCTACTTCAATTCGGAATTGAATTATTTTCTT
67893663 TTC
1 TTC
67893666 TCTTTCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
33 7 0.21
34 4 0.12
35 10 0.30
36 12 0.36
ACGTcount: A:0.19, C:0.18, G:0.08, T:0.54
Consensus pattern (34 bp):
TTCCTACTTCAATTCGGAATTGAATTATTTTCTT
Found at i:67893957 original size:23 final size:24
Alignment explanation
Indices: 67893931--67894002 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 24
67893921 AAATGTCCAA
67893931 CCAAAACACATCAGTATAATA-CT
1 CCAAAACACATCAGTATAATACCT
*
67893954 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACATCAGTAT-A-AT-A-CCT
* *
67893982 CCCAAACACATCAGAATAATA
1 CCAAAACACATCAGTATAATA
67894003 TAATCCATCC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 16 0.40
24 1 0.03
25 3 0.08
26 3 0.08
27 1 0.03
28 16 0.40
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.19
Consensus pattern (24 bp):
CCAAAACACATCAGTATAATACCT
Found at i:67894028 original size:29 final size:28
Alignment explanation
Indices: 67893945--67894033 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 28
67893935 AACACATCAG
* * *
67893945 TATAATACTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
67893973 TATAATCCTCCCAAACACATCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
*
67894001 TATAATCCATCCAAAACACACCAGAATAG
1 TATAATCC-TCCAAAACACACCAGAATAA
67894030 TATA
1 TATA
67894034 GAGTGCCTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 31 0.60
29 21 0.40
ACGTcount: A:0.47, C:0.27, G:0.04, T:0.21
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:67894092 original size:13 final size:13
Alignment explanation
Indices: 67894069--67894112 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
67894059 GGATATAAAC
67894069 ATCAGCATCTCCAA
1 ATCA-CATCTCCAA
67894083 ATCACATCTCCAA
1 ATCACATCTCCAA
* * *
67894096 ATCCCTTCTCAAA
1 ATCACATCTCCAA
67894109 ATCA
1 ATCA
67894113 TATGACATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 22 0.85
14 4 0.15
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.25
Consensus pattern (13 bp):
ATCACATCTCCAA
Found at i:67894160 original size:23 final size:23
Alignment explanation
Indices: 67894134--67894180 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
67894124 AATTATATTT
67894134 GACATAGTCCAACTAGTTAATAG
1 GACATAGTCCAACTAGTTAATAG
*
67894157 GACATAGTCCGACTAGTTAATAG
1 GACATAGTCCAACTAGTTAATAG
67894180 G
1 G
67894181 GTATTCTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (23 bp):
GACATAGTCCAACTAGTTAATAG
Found at i:67894227 original size:17 final size:17
Alignment explanation
Indices: 67894205--67894243 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
67894195 CTTTTTTTTT
*
67894205 TCAATTTCATTTCCATA
1 TCAATTTCAATTCCATA
*
67894222 TCAATTTCAATTCCATT
1 TCAATTTCAATTCCATA
67894239 TCAAT
1 TCAAT
67894244 ATACAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (17 bp):
TCAATTTCAATTCCATA
Found at i:67894230 original size:23 final size:24
Alignment explanation
Indices: 67894203--67894250 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
67894193 TTCTTTTTTT
* *
67894203 TTTCAATTTCATTTCCATAT-CAA
1 TTTCAATTCCATTTCAATATACAA
67894226 TTTCAATTCCATTTCAATATACAA
1 TTTCAATTCCATTTCAATATACAA
67894250 T
1 T
67894251 CAATTCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTCAATTCCATTTCAATATACAA
Found at i:67894270 original size:16 final size:17
Alignment explanation
Indices: 67894231--67894276 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
67894221 ATCAATTTCA
*
67894231 ATTCCATTTCAATATAC
1 ATTCCAATTCAATATAC
*
67894248 AAT-CAATTCAATATAC
1 ATTCCAATTCAATATAC
67894264 -TTCCAATCTCAAT
1 ATTCCAAT-TCAAT
67894277 CCACATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 16 0.67
17 7 0.29
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTCCAATTCAATATAC
Found at i:67894297 original size:23 final size:22
Alignment explanation
Indices: 67894250--67894297 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
67894240 CAATATACAA
* *
67894250 TCAATTCAATATACTTCCAATC
1 TCAATCCAATATAATTCCAATC
67894272 TCAATCCACATATAATT-CAATAC
1 TCAATCCA-ATATAATTCCAAT-C
67894295 TCA
1 TCA
67894298 TACTTATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (22 bp):
TCAATCCAATATAATTCCAATC
Found at i:67895134 original size:21 final size:21
Alignment explanation
Indices: 67895095--67895134 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
67895085 ATTTAAGTTA
**
67895095 ATTTAATAATTATAAAATTCT
1 ATTTAATAACAATAAAATTCT
*
67895116 ATTTAATAACAATATAATT
1 ATTTAATAACAATAAAATT
67895135 AATATATTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTAATAACAATAAAATTCT
Found at i:67895542 original size:17 final size:17
Alignment explanation
Indices: 67895522--67895555 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
67895512 ATTCACTAAT
67895522 ATAAT-ATCAATTAAATA
1 ATAATAATCAA-TAAATA
67895539 ATAATAATCAATAAATA
1 ATAATAATCAATAAATA
67895556 TCTTTTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAATAATCAATAAATA
Found at i:67897321 original size:21 final size:20
Alignment explanation
Indices: 67897269--67897323 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
67897259 ATACTTGATT
*
67897269 ACCAACTTTCAAGACTTGAC
1 ACCAAGTTTCAAGACTTGAC
* *
67897289 -CCAAAGTATCAAGACTTGTGC
1 ACC-AAGTTTCAAGACTTG-AC
67897310 ACCAAGTTTCAAGA
1 ACCAAGTTTCAAGA
67897324 GTGGACAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 2 0.07
20 13 0.46
21 11 0.39
22 2 0.07
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (20 bp):
ACCAAGTTTCAAGACTTGAC
Found at i:67906453 original size:17 final size:18
Alignment explanation
Indices: 67906431--67906470 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
67906421 TTGTCATGTA
67906431 TTTTTTGT-ATCATATAT
1 TTTTTTGTCATCATATAT
67906448 TTTTTTGTACCATCATATAT
1 TTTTTTGT--CATCATATAT
67906468 TTT
1 TTT
67906471 ATTAACTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
20 12 0.60
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTTTGTCATCATATAT
Found at i:67907323 original size:130 final size:131
Alignment explanation
Indices: 67907042--67907325 Score: 313
Period size: 131 Copynumber: 2.2 Consensus size: 131
67907032 CAATTTCGCG
* *
67907042 TTTGCTCAAAATAATCGAATATCCCTTCAGGATTTCACTCATGACTTTTAAAAATTCTTTAAAAC
1 TTTGCTCAAAATAATCGAATATCCCTTCAGGATTTCACTCATGACTATTAAAAATACTTTAAAAC
* * *
67907107 GAAGGCAATATTCGACGTTTGACAATTCAAGAATCATGCCCTATCATGCTGGGTTGTGATCTCTC
66 GAAGACAATATTCAACGTTTGACAATTCAAGAATCATGCCCTATCATGCTGGGTTGCGATCTCTC
*
67907172 G
131 A
* * * * * **
67907173 CTTGCTCAAAACAATCGAATATTCCTTTA-TATTCTCACTCATGTGTATTAAAAATACTTTAAAA
1 TTTGCTCAAAATAATCGAATATCCCTTCAGGATT-TCACTCATGACTATTAAAAATACTTTAAAA
* * * * * ** * * *
67907237 CGAAGACGATGTTCAATG-TTGGCGATTTGAGAATCGA-GCCCTATCATGCTGGGTTGCGCTTTT
65 CGAAGACAATATTCAACGTTTGACAATTCAAGAATC-ATGCCCTATCATGCTGGGTTGCGATCTC
67907300 TCA
129 TCA
*
67907303 TTTGTTCAAAATAATCGAATATC
1 TTTGCTCAAAATAATCGAATATC
67907326 TCTTTGGAAT
Statistics
Matches: 124, Mismatches: 27, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
130 59 0.48
131 65 0.52
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (131 bp):
TTTGCTCAAAATAATCGAATATCCCTTCAGGATTTCACTCATGACTATTAAAAATACTTTAAAAC
GAAGACAATATTCAACGTTTGACAATTCAAGAATCATGCCCTATCATGCTGGGTTGCGATCTCTC
A
Found at i:67922110 original size:27 final size:27
Alignment explanation
Indices: 67922078--67922132 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
67922068 CTATAATAGT
67922078 AGTTTTAGCCAGAGACTCAGAAGGGGA
1 AGTTTTAGCCAGAGACTCAGAAGGGGA
67922105 AGTTTTAGCCAGAGACTCAGAAGGGGA
1 AGTTTTAGCCAGAGACTCAGAAGGGGA
67922132 A
1 A
67922133 ATTGTAGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.33, T:0.18
Consensus pattern (27 bp):
AGTTTTAGCCAGAGACTCAGAAGGGGA
Found at i:67924083 original size:19 final size:20
Alignment explanation
Indices: 67924047--67924084 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
67924037 TATGGAATTA
*
67924047 ATATATAAAAAATTAATATT
1 ATATATAAAAAATAAATATT
*
67924067 ATAT-TAAAATATAAATAT
1 ATATATAAAAAATAAATAT
67924085 GAGTTAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATATATAAAAAATAAATATT
Found at i:67924523 original size:17 final size:17
Alignment explanation
Indices: 67924501--67924533 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
67924491 TTGTATAAAA
67924501 TTTATT-TTATTGTTAAT
1 TTTATTGTTATT-TTAAT
67924518 TTTATTGTTATTTTAA
1 TTTATTGTTATTTTAA
67924534 AGACATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTATTGTTATTTTAAT
Found at i:67924532 original size:11 final size:11
Alignment explanation
Indices: 67924502--67924532 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
67924492 TGTATAAAAT
67924502 TTATTTTATTG
1 TTATTTTATTG
67924513 TTAATTTTATTG
1 TT-ATTTTATTG
67924525 TTATTTTA
