Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 95 of 204
Found at i:29693501 original size:26 final size:26
Alignment explanation
Indices: 29693464--29693534 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
29693454 CCAGATATAT
* *
29693464 GGCTCTTCGTGAGTTTCCCGAATAAA
1 GGCTCTTTGTGAGCTTCCCGAATAAA
* *
29693490 GGCTCTTTGTGAGCTT-CCTAATTAA
1 GGCTCTTTGTGAGCTTCCCGAATAAA
29693515 GGCTCTTT-TGAGCTTCCCGA
1 GGCTCTTTGTGAGCTTCCCGA
29693535 TATGGTTCGC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 7 0.18
25 18 0.46
26 14 0.36
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCGAATAAA
Found at i:29697591 original size:23 final size:23
Alignment explanation
Indices: 29697565--29697634 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
29697555 TTCATTTAAC
29697565 TTAATCGAACATGTTCACAAACA
1 TTAATCGAACATGTTCACAAACA
* * **
29697588 TTAAACGAATATGTTCATGAACA
1 TTAATCGAACATGTTCACAAACA
** *
29697611 TGTAATTAAACATGCTCACAAACA
1 T-TAATCGAACATGTTCACAAACA
29697635 ATGTTAATAA
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
23 20 0.57
24 15 0.43
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (23 bp):
TTAATCGAACATGTTCACAAACA
Found at i:29703241 original size:3 final size:3
Alignment explanation
Indices: 29703233--29703259 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
29703223 AACACACAAC
29703233 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
29703260 ACACGCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:29705133 original size:3 final size:3
Alignment explanation
Indices: 29705108--29705207 Score: 103
Period size: 3 Copynumber: 32.7 Consensus size: 3
29705098 AAAACATCAC
* * * *
29705108 AAT AAT AAC CAT AAT ATT GAT AAT AAT AAT ATAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * *
29705154 AAT AGT AA- AGAT AAT AAT AAT AAT AAT AAT AAA AGAT GAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
29705200 AAT AAT AA
1 AAT AAT AA
29705208 AATTGCTAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
2 1 0.01
3 73 0.92
4 5 0.06
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:29706798 original size:98 final size:98
Alignment explanation
Indices: 29706624--29706803 Score: 272
Period size: 98 Copynumber: 1.8 Consensus size: 98
29706614 GAGATAAGAC
29706624 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGCGATTTTAATCCACTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGCGATTTTAATCCACTCCACTG
*
29706689 CAACTTTAGGGAGATAGAATTATCGGCTTCAAT
66 CAACTTCAGGGAGATAGAATTATCGGCTTCAAT
* * * * **
29706722 CTGATGTGATCTACTCTACTGTAATTTCAGAGAGTTGAGATCCT-TTATTTTAATCCACTCCACT
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTGCGATTTTAATCCACTCCACT
*
29706786 GTAACTTCAGGGAGATAG
65 GCAACTTCAGGGAGATAG
29706804 GATAGTGTCT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 71 0.97
99 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (98 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGCGATTTTAATCCACTCCACTG
CAACTTCAGGGAGATAGAATTATCGGCTTCAAT
Found at i:29706875 original size:44 final size:42
Alignment explanation
Indices: 29706817--29707024 Score: 127
Period size: 44 Copynumber: 4.8 Consensus size: 42
29706807 AGTGTCTTGG
*
29706817 ATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAA-CTCAAGGAGATAAGATCTCT-GCTTCA
* * * *
29706861 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA-C-CTGATGCG
1 ATCTGCTCCACTGTAA-CTCAAGGAGATAAGATCTCTGCTTCA
* * * * ** *
29706902 ATCTACTCTACTGTAACTTC-AGAGAGATGAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAAC-TCAAG-GAGATAAGAT-CTCTGCTTCA
* * * *
29706946 ATCCGCTCCACTGTAACTTCAGGGAGATATGAT-TACTATCTTCA
1 ATCTGCTCCACTGTAAC-TCAAGGAGATAAGATCT-CT-GCTTCA
* * *
29706990 ATCTGTTCCGCTGTAATCTCATGGAGATAAGATCT
1 ATCTGCTCCACTGTAA-CTCAAGGAGATAAGATCT
29707025 GAAATTCTTC
Statistics
Matches: 123, Mismatches: 31, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
40 2 0.02
41 27 0.22
42 3 0.02
43 3 0.02
44 85 0.69
45 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (42 bp):
ATCTGCTCCACTGTAACTCAAGGAGATAAGATCTCTGCTTCA
Found at i:29708278 original size:13 final size:13
Alignment explanation
Indices: 29708262--29708287 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29708252 TTAGCCTTTC
29708262 CATTTTTCATTTT
1 CATTTTTCATTTT
29708275 CATTTTTCATTTT
1 CATTTTTCATTTT
29708288 TTTTACTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:29711156 original size:21 final size:20
Alignment explanation
Indices: 29711132--29711174 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
29711122 TGAATCTGCA
29711132 TTCGCTCTAATTTTTCCAACC
1 TTCGCTC-AATTTTTCCAACC
* * *
29711153 TTCGTTCCATTTTTCTAACC
1 TTCGCTCAATTTTTCCAACC
29711173 TT
1 TT
29711175 TGTTTGGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.16, C:0.30, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCGCTCAATTTTTCCAACC
Found at i:29713592 original size:3 final size:3
Alignment explanation
Indices: 29713567--29713662 Score: 104
Period size: 3 Copynumber: 31.7 Consensus size: 3
29713557 AAAACATCAC
* * * * *
29713567 AAT AAT AAC CAT AAT ATT GAT AAT AAT AAT AAT AAT AAT AAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
29713614 AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AGAT GAT AAT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
29713661 AA
1 AA
29713663 AATTGCTAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
2 1 0.01
3 73 0.96
4 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:29715667 original size:28 final size:28
Alignment explanation
Indices: 29715606--29715668 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
29715596 AAAAAAATCA
* *
29715606 GAAT-TATTTTTTAAAATTTTAAGAGAT
1 GAATATATATTTTAAAATTTTAAGAAAT
*
29715633 -ATTATATATTTTAAAATTTTAA-AAATT
1 GAATATATATTTTAAAATTTTAAGAAA-T
29715660 GAATATATA
1 GAATATATA
29715669 AAAAAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 4 0.14
27 18 0.62
28 7 0.24
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (28 bp):
GAATATATATTTTAAAATTTTAAGAAAT
Found at i:29715678 original size:23 final size:20
Alignment explanation
Indices: 29715652--29715692 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
29715642 TTTAAAATTT
29715652 TAAAAATTGAATATATAAAAAAA
1 TAAAAA-TGAA-ATA-AAAAAAA
29715675 TAAAAATGAAATAAAAAA
1 TAAAAATGAAATAAAAAA
29715693 TTAAGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 4 0.22
23 6 0.33
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (20 bp):
TAAAAATGAAATAAAAAAAA
Found at i:29715748 original size:15 final size:14
Alignment explanation
Indices: 29715700--29715747 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
29715690 AAATTAAGTT
29715700 AAAAGTTAACATTT-
1 AAAAGTTAAC-TTTA
*
29715714 AAAAGCTTACTCTTTA
1 AAAAG-TTA-ACTTTA
29715730 AAAAGTTAACTTTA
1 AAAAGTTAACTTTA
29715744 AAAA
1 AAAA
29715748 ATATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 14 0.48
15 9 0.31
16 6 0.21
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (14 bp):
AAAAGTTAACTTTA
Found at i:29715789 original size:23 final size:24
Alignment explanation
Indices: 29715758--29715807 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
29715748 ATATTTTTTT
*
29715758 AAATCT-AAAAGTACACAACAAATA
1 AAATCTAAAAAATACACAA-AAATA
*
29715782 AAAT-TAAAAAATATACAAAAATA
1 AAATCTAAAAAATACACAAAAATA
29715805 AAA
1 AAA
29715808 AAATTCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.70, C:0.10, G:0.02, T:0.18
Consensus pattern (24 bp):
AAATCTAAAAAATACACAAAAATA
Found at i:29721359 original size:17 final size:18
Alignment explanation
Indices: 29721337--29721376 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
29721327 CGATTAATTC
29721337 ATTAATTTAGA-AATTTA
1 ATTAATTTAGATAATTTA
* *
29721354 ATTAATTTATATGATTTA
1 ATTAATTTAGATAATTTA
29721372 ATTAA
1 ATTAA
29721377 ATAAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
ATTAATTTAGATAATTTA
Found at i:29726208 original size:20 final size:20
Alignment explanation
Indices: 29726183--29726221 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
29726173 TATAATATTT
29726183 GTAATAATTT-GTGTAATTAG
1 GTAAT-ATTTGGTGTAATTAG
29726203 GTAATATTTGGTGTAATTA
1 GTAATATTTGGTGTAATTA
29726222 AAGCCGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
GTAATATTTGGTGTAATTAG
Found at i:29726219 original size:29 final size:25
Alignment explanation
Indices: 29726155--29726220 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 25
29726145 CAGACAAAGT
*
29726155 TTTGTGTAATTTGTGTTATATAATA
1 TTTGTGTAATTTGTGTAATATAATA
*
29726180 TTTGTAATAATTTGTGTAATTAGGTAATA
1 TTTGT-GTAATTTGTGTAA-TA--TAATA
29726209 TTTGGTGTAATT
1 TTT-GTGTAATT
29726221 AAAGCCGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 5 0.15
26 11 0.33
27 2 0.06
29 13 0.39
30 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (25 bp):
TTTGTGTAATTTGTGTAATATAATA
Found at i:29734196 original size:63 final size:63
Alignment explanation
Indices: 29734124--29734370 Score: 266
Period size: 63 Copynumber: 3.9 Consensus size: 63
29734114 TACCTATTGA
** * * * * *
29734124 GAAGGTGTTGATGCATGGAATGATTGTGGGTGTTATGATGCTTATGTAAAATAAACTGGTGCT
1 GAAGGTGTTGATGCATGGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAACTGGAGTT
* * * * * * *
29734187 AAATGTGTTGATGCAAGGAATAATTGTGCATGTTGTGGTGTTTTTGTAAAATAAACTAGAGTT
1 GAAGGTGTTGATGCATGGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAACTGGAGTT
* ** * * *
29734250 GAAGGTGTTGATACGGGGAATGTTATGTG--TGCTGTGGTGTTTGTGTAAAATAAACTGGAGTT
1 GAAGGTGTTGATGCATGGAATGAT-TGTGCATGTTGTGGTGCTTGTGTAAAATAAACTGGAGTT
*
29734312 GAAGGTGTTGATGC-TAGGAATGATTGTGCATGTTGTGGTACTTGTGTAAAATAAACTGG
1 GAAGGTGTTGATGCAT-GGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAACTGG
29734371 GTTAGCACAA
Statistics
Matches: 151, Mismatches: 29, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
61 4 0.03
62 50 0.33
63 93 0.62
64 4 0.03
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.36
Consensus pattern (63 bp):
GAAGGTGTTGATGCATGGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAACTGGAGTT
Found at i:29738127 original size:21 final size:21
Alignment explanation
Indices: 29738103--29738142 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
29738093 CTTAATCAAT
29738103 TTTTTTCTT-CATATTTTTTCC
1 TTTTTTCTTCCAT-TTTTTTCC
*
29738124 TTTTTTTTTCCATTTTTTT
1 TTTTTTCTTCCATTTTTTT
29738143 AAGAACAAAA
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:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTCTTCCATTTTTTTCC
Found at i:29738127 original size:22 final size:21
Alignment explanation
Indices: 29738102--29738142 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
29738092 GCTTAATCAA
29738102 TTTTTTTCTT-CATATTTTTTCC
1 TTTTTTT-TTCCAT-TTTTTTCC
29738124 TTTTTTTTTCCATTTTTTT
1 TTTTTTTTTCCATTTTTTT
29738143 AAGAACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTTTCCATTTTTTTCC
Found at i:29739121 original size:6 final size:6
Alignment explanation
Indices: 29739112--29739170 Score: 118
Period size: 6 Copynumber: 9.8 Consensus size: 6
29739102 AGTACAACTG
29739112 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
29739160 AAAATC AAAAT
1 AAAATC AAAAT
29739171 AAATAAAACA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:29741231 original size:141 final size:141
Alignment explanation
Indices: 29740977--29741254 Score: 511
Period size: 141 Copynumber: 2.0 Consensus size: 141
29740967 CGGGCTAGCG
*
29740977 AAGAGAAGAGGAAGCCATGGGTGTGTATGTGGACTATGTTGGGCCATACGACTGTGTGAGTTGAC
1 AAGAGAAGAGGAAGCCATGGGTGTGTATGTGGACTATGTTGGGCCATACGACCGTGTGAGTTGAC
* * *
29741042 TATGTTACTCATTGTGCTCGTGTGGCCTATTTTAAAGTATTTCTCCACTGTTCACATGGCTTGTC
66 TATGTTACTCATTGTACTCGTGTGGCCTATCTTAAAGTATTGCTCCACTGTTCACATGGCTTGTC
29741107 ACATGCCAGAA
131 ACATGCCAGAA
*
29741118 AAGAGAGGAGGAAGCCATGGGTGTGTATGTGGACTATGTTGGGCCATACGACCGTGTGAGTTGAC
1 AAGAGAAGAGGAAGCCATGGGTGTGTATGTGGACTATGTTGGGCCATACGACCGTGTGAGTTGAC
29741183 TATGTTACTCATTGTACTCGTGTGGCCTATCTTAAAGTATTGCTCCACTGTTCACATGGCTTGTC
66 TATGTTACTCATTGTACTCGTGTGGCCTATCTTAAAGTATTGCTCCACTGTTCACATGGCTTGTC
29741248 ACATGCC
131 ACATGCC
29741255 CATGTGTCTA
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 132 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (141 bp):
AAGAGAAGAGGAAGCCATGGGTGTGTATGTGGACTATGTTGGGCCATACGACCGTGTGAGTTGAC
TATGTTACTCATTGTACTCGTGTGGCCTATCTTAAAGTATTGCTCCACTGTTCACATGGCTTGTC
ACATGCCAGAA
Found at i:29745246 original size:50 final size:52
Alignment explanation
Indices: 29745133--29745247 Score: 155
Period size: 50 Copynumber: 2.2 Consensus size: 52
29745123 ATGAGCAAAT
* * *
29745133 GAGTTACTTAATGCATTACTTAATTTAATGATGCAAACTTTAACTAATATGA
1 GAGTTACATAATGCATTACATAATTTAATGATGCAAACTTTAACTAACATGA
* *
29745185 GAGTTAGATAATGCATGT-CATAATTT-ATGATGCCAAC-TTAACTAACATGA
1 GAGTTACATAATGCAT-TACATAATTTAATGATGCAAACTTTAACTAACATGA
29745235 GAGTTACATAATG
1 GAGTTACATAATG
29745248 ATTCACTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
50 24 0.43
51 10 0.18
52 21 0.38
53 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (52 bp):
GAGTTACATAATGCATTACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:29746008 original size:21 final size:22
Alignment explanation
Indices: 29745969--29746009 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
29745959 AATATTTATT
* *
29745969 TTATTTTGTTTCTTTTTCTTCA
1 TTATTTTGTTTCATGTTCTTCA
29745991 TTATTTT-TTTCATGTTCTT
1 TTATTTTGTTTCATGTTCTT
29746010 TCCTTTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.73
Consensus pattern (22 bp):
TTATTTTGTTTCATGTTCTTCA
Found at i:29748343 original size:13 final size:13
Alignment explanation
Indices: 29748327--29748351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29748317 ATTAAAAACA
29748327 AAAAAATAAAAAT
1 AAAAAATAAAAAT
29748340 AAAAAATAAAAA
1 AAAAAATAAAAA
29748352 ATGGCTAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:29751327 original size:23 final size:22
Alignment explanation
Indices: 29751280--29751327 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
29751270 GATTTTTAAA
* *
29751280 ATTTAAATTATTTAGTGGTAGT
1 ATTTAAATTATTTAGTGATAAT
*
29751302 ATTTAAGATTTTTTAGTGATAAT
1 ATTTAA-ATTATTTAGTGATAAT
29751325 ATT
1 ATT
29751328 AAGGAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (22 bp):
ATTTAAATTATTTAGTGATAAT
Found at i:29752383 original size:28 final size:29
Alignment explanation
Indices: 29752336--29752391 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
29752326 TCGTAAAACC
29752336 AGCCTAATATTATA-TATTTTTTTAAAAT
1 AGCCTAATATTATATTATTTTTTTAAAAT
29752364 AGCCTAAT-TTGATAATT-TTTTTTTAAAA
1 AGCCTAATATT-AT-ATTATTTTTTTAAAA
29752392 ATGACAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 2 0.08
28 10 0.40
29 12 0.48
30 1 0.04
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (29 bp):
AGCCTAATATTATATTATTTTTTTAAAAT
Found at i:29757897 original size:18 final size:17
Alignment explanation
Indices: 29757867--29757905 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
29757857 TGAATCAATT
29757867 TAGAAAAATTTTGGAAAA
1 TAGAAAAATTTT-GAAAA
29757885 GTAGAAAAA-TTTGAAAA
1 -TAGAAAAATTTTGAAAA
29757902 TAGA
1 TAGA
29757906 GGACACAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 5 0.25
18 3 0.15
19 8 0.40
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (17 bp):
TAGAAAAATTTTGAAAA
Found at i:29759100 original size:37 final size:38
Alignment explanation
Indices: 29759041--29759113 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
29759031 AGTTAAGTTC
** * *
29759041 CATTCAGTATAATTTTATGATTTG-CTCGATTGAGCTT
1 CATTCAGTATAATAGTAAGATTTGACTCGATAGAGCTT
29759078 CATTCAGTATAATAGTAAGATTTGACTCGATAGAGC
1 CATTCAGTATAATAGTAAGATTTGACTCGATAGAGC
29759114 GTACTTCCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 21 0.68
38 10 0.32
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (38 bp):
CATTCAGTATAATAGTAAGATTTGACTCGATAGAGCTT
Found at i:29760959 original size:15 final size:15
Alignment explanation
Indices: 29760939--29760967 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29760929 TCATCGGACT
29760939 TACGCATCTAATACA
1 TACGCATCTAATACA
29760954 TACGCATCTAATAC
1 TACGCATCTAATAC
29760968 TTTACGGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.28
Consensus pattern (15 bp):
TACGCATCTAATACA
Found at i:29762240 original size:46 final size:46
Alignment explanation
Indices: 29762187--29762276 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
29762177 ACTCTATTTT
29762187 GATTCTTTTGAAAGTAATAGGAGTAATTTGAATACTTTAAAATAAA
1 GATTCTTTTGAAAGTAATAGGAGTAATTTGAATACTTTAAAATAAA
* *
29762233 GATTCTTTTGCAAGTTATAGGAGTAATTTGAATACTTTAAAATA
1 GATTCTTTTGAAAGTAATAGGAGTAATTTGAATACTTTAAAATA
29762277 TTTTAGTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.39
Consensus pattern (46 bp):
GATTCTTTTGAAAGTAATAGGAGTAATTTGAATACTTTAAAATAAA
Found at i:29762827 original size:44 final size:44
Alignment explanation
Indices: 29762764--29762852 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
29762754 TTGAGGGGAG
29762764 TGTGTTGATGCTACAACTAAGGGGGAGTGTGCTAATGGTATTAT
1 TGTGTTGATGCTACAACTAAGGGGGAGTGTGCTAATGGTATTAT
29762808 TGTGTTGATGCTACAACTAAGGGGGAGTGTGCTAATGGTATTAT
1 TGTGTTGATGCTACAACTAAGGGGGAGTGTGCTAATGGTATTAT
29762852 T
1 T
29762853 AAGGGGGAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.35
Consensus pattern (44 bp):
TGTGTTGATGCTACAACTAAGGGGGAGTGTGCTAATGGTATTAT
Found at i:29776211 original size:98 final size:98
Alignment explanation
Indices: 29776093--29776289 Score: 333
Period size: 98 Copynumber: 2.0 Consensus size: 98
29776083 GTGTAATAAA
*
29776093 ACTTTAAAAGAACATCCACTTACCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTACCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
29776158 CC-TCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTC-AAAACCCCAAACTCGGAATATTTCCTTT
* *
29776191 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCATAATT
1 ACTTTAAAAGAACATCCACTTACCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
29776256 CCTTCAAAACCCCAAACTCGGAATGTTTCCTTT
66 CCTTCAAAACCCCAAACTCGGAATATTTCCTTT
29776289 A
1 A
29776290 TTATTTTTTT
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 91 0.98
99 2 0.02
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTACCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTCAAAACCCCAAACTCGGAATATTTCCTTT
Found at i:29778456 original size:44 final size:43
Alignment explanation
Indices: 29778379--29778490 Score: 134
Period size: 44 Copynumber: 2.6 Consensus size: 43
29778369 ATCTGCCCTC
* *
29778379 TGCAACTTCAGAGAGATAAGATCTTAGGTTTTAATCCACTCCAT
1 TGCAACTTCAGGGAGATAAGAT-TTAGGCTTTAATCCACTCCAT
* * * ***
29778423 TGTAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGGTCCAT
1 TGCAACTTCAGGGAGATAAGATT-TAGGCTTTAATCCACTCCAT
29778467 TGCAACTTCAGGGAGATAAGATTT
1 TGCAACTTCAGGGAGATAAGATTT
29778491 TCCATCTTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
43 2 0.04
44 55 0.96
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
TGCAACTTCAGGGAGATAAGATTTAGGCTTTAATCCACTCCAT
Found at i:29778518 original size:45 final size:44
Alignment explanation
Indices: 29778467--29778834 Score: 171
Period size: 44 Copynumber: 8.5 Consensus size: 44
29778457 TCTGGTCCAT
**
29778467 TGCAACTTCAGGGAGATAAGATTTTCCAT-CTTTAGTCTGCCT-CAC
1 TGCAACTTCAGGGAGATAAGA-CCTCCATGC-TTAGTCTG-CTACAC
* * *
29778512 TGCAACTTCA-GGAGGATAAGACCTGCTTGCTTAGTCTGTTACAC
1 TGCAACTTCAGGGA-GATAAGACCTCCATGCTTAGTCTGCTACAC
** * **
29778556 TGCAACTTCAGGGAGATAAGA-CTAGATGC-GAG-CTGCT-CTT
1 TGCAACTTCAGGGAGATAAGACCTCCATGCTTAGTCTGCTACAC
* * * * * *
29778596 TGCAACTTCAGAGAGATAAGA--TCTATGGTTTAAATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGACCTCCAT-GCTT-AGTCTGCTACAC
* * * * *
29778640 TGCAACTTCAGGAAGATAGGA--T-TATCGGCTTTAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGACCTCCAT--GC-TTAGTCTGCTACAC
* **
29778684 CGCAACTTCAGGGAGATAAGA-CTGGCCAT-CTTCAGTCTGCCCCCAC
1 TGCAACTTCAGGGAGATAAGACCT--CCATGCTT-AGTCTG-CTACAC
* * * * *
29778730 TGCAACTTCA-GGAGGATAAAACCTGCTTACTTAGTCTGCTCCAC
1 TGCAACTTCAGGGA-GATAAGACCTCCATGCTTAGTCTGCTACAC
** * *
29778774 TGCAACTTCAGGGAGATAAGA-CTAGATGC-GA-TCTGCT-CTC
1 TGCAACTTCAGGGAGATAAGACCTCCATGCTTAGTCTGCTACAC
*
29778814 TGCAACTTCAGAGAGATAAGA
1 TGCAACTTCAGGGAGATAAGA
29778835 TCCAATGTTT
Statistics
Matches: 257, Mismatches: 45, Indels: 47
0.74 0.13 0.13
Matches are distributed among these distances:
39 3 0.01
40 44 0.17
41 10 0.04
42 4 0.02
43 17 0.07
44 108 0.42
45 44 0.17
46 23 0.09
47 2 0.01
48 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGACCTCCATGCTTAGTCTGCTACAC
Found at i:29778785 original size:44 final size:45
Alignment explanation
Indices: 29778674--29778792 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 45
29778664 TCGGCTTTAA
* *
29778674 TCTGCTCCACCGCAACTTCAGGGAGATAAGACTGGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAAACTGGCCATCTTCAG
* *
29778719 TCTGCCCCCACTGCAACTTCA-GGAGGATAAAACCT-G-CTTACTT-AG
1 TCTG-CTCCACTGCAACTTCAGGGA-GATAAAA-CTGGCCAT-CTTCAG
29778764 TCTGCTCCACTGCAACTTCAGGGAGATAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAA
29778793 GACTAGATGC
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
44 20 0.31
45 18 0.28
46 24 0.38
47 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAAACTGGCCATCTTCAG
Found at i:29778825 original size:218 final size:218
Alignment explanation
Indices: 29778281--29778889 Score: 886
Period size: 218 Copynumber: 2.8 Consensus size: 218
29778271 TGGTATGTTT
* * *
29778281 AGTCTGCCCCCACTGCAATTTCAAGG-GGATAAGACTTG-TGTTCTTCAGTCTGCTCCACTGCAA
1 AGTCTGCCCCCACTGCAACTTC-AGGAGGATAAGACCTGCT-TACTT-AGTCTGCTCCACTGCAA
*
29778344 CTTCAGGGAGATAAGACTAGATGCGATCTGCCCTCTGCAACTTCAGAGAGATAAGATCT-TAGGT
63 CTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAT-GGT
* * * * * **
29778408 TTTAATCCACTCCATTGTAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGGTCCATTGCAAC
127 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACCGCAAC
* ** *
29778473 TTCAGGGAGATAAGATTTTCCATCTTT
192 TTCAGGGAGATAAGACTGGCCATCTTC
* * * *
29778500 AGTCTG-CCTCACTGCAACTTCAGGAGGATAAGACCTGCTTGCTTAGTCTGTTACACTGCAACTT