1 TTATTTTA
67924533 AAGACATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (11 bp):
TTATTTTATTG
Found at i:67924545 original size:30 final size:31
Alignment explanation
Indices: 67924510--67924573 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
67924500 ATTTATTTTA
*
67924510 TTGTTAA-TTTTATTGTTATTTTA-AAGACAT
1 TTGTTAATTTTTATTATTATTTTAGAAG-CAT
*
67924540 TTGTTAATTTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTTATTATTATTTTAGAAGCAT
67924571 TTG
1 TTG
67924574 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 20 0.67
32 3 0.10
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAGCAT
Found at i:67925437 original size:12 final size:11
Alignment explanation
Indices: 67925418--67925457 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
67925408 GATGCTATGT
67925418 TTTTTTTAAAA
1 TTTTTTTAAAA
67925429 TTATTTTTAAACA
1 TT-TTTTTAAA-A
*
67925442 TTTTTTGAAAA
1 TTTTTTTAAAA
67925453 TTTTT
1 TTTTT
67925458 ATTCTAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 8 0.31
12 15 0.58
13 3 0.12
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (11 bp):
TTTTTTTAAAA
Found at i:67929686 original size:46 final size:45
Alignment explanation
Indices: 67929618--67929746 Score: 177
Period size: 46 Copynumber: 2.8 Consensus size: 45
67929608 TGTAACTCGA
* * * * *
67929618 CCATAAGCGAACTCGGAATCAACTCAACGAGCTTGGGCGTTCGCAT
1 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGACATTCGCAT
67929664 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGACATTCGCAT
*
67929710 CCATAAGTGAACTCGAACTCGACTCAACGAGCTCGGA
1 CCATAAGTGAACTCG-ACTCAACTCAACGAGCTCGGA
67929747 TGCCCAAATA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 74 0.99
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (45 bp):
CCATAAGTGAACTCGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:67930812 original size:49 final size:48
Alignment explanation
Indices: 67930699--67930878 Score: 159
Period size: 49 Copynumber: 3.7 Consensus size: 48
67930689 GGATCAAATG
*
67930699 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCATATTAAAGT
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTGACTAGCATATTAAAGT
* * * * ** *
67930748 -CGATGTCGTGTCCCAGATAGGTTTTACACTGACTTTCATATATCAAGT
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTAGCATAT-TAAAGT
** **
67930796 CCGATGCCATGTCCCAGACAGGTCTTACACT-AGCTCTCAT-TTATTGGT
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTAGCATATTA-AAGT
* * *
67930844 GTCAATGCCATGTCCTAGACAGGTCTTACACTGAC
1 -CCGATGCCATGTCCCAGACAGGTCTTACACTGAC
67930879 ACCAAACAAG
Statistics
Matches: 106, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
47 19 0.18
48 25 0.24
49 61 0.58
50 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.30
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTGACTAGCATATTAAAGT
Found at i:67930878 original size:98 final size:97
Alignment explanation
Indices: 67930699--67930878 Score: 227
Period size: 98 Copynumber: 1.8 Consensus size: 97
67930689 GGATCAAATG
* * * *
67930699 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCATATTAAAGTCGATGTCGTGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCATATTAAAGTCAATGCCATGTCCCAG
* *
67930764 ATAGGTTTTACACTGACTTTCATATATCAAGT
66 ACAGGTCTTACACTGACTTTCATATATCAAGT
** *** *
67930796 CCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATTTATTGGTGTCAATGCCATGTCCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCA--TATTAAAGTCAATGCCATGTCCC
67930860 AGACAGGTCTTACACTGAC
64 AGACAGGTCTTACACTGAC
67930879 ACCAAACAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
96 16 0.23
97 20 0.29
98 33 0.48
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.30
Consensus pattern (97 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCATATTAAAGTCAATGCCATGTCCCAG
ACAGGTCTTACACTGACTTTCATATATCAAGT
Found at i:67930968 original size:48 final size:46
Alignment explanation
Indices: 67930897--67931016 Score: 132
Period size: 46 Copynumber: 2.6 Consensus size: 46
67930887 AGGTGACGCT
* * * * * *
67930897 ATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATAC
1 ATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCAAGACCGATAC
* * * *
67930945 ATGTCCCAGACATGTCTTACACTAACTCTCGTCTCAATATCGATAC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGACCGATAC
67930991 ATGTCCCAGACATGTCTTACACTAGC
1 ATGTCCCAGACATGTCTTACACTAGC
67931017 CCACATACCA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 36 0.59
47 2 0.03
48 23 0.38
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGACCGATAC
Found at i:67946685 original size:53 final size:53
Alignment explanation
Indices: 67946609--67946715 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
67946599 AAGTATAATT
67946609 TATTCAATATAATATAACAGTTGATGGCATTAGATGTATGTCATTTTTGTTTA
1 TATTCAATATAATATAACAGTTGATGGCATTAGATGTATGTCATTTTTGTTTA
67946662 TATTCAATATAATATAACAGTTGATGGCATTAGATGTATGTCATTTTTGTTTA
1 TATTCAATATAATATAACAGTTGATGGCATTAGATGTATGTCATTTTTGTTTA
67946715 T
1 T
67946716 GCAGTATTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (53 bp):
TATTCAATATAATATAACAGTTGATGGCATTAGATGTATGTCATTTTTGTTTA
Found at i:67950224 original size:539 final size:540
Alignment explanation
Indices: 67949206--67950285 Score: 2108
Period size: 539 Copynumber: 2.0 Consensus size: 540
67949196 TATGAACAAG
67949206 ATAATCATAGGAGCGTGCATGTTTAAAAAAATGGTGCTTCAAAAGCTTCTCGGATGCTGGACGTT
1 ATAATCATAGGAGCGTGCATGTTTAAAAAAATGGTGCTTCAAAAGCTTCTCGGATGCTGGACGTT
67949271 TCTTTGGGTCCTTCACCAAGCAAGTAGCTACCATCTCCTTGAAAGACTACCAAAAGTATAACATT
66 TCTTTGGGTCCTTCACCAAGCAAGTAGCTACCATCTCCTTGAAAGACTACCAAAAGTATAACATT
* *
67949336 ATCAGAATGATATTAAAAAATGACATGGGTCAGTAGGACACAATCAAATAGCACAAACCTTTGAG
131 ATCACAATGATACTAAAAAATGACATGGGTCAGTAGGACACAATCAAATAGCACAAACCTTTGAG
67949401 AACCTCTTGTCCCTTTCGTAGTCAAGACCAGGAGGAGCATTTTGCAAGGTCATCAACAAAACCTG
196 AACCTCTTGTCCCTTTCGTAGTCAAGACCAGGAGGAGCATTTTGCAAGGTCATCAACAAAACCTG
67949466 CCAGCAAAAATAGGAGTAAACAATCAAACTAAGAAGTAAAAAAAGAATGAAACCACAAAATACAT
261 CCAGCAAAAATAGGAGTAAACAATCAAACTAAGAAGTAAAAAAAGAATGAAACCACAAAATACAT
67949531 GCAATAAAAAACTCATTTAACAATCAGAAAACTGAGATGTTTACTTTCATCGGTGGATACTTGGA
326 GCAATAAAAAACTCATTTAACAATCAGAAAACTGAGATGTTTACTTTCATCGGTGGATACTTGGA
67949596 AAATGGGGCATGGCCATGAGCAAGTTCAAGAGCTGTTATTCCCAAAGACCAGATGTCTGCTCTGT
391 AAATGGGGCATGGCCATGAGCAAGTTCAAGAGCTGTTATTCCCAAAGACCAGATGTCTGCTCTGT
67949661 TTACAGGAAAGAAGAAAATGAAACAGAATGATTAAAAAGGTATAACAAAGCAAAATAATGGAAGG
456 TTACAGGAAAGAAGAAAATGAAACAGAATGATTAAAAAGGTATAACAAAGCAAAATAATGGAAGG
67949726 AAATGAAAAGAAAAGAAGAA
521 AAATGAAAAGAAAAGAAGAA
*
67949746 ATAATCATAGGAGCGTGCATGTTTAAAAAAATGGTGCTTCAAAAGCTTCTCGGATGTTGGACGTT
1 ATAATCATAGGAGCGTGCATGTTTAAAAAAATGGTGCTTCAAAAGCTTCTCGGATGCTGGACGTT
67949811 TCTTTGGGTCCTTCACCAAGCAAGTAGCTACCATCTCCTTGAAAGACTACCAAAAGTATAACATT
66 TCTTTGGGTCCTTCACCAAGCAAGTAGCTACCATCTCCTTGAAAGACTACCAAAAGTATAACATT
*
67949876 ATCACAATGATACT-AAAATTGACATGGGTCAGTAGGACACAATCAAATAGCACAAACCTTTGAG
131 ATCACAATGATACTAAAAAATGACATGGGTCAGTAGGACACAATCAAATAGCACAAACCTTTGAG
67949940 AACCTCTTGTCCCTTTCGTAGTCAAGACCAGGAGGAGCATTTTGCAAGGTCATCAACAAAACCTG
196 AACCTCTTGTCCCTTTCGTAGTCAAGACCAGGAGGAGCATTTTGCAAGGTCATCAACAAAACCTG
67950005 CCAGCAAAAATAGGAGTAAACAATCAAACTAAGAAGTAAAAAAAGAATGAAACCACAAAATACAT
261 CCAGCAAAAATAGGAGTAAACAATCAAACTAAGAAGTAAAAAAAGAATGAAACCACAAAATACAT
*
67950070 GCAATAAGAAACTCATTTAACAATCAGAAAACTGAGATGTTTACTTTCATCGGTGGATACTTGGA
326 GCAATAAAAAACTCATTTAACAATCAGAAAACTGAGATGTTTACTTTCATCGGTGGATACTTGGA
67950135 AAATGGGGCATGGCCATGAGCAAGTTCAAGAGCTGTTATTCCCAAAGACCAGATGTCTGCTCTGT
391 AAATGGGGCATGGCCATGAGCAAGTTCAAGAGCTGTTATTCCCAAAGACCAGATGTCTGCTCTGT
67950200 TTACAGGAAAGAAGAAAATGAAACAGAATGATTAAAAAGGTATAACAAAGCAAAATAATGGAAGG
456 TTACAGGAAAGAAGAAAATGAAACAGAATGATTAAAAAGGTATAACAAAGCAAAATAATGGAAGG
67950265 AAATGAAAAGAAAAGAAGAA
521 AAATGAAAAGAAAAGAAGAA
67950285 A
1 A
67950286 AGATAAGAAA
Statistics
Matches: 535, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
539 394 0.74
540 141 0.26
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (540 bp):
ATAATCATAGGAGCGTGCATGTTTAAAAAAATGGTGCTTCAAAAGCTTCTCGGATGCTGGACGTT
TCTTTGGGTCCTTCACCAAGCAAGTAGCTACCATCTCCTTGAAAGACTACCAAAAGTATAACATT
ATCACAATGATACTAAAAAATGACATGGGTCAGTAGGACACAATCAAATAGCACAAACCTTTGAG
AACCTCTTGTCCCTTTCGTAGTCAAGACCAGGAGGAGCATTTTGCAAGGTCATCAACAAAACCTG
CCAGCAAAAATAGGAGTAAACAATCAAACTAAGAAGTAAAAAAAGAATGAAACCACAAAATACAT
GCAATAAAAAACTCATTTAACAATCAGAAAACTGAGATGTTTACTTTCATCGGTGGATACTTGGA
AAATGGGGCATGGCCATGAGCAAGTTCAAGAGCTGTTATTCCCAAAGACCAGATGTCTGCTCTGT
TTACAGGAAAGAAGAAAATGAAACAGAATGATTAAAAAGGTATAACAAAGCAAAATAATGGAAGG
AAATGAAAAGAAAAGAAGAA
Found at i:67953236 original size:21 final size:20
Alignment explanation
Indices: 67953188--67953230 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
67953178 GGTTTTAATT