1 AGTCTGCCCCCACTGCAACTTCAGGAGGATAAGACCTGCTTACTTAGTCTGCTCCACTGCAACTT
* * *
29778564 CAGGGAGATAAGACTAGATGCGAGCTGCTCTTTGCAACTTCAGAGAGATAAGATCTATGGTTTAA
66 CAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTATGGTTTTA
*
29778629 ATCCGCTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAATCTGCTCCACCGCAACTTCA
131 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACCGCAACTTCA
29778694 GGGAGATAAGACTGGCCATCTTC
196 GGGAGATAAGACTGGCCATCTTC
*
29778717 AGTCTGCCCCCACTGCAACTTCAGGAGGATAAAACCTGCTTACTTAGTCTGCTCCACTGCAACTT
1 AGTCTGCCCCCACTGCAACTTCAGGAGGATAAGACCTGCTTACTTAGTCTGCTCCACTGCAACTT
*
29778782 CAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAT-GTTTT
66 CAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT-CTATGGTTTT
* * *
29778846 AATCCGCTCCACTTCAACTTTAGGGAGATAGGATTATTGGCTTT
130 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTT
29778890 CTTCTGTTTG
Statistics
Matches: 350, Mismatches: 35, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
217 162 0.46
218 178 0.51
219 10 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (218 bp):
AGTCTGCCCCCACTGCAACTTCAGGAGGATAAGACCTGCTTACTTAGTCTGCTCCACTGCAACTT
CAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTATGGTTTTA
ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACCGCAACTTCA
GGGAGATAAGACTGGCCATCTTC
Found at i:29790428 original size:98 final size:98
Alignment explanation
Indices: 29790251--29790447 Score: 326
Period size: 98 Copynumber: 2.0 Consensus size: 98
29790241 GTGTAATAAA
*
29790251 ACTTTAAAAGAACATCCACTTATTCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
* *
29790316 CCTCTAAAATCCCAAACTCAGAATATTTTCTTT
66 CCTCTAAAACCCCAAACTCAGAATATTTCCTTT
29790349 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCAC-ATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGA-T
*
29790413 TCCT-TCAAAACCCCAAACTCGGAATATTTCCTTT
65 TCCTCT-AAAACCCCAAACTCAGAATATTTCCTTT
29790447 A
1 A
29790448 TTATTTTTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
97 2 0.02
98 91 0.98
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
CCTCTAAAACCCCAAACTCAGAATATTTCCTTT
Found at i:29791272 original size:12 final size:12
Alignment explanation
Indices: 29791251--29791281 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
29791241 AATTGAAATG
*
29791251 AAAAATAAATTT
1 AAAAACAAATTT
29791263 AAAAACAAATTT
1 AAAAACAAATTT
29791275 AAAAACA
1 AAAAACA
29791282 TAAGAAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAACAAATTT
Found at i:29801633 original size:27 final size:27
Alignment explanation
Indices: 29801603--29801720 Score: 112
Period size: 27 Copynumber: 4.4 Consensus size: 27
29801593 TCTTTCAAAC
*
29801603 AGGTGATTGGCAGACTGTCTCGCTAAT
1 AGGTGACTGGCAGACTGTCTCGCTAAT
* * *
29801630 AGGTGACTGGCAAATTGTCTCGCTAAC
1 AGGTGACTGGCAGACTGTCTCGCTAAT
** * *
29801657 AGGTGACTGGCAGTTTGTCTCACTAAA
1 AGGTGACTGGCAGACTGTCTCGCTAAT
* * * *
29801684 AGATGACTGGCGGACTATCTCGCGAAT
1 AGGTGACTGGCAGACTGTCTCGCTAAT
29801711 AAGG-GACTGG
1 -AGGTGACTGG
29801721 TGGGTTGTCT
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
27 71 0.97
28 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (27 bp):
AGGTGACTGGCAGACTGTCTCGCTAAT
Found at i:29801705 original size:54 final size:54
Alignment explanation
Indices: 29801581--29801706 Score: 126
Period size: 54 Copynumber: 2.3 Consensus size: 54
29801571 TGGACAGGTA
* ** * * * *
29801581 ACTGGTGGACTATCTTTCAAACAGGTGATTGGCAGACTGTCTCGCTAATAGGTG
1 ACTGGCGGACTATCTCGCAAACAGGTGACTGGCAGACTGTCTCACTAAAAGATG
** * * * **
29801635 ACTGGCAAATTGTCTCGCTAACAGGTGACTGGCAGTTTGTCTCACTAAAAGATG
1 ACTGGCGGACTATCTCGCAAACAGGTGACTGGCAGACTGTCTCACTAAAAGATG
29801689 ACTGGCGGACTATCTCGC
1 ACTGGCGGACTATCTCGC
29801707 GAATAAGGGA
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (54 bp):
ACTGGCGGACTATCTCGCAAACAGGTGACTGGCAGACTGTCTCACTAAAAGATG
Found at i:29812573 original size:17 final size:15
Alignment explanation
Indices: 29812533--29812577 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
29812523 ATGATTATTT
* *
29812533 AATTAAATAATAAAA
1 AATTAAATATTTAAA
29812548 AATTAAATATTTAAA
1 AATTAAATATTTAAA
29812563 AATTATGAATATTTA
1 AATTA--AATATTTA
29812578 TTTAATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 18 0.69
17 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
AATTAAATATTTAAA
Found at i:29819306 original size:39 final size:39
Alignment explanation
Indices: 29819262--29819344 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
29819252 TACTCTACTT
29819262 CTCTTGTAATCATTTGAATTCGACATAGTGAAGTTTCTG
1 CTCTTGTAATCATTTGAATTCGACATAGTGAAGTTTCTG
*
29819301 CTCTTGTAATCATTTGAATTCGACATAGTGAAGTTTCTT
1 CTCTTGTAATCATTTGAATTCGACATAGTGAAGTTTCTG
29819340 CTCTT
1 CTCTT
29819345 CTGCCCATGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (39 bp):
CTCTTGTAATCATTTGAATTCGACATAGTGAAGTTTCTG
Found at i:29820364 original size:21 final size:21
Alignment explanation
Indices: 29820340--29820381 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
29820330 ATTAACAAAC
29820340 AAACAAAAT-GATTTGGGGAAA
1 AAAC-AAATGGATTTGGGGAAA
*
29820361 AAACTAATGGATTTGGGGAAA
1 AAACAAATGGATTTGGGGAAA
29820382 TTGCAGCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.48, C:0.05, G:0.26, T:0.21
Consensus pattern (21 bp):
AAACAAATGGATTTGGGGAAA
Found at i:29820574 original size:41 final size:40
Alignment explanation
Indices: 29820505--29820645 Score: 124
Period size: 41 Copynumber: 3.5 Consensus size: 40
29820495 AAAATATTCA
* ** *
29820505 CAGCGTTTATGGGGAAAATGCAACTATTGTTTTACCTATAG
1 CAGCGTTTATGGGAAAAATGC-GTTATTGTTTTACCTTTAG
*
29820546 CAGCGTTTATGGGAAAAATGTCGTTATTGTTTTAACCTTTTG
1 CAGCGTTTATGGGAAAAATG-CGTTATTGTTTT-ACCTTTAG
* * *
29820588 C-GACGTTTAT-GCAAAAACGCCGTTATTGCTTTACCTTTAG
1 CAG-CGTTTATGGGAAAAATG-CGTTATTGTTTTACCTTTAG
** *
29820628 TGGCGTTTATGAGAAAAA
1 CAGCGTTTATGGGAAAAA
29820646 CACCACTATC
Statistics
Matches: 82, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
40 14 0.17
41 53 0.65
42 15 0.18
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (40 bp):
CAGCGTTTATGGGAAAAATGCGTTATTGTTTTACCTTTAG
Found at i:29820634 original size:82 final size:82
Alignment explanation
Indices: 29820527--29820728 Score: 251
Period size: 82 Copynumber: 2.5 Consensus size: 82
29820517 GGAAAATGCA
* * * *** ** **
29820527 ACTATTGTTTTACCTATAGCAGCGTTTATGGGAAAAATGTCGTTATTGTTTTAACCTTTTGCGAC
1 ACTATTGCTTTACCTTTAGCGGCGTTTATGGGAAAAACACCACTATCATTTTAACCTTTTGCGAC
29820592 GTTTATGCAAAAACGCC
66 GTTTATGCAAAAACGCC
** * * *
29820609 GTTATTGCTTTACCTTTAGTGGCGTTTATGAGAAAAACACCACTATCATTTTAACCTTTTGCGGC
1 ACTATTGCTTTACCTTTAGCGGCGTTTATGGGAAAAACACCACTATCATTTTAACCTTTTGCGAC
*
29820674 GTTTATGCAAAAACTCC
66 GTTTATGCAAAAACGCC
*
29820691 ACTATTGCTTTACCTTTTGCGGCGTTTATGGGAAAAAC
1 ACTATTGCTTTACCTTTAGCGGCGTTTATGGGAAAAAC
29820729 GCCGCTTACG
Statistics
Matches: 99, Mismatches: 21, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
82 99 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (82 bp):
ACTATTGCTTTACCTTTAGCGGCGTTTATGGGAAAAACACCACTATCATTTTAACCTTTTGCGAC
GTTTATGCAAAAACGCC
Found at i:29820646 original size:41 final size:40
Alignment explanation
Indices: 29820528--29820734 Score: 189
Period size: 41 Copynumber: 5.0 Consensus size: 40
29820518 GAAAATGCAA
* * * * *
29820528 CTATTGTTTTACCTATAGCAGCGTTTATGGGAAAAATGTCG
1 CTATTGTTTTACCTTTTGCGGCGTTTAT-GGAAAAACGCCG
* * *
29820569 TTATTGTTTTAACCTTTTGCGACGTTTATGCAAAAACGCCG
1 CTATTGTTTT-ACCTTTTGCGGCGTTTATGGAAAAACGCCG
* * * * * *
29820610 TTATTGCTTTACCTTTAGTGGCGTTTATGAGAAAAACACCA
1 CTATTGTTTTACCTTTTGCGGCGTTTATG-GAAAAACGCCG
** * * *
29820651 CTATCATTTTAACCTTTTGCGGCGTTTATGCAAAAACTCCA
1 CTATTGTTTT-ACCTTTTGCGGCGTTTATGGAAAAACGCCG
*
29820692 CTATTGCTTTACCTTTTGCGGCGTTTATGGGAAAAACGCCG
1 CTATTGTTTTACCTTTTGCGGCGTTTAT-GGAAAAACGCCG
29820733 CT
1 CT
29820735 TACGCTGCTA
Statistics
Matches: 133, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
40 34 0.26
41 68 0.51
42 31 0.23
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (40 bp):
CTATTGTTTTACCTTTTGCGGCGTTTATGGAAAAACGCCG
Found at i:29822296 original size:61 final size:60
Alignment explanation
Indices: 29822216--29822365 Score: 212
Period size: 59 Copynumber: 2.5 Consensus size: 60
29822206 CTTAGTTAAT
* * *
29822216 TGACGAAATTGTAACTTTTTTTTAGGTAAGCGACTTAACTGAGAATTTTCGAATAATTCAA
1 TGACCAAATTGGAA-TTTTTTTTAGTTAAGCGACTTAACTGAGAATTTTCGAATAATTCAA
* * *
29822277 TGACCAAATTGGAA-TTTTTTTAATTAAGTGACTTAACTGAGAATTTTCGAATAATTCCA
1 TGACCAAATTGGAATTTTTTTTAGTTAAGCGACTTAACTGAGAATTTTCGAATAATTCAA
*
29822336 TGACCAAATTGGAAATTTGTTTTAGTTAAG
1 TGACCAAATTGG-AATTTTTTTTAGTTAAG
29822366 TAACCAAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
59 53 0.67
60 2 0.03
61 24 0.30
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.39
Consensus pattern (60 bp):
TGACCAAATTGGAATTTTTTTTAGTTAAGCGACTTAACTGAGAATTTTCGAATAATTCAA
Found at i:29822310 original size:59 final size:60
Alignment explanation
Indices: 29822232--29822366 Score: 218
Period size: 59 Copynumber: 2.2 Consensus size: 60
29822222 AATTGTAACT
* *
29822232 TTTTTTTAGGTAAGCGACTTAACTGAGAATTTTCGAATAATTCAATGACCAAATTGG-AA
1 TTTTTTTAGTTAAGTGACTTAACTGAGAATTTTCGAATAATTCAATGACCAAATTGGAAA
* *
29822291 TTTTTTTAATTAAGTGACTTAACTGAGAATTTTCGAATAATTCCATGACCAAATTGGAAA
1 TTTTTTTAGTTAAGTGACTTAACTGAGAATTTTCGAATAATTCAATGACCAAATTGGAAA
29822351 TTTGTTTTAGTTAAGT
1 TTT-TTTTAGTTAAGT
29822367 AACCAAAATA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
59 53 0.77
60 5 0.07
61 11 0.16
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (60 bp):
TTTTTTTAGTTAAGTGACTTAACTGAGAATTTTCGAATAATTCAATGACCAAATTGGAAA
Found at i:29822353 original size:31 final size:31
Alignment explanation
Indices: 29822259--29822353 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
29822249 CTTAACTGAG
29822259 AATTTTCGAATAATTCAATGACCAAATTGG-
1 AATTTTCGAATAATTCAATGACCAAATTGGA
** ** *
29822289 AATTTT--TTTAATT-AAGTGACTTAACT-GA
1 AATTTTCGAATAATTCAA-TGACCAAATTGGA
*
29822317 GAATTTTCGAATAATTCCATGACCAAATTGGA
1 -AATTTTCGAATAATTCAATGACCAAATTGGA
29822349 AATTT
1 AATTT
29822354 GTTTTAGTTA
Statistics
Matches: 47, Mismatches: 11, Indels: 13
0.66 0.15 0.18
Matches are distributed among these distances:
27 3 0.06
28 12 0.26
29 6 0.13
30 6 0.13
31 17 0.36
32 3 0.06
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (31 bp):
AATTTTCGAATAATTCAATGACCAAATTGGA
Found at i:29832617 original size:33 final size:32
Alignment explanation
Indices: 29832558--29832632 Score: 91
Period size: 33 Copynumber: 2.4 Consensus size: 32
29832548 TTTAAATAAA
* * *
29832558 TTTT-AAAT-TTTCTTTTTAGTTTATTTTTAT
1 TTTTAAAATATTTCTCTTTAATTAATTTTTAT
*
29832588 TTATTAAATTATTTCTCTTTAATTAATTTTTAT
1 TT-TTAAAATATTTCTCTTTAATTAATTTTTAT
29832621 TTTTAAAATATT
1 TTTTAAAATATT
29832633 ATTGTTCATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 2 0.05
31 2 0.05
32 12 0.32
33 21 0.57
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (32 bp):
TTTTAAAATATTTCTCTTTAATTAATTTTTAT