67953188 AAAATTATATAAAGTATGAAA
1 AAAATTATATAAAGTAT-AAA
67953209 AAAATTATATAATAAGTATAAA
1 AAAATTATAT-A-AAGTATAAA
67953231 TAATTACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 4 0.20
23 6 0.30
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATTATATAAAGTATAAA
Found at i:67954589 original size:31 final size:29
Alignment explanation
Indices: 67954540--67954603 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
67954530 TTAGTAAAGG
*
67954540 TAAAATTATATTTTAATCTCTTAAAAATGA
1 TAAAATTATATTTAAATCT-TTAAAAATGA
* *
67954570 TAAATATTTTATTTAAATCTTTAAAAATTA
1 TAAA-ATTATATTTAAATCTTTAAAAATGA
67954600 TAAA
1 TAAA
67954604 GAGACTATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (29 bp):
TAAAATTATATTTAAATCTTTAAAAATGA
Found at i:67957023 original size:21 final size:20
Alignment explanation
Indices: 67956999--67957129 Score: 102
Period size: 21 Copynumber: 6.3 Consensus size: 20
67956989 ATATTTTACT
*
67956999 TTCTGTTCAGCTCTTTCGAAC
1 TTCTGTTCAGCTCTTT-GAGC
* * *
67957020 TTCTGTTAAACTCTTATGAGT
1 TTCTGTTCAGCTCTT-TGAGC
*
67957041 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTT-TGAGC
* * *
67957062 TTTTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTT-TGAGC
* *
67957083 TTCTGTTAAGCTCTTACGAGC
1 TTCTGTTCAGCTCTT-TGAGC
* *
67957104 TTCTATTCTGCT-TTTGAGC
1 TTCTGTTCAGCTCTTTGAGC
67957123 TTCTGTT
1 TTCTGTT
67957130 GGAGTATCTG
Statistics
Matches: 87, Mismatches: 22, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
19 10 0.11
20 2 0.02
21 74 0.85
22 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (20 bp):
TTCTGTTCAGCTCTTTGAGC
Found at i:67957074 original size:42 final size:42
Alignment explanation
Indices: 67956998--67957107 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
67956988 CATATTTTAC
* *
67956998 TTTCTGTTCAGCTCTTTCGAACTTCTGTTAAACTCTTATGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAG
* *
67957040 TTTCTGTTCAGCTCTTACGAGCTTTTGTTCAACTCTTATGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAG
*
67957082 TTTCTGTTAAGCTCTTACGAGCTTCT
1 TTTCTGTTCAGCTCTTACGAGCTTCT
67957108 ATTCTGCTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.45
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAG
Found at i:67965358 original size:23 final size:23
Alignment explanation
Indices: 67965332--67965378 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
67965322 GAGTAAACCA
67965332 AAATGTCATCGATAAAAACTACG
1 AAATGTCATCGATAAAAACTACG
67965355 AAATGTCATCGATAAAAACTACG
1 AAATGTCATCGATAAAAACTACG
67965378 A
1 A
67965379 TGAACTGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (23 bp):
AAATGTCATCGATAAAAACTACG
Found at i:67973135 original size:53 final size:50
Alignment explanation
Indices: 67972989--67973147 Score: 201
Period size: 53 Copynumber: 3.1 Consensus size: 50
67972979 TGACGGAAAA
*
67972989 GATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGTATGGCATCGGTGC
1 GATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGTATGGCATCGGTGT
* * *
67973040 AATGTGATACGTGTTCCCGTATAATACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATATGTGTT-CCGTATAAGACCATAGCTGGG-TATGGCATCGGTGT
* * *
67973092 GATGTGATAATGTGATTTCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGG-TATGGCATCGGTGT
67973145 GAT
1 GAT
67973148 ATGTGATCCG
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
50 2 0.02
51 31 0.33
52 20 0.22
53 38 0.41
54 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (50 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGTATGGCATCGGTGT
Found at i:67978414 original size:17 final size:17
Alignment explanation
Indices: 67978392--67978439 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
67978382 ATTGTTATAT
67978392 ATATTTAAAAATTATAAA
1 ATATTTAAAAATTA-AAA
*
67978410 A-ATTTATTAAAAATAAAA
1 ATATTTA--AAAATTAAAA
67978428 ATATTTAAAAAT
1 ATATTTAAAAAT
67978440 AGAGAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
17 9 0.36
18 5 0.20
19 11 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATTTAAAAATTAAAA
Found at i:67978435 original size:16 final size:17
Alignment explanation
Indices: 67978405--67978440 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
67978395 TTTAAAAATT
*
67978405 ATAAAAATTTATTAAAA
1 ATAAAAATATATTAAAA
67978422 ATAAAAATAT-TTAAAA
1 ATAAAAATATATTAAAA
67978438 ATA
1 ATA
67978441 GAGAAAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAAAATATATTAAAA
Found at i:67979523 original size:19 final size:20
Alignment explanation
Indices: 67979487--67979524 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
67979477 TTCTTTGTCC
67979487 TTTTTCATTTTTTCATTTTG
1 TTTTTCATTTTTTCATTTTG
67979507 TTTTTC-TTTATTT-ATTTT
1 TTTTTCATTT-TTTCATTTT
67979525 TTCAGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTTCATTTTTTCATTTTG
Found at i:67979622 original size:31 final size:32
Alignment explanation
Indices: 67979586--67979670 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 32
67979576 TTAAATGTAT
67979586 ATTTTAAAT-TTTTTATAATATTATTTTTTAA
1 ATTTTAAATATTTTTATAATATTATTTTTTAA
67979617 ATTTTAAATATTTTTA-AATA-T-TTTTTTAA
1 ATTTTAAATATTTTTATAATATTATTTTTTAA
*
67979646 AATTTAAATATATTTT-TAATATTAT
1 ATTTTAAATAT-TTTTATAATATTAT
67979671 AAAACATTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
29 18 0.38
30 9 0.19
31 14 0.29
32 7 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (32 bp):
ATTTTAAATATTTTTATAATATTATTTTTTAA
Found at i:67979630 original size:17 final size:16
Alignment explanation
Indices: 67979586--67979635 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
67979576 TTAAATGTAT
67979586 ATTTTAAATTTTTTATA
1 ATTTTAAATTTTTTA-A
*
67979603 ATATT--ATTTTTTAA
1 ATTTTAAATTTTTTAA
67979617 ATTTTAAATATTTTTAA
1 ATTTTAAAT-TTTTTAA
67979634 AT
1 AT
67979636 ATTTTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 5 0.18
15 8 0.29
16 2 0.07
17 13 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTAAATTTTTTAA
Found at i:67979633 original size:10 final size:10
Alignment explanation
Indices: 67979587--67979641 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
67979577 TAAATGTATA
*
67979587 TTTTAAATTT
1 TTTTAAATAT
67979597 TTTATAATATTAT
1 TTT-TAA-A-TAT
*
67979610 TTTTTAA-A-
1 TTTTAAATAT
67979618 TTTTAAATAT
1 TTTTAAATAT
67979628 TTTTAAATAT
1 TTTTAAATAT
67979638 TTTT
1 TTTT
67979642 TTAAAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
8 6 0.16
9 2 0.05
10 17 0.46
11 4 0.11
12 3 0.08
13 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:67979649 original size:30 final size:31
Alignment explanation
Indices: 67979586--67979670 Score: 113
Period size: 30 Copynumber: 2.8 Consensus size: 31
67979576 TTAAATGTAT
*
67979586 ATTTTAAAT-TTTTTATAATATTATTTTTTAA
1 ATTTTAAATATTTTTA-AATATTATTTTTAAA
67979617 ATTTTAAATATTTTTAAATATT-TTTTTAAA
1 ATTTTAAATATTTTTAAATATTATTTTTAAA
*
67979647 A-TTTAAATATATTTTTAATATTAT
1 ATTTTAAATAT-TTTTAAATATTAT
67979671 AAAACATTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
29 9 0.18
30 18 0.37
31 16 0.33
32 6 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
ATTTTAAATATTTTTAAATATTATTTTTAAA
Found at i:67979679 original size:19 final size:19
Alignment explanation
Indices: 67979629--67979679 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
67979619 TTTAAATATT
**
67979629 TTTAAATATTTTTTTAAAA
1 TTTAAATACATTTTTAAAA
* *
67979648 TTTAAATATATTTTTAATA
1 TTTAAATACATTTTTAAAA
67979667 TTATAAA-ACATTT
1 TT-TAAATACATTT
67979680 AAAATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAATACATTTTTAAAA
Found at i:67979761 original size:22 final size:23
Alignment explanation
Indices: 67979727--67979781 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
67979717 TATTATTTAG
*
67979727 TTTATAATATTTTAAAT-ATATAT
1 TTTAAAAT-TTTTAAATGATATAT
* *
67979750 TTTAAAATTTTTAAATGTTATTT
1 TTTAAAATTTTTAAATGATATAT
67979773 TTTAAAATT
1 TTTAAAATT
67979782 ATTTTTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAAAATTTTTAAATGATATAT
Found at i:67981956 original size:40 final size:39
Alignment explanation
Indices: 67981912--67982026 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 39
67981902 TGAGTTACCA
* * *
67981912 TAGTGAATCAGGAACACATCCTATCCACTTTATATATT-TC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTA-AT-TTCTC
* * *
67981952 TAGTGAATCAGGAATAAATCATATTTACTTTAATTTCTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTC
67981991 TAGTGAATCAGGAATAAATCCTATTCACTTTTAATT
1 TAGTGAATCAGGAATAAATCCTATTCAC-TTTAATT
67982027 CTCGAGAAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
38 2 0.03
39 29 0.45
40 34 0.52
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (39 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTC
Found at i:67982909 original size:14 final size:15
Alignment explanation
Indices: 67982881--67982911 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
67982871 CCCCAATTTC
67982881 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
67982896 TCCCTTTT-TTTCTT
1 TCCCTTTTCTTTCTT
67982910 TC
1 TC
67982912 TTTCTTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:67983195 original size:21 final size:21
Alignment explanation
Indices: 67983171--67983210 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
67983161 TATTTACTTA
67983171 AATTA-TAAGTAAATATATAAT
1 AATTACTAA-TAAATATATAAT
*
67983192 AATTACTAATATATATATA
1 AATTACTAATAAATATATA
67983211 TATGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (21 bp):
AATTACTAATAAATATATAAT
Found at i:67985884 original size:149 final size:149
Alignment explanation
Indices: 67985614--67985902 Score: 506
Period size: 149 Copynumber: 1.9 Consensus size: 149
67985604 TGTTAAGTAT
* *
67985614 AATTTTGTCTTTACCTATTTACAAGTGGCTACGAATATGGTTGGTACCTAGCAGCCGCTAGAAAC
1 AATTTTATCTTTACCTATTTACAAGTGGCTACGAATATGGTTGGTACCTAGCAGCCACTAGAAAC
*
67985679 GGTATCCTGTATAGAGCCTAGGACTACAACAGACCCAAACAACCAGCCATGTTACTAATCTTATG
66 GGTATCCTGTATAGAGCCTAGGACTACAACAGACCCAAACAACCAGCCATGTTACTAATCCTATG
67985744 TTTTGTTGCTAATTATGAG
131 TTTTGTTGCTAATTATGAG
*
67985763 AATTTTATTTTTACCTATTTACAAGTGGCTACGAATATGGTTGGTACCTAGCAGCCACTAGAAAC
1 AATTTTATCTTTACCTATTTACAAGTGGCTACGAATATGGTTGGTACCTAGCAGCCACTAGAAAC
* * * *
67985828 GGTATCTTGTATAGAGCCTAGGACTGCAGCAGACCCAAACAATCAGCCATGTTACTAATCCTATG
66 GGTATCCTGTATAGAGCCTAGGACTACAACAGACCCAAACAACCAGCCATGTTACTAATCCTATG
67985893 TTTTGTTGCT
131 TTTTGTTGCT
67985903 CGGCAAAGCT
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
149 132 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (149 bp):
AATTTTATCTTTACCTATTTACAAGTGGCTACGAATATGGTTGGTACCTAGCAGCCACTAGAAAC
GGTATCCTGTATAGAGCCTAGGACTACAACAGACCCAAACAACCAGCCATGTTACTAATCCTATG
TTTTGTTGCTAATTATGAG
Found at i:67987670 original size:20 final size:21
Alignment explanation
Indices: 67987647--67987693 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
67987637 AAAATCATTG
*
67987647 GTTTTTTAAGAAATAAAT-CT
1 GTTTTTTAACAAATAAATCCT
67987667 G-TTTTTAACAAATAAATCCT
1 GTTTTTTAACAAATAAATCCT
67987687 -TTTTTTA
1 GTTTTTTA
67987694 CTTTTTTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (21 bp):
GTTTTTTAACAAATAAATCCT
Found at i:67988118 original size:22 final size:23
Alignment explanation
Indices: 67988091--67988141 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
67988081 AAATAATAAA
67988091 TTTAAAAAATATATTTAAAA-AT
1 TTTAAAAAATATATTTAAAATAT
*
67988113 TTTAAAATATATATTTAAAATAT
1 TTTAAAAAATATATTTAAAATAT
*
67988136 TATAAA
1 TTTAAA
67988142 CCAAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTAAAAAATATATTTAAAATAT
Found at i:67988139 original size:14 final size:13
Alignment explanation
Indices: 67988080--67988135 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
67988070 AATAATTTAA
*
67988080 AAAATAATAAATTT
1 AAAAT-ATATATTT
*
67988094 AAAAAATATATTT
1 AAAATATATATTT
67988107 -AAA-A-AT-TTT
1 AAAATATATATTT
67988116 AAAATATATATTT
1 AAAATATATATTT
67988129 AAAATAT
1 AAAATAT
67988136 TATAAACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 3 0.08
10 5 0.14
11 2 0.06
12 5 0.14
13 17 0.47
14 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAATATATATTT
Found at i:67988228 original size:21 final size:21
Alignment explanation
Indices: 67988195--67988243 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
67988185 TATTAAATGT
67988195 TTTATAATATTAAAAAATAATA
1 TTTA-AATATTAAAAAATAATA
*
67988217 TTTAAATTTTAAAAAATAATA
1 TTTAAATATTAAAAAATAATA
67988238 TTTAAA
1 TTTAAA
67988244 ATATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTAAATATTAAAAAATAATA
Found at i:67988257 original size:17 final size:15
Alignment explanation
Indices: 67988224--67988262 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
67988214 ATATTTAAAT
67988224 TTTAAAA-AATAATA
1 TTTAAAATAATAATA
67988238 TTTAAAATATATATATA
1 TTTAAAATA-ATA-ATA
67988255 TTTAAAAT
1 TTTAAAAT
67988263 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 1 0.05
16 3 0.14
17 11 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTAAAATAATAATA
Found at i:67988267 original size:39 final size:35
Alignment explanation
Indices: 67988198--67988284 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 35
67988188 TAAATGTTTT
67988198 ATAATA-TTAAAAAATAATATTTAAATTTTAAAAA
1 ATAATATTTAAAAAATAATATTTAAATTTTAAAAA
67988232 ATAATATTTAAAATATATATATATTTAAAATTTTAAAAA
1 ATAATATTTAAAA-A-ATA-ATATTT-AAATTTTAAAAA
*
67988271 ATTATATTATAAAA
1 ATAATATT-TAAAA
67988285 CGTTTAGAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
34 6 0.13
35 6 0.13
36 1 0.02
37 3 0.07
38 6 0.13
39 19 0.41
40 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (35 bp):
ATAATATTTAAAAAATAATATTTAAATTTTAAAAA
Found at i:67988400 original size:14 final size:16
Alignment explanation
Indices: 67988374--67988406 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
67988364 TTGAAAAAGT
67988374 AAATAAAGAAAAAC-A
1 AAATAAAGAAAAACGA
67988389 AAATAAAG-AAAACGA
1 AAATAAAGAAAAACGA
67988404 AAA
1 AAA
67988407 ATGACAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (16 bp):
AAATAAAGAAAAACGA
Found at i:68000428 original size:35 final size:35
Alignment explanation
Indices: 68000286--68000416 Score: 129
Period size: 35 Copynumber: 3.6 Consensus size: 35
68000276 CCTCATTGAA
* * * *
68000286 ATACCATACTTACATTTTACAACTCGGTATGGGA-A
1 ATACCATACCTACATTTCACAACTCAGTAT-GGATG
** **
68000321 ATGTCATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
68000358 ATAATACCATACCTACATTTCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
68000396 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
68000417 CTTTTCCATG
Statistics
Matches: 78, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
34 3 0.04
35 44 0.56
38 2 0.03
40 29 0.37
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.33
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:68002163 original size:32 final size:32
Alignment explanation
Indices: 68002119--68002179 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
68002109 CATAATTTCA
* *
68002119 TAAATACTCAATTCAATATTAAAATACTATAC
1 TAAACACTCAATTCAATATCAAAATACTATAC
68002151 TAAACACTCAATTCAATATCAAAATACTA
1 TAAACACTCAATTCAATATCAAAATACTA
68002180 CACTTACCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (32 bp):
TAAACACTCAATTCAATATCAAAATACTATAC
Found at i:68002851 original size:25 final size:25
Alignment explanation
Indices: 68002822--68002869 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
68002812 ACTTTTTCTC
* *
68002822 CTTTCTTTCTCTTTTTCGTTTCTTT
1 CTTTCATTCTCTGTTTCGTTTCTTT
68002847 CTTTCATTCTCTGTTTCGTTTCT
1 CTTTCATTCTCTGTTTCGTTTCT
68002870 GCTTTGGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.02, C:0.25, G:0.06, T:0.67
Consensus pattern (25 bp):
CTTTCATTCTCTGTTTCGTTTCTTT
Found at i:68002942 original size:5 final size:5
Alignment explanation
Indices: 68002932--68002966 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
68002922 GTTTTATTAT
68002932 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
68002967 TATTTATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:68005561 original size:5 final size:5
Alignment explanation
Indices: 68005551--68005575 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
68005541 GTCATCAGGA
68005551 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
68005576 GAAATTGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:68005567 original size:54 final size:53
Alignment explanation
Indices: 68005503--68005622 Score: 163
Period size: 54 Copynumber: 2.3 Consensus size: 53
68005493 CATGTTTAGC
* * *
68005503 AAAGAAAAGAAGAGAAAAAGACATTAGGAAGAAGAAAGGTCATCAG-GAAAAAG
1 AAAGAAAAGAAAAGAAAAAGAAATTAGGAAGAAGAAAGGT-AACAGAGAAAAAG
* *
68005556 AAAAGAAAAGAAAAGAAAAGGAAATTGGGAAGAAGAAAGGTAACAGAGAAAAAG
1 -AAAGAAAAGAAAAGAAAAAGAAATTAGGAAGAAGAAAGGTAACAGAGAAAAAG
68005610 AAAGAAAA-AAAAG
1 AAAGAAAAGAAAAG
68005623 GAAATAGTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
52 5 0.08
53 12 0.20
54 43 0.72
ACGTcount: A:0.65, C:0.03, G:0.26, T:0.06
Consensus pattern (53 bp):
AAAGAAAAGAAAAGAAAAAGAAATTAGGAAGAAGAAAGGTAACAGAGAAAAAG
Found at i:68020072 original size:20 final size:21
Alignment explanation
Indices: 68020034--68020073 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
68020024 TTATAAAATT
*
68020034 ATTAAAATATTTTTCTTATAA
1 ATTAAAATATATTTCTTATAA
*
68020055 ATTAAATTATATTT-TTATA
1 ATTAAAATATATTTCTTATA
68020074 TAATAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTAAAATATATTTCTTATAA
Found at i:68023226 original size:14 final size:14
Alignment explanation
Indices: 68023203--68023235 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
68023193 AATAAATTGT