Found at i:29849476 original size:156 final size:156
Alignment explanation
Indices: 29849170--29849595 Score: 578
Period size: 156 Copynumber: 2.7 Consensus size: 156
29849160 AAAAAAAAAT
*
29849170 TTAGTCATTTTAAAGGAAATTTTACATTTTTAAAATAAAGTTTTGATTTTTTTTTCAACTATTTC
1 TTAGTCATTTTAAAGGAAATTTTAAATTTTTAAAATAAAGTTTTGA--TTTTTTTCAACTATTTC
* *
29849235 GAAATAAAAGCTTTGATCTTTAAGAAAAATAGTGATTTTTTTAA-AAAAAAGAAAGAGAAAGTTT
64 GAAATAAAAGCTTTGATATTTAAGAAAAATAGTGATTTTTTTAAGAAAAAAAAAAGAGAAAGTTT
*
29849299 AGATTTTAAAAATTAATAATCTG-TTTC
129 AGATTTTAAAAATTAAAAATCTGTTTTC
* * * *
29849326 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAA-TTTTTATTTTTTTCCAACTATTTCG
1 TTAGTCATTTTAAAGGAAATTTTAAATTTTTAAAATAAAGTTTTGATTTTTTT-CAACTATTTCG
* * *
29849390 AAATAAAAGCTTTGATATTTGAGAAAAGTAGTGATTTTTTAAAAGAAAAAAAAAAGAGAAAGTTT
65 AAATAAAAGCTTTGATATTTAAGAAAAATAGTGATTTTTT-TAAGAAAAAAAAAAGAGAAAGTTT
* *
29849455 GGATTTTTAAAAA-TAAAAATCTGTTTTT
129 AGA-TTTTAAAAATTAAAAATCTGTTTTC
*
29849483 TTAGTCATTTTAAATGAAAATTTTAAATTTTTAAAATAAAGTTTTGATCTTTTTT-AACTATTTC
1 TTAGTCATTTTAAA-GGAAATTTTAAATTTTTAAAATAAAGTTTTGAT-TTTTTTCAACTATTTC
* *
29849547 GAAATAAAA-CTTTAATTTTTAAGAAAAATTA-TGATTTTTTTTAAGAAAA
64 GAAATAAAAGCTTTGATATTTAAGAAAAA-TAGTGA-TTTTTTTAAGAAAA
29849596 CTTTGATTTT
Statistics
Matches: 237, Mismatches: 23, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
153 7 0.03
154 48 0.20
155 7 0.03
156 65 0.27
157 51 0.22
158 47 0.20
159 6 0.03
160 6 0.03
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (156 bp):
TTAGTCATTTTAAAGGAAATTTTAAATTTTTAAAATAAAGTTTTGATTTTTTTCAACTATTTCGA
AATAAAAGCTTTGATATTTAAGAAAAATAGTGATTTTTTTAAGAAAAAAAAAAGAGAAAGTTTAG
ATTTTAAAAATTAAAAATCTGTTTTC
Found at i:29849572 original size:157 final size:155
Alignment explanation
Indices: 29849133--29849595 Score: 582
Period size: 154 Copynumber: 3.0 Consensus size: 155
29849123 TGATTTTTTT
* ***** *
29849133 AAGAGAAAGTTTAGATTTTAAAAAATAAAAA--AAAAATTTAGTCATTTTAAAGGAAATTTTACA
1 AAGAGAAAGTTTAGATTTTAAAAATTAAAAATCTGTTTTTTAGTCATTTTAAAGGAAATTTTAAA
*
29849196 TTTTTAAAATAAAGTTTTGATTTTTTTTTCAACTATTTCGAAATAAAAGCTTTGATCTTTAAGAA
66 TTTTTAAAATAAAGTTTTGA--TTTTTTTCAACTATTTCGAAATAAAAGCTTTGATATTTAAGAA
*
29849261 AAATAGTGATTTTTTTAA-AAAAAAGA
129 AAATAGTGATTTTTTTAAGAAAAAAAA
* * *
29849287 AAGAGAAAGTTTAGATTTTAAAAATTAATAATCTGTTTCTTAGTCATTTTAAAGGAAAGTTTAAA
1 AAGAGAAAGTTTAGATTTTAAAAATTAAAAATCTGTTTTTTAGTCATTTTAAAGGAAATTTTAAA
* * * *
29849352 ATTTTAAAACAAA-TTTTTATTTTTTTCCAACTATTTCGAAATAAAAGCTTTGATATTTGAGAAA
66 TTTTTAAAATAAAGTTTTGATTTTTTT-CAACTATTTCGAAATAAAAGCTTTGATATTTAAGAAA
* *
29849416 AGTAGTGATTTTTTAAAAGAAAAAAAA
130 AATAGTGATTTTTT-TAAGAAAAAAAA
* *
29849443 AAGAGAAAGTTTGGATTTTTAAAAA-TAAAAATCTGTTTTTTTAGTCATTTTAAATGAAAATTTT
1 AAGAGAAAGTTTAGA-TTTTAAAAATTAAAAATCTG-TTTTTTAGTCATTTTAAA-GGAAATTTT
* *
29849507 AAATTTTTAAAATAAAGTTTTGATCTTTTTT-AACTATTTCGAAATAAAA-CTTTAATTTTTAAG
63 AAATTTTTAAAATAAAGTTTTGAT-TTTTTTCAACTATTTCGAAATAAAAGCTTTGATATTTAAG
29849570 AAAAATTA-TGATTTTTTTTAAGAAAA
127 AAAAA-TAGTGA-TTTTTTTAAGAAAA
29849596 CTTTGATTTT
Statistics
Matches: 266, Mismatches: 31, Indels: 21
0.84 0.10 0.07
Matches are distributed among these distances:
153 7 0.03
154 77 0.29
155 7 0.03
156 65 0.24
157 51 0.19
158 47 0.18
159 6 0.02
160 6 0.02
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (155 bp):
AAGAGAAAGTTTAGATTTTAAAAATTAAAAATCTGTTTTTTAGTCATTTTAAAGGAAATTTTAAA
TTTTTAAAATAAAGTTTTGATTTTTTTCAACTATTTCGAAATAAAAGCTTTGATATTTAAGAAAA
ATAGTGATTTTTTTAAGAAAAAAAA
Found at i:29849587 original size:22 final size:21
Alignment explanation
Indices: 29849562--29849605 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
29849552 AAAACTTTAA
29849562 TTTTTAAGAAAAATTATGATTT
1 TTTTTAAGAAAAATT-TGATTT
*
29849584 TTTTTAAGAAAACTTTGATTT
1 TTTTTAAGAAAAATTTGATTT
29849605 T
1 T
29849606 GCAAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (21 bp):
TTTTTAAGAAAAATTTGATTT
Found at i:29849595 original size:21 final size:22
Alignment explanation
Indices: 29849562--29849605 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
29849552 AAAACTTTAA
29849562 TTTTTAAGAAAAA-TTATGATTT
1 TTTTTAAGAAAAACTT-TGATTT
29849584 TTTTTAAG-AAAACTTTGATTT
1 TTTTTAAGAAAAACTTTGATTT
29849605 T
1 T
29849606 GCAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (22 bp):
TTTTTAAGAAAAACTTTGATTT
Found at i:29852726 original size:16 final size:15
Alignment explanation
Indices: 29852701--29852730 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
29852691 ATACATAAAT
29852701 TTTCTCTCTTTTTTG
1 TTTCTCTCTTTTTTG
29852716 TTTCTTCTCTTTTTT
1 TTTC-TCTCTTTTTT
29852731 TTCATCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTCTCTCTTTTTTG
Found at i:29857344 original size:15 final size:16
Alignment explanation
Indices: 29857317--29857349 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
29857307 ACTTGTGTGA
29857317 TTAATATATGTTTTAG
1 TTAATATATGTTTTAG
29857333 TTAATA-ATGTTTTAG
1 TTAATATATGTTTTAG
29857348 TT
1 TT
29857350 CATGGTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (16 bp):
TTAATATATGTTTTAG
Found at i:29860605 original size:12 final size:13
Alignment explanation
Indices: 29860586--29860618 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
29860576 ATACGCGAAA
29860586 ATATGTGAATATG
1 ATATGTGAATATG
*
29860599 A-ATGTGAATGTG
1 ATATGTGAATATG
29860611 ATATGTGA
1 ATATGTGA
29860619 TATACTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (13 bp):
ATATGTGAATATG
Found at i:29862402 original size:25 final size:26
Alignment explanation
Indices: 29862349--29862416 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 26
29862339 CTCGGGCCGT
*
29862349 TAACACTAGCTTCAGATCAAGGCTGC
1 TAACACTAGCTTCAGATCAAGGCTAC
* * *
29862375 TAACACTAGCTT-AGTTCAATGTTAC
1 TAACACTAGCTTCAGATCAAGGCTAC
29862400 TAACACTAGCTTCAGAT
1 TAACACTAGCTTCAGAT
29862417 AATCTGCAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 21 0.58
26 15 0.42
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (26 bp):
TAACACTAGCTTCAGATCAAGGCTAC
Found at i:29863141 original size:40 final size:42
Alignment explanation
Indices: 29863088--29863168 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 42
29863078 CGAATATAAT
*
29863088 AAATATATATTTTTTAT-TTTTTTTAATTTAAAAATACTTTT-
1 AAATATA-ATTTTTTATATTTTTTTAATTTAAAAATAATTTTA
* *
29863129 AAA-ATAATTTTTTATATTTTTTTACTTTTAAAATAATTTT
1 AAATATAATTTTTTATATTTTTTTAATTTAAAAATAATTTT
29863169 TTAATGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 9 0.25
40 24 0.67
41 3 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (42 bp):
AAATATAATTTTTTATATTTTTTTAATTTAAAAATAATTTTA
Found at i:29863818 original size:103 final size:103
Alignment explanation
Indices: 29863702--29863907 Score: 394
Period size: 103 Copynumber: 2.0 Consensus size: 103
29863692 AATGAAAAAA
29863702 AAAAGATAATAATGTCTTTTCTTATGTTTTAGTTTTATCCTTTTAACATATATTAATAATTTAAT
1 AAAAGATAATAATGTCTTTTCTTATGTTTTAGTTTTATCCTTTTAACATATATTAATAATTTAAT
29863767 TAATATTTTCATATATAATTCACTCAAATCTAAGCCAC
66 TAATATTTTCATATATAATTCACTCAAATCTAAGCCAC
*
29863805 AAAAGATAATAATGTTTTTTCTTATGTTTTAGTTTTATCCTTTTAACATATATTAATAATTTAAT
1 AAAAGATAATAATGTCTTTTCTTATGTTTTAGTTTTATCCTTTTAACATATATTAATAATTTAAT
*
29863870 TAATATTTTCATATATAGTTCACTCAAATCTAAGCCAC
66 TAATATTTTCATATATAATTCACTCAAATCTAAGCCAC
29863908 TAATCGACTA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (103 bp):
AAAAGATAATAATGTCTTTTCTTATGTTTTAGTTTTATCCTTTTAACATATATTAATAATTTAAT
TAATATTTTCATATATAATTCACTCAAATCTAAGCCAC
Found at i:29884610 original size:32 final size:32
Alignment explanation
Indices: 29884569--29884636 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
29884559 AAATAATAAG
29884569 ACCAGAAAACCTTTCTCTTATCATCATTTACA
1 ACCAGAAAACCTTTCTCTTATCATCATTTACA
29884601 ACCAGAAAACCTTTCTCTTATCATCATTTACA
1 ACCAGAAAACCTTTCTCTTATCATCATTTACA
29884633 ACCA
1 ACCA
29884637 AGTATAGCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (32 bp):
ACCAGAAAACCTTTCTCTTATCATCATTTACA
Found at i:29890963 original size:8 final size:8
Alignment explanation
Indices: 29890941--29890970 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
29890931 TACTTCAATT
29890941 TTATTTTA
1 TTATTTTA
29890949 TTTATTTTA
1 -TTATTTTA
29890958 TTATTTTA
1 TTATTTTA
29890966 TTATT
1 TTATT
29890971 CTATAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTTTA
Found at i:29892161 original size:22 final size:22
Alignment explanation
Indices: 29892136--29892178 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
29892126 GATAGAATGC
29892136 ATAAAGAAGAAAAGAAAAGAAA
1 ATAAAGAAGAAAAGAAAAGAAA
* *
29892158 ATAAAGGAGAAAAGATAAGAA
1 ATAAAGAAGAAAAGAAAAGAA
29892179 CTTACATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (22 bp):
ATAAAGAAGAAAAGAAAAGAAA
Found at i:29893778 original size:20 final size:20
Alignment explanation
Indices: 29893753--29893797 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
29893743 TGGTGTAATC
29893753 AAATAG-GTAAAAATCTCATA
1 AAATAGTGTAAAAATCTCA-A
* *
29893773 AAATAGTGTCAAATTCTCAA
1 AAATAGTGTAAAAATCTCAA
29893793 AAATA
1 AAATA
29893798 CGATTTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.53, C:0.11, G:0.09, T:0.27
Consensus pattern (20 bp):
AAATAGTGTAAAAATCTCAA
Found at i:29894857 original size:10 final size:10
Alignment explanation
Indices: 29894842--29894905 Score: 64
Period size: 10 Copynumber: 6.7 Consensus size: 10
29894832 TCTACAAGTT
29894842 ATTTTTAATA
1 ATTTTTAATA
29894852 ATTTTTAATA
1 ATTTTTAATA
29894862 A-TTTTAAT-
1 ATTTTTAATA
*
29894870 ATGTTT-ATA
1 ATTTTTAATA
*
29894879 ATTTCTT-ATC
1 ATTT-TTAATA
*
29894889 ATTTTTAAAA
1 ATTTTTAATA
29894899 ATTTTTA
1 ATTTTTA
29894906 GATTTCTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
8 3 0.07
9 15 0.33
10 27 0.60
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:29902276 original size:44 final size:44
Alignment explanation
Indices: 29902217--29902721 Score: 139
Period size: 44 Copynumber: 10.8 Consensus size: 44
29902207 CCTTTATTTT
*
29902217 AATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
29902261 AATCTGCTCCGCTATAATCTTAGGGAGATAAGATTTCTGGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * ** * * *
29902305 AATATGATGCGATCTACTCTATTGTAA-CTTTAAAGAGATAAGATCCT-TTA-TTTT
1 ---A--ATCCG--CT-C-C-ACTATAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* * * *
29902359 AATCCGCTCCACTGTAATATAAGGGAGATAGGATTACTAGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * * *
29902403 AATCTGCTCCATTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
29902447 AATCTAATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAATACCCTT--TA-TTTT
1 AATC-----CG--CT-C-C-ACTATAATC-TCAGGGAGATAAGA---TTACTAGCTTC
* * *
29902501 AATCCGCTCCACTATAATATCAGGAAGATAGGATTACTAGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* ** * * *
29902545 AATCTGCTCCGGTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
29902589 AATCTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGGTAAGATCCT-TTA-CTTT
1 AATC-----CG--CT-C-C-ACTATAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* * * *