68023203 TTAA-TCTAATTAA
1 TTAATTCTAATTAA
68023216 TTAATTCTAATTAA
1 TTAATTCTAATTAA
*
68023230 ATAATT
1 TTAATT
68023236 AACGCAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAATTCTAATTAA
Found at i:68027513 original size:43 final size:43
Alignment explanation
Indices: 68027432--68027515 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
68027422 AAGTTGTACA
* **
68027432 ATGCCAACGTCCCAGACATGGTCTTACATGTAGTCATATATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACATGTAAACATATATCG
68027475 ATGCC-ACTGTCCCAGACAGGGTCTTAC-TCGTAAACATATAT
1 ATGCCAAC-GTCCCAGACAGGGTCTTACAT-GTAAACATATAT
68027516 TGGAATCACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACATGTAAACATATATCG
Found at i:68034241 original size:15 final size:15
Alignment explanation
Indices: 68034221--68034250 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
68034211 TGTCATTCAT
68034221 AATGAACTAGATGTC
1 AATGAACTAGATGTC
68034236 AATGAACTAGATGTC
1 AATGAACTAGATGTC
68034251 CGAATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
AATGAACTAGATGTC
Found at i:68043257 original size:28 final size:27
Alignment explanation
Indices: 68043226--68043278 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
68043216 CATTTCTTTT
* * *
68043226 TAAAATATAACTTATTTTAATTTTTTAA
1 TAAAATA-AAATTAATTTAATATTTTAA
68043254 TAAAATAAAATTAATTTAATATTTT
1 TAAAATAAAATTAATTTAATATTTT
68043279 CTAGGTTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
TAAAATAAAATTAATTTAATATTTTAA
Found at i:68049725 original size:23 final size:23
Alignment explanation
Indices: 68049675--68049718 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
68049665 GTATAGGGTT
68049675 GGGTGGGTGTTTTAAACCTCAAA
1 GGGTGGGTGTTTTAAACCTCAAA
68049698 GGGTGGGTGTTTTAAACCTCA
1 GGGTGGGTGTTTTAAACCTCA
68049719 CATGGTGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.32
Consensus pattern (23 bp):
GGGTGGGTGTTTTAAACCTCAAA
Found at i:68056021 original size:14 final size:16
Alignment explanation
Indices: 68056001--68056041 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
68055991 TGAGTTTAGA
*
68056001 AAAACCCTAAAATC-T
1 AAAACCCTAAAACCTT
68056016 -AAACCCTAAAACCTT
1 AAAACCCTAAAACCTT
68056031 AAAACCCTAAA
1 AAAACCCTAAA
68056042 CCCTAAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 12 0.52
15 1 0.04
16 10 0.43
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAACCCTAAAACCTT
Found at i:68056027 original size:8 final size:8
Alignment explanation
Indices: 68056001--68056049 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
68055991 TGAGTTTAGA
68056001 AAAACCCT
1 AAAACCCT
*
68056009 AAAA-TCT
1 AAAACCCT
68056016 -AAACCCT
1 AAAACCCT
*
68056023 AAAACCTT
1 AAAACCCT
68056031 AAAACCCT
1 AAAACCCT
68056039 -AAACCCT
1 AAAACCCT
68056046 AAAA
1 AAAA
68056050 GGTTCTAAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 3 0.09
7 11 0.32
8 20 0.59
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAACCCT
Found at i:68056040 original size:23 final size:22
Alignment explanation
Indices: 68056001--68056049 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
68055991 TGAGTTTAGA
*
68056001 AAAACCCTAAAATCTAAACCCT
1 AAAACCCTAAAACCTAAACCCT
*
68056023 AAAACCTTAAAACCCTAAACCCT
1 AAAACCCTAAAA-CCTAAACCCT
68056046 AAAA
1 AAAA
68056050 GGTTCTAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (22 bp):
AAAACCCTAAAACCTAAACCCT
Found at i:68058838 original size:21 final size:21
Alignment explanation
Indices: 68058808--68058850 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
68058798 ATTTTACTAA
*
68058808 ACAACGATAATCGAGACCACC
1 ACAACAATAATCGAGACCACC
68058829 ACAACAATAATCGAGACCACC
1 ACAACAATAATCGAGACCACC
68058850 A
1 A
68058851 TTCTCTTTCA
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:0.47, C:0.33, G:0.12, T:0.09
Consensus pattern (21 bp):
ACAACAATAATCGAGACCACC
Found at i:68065249 original size:14 final size:14
Alignment explanation
Indices: 68065232--68065272 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
68065222 TTTGTTTTTT
68065232 GGTTTATTGGTTTG
1 GGTTTATTGGTTTG
68065246 GGTTTATT--TTT-
1 GGTTTATTGGTTTG
*
68065257 GGTTTGTTGGTTTG
1 GGTTTATTGGTTTG
68065271 GG
1 GG
68065273 CCAAAATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 7 0.30
12 3 0.13
13 3 0.13
14 10 0.43
ACGTcount: A:0.05, C:0.00, G:0.37, T:0.59
Consensus pattern (14 bp):
GGTTTATTGGTTTG
Found at i:68072632 original size:15 final size:16
Alignment explanation
Indices: 68072614--68072646 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
68072604 TATTTGAATA
68072614 TTTAT-AATTAAAATT
1 TTTATAAATTAAAATT
*
68072629 TTTATAAATTAATATT
1 TTTATAAATTAAAATT
68072645 TT
1 TT
68072647 ATTATCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTATAAATTAAAATT
Found at i:68074055 original size:22 final size:23
Alignment explanation
Indices: 68074030--68074076 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
68074020 AAAATTATGT
*
68074030 TAAAATATT-TAAAAAGTT-AAAA
1 TAAAAAATTCTAAAAA-TTCAAAA
68074052 TAAAAAATTCTAAAAATTCAAAA
1 TAAAAAATTCTAAAAATTCAAAA
68074075 TA
1 TA
68074077 TATATGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (23 bp):
TAAAAAATTCTAAAAATTCAAAA
Found at i:68075958 original size:19 final size:19
Alignment explanation
Indices: 68075922--68075984 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
68075912 ATTCAATAAT
68075922 ATAAT-AAATTATTA-TTTA
1 ATAATAAAATT-TTACTTTA
*
68075940 ATATTAAAATTTTACTTTA
1 ATAATAAAATTTTACTTTA
* * *
68075959 ACAATAAAATTTAACATTA
1 ATAATAAAATTTTACTTTA
68075978 ATAATAA
1 ATAATAA
68075985 TTTTAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 7 0.19
19 30 0.81
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAATAAAATTTTACTTTA
Found at i:68078266 original size:17 final size:16
Alignment explanation
Indices: 68078238--68078293 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 16
68078228 ATCTGTAACT
68078238 TTTTTTGAAATTTTATTA
1 TTTTTTG-AATTTTA-TA
68078256 TTTTTTGAATTTGTATA
1 TTTTTTGAATTT-TATA
*
68078273 CTTTTTAGAATATTTATA
1 -TTTTTTGAAT-TTTATA
68078291 TTT
1 TTT
68078294 ATATTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 10 0.29
18 22 0.65
19 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (16 bp):
TTTTTTGAATTTTATA
Found at i:68080515 original size:52 final size:48
Alignment explanation
Indices: 68080381--68080541 Score: 173
Period size: 52 Copynumber: 3.3 Consensus size: 48
68080371 TTGCACATAG
* *
68080381 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATACGG-A
1 TCACATATCACAT-CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
* * * * *
68080429 TCACATATCACA-CTGATGCCATATCCCGGATATGGTCTTATACGGAA
1 TCACATATCACATCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
*
68080476 GCACATATCACATTTGTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAA
1 TCACATATCACA----TCCGAAGCCATAGCCCAGCTATGGTCTTATACGG-AA
*
68080529 TCACATTTCACAT
1 TCACATATCACAT
68080542 GCTGTCATGG
Statistics
Matches: 92, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
46 27 0.29
47 12 0.13
48 12 0.13
49 1 0.01
52 28 0.30
53 12 0.13
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
TCACATATCACATCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
Found at i:68083387 original size:21 final size:21
Alignment explanation
Indices: 68083344--68083388 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
68083334 TGCAAAGCAC
*** *
68083344 ACATGCCTGTGTGGTTAATGG
1 ACATGCCTGTGTGACCAAAGG
68083365 ACATGCCTGTGTGACCAAAGG
1 ACATGCCTGTGTGACCAAAGG
68083386 ACA
1 ACA
68083389 CGCCCGTGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (21 bp):
ACATGCCTGTGTGACCAAAGG
Found at i:68083912 original size:4 final size:4
Alignment explanation
Indices: 68083898--68083927 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
68083888 TTAATCCTTA
68083898 ACAT AACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT -ACAT ACAT ACAT ACAT ACAT ACAT A
68083928 TAATCAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:68085495 original size:5 final size:5
Alignment explanation
Indices: 68085485--68085540 Score: 112
Period size: 5 Copynumber: 11.2 Consensus size: 5
68085475 CTTTATATTT
68085485 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
68085535 TAATA T
1 TAATA T
68085541 TTACTTAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:68091333 original size:26 final size:25
Alignment explanation
Indices: 68091304--68091355 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
68091294 CTAAATTGAC
*
68091304 ATTTTGAAAAATAATTATAATATTTA
1 ATTTAGAAAAATAATTAT-ATATTTA
**
68091330 ATTTAGAATTATAATTATATATTTA
1 ATTTAGAAAAATAATTATATATTTA
68091355 A
1 A
68091356 AAGTAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (25 bp):
ATTTAGAAAAATAATTATATATTTA
Found at i:68091353 original size:20 final size:20
Alignment explanation
Indices: 68091316--68091354 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
68091306 TTTGAAAAAT
*
68091316 AATTATAATATTTAATTTAG
1 AATTATAATATATAATTTAG
68091336 AATTATAAT-TATATATTTA
1 AATTATAATATATA-ATTTA
68091355 AAAGTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
AATTATAATATATAATTTAG
Found at i:68091365 original size:44 final size:46
Alignment explanation
Indices: 68091310--68091412 Score: 135
Period size: 44 Copynumber: 2.3 Consensus size: 46
68091300 TGACATTTTG
* *
68091310 AAAAATAATTATAATATTTAATTTAGAA-T-T-ATAATTATATATTT
1 AAAAATAATTATAATATTTAA-TAAAAATTATGATAATTATATATTT
*
68091354 AAAAGTAATTAT-A-ATTTAATAAAAATTATGATAATTATATATTT
1 AAAAATAATTATAATATTTAATAAAAATTATGATAATTATATATTT
68091398 AAAAATAATTATAAT
1 AAAAATAATTATAAT
68091413 TTATTTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
41 4 0.08
42 7 0.14
43 2 0.04
44 36 0.72
45 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (46 bp):
AAAAATAATTATAATATTTAATAAAAATTATGATAATTATATATTT
Found at i:68091380 original size:17 final size:18
Alignment explanation
Indices: 68091342--68091382 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
68091332 TTAGAATTAT
*
68091342 AATTATATATTTAAAAGT
1 AATTATATATTTAAAAGA
68091360 AATTATA-ATTTAATAA-A
1 AATTATATATTTAA-AAGA
68091377 AATTAT
1 AATTAT
68091383 GATAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AATTATATATTTAAAAGA
Found at i:68091407 original size:27 final size:26
Alignment explanation
Indices: 68091359--68091409 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
68091349 TATTTAAAAG
68091359 TAATTATAATTTAATAAAAATTATGA
1 TAATTATAATTTAATAAAAATTATGA
68091385 TAATTATATATTTAA-AAATAATTAT
1 TAATTATA-ATTTAATAAA-AATTAT
68091410 AATTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TAATTATAATTTAATAAAAATTATGA
Found at i:68091413 original size:44 final size:45
Alignment explanation
Indices: 68091340--68091430 Score: 148
Period size: 44 Copynumber: 2.0 Consensus size: 45
68091330 ATTTAGAATT
*
68091340 ATAATTATATATTTAAAAGTAATTATAATTTA-ATAAAAATTATG
1 ATAATTATATATTTAAAAATAATTATAATTTATATAAAAATTATG
* *
68091384 ATAATTATATATTTAAAAATAATTATAATTTATTTTAAAATTATG
1 ATAATTATATATTTAAAAATAATTATAATTTATATAAAAATTATG
68091429 AT
1 AT
68091431 TTAATAAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
44 31 0.72
45 12 0.28
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (45 bp):
ATAATTATATATTTAAAAATAATTATAATTTATATAAAAATTATG
Found at i:68095055 original size:5 final size:5
Alignment explanation
Indices: 68095045--68095070 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
68095035 AACACTATTT
68095045 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
68095071 ATACTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:68096813 original size:3 final size:3
Alignment explanation
Indices: 68096807--68096834 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
68096797 GAATATTCTT
68096807 CTC CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC C
68096835 ATCATCATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:68105333 original size:29 final size:29
Alignment explanation
Indices: 68105301--68105372 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
68105291 TCATATTCAG
*
68105301 ATGGCCCATTAGGCCCAAATCACCTGTAT
1 ATGGCCCATTAGGCCCAAATCACATGTAT
*
68105330 ATGGCCCATTAGGCCCAAATCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATGTAT
*
68105359 ATGGCCCGTTAGGC
1 ATGGCCCATTAGGC
68105373 TCAGTCACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATGTAT
Found at i:68109740 original size:57 final size:58
Alignment explanation
Indices: 68109670--68109780 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
68109660 AATTTCACAT
* * *
68109670 ACCTGTATTTGGCCTACTAAGCCC-AATCATATTCATATGACCCATTAGGCCCAAATC
1 ACCTGTATCTGGCCCACTAAGCCCAAATCACATTCATATGACCCATTAGGCCCAAATC
* * * *
68109727 ACCTGTATCTGGCCCATTAAGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATCTGGCCCACTAAGCCCAAATCACATTCATATGACCCATTAGGCCCA
68109781 TTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (58 bp):
ACCTGTATCTGGCCCACTAAGCCCAAATCACATTCATATGACCCATTAGGCCCAAATC
Found at i:68109793 original size:28 final size:29
Alignment explanation
Indices: 68109690--68109793 Score: 106
Period size: 29 Copynumber: 3.7 Consensus size: 29
68109680 GGCCTACTAA
* *
68109690 GCCC-AATCATATTCATATGACCCATTAG
1 GCCCAAATCACATTCATATGGCCCATTAG
* * *
68109718 GCCCAAATCACCTGT-ATCTGGCCCATTAA
1 GCCCAAATCACAT-TCATATGGCCCATTAG
* *
68109747 GCCCAAATCACATTTATATGGCCCGTTAG
1 GCCCAAATCACATTCATATGGCCCATTAG
*
68109776 GCCC-ATTCACATTCATAT
1 GCCCAAATCACATTCATAT
68109794 TCATGCTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 17 0.27
29 44 0.71
30 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (29 bp):
GCCCAAATCACATTCATATGGCCCATTAG
Found at i:68111597 original size:29 final size:29
Alignment explanation
Indices: 68111555--68111623 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
68111545 TGAATGTGAC
* * * *
68111555 TGGGACTAACGGGCCATATAAATGTGCTT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
68111584 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
68111613 TGGGCCTAATG
1 TGGGCCTAATG
68111624 AGCTATATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:68117396 original size:46 final size:45
Alignment explanation
Indices: 68117331--68117501 Score: 256
Period size: 46 Copynumber: 3.8 Consensus size: 45
68117321 TTATCTTTGA
* * * * *
68117331 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-CA-TTTCATAT
68117377 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-CATTTCATAT
68117423 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-CATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACCATTTCATAT
68117467 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
68117502 ACATATAATT
Statistics
Matches: 117, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
44 44 0.38
45 4 0.03
46 69 0.59
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (45 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACCATTTCATAT
Found at i:68117491 original size:90 final size:91
Alignment explanation
Indices: 68117331--68117505 Score: 273
Period size: 90 Copynumber: 1.9 Consensus size: 91
68117321 TTATCTTTGA
* * *
68117331 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTAC-CATTTTCTATCATGTTGCCATGGTATCTT
68117396 TCAACCATGGTCTTACACATTTCATAT
65 TCAACCATGGTCTTACACATTTCATAT
* *
68117423 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-CA-TTTCATATCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACCATTTTC-TATCATGTTGCCATGGTATCTT
68117486 TCAACCATGGTCTTACACAT
65 TCAACCATGGTCTTACACAT
68117506 ATAATTTCAG
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
89 4 0.05
90 43 0.56
92 30 0.39
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (91 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACCATTTTCTATCATGTTGCCATGGTATCTTT
CAACCATGGTCTTACACATTTCATAT
Found at i:68119687 original size:21 final size:20
Alignment explanation
Indices: 68119663--68119714 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
68119653 TTATGCCACA
68119663 TCAGTATTATTATCCTGAATT
1 TCAGTATT-TTATCCTGAATT
*
68119684 TCAGGATTTTATCCTGAATT
1 TCAGTATTTTATCCTGAATT
*
68119704 TTAGTATTTTA
1 TCAGTATTTTA
68119715 ATTTGGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.50
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:68134489 original size:18 final size:18
Alignment explanation
Indices: 68134466--68134637 Score: 103
Period size: 18 Copynumber: 9.6 Consensus size: 18
68134456 TTTATCAGTT
* *
68134466 TCATTCAGTAACATTCAA
1 TCATTCAGTAACAGTCAG
* * *
68134484 TCATTCAATAACAATTAG
1 TCATTCAGTAACAGTCAG
* * *
68134502 TCATTCAATAATATTCAG
1 TCATTCAGTAACAGTCAG
** **
68134520 TCACGCTTTAACAGTCAG
1 TCATTCAGTAACAGTCAG
* * *
68134538 TTATTCAGTAAC-GATAAA
1 TCATTCAGTAACAG-TCAG
* *
68134556 TTATTCAGTAACAGTCAA
1 TCATTCAGTAACAGTCAG
* *
68134574 TTATTCAGTAGCAGTCAG
1 TCATTCAGTAACAGTCAG
* *
68134592 TTATCCAGTAACAGTCAG
1 TCATTCAGTAACAGTCAG
* * * *
68134610 TTATTCAGTAGCAGACAA
1 TCATTCAGTAACAGTCAG
68134628 TCATTCAGTA
1 TCATTCAGTA
68134638 CATTTATTTA
Statistics
Matches: 122, Mismatches: 30, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
17 1 0.01
18 120 0.98
19 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (18 bp):
TCATTCAGTAACAGTCAG
Found at i:68134589 original size:54 final size:54
Alignment explanation
Indices: 68134531--68134637 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
68134521 CACGCTTTAA
* * *
68134531 CAGTCAGTTATTCAGTAAC-GATAAATTATTCAGTAACAGTCAATTATTCAGTAG
1 CAGTCAGTTATCCAGTAACAG-TAAATTATTCAGTAACAGACAATCATTCAGTAG
* * *
68134585 CAGTCAGTTATCCAGTAACAGTCAGTTATTCAGTAGCAGACAATCATTCAGTA