29902643 AATGCGCTTCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * *
29902687 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATT
29902722 TCTTCTTCAG
Statistics
Matches: 335, Mismatches: 76, Indels: 100
0.66 0.15 0.20
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 6 0.02
44 208 0.62
45 4 0.01
46 2 0.01
47 7 0.02
49 13 0.04
51 7 0.02
52 3 0.01
53 6 0.02
54 67 0.20
55 4 0.01
56 2 0.01
57 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:29902428 original size:142 final size:142
Alignment explanation
Indices: 29902166--29902724 Score: 911
Period size: 142 Copynumber: 3.9 Consensus size: 142
29902156 GAGATAAGAC
29902166 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
* * *
29902231 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTTAGGGAGATAAGATT
66 TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
29902296 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* * * * *
29902308 ATGATGCGATCTACTCTATTGTAACTTTAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
* **
29902373 TAATATAAGGGAGATAGGATTACTAGCTTCAATCTGCTCCATTGTAATCTCAGGGAGATAAGATT
66 TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
29902438 TCTAGCTTCAAT
131 TCTGGCTTCAAT
* * *
29902450 CTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAATACCCTTTATTTTAATCCGCTCCACTA
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
* *
29902515 TAATATCAGGAAGATAGGATTACTAGCTTCAATCTGCTCCGGTGTAATCTCAGGGAGATAAGATT
66 TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
29902580 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* * * * *
29902592 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGGTAAGATCCTTTACTTTAATGCGCTTCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
*
29902657 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
29902722 TCT
131 TCT
29902725 TCTTCAGTCT
Statistics
Matches: 381, Mismatches: 36, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
142 381 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:29902746 original size:43 final size:43
Alignment explanation
Indices: 29902652--29902780 Score: 120
Period size: 44 Copynumber: 3.0 Consensus size: 43
29902642 TAATGCGCTT
* * * * *
29902652 CACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTC
1 CACTGTAATCTCAGGGAGATAAGATTTCT-TCTTCAGTCTGCCC
*
29902696 CGCTGTAATCTCAGGGAGATAAGATTTCTTCTTCAGTCTGCCC
1 CACTGTAATCTCAGGGAGATAAGATTTCTTCTTCAGTCTGCCC
* *
29902739 CATTGTAA-CTTCAGGG-GAATAAGACTTGTTTTCTT-AGTCTGC
1 CACTGTAATC-TCAGGGAG-ATAAGA-TT-TCTTCTTCAGTCTGC
29902781 TCCGCCACTG
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
42 2 0.03
43 29 0.40
44 35 0.49
45 6 0.08
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (43 bp):
CACTGTAATCTCAGGGAGATAAGATTTCTTCTTCAGTCTGCCC
Found at i:29902945 original size:131 final size:131
Alignment explanation
Indices: 29902776--29903248 Score: 741
Period size: 131 Copynumber: 3.6 Consensus size: 131
29902766 GTTTTCTTAG
* * * * * *
29902776 TCTGCTCCGCCACTGCTTAGGGAAACAAGATCTGCAATTTCCAACCTATTCTACTGCTGATCAGG
1 TCTGCTCCGCTACTGCTTAGAGAGACAAGACCTGCAATTTCCAACCTATTCCACTGCTGGTCAGG
* * *
29902841 GACATAAGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCATCTCCG
66 GACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCG
29902906 A
131 A
* *
29902907 TCTGCTCCGCTACTGCTTAGAGAGACAAGACCTACAATTTCCAACCTAGTCCACTGCTGGTCAGG
1 TCTGCTCCGCTACTGCTTAGAGAGACAAGACCTGCAATTTCCAACCTATTCCACTGCTGGTCAGG
* *
29902972 GACATAGGACGTGTGGCTTAAATCTGCTTCCCTACTCTTGGGGAAGATAAGATTCGCCGTCTTCG
66 GACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCG
29903037 A
131 A
* * *
29903038 TTTGCTCCGCTACTGCTTAGGGAGACAAGACCTGTAATTTCCAACCTATTCCACTGCTGGTCAGG
1 TCTGCTCCGCTACTGCTTAGAGAGACAAGACCTGCAATTTCCAACCTATTCCACTGCTGGTCAGG
* *
29903103 GACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTTGTCGTCTTCG
66 GACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCG
29903168 A
131 A
* *
29903169 TCTGCTCCGCTACTGCTTA-AGGAGACAAGATCTGCAATTTCCAACCTATTCCATTGCTGGTCAG
1 TCTGCTCCGCTACTGCTTAGA-GAGACAAGACCTGCAATTTCCAACCTATTCCACTGCTGGTCAG
*
29903233 GGACATAGGACTTGTG
65 GGACATAGGACGTGTG
29903249 ATTTCATTGA
Statistics
Matches: 313, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 313 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (131 bp):
TCTGCTCCGCTACTGCTTAGAGAGACAAGACCTGCAATTTCCAACCTATTCCACTGCTGGTCAGG
GACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCG
A
Found at i:29904508 original size:6 final size:7
Alignment explanation
Indices: 29904489--29904547 Score: 66
Period size: 8 Copynumber: 8.0 Consensus size: 7
29904479 TTGGCCTCTC
29904489 CATTTTT
1 CATTTTT
29904496 -ACTTTTT
1 CA-TTTTT
*
29904503 TATTTTT
1 CATTTTT
29904510 CATTTTTT
1 CA-TTTTT
29904518 CATTTTTT
1 CA-TTTTT
29904526 CATTTTTT
1 CA-TTTTT
29904534 CATTTTT
1 CATTTTT
29904541 CATTTTT
1 CATTTTT
29904548 TTTACTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
6 1 0.02
7 23 0.48
8 24 0.50
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.75
Consensus pattern (7 bp):
CATTTTT
Found at i:29904549 original size:16 final size:15
Alignment explanation
Indices: 29904489--29904548 Score: 88
Period size: 15 Copynumber: 4.0 Consensus size: 15
29904479 TTGGCCTCTC
29904489 CATTTTT-ACTTTTTT
1 CATTTTTCA-TTTTTT
29904504 -ATTTTTCATTTTTT
1 CATTTTTCATTTTTT
29904518 CATTTTTTCATTTTTT
1 CA-TTTTTCATTTTTT
29904534 CATTTTTCATTTTTT
1 CATTTTTCATTTTTT
29904549 TTACTCAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.29
15 15 0.36
16 15 0.36
ACGTcount: A:0.13, C:0.12, G:0.00, T:0.75
Consensus pattern (15 bp):
CATTTTTCATTTTTT
Found at i:29905399 original size:7 final size:7
Alignment explanation
Indices: 29905387--29905426 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
29905377 TGACCTCTCA
29905387 TTTTTTC
1 TTTTTTC
29905394 TTTTTTC
1 TTTTTTC
29905401 TTTTTTC
1 TTTTTTC
* *
29905408 TTCTCTC
1 TTTTTTC
29905415 TTTTTTC
1 TTTTTTC
29905422 ATTTT
1 -TTTT
29905427 CATTTTGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 24 0.86
8 4 0.14
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:29905406 original size:14 final size:14
Alignment explanation
Indices: 29905382--29905427 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
29905372 CGCCTTGACC
29905382 TCTCATTTTTTCTTT
1 TCTC-TTTTTTCTTT
* *
29905397 TTTCTTTTTTCTTC
1 TCTCTTTTTTCTTT
29905411 TCTCTTTTTTCATTT
1 TCTCTTTTTTC-TTT
29905426 TC
1 TC
29905428 ATTTTGACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 19 0.73
15 7 0.27
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (14 bp):
TCTCTTTTTTCTTT
Found at i:29905428 original size:6 final size:6
Alignment explanation
Indices: 29905417--29905478 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
29905407 CTTCTCTCTT
* * *
29905417 TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTT-- TCTTT-A
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA T-TTTGA
*
29905463 TTTTGA TTTTAA TTTT
1 TTTTGA TTTTGA TTTT
29905479 TTTTTGCTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
4 1 0.02
5 6 0.12
6 42 0.86
ACGTcount: A:0.16, C:0.06, G:0.08, T:0.69
Consensus pattern (6 bp):
TTTTGA
Found at i:29905468 original size:22 final size:23
Alignment explanation
Indices: 29905417--29905484 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
29905407 CTTCTCTCTT
* * *
29905417 TTTTCATTTTCATTTTGACTTTGA
1 TTTTGATTTTAATTTT-TCTTTGA
*
29905441 TTTTGATTTTGATTTTTCTTT-A
1 TTTTGATTTTAATTTTTCTTTGA
*
29905463 TTTTGATTTTAATTTTTTTTTG
1 TTTTGATTTTAATTTTTCTTTG
29905485 CTTCCTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 20 0.53
23 4 0.11
24 14 0.37
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.71
Consensus pattern (23 bp):
TTTTGATTTTAATTTTTCTTTGA
Found at i:29915761 original size:30 final size:31
Alignment explanation
Indices: 29915719--29915782 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
29915709 TAATAAATAA
* *
29915719 AATTATCCAACCCAACCTAATTACCCAATCC
1 AATTATCCAACCCAACCCAATTACCCAACCC
29915750 AATTA-CCAACCCAACCCAATTACCCAACCC
1 AATTATCCAACCCAACCCAATTACCCAACCC
29915780 AAT
1 AAT
29915783 AAAACTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.19
Consensus pattern (31 bp):
AATTATCCAACCCAACCCAATTACCCAACCC
Found at i:29915763 original size:17 final size:18
Alignment explanation
Indices: 29915741--29915782 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
29915731 CAACCTAATT
29915741 ACCCAATCCAATTA-CCA
1 ACCCAATCCAATTACCCA
*
29915758 ACCCAACCCAATTACCCA
1 ACCCAATCCAATTACCCA
29915776 ACCCAAT
1 ACCCAAT
29915783 AAAACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.40, C:0.45, G:0.00, T:0.14
Consensus pattern (18 bp):
ACCCAATCCAATTACCCA
Found at i:29915774 original size:13 final size:13
Alignment explanation
Indices: 29915728--29915782 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 13
29915718 AAATTATCCA
*
29915728 ACCCAACCTAATT
1 ACCCAACCCAATT
*
29915741 ACCCAATCCAATT
1 ACCCAACCCAATT
29915754 ACCAACCCAACCCAATT
1 ----ACCCAACCCAATT
29915771 ACCCAACCCAAT
1 ACCCAACCCAAT
29915783 AAAACTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 23 0.66
17 12 0.34
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:29915821 original size:38 final size:39
Alignment explanation
Indices: 29915763--29915840 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
29915753 TACCAACCCA
*
29915763 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
29915802 ACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
29915840 A
1 A
29915841 ACTCTTAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 29 0.76
39 9 0.24
ACGTcount: A:0.51, C:0.28, G:0.03, T:0.18
Consensus pattern (39 bp):
ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
Found at i:29915993 original size:17 final size:17
Alignment explanation
Indices: 29915973--29916035 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
29915963 TAATTTCAAG
29915973 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
29915990 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
29916008 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
29916027 AATTATGTA
1 AATTATGTA
29916036 GTGATTCAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:29915997 original size:37 final size:37
Alignment explanation
Indices: 29915970--29916044 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
29915960 TGTTAATTTC
* *
29915970 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
* *
29916007 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
29916044 A
1 A
29916045 TTCGGGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
Found at i:29918878 original size:231 final size:231
Alignment explanation
Indices: 29918459--29918949 Score: 718
Period size: 231 Copynumber: 2.1 Consensus size: 231
29918449 GGTTGAACGA
* * * * *
29918459 AAGTCCTGTAACAATCACACTTGTATAACCTAATCATTTGTTTCTTGAATACTAAGTAGACTAAG
1 AAGTCCTGTAGCAGTCACACTTGTATAGCATAATCATTTGATTCTTGAATACTAAGTAGACTAAG
*
29918524 ACAAACTAATGAGTCTTATATACCATATCAACTCATTTGAGCATGGTCATGCATTTATAGTCTCA
66 ACAAACTAATGAGTCTTATATACCATATCAACTCATTTGAGCATGGTCATGCATTTATAGCCTCA
*** * * * * **
29918589 CTTGATCAAAAAACCTGGGATATCACTCTTATTAAGTAGGAGAGACAAATCGTATCTTGATCGTT
131 CTTGATCAAAAAACCTAACATATCACTCCTATTAAATAGGAGAGAAAAATCCTATCTTGATCAAT
*
29918654 TACATAC-CACTACATAGATTGTGGCAT-ACCTAACAC
196 CACAT-CTCACTACATAGATTGTGGCATAACC-AACAC
29918690 AAGTCCTGTAGCAGTCACACTTGTATAGCATAATCATTTGATTCTTGAATACTAAGTAGACTAAG
1 AAGTCCTGTAGCAGTCACACTTGTATAGCATAATCATTTGATTCTTGAATACTAAGTAGACTAAG
* *
29918755 ACAAACTAATGCGTCTTATAT-CTCATATCAACTCATTTGAGCATGGTCATGCATTTCTAGCCTC
66 ACAAACTAATGAGTCTTATATAC-CATATCAACTCATTTGAGCATGGTCATGCATTTATAGCCTC
* *
29918819 ACTTGATCAAAATACCTAACATATCACTCCTATTAAATAGGAGGGAAAAATCCTATCTTGATCAA
130 ACTTGATCAAAAAACCTAACATATCACTCCTATTAAATAGGAGAGAAAAATCCTATCTTGATCAA
*
29918884 TCACATCTCACTACATGGATTGTGGCATAACCAACAC
195 TCACATCTCACTACATAGATTGTGGCATAACCAACAC
** *
29918921 AAGTCCCATAGCAGTCACACTTGGATAGC
1 AAGTCCTGTAGCAGTCACACTTGTATAGC
29918950 CCTGTAGAAA
Statistics
Matches: 233, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
230 2 0.01
231 228 0.98
232 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (231 bp):
AAGTCCTGTAGCAGTCACACTTGTATAGCATAATCATTTGATTCTTGAATACTAAGTAGACTAAG
ACAAACTAATGAGTCTTATATACCATATCAACTCATTTGAGCATGGTCATGCATTTATAGCCTCA
CTTGATCAAAAAACCTAACATATCACTCCTATTAAATAGGAGAGAAAAATCCTATCTTGATCAAT
CACATCTCACTACATAGATTGTGGCATAACCAACAC
Found at i:29919438 original size:31 final size:33
Alignment explanation
Indices: 29919374--29919455 Score: 132
Period size: 31 Copynumber: 2.5 Consensus size: 33
29919364 TCAAGATTCC
29919374 AACAAATACCTTAATGCCTTTTGTCAAAAAAAAA
1 AACAAATACCTTAATGCCTTTTGT-AAAAAAAAA
*
29919408 AACAAATACCTTAGTGCCTTTT-T-AAAAAAAA
1 AACAAATACCTTAATGCCTTTTGTAAAAAAAAA
29919439 AACAAATACCTTAATGC
1 AACAAATACCTTAATGC
29919456 TTACATGATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
31 24 0.52
33 1 0.02
34 21 0.46
ACGTcount: A:0.49, C:0.18, G:0.06, T:0.27
Consensus pattern (33 bp):
AACAAATACCTTAATGCCTTTTGTAAAAAAAAA
Found at i:29934565 original size:101 final size:101
Alignment explanation
Indices: 29934390--29934593 Score: 408
Period size: 101 Copynumber: 2.0 Consensus size: 101
29934380 TACATGTTCG
29934390 AACATGAGTGTGGGGATATGACTCTCCAAGATCTCTCTAAATACATGGAATAAAGCTAAGAGAAA
1 AACATGAGTGTGGGGATATGACTCTCCAAGATCTCTCTAAATACATGGAATAAAGCTAAGAGAAA
29934455 ACTGAACAAACCTATTTGTACCTAGTACTCGTACCT
66 ACTGAACAAACCTATTTGTACCTAGTACTCGTACCT
29934491 AACATGAGTGTGGGGATATGACTCTCCAAGATCTCTCTAAATACATGGAATAAAGCTAAGAGAAA
1 AACATGAGTGTGGGGATATGACTCTCCAAGATCTCTCTAAATACATGGAATAAAGCTAAGAGAAA
29934556 ACTGAACAAACCTATTTGTACCTAGTACTCGTACCT
66 ACTGAACAAACCTATTTGTACCTAGTACTCGTACCT
29934592 AA
1 AA
29934594 GTCCAAGGTG
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 103 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (101 bp):
AACATGAGTGTGGGGATATGACTCTCCAAGATCTCTCTAAATACATGGAATAAAGCTAAGAGAAA
ACTGAACAAACCTATTTGTACCTAGTACTCGTACCT
Found at i:29937332 original size:21 final size:20
Alignment explanation
Indices: 29937292--29937331 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
29937282 TCACTAGGCA
29937292 ACTTTTTTTTTGCGGTTTTT
1 ACTTTTTTTTTGCGGTTTTT
*
29937312 ACTTTTTTTTTGCTGTTTTT
1 ACTTTTTTTTTGCGGTTTTT
29937332 TTTAGCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.10, G:0.12, T:0.72
Consensus pattern (20 bp):
ACTTTTTTTTTGCGGTTTTT
Found at i:29939521 original size:32 final size:30
Alignment explanation
Indices: 29939481--29939547 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
29939471 AATATATTTA
*
29939481 TTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTTAATTTT-AAA-ATTTTTAAAATAAT
**
29939513 TTTTTTTAATTTTTTAATTTTTAAAATAAT
1 TTTTTTTAATTTTAAAATTTTTAAAATAAT
29939543 TTTTT
1 TTTTT
29939548 GGTATTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 18 0.56
31 1 0.03
32 13 0.41
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTTTTAATTTTAAAATTTTTAAAATAAT
Found at i:29941570 original size:21 final size:19
Alignment explanation
Indices: 29941529--29941575 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
29941519 TAAATAATGT
*
29941529 AAAAATTTTAAAGGTTAAA
1 AAAAATTTTAAAAGTTAAA
*
29941548 AAAAAGTTTATAAAAGTTCAA
1 AAAAA-TTT-TAAAAGTTAAA
29941569 AAAAATT
1 AAAAATT
29941576 AGCATGAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 5 0.21
21 14 0.58
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (19 bp):
AAAAATTTTAAAAGTTAAA
Found at i:29947413 original size:19 final size:20
Alignment explanation
Indices: 29947368--29947414 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 20
29947358 AATTACAAAA
29947368 TATAAAAGAAATATATGTACATG
1 TATAAAAGAAATATATG---ATG
29947391 TATAAAAGAAATATATG-TG
1 TATAAAAGAAATATATGATG
29947410 TATAA
1 TATAA
29947415 CAAAGTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
23 17 0.71
ACGTcount: A:0.53, C:0.02, G:0.13, T:0.32
Consensus pattern (20 bp):
TATAAAAGAAATATATGATG
Found at i:29947472 original size:3 final size:3
Alignment explanation
Indices: 29947466--29947491 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29947456 AGTAGCAATT
29947466 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
29947492 TTGAAAGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:29947674 original size:12 final size:12
Alignment explanation
Indices: 29947643--29947681 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
29947633 AGATAAAAAC
*
29947643 TAATAATAACAAG
1 TAATAATAA-TAG
*
29947656 CAATAATAATAG
1 TAATAATAATAG
29947668 TAATAATAATAG
1 TAATAATAATAG
29947680 TA
1 TA
29947682 CCAAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:29949822 original size:43 final size:42
Alignment explanation
Indices: 29949694--29949823 Score: 142
Period size: 43 Copynumber: 3.0 Consensus size: 42
29949684 CATAGGATTT
*
29949694 TCGATATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGTTA-CGTGTAAGACCGCGTCTGGGACGTTGGCA
*
29949737 TCGACT-TGTGTTTACGTGTAAGA--GTCTGTCTAGGACAG-TGGCA
1 TCGA-TATGTG-TTACGTGTAAGACCG-C-GTCTGGGAC-GTTGGCA
*
29949780 TCGATATGTGATTACATGTAAGACCGCGTCTGGGACGTTGGCA
1 TCGATATGTG-TTACGTGTAAGACCGCGTCTGGGACGTTGGCA
29949823 T
1 T
29949824 TGTACGAGTT
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
42 3 0.04
43 63 0.86
44 6 0.08
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (42 bp):
TCGATATGTGTTACGTGTAAGACCGCGTCTGGGACGTTGGCA
Found at i:29950492 original size:14 final size:15
Alignment explanation
Indices: 29950468--29950502 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
29950458 TACTTTAATC
29950468 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
29950483 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
29950498 ATGGT
1 ATGGT
29950503 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:29950864 original size:21 final size:21
Alignment explanation
Indices: 29950840--29950880 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29950830 AAAAAATTGA
* *
29950840 ATATGTGCTGTTCAATTTTGT
1 ATATATGCTGTTAAATTTTGT
29950861 ATATATGCTGTTAAATTTTG
1 ATATATGCTGTTAAATTTTG
29950881 ACGTATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.51
Consensus pattern (21 bp):
ATATATGCTGTTAAATTTTGT
Found at i:29950924 original size:47 final size:47
Alignment explanation
Indices: 29950862--29951250 Score: 637
Period size: 47 Copynumber: 8.4 Consensus size: 47
29950852 CAATTTTGTA
* *
29950862 TATATGCTGTTAAATTTTGACGTATAAATGCAGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
* *
29950909 TATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTATATGTG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
29950956 TATATGCTGTCAAATTTTGATGTAT-AATGCAGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
29951002 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
*
29951049 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATAAG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
29951096 TATATGCTGTCAAATTTTGATGTAT-AATGCAGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
* *
29951142 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTA
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
* * *
29951187 TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTA
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
*
29951232 TATATGCTGTCCAATTTTG
1 TATATGCTGTCAAATTTTG
29951251 GTGAAAAAAA
Statistics
Matches: 327, Mismatches: 13, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
45 63 0.19
46 91 0.28
47 173 0.53
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (47 bp):
TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
Found at i:29951005 original size:93 final size:94
Alignment explanation
Indices: 29950862--29951250 Score: 637
Period size: 93 Copynumber: 4.2 Consensus size: 94
29950852 CAATTTTGTA
* * *
29950862 TATATGCTGTTAAATTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTATCAAATTTT
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
*
29950927 GATGTATAAATGCAGTCCAATTATATGTG
66 GATGTATAAATGCAGTCCAATTATATATG
29950956 TATATGCTGTCAAATTTTGATGTAT-AATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
29951020 GATGTATAAATGCAGTCCAATTATATATG
66 GATGTATAAATGCAGTCCAATTATATATG
*
29951049 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATAAGTATATGCTGTCAAATTTT
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
29951114 GATGTAT-AATGCAGTCCAATTATATATG
66 GATGTATAAATGCAGTCCAATTATATATG
* * *
29951142 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTATATATGCTGTTAAATTTT
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
* *
29951205 GATGTATAAATGCAGTCCAATT-T-TGTA
66 GATGTATAAATGCAGTCCAATTATATATG
*
29951232 TATATGCTGTCCAATTTTG
1 TATATGCTGTCAAATTTTG
29951251 GTGAAAAAAA
Statistics
Matches: 281, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
90 20 0.07
91 26 0.09
92 15 0.05
93 152 0.54
94 68 0.24
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (94 bp):
TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
GATGTATAAATGCAGTCCAATTATATATG
Found at i:29951017 original size:140 final size:140
Alignment explanation
Indices: 29950862--29951250 Score: 660
Period size: 140 Copynumber: 2.8 Consensus size: 140
29950852 CAATTTTGTA
* * *
29950862 TATATGCTGTTAAATTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTATCAAATTTT
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
29950927 GATGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATTTTGATGTATAATGCAGTCCA
66 GATGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATTTTGATGTATAATGCAGTCCA
29950992 ATTATATATG
131 ATTATATATG
29951002 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
**
29951067 GATGTATAAATGCAGTCCAATTATATAAGTATATGCTGTCAAATTTTGATGTATAATGCAGTCCA
66 GATGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATTTTGATGTATAATGCAGTCCA
29951132 ATTATATATG
131 ATTATATATG
* * *
29951142 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTATATATGCTGTTAAATTTT
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
* *