1 CAGTCAGTTATCCAGTAACAGTAAATTATTCAGTAACAGACAATCATTCAGTA
68134638 CATTTATTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 45 0.98
55 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (54 bp):
CAGTCAGTTATCCAGTAACAGTAAATTATTCAGTAACAGACAATCATTCAGTAG
Found at i:68134637 original size:36 final size:36
Alignment explanation
Indices: 68134528--68134637 Score: 141
Period size: 36 Copynumber: 3.1 Consensus size: 36
68134518 AGTCACGCTT
* *
68134528 TAACAGTCAGTTATTCAGTAAC-GATAAATTATTCAG
1 TAACAGTCAGTTATTCAGTAGCAGA-CAATTATTCAG
* * * *
68134564 TAACAGTCAATTATTCAGTAGCAGTCAGTTATCCAG
1 TAACAGTCAGTTATTCAGTAGCAGACAATTATTCAG
*
68134600 TAACAGTCAGTTATTCAGTAGCAGACAATCATTCAG
1 TAACAGTCAGTTATTCAGTAGCAGACAATTATTCAG
68134636 TA
1 TA
68134638 CATTTATTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
36 61 0.98
37 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (36 bp):
TAACAGTCAGTTATTCAGTAGCAGACAATTATTCAG
Found at i:68134869 original size:51 final size:54
Alignment explanation
Indices: 68134762--68134877 Score: 141
Period size: 51 Copynumber: 2.2 Consensus size: 54
68134752 TAACAGTAAT
** * *
68134762 AGTAACAGTAACAGTAGCGGTACACAGAGTACCTCATCGGAACAAATCTGGAAC
1 AGTAACAGTAACAGTAGAAGTACACAGAGTACCTCATCAGAACAAATCCGGAAC
*
68134816 AGTAACAGTAACAGTA-AAGTACA-A-AGTACCT-ATTCAGAACGAATCCGGAAC
1 AGTAACAGTAACAGTAGAAGTACACAGAGTACCTCA-TCAGAACAAATCCGGAAC
*
68134867 AGTAATAGTAA
1 AGTAACAGTAA
68134878 GGCGACACTT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
50 1 0.02
51 32 0.58
52 1 0.02
53 5 0.09
54 16 0.29
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (54 bp):
AGTAACAGTAACAGTAGAAGTACACAGAGTACCTCATCAGAACAAATCCGGAAC
Found at i:68135968 original size:13 final size:13
Alignment explanation
Indices: 68135950--68135983 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
68135940 TTGCCTATTC
68135950 TGTTTCTTTTCTT
1 TGTTTCTTTTCTT
*
68135963 TGTTTCATTTCTT
1 TGTTTCTTTTCTT
68135976 T-TTTCTTT
1 TGTTTCTTT
68135984 ATTTACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (13 bp):
TGTTTCTTTTCTT
Found at i:68136001 original size:3 final size:3
Alignment explanation
Indices: 68135993--68136024 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
68135983 TATTTACTAT
68135993 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
68136025 TCTATATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:68136456 original size:14 final size:14
Alignment explanation
Indices: 68136439--68136481 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
68136429 TCTTATAATA
68136439 TAATTATAATAAAT
1 TAATTATAATAAAT
68136453 TAATT-TAATATAAT
1 TAATTATAATA-AAT
*
68136467 TTATTACTAATAAAT
1 TAATTA-TAATAAAT
68136482 ATATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.20
14 12 0.48
15 3 0.12
16 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATTATAATAAAT
Found at i:68138273 original size:6 final size:6
Alignment explanation
Indices: 68138262--68138287 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
68138252 ATTGAGTCCA
68138262 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
68138288 GTTTTCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:68148539 original size:25 final size:25
Alignment explanation
Indices: 68148511--68148562 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
68148501 GGAAATAAAT
68148511 TGACAAAAAGGGAAATTTTGAGTTA
1 TGACAAAAAGGGAAATTTTGAGTTA
*
68148536 TGACAAAAGGGGAAATTTTGAGTTA
1 TGACAAAAAGGGAAATTTTGAGTTA
68148561 TG
1 TG
68148563 TCAACATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.27, T:0.29
Consensus pattern (25 bp):
TGACAAAAAGGGAAATTTTGAGTTA
Found at i:68149093 original size:34 final size:34
Alignment explanation
Indices: 68149052--68149120 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
68149042 TCTTTTTCCC
68149052 ATGCACCCAACGTATGAAGAGAAAAGAAAGAAAG
1 ATGCACCCAACGTATGAAGAGAAAAGAAAGAAAG
68149086 ATGCACCCAACGTATGAAGAGAAAAGAAAGAAAG
1 ATGCACCCAACGTATGAAGAGAAAAGAAAGAAAG
68149120 A
1 A
68149121 AACTTTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.54, C:0.14, G:0.23, T:0.09
Consensus pattern (34 bp):
ATGCACCCAACGTATGAAGAGAAAAGAAAGAAAG
Found at i:68150911 original size:45 final size:45
Alignment explanation
Indices: 68150847--68150956 Score: 166
Period size: 45 Copynumber: 2.4 Consensus size: 45
68150837 TGGATATAGG
*
68150847 AGCTGAAAGACGCTATGGCATCACGATTCAGACGAGTAAGACCAT
1 AGCTGAAAGATGCTATGGCATCACGATTCAGACGAGTAAGACCAT
* * *
68150892 AGCTGAAAGATGCTATGGCATCGCGATTCAGATGTGTAAGACCAT
1 AGCTGAAAGATGCTATGGCATCACGATTCAGACGAGTAAGACCAT
* *
68150937 AGTTGAAAGATACTATGGCA
1 AGCTGAAAGATGCTATGGCA
68150957 ATATGACGAG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (45 bp):
AGCTGAAAGATGCTATGGCATCACGATTCAGACGAGTAAGACCAT
Found at i:68150990 original size:46 final size:46
Alignment explanation
Indices: 68150928--68151031 Score: 156
Period size: 46 Copynumber: 2.3 Consensus size: 46
68150918 TTCAGATGTG
* * *
68150928 TAAGACCATAGTTGAAAGATACTATGGCAATATGAC-GAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-GAAATGAA
*
68150974 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
68151020 TAAGACCATGGT
1 TAAGACCATGGT
68151032 ATCTTGACAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
46 52 0.98
47 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
Found at i:68151030 original size:30 final size:30
Alignment explanation
Indices: 68150994--68151055 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
68150984 GTTGAAAGAT
* *
68150994 ACCATGGCAACATGACAGGAAATGAGTAAG
1 ACCATGGCAACATGACAAGAAATGAATAAG
* * *
68151024 ACCATGGTATCTTGACAAGAAATGAATAAG
1 ACCATGGCAACATGACAAGAAATGAATAAG
68151054 AC
1 AC
68151056 TGTGGTTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.18
Consensus pattern (30 bp):
ACCATGGCAACATGACAAGAAATGAATAAG
Found at i:68151093 original size:46 final size:45
Alignment explanation
Indices: 68151043--68151272 Score: 117
Period size: 46 Copynumber: 5.3 Consensus size: 45
68151033 TCTTGACAAG
** * *
68151043 AAATGAATAAGACTGTGGTTGAAAGATACCATGGCAACATGACAGA
1 AAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGAC-GA
** * * *
68151089 AAATGGGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCGA
1 AAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGA
* * * * * *
68151134 AGATAAATAAGACCGTAG-TG--TG-CTCTC-T-G----AT-ATG-
1 AAATGAATAAGACCATAGTTGAAAGACAC-CATGGCAACATGACGA
** * *
68151168 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA
1 AAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGAC-GA
* * * *
68151214 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTC-A
1 AAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGA
*
68151258 AAGATAAATAAGACC
1 AA-ATGAATAAGACC
68151273 GTGGATGGGA
Statistics
Matches: 132, Mismatches: 37, Indels: 31
0.66 0.19 0.16
Matches are distributed among these distances:
34 12 0.09
35 3 0.02
36 2 0.02
37 2 0.02
38 2 0.02
39 1 0.01
40 1 0.01
41 3 0.02
42 1 0.01
43 2 0.02
44 6 0.05
45 26 0.20
46 71 0.54
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGA
Found at i:68151093 original size:76 final size:76
Alignment explanation
Indices: 68150960--68151104 Score: 245
Period size: 76 Copynumber: 1.9 Consensus size: 76
68150950 TATGGCAATA
* *
68150960 TGACGAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
1 TGACAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
68151025 CCATGGTATCT
66 CCATGGTATCT
** *
68151036 TGACAAGAAATGAATAAGACTGTGGTTGAAAGATACCATGGCAACATGACAGAAAATGGGTAAGA
1 TGACAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
68151101 CCAT
66 CCAT
68151105 AGTTGAAAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (76 bp):
TGACAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
CCATGGTATCT
Found at i:68151204 original size:125 final size:121
Alignment explanation
Indices: 68150923--68151276 Score: 442
Period size: 125 Copynumber: 2.9 Consensus size: 121
68150913 CGCGATTCAG
* * * * *
68150923 ATGTGTAAGACCATAGTTGAAAGATACTATGGCAATATGAC-GAGAAATGAATAAGACCATGGTT
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA-AAATGAGTAAGACCATAGTT
* * * * * * *
68150987 GAAAGATACCATGGCAACATGACAGGAA-ATGAGTAAGACCATGGTATCTTGACAAGAA
65 GAAAGACACTATGGCATCATGTC--GAAGATAAATAAGACCGTGGTATCTTGACAAGAA
** ** *
68151045 ATGAATAAGACTGTGGTTGAAAGATACCATGGCAACATGACAGAAAATGGGTAAGACCATAGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTG
* * *
68151110 AAAGACACTATGGCATCATGTCGAAGATAAATAAGACCGTAGTGTGCTCTCTGATATGAA
66 AAAGACACTATGGCATCATGTCGAAGATAAATAAGACCGT-G-GT-ATCT-TGACAAGAA
68151170 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTG
*
68151235 AAAGACACTATGGCATCATGTCAAAGATAAATAAGACCGTGG
66 AAAGACACTATGGCATCATGTCGAAGATAAATAAGACCGTGG
68151277 ATGGGAGACG
Statistics