29951205 GATGTATAAATGCAGTCCAATT-T-TGTATATATGCTGTCCAATTTTG
66 GATGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATTTTG
29951251 GTGAAAAAAA
Statistics
Matches: 237, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
136 19 0.08
137 1 0.00
138 41 0.17
139 1 0.00
140 175 0.74
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (140 bp):
TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
GATGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATTTTGATGTATAATGCAGTCCA
ATTATATATG
Found at i:29951296 original size:23 final size:23
Alignment explanation
Indices: 29951270--29951321 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
29951260 AAATGTTGCT
*
29951270 CAAATTGTTGTATATATGCTGCC
1 CAAATTGCTGTATATATGCTGCC
*
29951293 CAAATTGCTGTATATATGCTGTC
1 CAAATTGCTGTATATATGCTGCC
29951316 CAAATT
1 CAAATT
29951322 TTGGTGTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (23 bp):
CAAATTGCTGTATATATGCTGCC
Found at i:29951377 original size:23 final size:23
Alignment explanation
Indices: 29951145--29951378 Score: 79
Period size: 23 Copynumber: 10.0 Consensus size: 23
29951135 ATATATGTAT
*
29951145 ATGCTGT-CAAATTTTGATGTATAA
1 ATGCTGTCCAAA--TTGGTGTATAA
* * *
29951169 ATGCAGTCC-AATT-TTGTATAT
1 ATGCTGTCCAAATTGGTGTATAA
* *
29951190 ATGCTGT-TAAATTTTGATGTATAA
1 ATGCTGTCCAAA--TTGGTGTATAA
* * *
29951214 ATGCAGTCC-AATT-TTGTATAT
1 ATGCTGTCCAAATTGGTGTATAA
* * *
29951235 ATGCTGTCCAATTTTGGTGAAAAAAAA
1 ATGCTGTCCAA-ATTGGTG---TATAA
* * *
29951262 ATGTTG-CTCAAATTGTTGTATAT
1 ATGCTGTC-CAAATTGGTGTATAA
* * *
29951285 ATGCTGCCCAAATTGCTGTATAT
1 ATGCTGTCCAAATTGGTGTATAA
29951308 ATGCTGTCCAAATTTTGGTGTGA-AA
1 ATGCTGTCCAAA--TTGGTGT-ATAA
* * ** *
29951333 ATGCTATCTAGTTTGGTATATAA
1 ATGCTGTCCAAATTGGTGTATAA
* *
29951356 ATGCTGTCCAGATTGATGTATAA
1 ATGCTGTCCAAATTGGTGTATAA
29951379 TAGTTGTCCA
Statistics
Matches: 154, Mismatches: 38, Indels: 37
0.67 0.17 0.16
Matches are distributed among these distances:
21 28 0.18
22 6 0.04
23 62 0.40
24 25 0.16
25 16 0.10
26 7 0.05
27 10 0.06
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (23 bp):
ATGCTGTCCAAATTGGTGTATAA
Found at i:29957333 original size:43 final size:42
Alignment explanation
Indices: 29957259--29957388 Score: 158
Period size: 43 Copynumber: 3.0 Consensus size: 42
29957249 CGCAGGATTT
*
29957259 TCGATATGTGTTATCGTGTAAAACCACGTCTGGGACGTTGGCA
1 TCGATATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCA
*
29957302 TCGACT-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGTA
1 TCGA-TATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
*
29957345 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCA
29957388 T
1 T
29957389 TGTACGAGTT
Statistics
Matches: 75, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
42 3 0.04
43 66 0.88
44 6 0.08
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
TCGATATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:29958057 original size:14 final size:15
Alignment explanation
Indices: 29958033--29958067 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
29958023 TACTTTAATC
29958033 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
29958048 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
29958063 ATGGT
1 ATGGT
29958068 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:29958487 original size:23 final size:22
Alignment explanation
Indices: 29958416--29958511 Score: 70
Period size: 24 Copynumber: 4.2 Consensus size: 22
29958406 TGTGCTGTTC
* * *
29958416 AATTTTG-TATATATGCTGTTA
1 AATTTTGATGTATATGCAGTCA
*
29958437 AATTTTGATGTATAAATGCAGTCC
1 AATTTTGATGTAT--ATGCAGTCA
*
29958461 AATTATAT-ATGTATATGCTGTCA
1 AATT-T-TGATGTATATGCAGTCA
*
29958484 AATTTTGATGTATAAATGCAGTCG
1 AATTTTGATGTAT--ATGCAGTCA
29958508 AATT
1 AATT
29958512 ATATGTGTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
21 8 0.14
22 11 0.19
23 11 0.19
24 21 0.36
25 7 0.12
26 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (22 bp):
AATTTTGATGTATATGCAGTCA
Found at i:29958487 original size:47 final size:47
Alignment explanation
Indices: 29958425--29958915 Score: 701
Period size: 47 Copynumber: 10.4 Consensus size: 47
29958415 CAATTTTGTA
*
29958425 TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
*
29958472 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCGAATTATATGTGTATATATGTG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTC----CA-A--T-TATATA--TG
29958529 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
*
29958576 TATATGCTGTCAAATTTTGATGTAT-AATGCGGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
* *
29958622 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTA
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
*
29958667 TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
* *
29958714 TATATGCTGTCAAATTTTGATGTAT-AATACAATCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
* *
29958760 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTA
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
* *
29958805 TATATGTTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
* *
29958852 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTA
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
*
29958897 TATATGCTGTCCAATTTTG
1 TATATGCTGTCAAATTTTG
29958916 GTGAAAAAAA
Statistics
Matches: 402, Mismatches: 26, Indels: 34
0.87 0.06 0.07
Matches are distributed among these distances:
45 101 0.25
46 94 0.23
47 152 0.38
49 6 0.01
50 1 0.00
51 1 0.00
52 2 0.00
53 1 0.00
54 1 0.00
55 6 0.01
57 37 0.09
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (47 bp):
TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
Found at i:29958686 original size:138 final size:138
Alignment explanation
Indices: 29958529--29958915 Score: 679
Period size: 138 Copynumber: 2.8 Consensus size: 138
29958519 TATATATGTG
*
29958529 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
1 TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
*
29958594 GATGTATAATGCGGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCA
66 GATGTATAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCA
29958659 ATTTTGTA
131 ATTTTGTA
29958667 TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
1 TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
* *
29958732 GATGTATAATACAATCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCA
66 GATGTATAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCA
29958797 ATTTTGTA
131 ATTTTGTA
*
29958805 TATATGTTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
1 TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
* * *
29958870 GATGTATAAATGCAGTCCAATT-T-TGTATATATGCTGTCCAATTTTG
66 GATGTAT-AATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTG
29958916 GTGAAAAAAA
Statistics
Matches: 238, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
137 20 0.08
138 206 0.87
139 12 0.05
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (138 bp):
TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
GATGTATAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCA
ATTTTGTA
Found at i:29958735 original size:92 final size:94
Alignment explanation
Indices: 29958521--29958915 Score: 617
Period size: 92 Copynumber: 4.3 Consensus size: 94
29958511 TATATGTGTA
29958521 TATATGTGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGT
1 TATATGTGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGT
*
29958586 CAAATTTTGATGTAT-AATGCGGTCCAAT
66 CAAATTTTGATGTATAAATGCAGTCCAAT
* * *
29958614 TATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTATATATGCTGT
1 TATATGTGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGT
*
29958677 TAAATTTTGATGTATAAATGCAGTCCAAT
66 CAAATTTTGATGTATAAATGCAGTCCAAT
* * *
29958706 TATATATGTATATGCTGTCAAATTTTGATGTAT-AATACAATCCAATTATATATGTATATGCTGT
1 TATATGTGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGT
29958770 CAAATTTTGATGTATAAATGCAGTCCAAT
66 CAAATTTTGATGTATAAATGCAGTCCAAT
* * *
29958799 T-T-TGTATATATGTTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGT
1 TATATGTGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGT
29958862 CAAATTTTGATGTATAAATGCAGTCCAAT
66 CAAATTTTGATGTATAAATGCAGTCCAAT
* *
29958891 T-T-TGTATATATGCTGTCCAATTTTG
1 TATATGTGTATATGCTGTCAAATTTTG
29958916 GTGAAAAAAA
Statistics
Matches: 279, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
91 63 0.23
92 128 0.46
93 88 0.32
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (94 bp):
TATATGTGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGT
CAAATTTTGATGTATAAATGCAGTCCAAT
Found at i:29958960 original size:23 final size:23
Alignment explanation
Indices: 29958934--29958985 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
29958924 AAATGTTGCT
*
29958934 CAAATTGTTGTATATATGCTGCC
1 CAAATTGCTGTATATATGCTGCC
*
29958957 CAAATTGCTGTATATATGCTGTC
1 CAAATTGCTGTATATATGCTGCC
29958980 CAAATT
1 CAAATT
29958986 TTGATGTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (23 bp):
CAAATTGCTGTATATATGCTGCC
Found at i:29959436 original size:44 final size:44
Alignment explanation
Indices: 29959376--29959710 Score: 212
Period size: 44 Copynumber: 7.7 Consensus size: 44
29959366 TGTTTCAATC
* *
29959376 TGCTCCACTACTACTTCAAGGAGATAAGATTGGTATCTTCAACT
1 TGCTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACT
* * * * * *
29959420 TGCTCCACTGTAACTTCAGGGAGGTAAGGTTTGCTATCTTC-AGT
1 TGCTCCACTGCAACTTCAAGGAGATAA-GATTGGTATCTTCAACT
*
29959464 CTGCTCCACTGCAACTTC-AGGAAGATAAGACTTGTTA-CTTCAA-T
1 -TGCTCCACTGCAACTTCAAGG-AGATAAGA-TTGGTATCTTCAACT
* * ** *
29959508 CTGCTCTATTGCAACTTCAAGG-GATAAGATTCATCAT-TTTAA-T
1 -TGCTCCACTGCAACTTCAAGGAGATAAGATTGGT-ATCTTCAACT
** *
29959551 TCGCTCCACTGCAACTTCATTGAGATAAGACTT-GTATCTTCAACC
1 T-GCTCCACTGCAACTTCAAGGAGATAAGA-TTGGTATCTTCAACT
* * * * * *
29959596 TGTTCCACTGCAACTTCAATGAGATAGGACTT-G--TCATGATC-
1 TGCTCCACTGCAACTTCAAGGAGATAAGA-TTGGTATCTTCAACT
* * * *
29959637 TGCTCTACTGCAACTTC-AGAGAGATAAGATCTGCTATTTTC-AGT
1 TGCTCCACTGCAACTTCAAG-GAGATAAGAT-TGGTATCTTCAACT
*
29959681 CTGCTCCACTGCAACTTCAGGGAGATAAGA
1 -TGCTCCACTGCAACTTCAAGGAGATAAGA
29959711 CTTGTTATGG
Statistics
Matches: 227, Mismatches: 43, Indels: 41
0.73 0.14 0.13
Matches are distributed among these distances:
40 2 0.01
41 24 0.11
42 9 0.04
43 31 0.14
44 91 0.40
45 69 0.30
46 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACT
Found at i:29959707 original size:86 final size:85
Alignment explanation
Indices: 29959373--29959715 Score: 270
Period size: 87 Copynumber: 4.0 Consensus size: 85
29959363 AGTTGTTTCA
* * * *
29959373 ATCTGCTCCACTACTACTTCA-AGGAGATAAGA-TTGGTATCTTCAACTTGCTCCACTGTAACTT
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGACTT-GTATCTTCAACCTGCTCCACTGCAACTT
* * ** * *
29959436 CAGGGAGGTAAGGTTTGCTATCTTC
64 CAAGGAGATAAGACTTG---TCATG
* * *
29959461 AGTCTGCTCCACTGCAACTTCAG-GAAGATAAGACTTGT-TACTTCAATCTGCTCTATTGCAACT
1 A-TCTGCTCCACTGCAACTTCAGAG-AGATAAGACTTGTAT-CTTCAACCTGCTCCACTGCAACT
* *
29959524 TCAAGG-GATAAGA-TTCATCATTTTA
63 TCAAGGAGATAAGACTT-GTCA---TG
** *
29959549 AT-TCGCTCCACTGCAACTTCATTGAGATAAGACTTGTATCTTCAACCTGTTCCACTGCAACTTC
1 ATCT-GCTCCACTGCAACTTCAGAGAGATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTC
* *
29959613 AATGAGATAGGACTTGTCATG
65 AAGGAGATAAGACTTGTCATG
* * **
29959634 ATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGCTATTTTCAGTCTGCTCCACTGCAACTT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TG-TATCTTCAACCTGCTCCACTGCAACTT
*
29959698 CAGGGAGATAAGACTTGT
64 CAAGGAGATAAGACTTGT
29959716 TATGGAGGAT
Statistics
Matches: 206, Mismatches: 32, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
84 1 0.00
85 32 0.16
86 40 0.19
87 57 0.28
88 21 0.10
89 53 0.26
90 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (85 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCA
AGGAGATAAGACTTGTCATG
Found at i:29959879 original size:49 final size:47
Alignment explanation
Indices: 29959772--29959960 Score: 167
Period size: 45 Copynumber: 4.1 Consensus size: 47
29959762 TTATCGTTTT
* * * * * *
29959772 AATCCGCTCCACTGCAATTTTAGGGAGATAGGA-TT-AG-TAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGCTATCTTC
* * *
29959816 AATCTGCCCCACTGCAGCTTCAGGGAGATAAGATTTGTAGCCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-G-CTATCTTC
* * *
29959865 AATCTGCTCTACTGCAACTTCAGGGGGATAAG-GTT-TGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGCTATCTTC
* * * *
29959910 ACTCTGCTCCACTACAACTTCAGGGAGATGAGACTTGT-C-ATTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGCTATCTTC
29959955 AATCTG
1 AATCTG
29959961 TTCGCCAAGG
Statistics
Matches: 117, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
44 27 0.23
45 47 0.40
46 4 0.03
47 3 0.03
48 2 0.02
49 34 0.29
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (47 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGCTATCTTC
Found at i:29960040 original size:50 final size:50
Alignment explanation
Indices: 29959963--29960551 Score: 561
Period size: 50 Copynumber: 11.8 Consensus size: 50
29959953 TCAATCTGTT
* * *
29959963 CGCCAAGGAAGTAAGATTCACTGTTGTAGCTTCTATCTATTCCACTGCAC
1 CGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
* * * ** * *
29960013 CACCAAGGAAGTAAGATTCGCTGTTGTAGCCTCAATCTTTTTAACTGCAA
1 CGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
* * ** *
29960063 TGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
1 CGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
* * * * ** * *
29960113 CACCAAGGAAGTAAGATTCACTGTTGTAGCTTCAATATTTTTAACTGCAA
1 CGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
* * ** * *
29960163 TGTCGGGGAAGCAAGATTTGCTGTTGTAGCTTCAATCTATTCCACTACAC
1 CGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
* * * * * * *
29960213 CGCCAGGGAAATAAGATTCGTTGTTGTAGCTTCAATCTTTTCAACTGCAA
1 CGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
* * * *
29960263 TGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
1 CGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
* * * * * *
29960313 CGCCAAGGAAGTAAGATTCGCTGTTGTGGTTTCAATCTTTTCAACTGCAA
1 CGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
* * * * * * *
29960363 TGTCGAGGAAGCAAGATTAGCTGTTGTAGCTTCAATTTGTTCCACTACAC
1 CGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
* * ** *
29960413 CGCCAGGGAAGTAAGATTCGTTG-TGTTAGCTTCAATCT-TCTTAACTACAA
1 CGCCAAGGAAGTAAGATTCGCTGTTG-TAGCTTCAATCTAT-TCCACTACAC
* * ** * *
29960463 TGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACAC
1 CGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
*
29960513 CGCGAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTA
1 CGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTA
29960552 CAACACTTCA
Statistics
Matches: 418, Mismatches: 117, Indels: 8
0.77 0.22 0.01
Matches are distributed among these distances:
49 3 0.01
50 412 0.99
51 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (50 bp):
CGCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACAC
Found at i:29960142 original size:100 final size:100
Alignment explanation
Indices: 29959969--29960550 Score: 896
Period size: 100 Copynumber: 5.8 Consensus size: 100
29959959 TGTTCGCCAA
* * * * *
29959969 GGAAGTAAGATTCACTGTTGTAGCTTCTATCTATTCCACTGCACCACCAAGGAAGTAAGATTCGC
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
*
29960034 TGTTGTAGCCTCAATCTTTTTAACTGCAATGTCGG
66 TGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGG
* *
29960069 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCACCAAGGAAGTAAGATTCAC
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
*
29960134 TGTTGTAGCTTCAATATTTTTAACTGCAATGTCGG
66 TGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGG
* * * *
29960169 GGAAGCAAGATTTGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAGGGAAATAAGATTCGT
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
* *
29960234 TGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGA
66 TGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGG
29960269 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
* * * *
29960334 TGTTGTGGTTTCAATCTTTTCAACTGCAATGTCGA
66 TGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGG
* * * * *
29960369 GGAAGCAAGATTAGCTGTTGTAGCTTCAATTTGTTCCACTACACCGCCAGGGAAGTAAGATTCGT
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
* *
29960434 TG-TGTTAGCTTCAATCTTCTTAACTACAATGTCGG
66 TGTTG-TAGCTTCAATCTTTTTAACTGCAATGTCGG
* *
29960469 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCGAAGGAAGTAAGATTCGC
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
29960534 TGTTGTAGCTTCAATCT
66 TGTTGTAGCTTCAATCT
29960551 ACAACACTTC
Statistics
Matches: 442, Mismatches: 38, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
99 2 0.00
100 438 0.99
101 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (100 bp):
GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
TGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGG
Found at i:29962610 original size:51 final size:51
Alignment explanation
Indices: 29962534--29962710 Score: 241
Period size: 51 Copynumber: 3.4 Consensus size: 51
29962524 ACTTCTGATC
*
29962534 AGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
29962585 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
29962636 AGTGACAAGTGATAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
1 AGTGAC-------AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
29962693 A-TAGATAAATGATAAGTG
1 AGT-GACAAGTGATAAGTG
29962711 ATTCCGTGTA
Statistics
Matches: 115, Mismatches: 3, Indels: 17
0.85 0.02 0.13
Matches are distributed among these distances:
50 11 0.10
51 56 0.49
56 1 0.01
57 30 0.26
58 17 0.15
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:29962640 original size:58 final size:57
Alignment explanation
Indices: 29962578--29962693 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 57
29962568 TTATCTGATC
29962578 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
*
29962636 AGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
29962693 A
1 A
29962694 TAGATAAATG
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
57 28 0.49
58 29 0.51
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (57 bp):
AGTGACAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:29962706 original size:57 final size:58
Alignment explanation
Indices: 29962578--29962712 Score: 211
Period size: 57 Copynumber: 2.3 Consensus size: 58
29962568 TTATCTGATC
* *
29962578 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAATGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
29962636 AGTGACAAGTGATAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAATGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
29962693 A-TAGATAAATGATAAGTGAT
1 AGT-GACAAATGATAAGTGAT
29962713 TCCGTGTAAG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
56 1 0.01
57 43 0.59
58 29 0.40
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (58 bp):
AGTGACAAATGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:29964638 original size:5 final size:5
Alignment explanation
Indices: 29964628--29964670 Score: 61
Period size: 5 Copynumber: 8.4 Consensus size: 5
29964618 TCTCTCCTTC
29964628 TTCTT TTCTT TTCTTT TTCTT TTCTT TTCTT CTTCTT TT-TT TT
1 TTCTT TTCTT TTC-TT TTCTT TTCTT TTCTT -TTCTT TTCTT TT
29964671 ATGAAACATT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.11
5 22 0.61
6 10 0.28
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:29964645 original size:11 final size:11
Alignment explanation
Indices: 29964631--29964667 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
29964621 CTCCTTCTTC
29964631 TTTTCTTTTCT
1 TTTTCTTTTCT
29964642 TTTTCTTTTC-
1 TTTTCTTTTCT
29964652 TTTTCTTCTTCT
1 TTTTCTT-TTCT
29964664 TTTT
1 TTTT
29964668 TTTATGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 7 0.29
11 13 0.54
12 4 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:29964649 original size:16 final size:16
Alignment explanation
Indices: 29964624--29964670 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
29964614 TTGGTCTCTC
29964624 CTTCTTCTTTTCTTTT
1 CTTCTTCTTTTCTTTT
*
29964640 CTTTTTCTTTTCTTTT
1 CTTCTTCTTTTCTTTT
29964656 CTTCTTCTTTT-TTTT
1 CTTCTTCTTTTCTTTT
29964671 ATGAAACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 4 0.14
16 25 0.86
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
CTTCTTCTTTTCTTTT
Found at i:29968217 original size:15 final size:15
Alignment explanation
Indices: 29968197--29968235 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
29968187 TCAAAAACTG
29968197 TTAGTTAGTTAGCAA
1 TTAGTTAGTTAGCAA
*
29968212 TTAGTTAGTTAGCGA
1 TTAGTTAGTTAGCAA
*
29968227 TTGGTTAGT
1 TTAGTTAGT
29968236 AGTAGTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.44
Consensus pattern (15 bp):
TTAGTTAGTTAGCAA
Found at i:29968799 original size:18 final size:16
Alignment explanation
Indices: 29968776--29968823 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
29968766 AAAAAAAGTC
*
29968776 ATTTTAGTTTTTTATTTT
1 ATTTTA-TTTTTTA-TCT
29968794 ATTTTATTTTATTATCT
1 ATTTTATTTT-TTATCT
*
29968811 ATTTTAATTTTTA
1 ATTTTATTTTTTA
29968824 AACTTCTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 3 0.11
17 15 0.56
18 9 0.33
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (16 bp):
ATTTTATTTTTTATCT
Found at i:29970311 original size:13 final size:13
Alignment explanation
Indices: 29970293--29970317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29970283 GAATTCAAAA
29970293 TCAGCTAGCTAAC
1 TCAGCTAGCTAAC
29970306 TCAGCTAGCTAA
1 TCAGCTAGCTAA
29970318 ATTTAGACGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (13 bp):
TCAGCTAGCTAAC
Found at i:29972222 original size:21 final size:22
Alignment explanation
Indices: 29972184--29972226 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
29972174 TGAAACACGA
29972184 GAGGAGTGTCATTTTTTTCTTT
1 GAGGAGTGTCATTTTTTTCTTT
29972206 GAGGAGTGTCA-TTTTTTCTTT
1 GAGGAGTGTCATTTTTTTCTTT
29972227 CTTTGTGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.14, C:0.09, G:0.23, T:0.53
Consensus pattern (22 bp):
GAGGAGTGTCATTTTTTTCTTT
Done.