Matches: 200, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
120 3 0.01
121 11 0.05
122 71 0.35
123 5 0.03
124 4 0.02
125 106 0.53
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (121 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTG
AAAGACACTATGGCATCATGTCGAAGATAAATAAGACCGTGGTATCTTGACAAGAA
Found at i:68157888 original size:21 final size:21
Alignment explanation
Indices: 68157864--68158095 Score: 128
Period size: 21 Copynumber: 11.0 Consensus size: 21
68157854 AAGGCTGAAT
* *
68157864 AGAAGCTTATGAGAGCTAAAC
1 AGAAGCTCATAAGAGCTAAAC
* * * *
68157885 AGAAAC-CTATAAGGGTTGAAC
1 AGAAGCTC-ATAAGAGCTAAAC
*
68157906 AGGAGCTCATAAGAGCTAAAC
1 AGAAGCTCATAAGAGCTAAAC
* * *
68157927 GGAAGCTCATATGAGTTGAAAC
1 AGAAGCTCATAAGAGCT-AAAC
* **
68157949 AGAAGCTCATAAGAGTTGGAC
1 AGAAGCTCATAAGAGCTAAAC
* * *
68157970 -GAAAACTCATAAGAGTTGAAC
1 AG-AAGCTCATAAGAGCTAAAC
* * *
68157991 AAAAGCTCAGAAGAGCTGAAC
1 AGAAGCTCATAAGAGCTAAAC
* * * *
68158012 AAAAACTCATAAGAGTTGAAC
1 AGAAGCTCATAAGAGCTAAAC
*
68158033 AGAAGCTCA-ATACAGCTAAAC
1 AGAAGCTCATA-AGAGCTAAAC
* * * * *
68158054 GGAAACTCATATGAGTTAAAT
1 AGAAGCTCATAAGAGCTAAAC
* *
68158075 AGAAGCTCGTGAGAGCTAAAC
1 AGAAGCTCATAAGAGCTAAAC
68158096 GGAAAGTAAA
Statistics
Matches: 158, Mismatches: 46, Indels: 14
0.72 0.21 0.06
Matches are distributed among these distances:
20 2 0.01
21 135 0.85
22 21 0.13
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTAAAC
Found at i:68158097 original size:42 final size:42
Alignment explanation
Indices: 68157859--68158100 Score: 236
Period size: 42 Copynumber: 5.7 Consensus size: 42
68157849 GCCCTAAGGC
* * * * *
68157859 TGAATAGAAGCTTATGAGAGCTAAACAGAAAC-CTATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACTC-ATAAGAGT
* * *
68157901 TGAACAGGAGCTCATAAGAGCTAAACGGAAGCTCATATGAGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACTCATAAGAGT
* ** *
68157943 TGAAACAGAAGCTCATAAGAGTTGGACGAAAACTCATAAGAGT
1 TG-AACAGAAGCTCATAAGAGCTAAACGGAAACTCATAAGAGT
* * * **
68157986 TGAACAAAAGCTCAGAAGAGCTGAACAAAAACTCATAAGAGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACTCATAAGAGT
* *
68158028 TGAACAGAAGCTCA-ATACAGCTAAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATA-AGAGCTAAACGGAAACTCATAAGAGT
* * * *
68158070 TAAATAGAAGCTCGTGAGAGCTAAACGGAAA
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAA
68158101 GTAAACACGA
Statistics
Matches: 165, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 128 0.78
43 36 0.22
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (42 bp):
TGAACAGAAGCTCATAAGAGCTAAACGGAAACTCATAAGAGT
Found at i:68159303 original size:40 final size:40
Alignment explanation
Indices: 68159248--68159328 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
68159238 CATTGAGGTT
*
68159248 AGTTTAATGTATATAAGTGTTCTAATAAATAGTAGCTTTG
1 AGTTTAATGTATATAAGTGTCCTAATAAATAGTAGCTTTG
68159288 AGTTTAATGTATATAAGTGTCCTAATAAATAGTAGCTTTG
1 AGTTTAATGTATATAAGTGTCCTAATAAATAGTAGCTTTG
68159328 A
1 A
68159329 ACGTTGGATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.41
Consensus pattern (40 bp):
AGTTTAATGTATATAAGTGTCCTAATAAATAGTAGCTTTG
Found at i:68160570 original size:19 final size:19
Alignment explanation
Indices: 68160535--68160599 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
68160525 ATTAAATCTA
* *
68160535 AAAT-AAATAATAGAAATT
1 AAATAAAATAAAACAAATT
68160553 AAATAAAAGTAAAA-AAATT
1 AAATAAAA-TAAAACAAATT
68160572 AAATATAAATAAAACAAA-T
1 AAATA-AAATAAAACAAATT
68160591 AAATGAAAA
1 AAAT-AAAA
68160600 CTCTAGCCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 4 0.10
19 26 0.63
20 11 0.27
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.22
Consensus pattern (19 bp):
AAATAAAATAAAACAAATT
Found at i:68161717 original size:16 final size:16
Alignment explanation
Indices: 68161698--68161735 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
68161688 AAAGCTTAAA
68161698 AATATAAAATAATTTT
1 AATATAAAATAATTTT
*
68161714 AATA-GAAATAATTTT
1 AATATAAAATAATTTT
*
68161729 AAAATAA
1 AATATAA
68161736 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 2
0.78 0.13 0.09
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
AATATAAAATAATTTT
Found at i:68161735 original size:11 final size:11
Alignment explanation
Indices: 68161719--68161744 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
68161709 ATTTTAATAG
68161719 AAATAATTTTA
1 AAATAATTTTA
68161730 AAATAATTTTA
1 AAATAATTTTA
68161741 AAAT
1 AAAT
68161745 TTTCTTCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATAATTTTA
Found at i:68170345 original size:7 final size:7
Alignment explanation
Indices: 68170333--68170381 Score: 98
Period size: 7 Copynumber: 7.0 Consensus size: 7
68170323 TATACTTCAA
68170333 ACACATT
1 ACACATT
68170340 ACACATT
1 ACACATT
68170347 ACACATT
1 ACACATT
68170354 ACACATT
1 ACACATT
68170361 ACACATT
1 ACACATT
68170368 ACACATT
1 ACACATT
68170375 ACACATT
1 ACACATT
68170382 CATTTTGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (7 bp):
ACACATT
Found at i:68176753 original size:37 final size:39
Alignment explanation
Indices: 68176697--68176771 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 39
68176687 TTCTTGTCAC
*
68176697 TATGTATTTTGTAATTAAAAAATATGTTAAATGTAAAAA
1 TATGTATTTTGTAATTAAAAAATATGTTAAATATAAAAA
* ** *
68176736 TATG-ATTTTTTAA-TAAAAGCTATTTTAAATATAAAA
1 TATGTATTTTGTAATTAAAAAATATGTTAAATATAAAA
68176772 TGTGAAATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 19 0.61
38 8 0.26
39 4 0.13
ACGTcount: A:0.48, C:0.01, G:0.08, T:0.43
Consensus pattern (39 bp):
TATGTATTTTGTAATTAAAAAATATGTTAAATATAAAAA
Found at i:68177186 original size:30 final size:30
Alignment explanation
Indices: 68177146--68177228 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 30
68177136 TGTGATTGGA
*
68177146 AGGGATTAAAAGTTTTAGGGGAAAAATAGG
1 AGGGAGTAAAAGTTTTAGGGGAAAAATAGG
* *
68177176 AGGGAGTAAAAGTTTTAGGGTG-AAAGTGGG
1 AGGGAGTAAAAGTTTTAGGG-GAAAAATAGG
*
68177206 AGAGAGTAAAA-TTTT--GGGAAAAA
1 AGGGAGTAAAAGTTTTAGGGGAAAAA
68177229 GTAAATGGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 1 0.02
27 5 0.11
29 4 0.09
30 35 0.76
31 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (30 bp):
AGGGAGTAAAAGTTTTAGGGGAAAAATAGG
Found at i:68189295 original size:3 final size:3
Alignment explanation
Indices: 68189271--68189345 Score: 84
Period size: 3 Copynumber: 25.7 Consensus size: 3
68189261 TGTCTAACAC
* *
68189271 TAT TAT TTT TAT T-T T-T TA- TAT TAT TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
68189316 TAT AAT TAT AAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
68189346 GTGTATATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 6 0.10
3 52 0.85
4 3 0.05
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:68189602 original size:138 final size:138
Alignment explanation
Indices: 68189308--68189844 Score: 637
Period size: 138 Copynumber: 3.8 Consensus size: 138
68189298 TACTATTATT
* *
68189308 ATTATTATTA-TAATTATAATTATTATTATTATATATTAGTGTATATTTTTTATTATATACGTAT
1 ATTATTATTACT-AGTATTATTATTATTATTA-ATATTAGTGTATA-TTTTTATTATATACGTAT
* *
68189372 ATGTATTTATATTTACACATAGTATTATTTTTTAAATTACTTTATTTTAATATTTTTATTATA-T
63 A--TA--TATATTTACATATAGTATTA-TTTTT-AATTACTTTATTTTAATATTATTATTATATT
68189436 TACATTTGCTTTTTGTATTTC
122 TAC--TT--TTTTTGTATTTC
* * * *
68189457 AATATTATTACTATTATTATTATTATGATTAATATTAGTGTATATTCTTATTATATACGTATATA
1 ATTATTATTACTAGTATTATTATTATTATTAATATTAGTGTATATTTTTATTATATACGTATATA
* * * * *
68189522 TATATTAATATATAATACTATTTTTAATTACTTTATTTTAACATTATTATTATATTTACTTTTTT
66 TATATTTACATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTTACTTTTTT
68189587 TGTATTTC
131 TGTATTTC
* * *
68189595 ATTATTATTGCTAGTATTATTATTATTATTAATATTAGTGTATGTTTTTATTATATAGGTATATA
1 ATTATTATTACTAGTATTATTATTATTATTAATATTAGTGTATATTTTTATTATATACGTATATA
* *
68189660 TATATTTTTACATATAGTATTATTTTTAATTAATTTATTTTAATATTATTATTAT-TTTATGTTT
66 TATA--TTTACATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTTA---CT
68189724 TTTTTTGTATTTC
126 TTTTTTGTATTTC
* *
68189737 ATTATTATTTCTAG---TATTATTATTATTAATATTA--GTATATGTTTTATTATATA--TGTAT
1 ATTATTATTACTAGTATTATTATTATTATTAATATTAGTGTATAT-TTTTATTATATACGTATAT
*
68189795 ATATATTTATATATAGTATT-TTTTTAATTACTTTATTTTAATATTATTAT
65 ATATATTTACATATAGTATTATTTTTAATTACTTTATTTTAATATTATTAT
68189845 ATTATATGCC
Statistics
Matches: 350, Mismatches: 30, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
133 29 0.08
134 14 0.04
136 9 0.03
137 5 0.01
138 86 0.25
139 24 0.07
140 45 0.13
141 27 0.08
142 36 0.10
143 15 0.04
145 2 0.01
147 18 0.05
148 13 0.04
149 26 0.07
150 1 0.00
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (138 bp):
ATTATTATTACTAGTATTATTATTATTATTAATATTAGTGTATATTTTTATTATATACGTATATA
TATATTTACATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTTACTTTTTT
TGTATTTC
Done.