Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 353 of 356
Found at i:113104071 original size:108 final size:108
Alignment explanation
Indices: 113103944--113104148 Score: 365
Period size: 108 Copynumber: 1.9 Consensus size: 108
113103934 GTCCTTGTAC
* *
113103944 TGAAGAGAGAGGCACCCTCAAGATTTTATCACTTAATTTTGGAGAGAGCTTAGGAAAAGCTTTCG
1 TGAAGAGAGAGGCACCCTCAAGAGTTTATCACTTAATTTTGAAGAGAGCTTAGGAAAAGCTTTCG
* *
113104009 ATGCCTCAATTTTTGACGAAGATTTTATCCGAAGAGTTACCAT
66 ATGCCTCAACTTTGGACGAAGATTTTATCCGAAGAGTTACCAT
113104052 TGAAGAGAGAGGCACCCTCAAGAGTTTATCACTTAATTTTGAAGAGAGCTTAGGAAAAGCTTTCG
1 TGAAGAGAGAGGCACCCTCAAGAGTTTATCACTTAATTTTGAAGAGAGCTTAGGAAAAGCTTTCG
*
113104117 ATGCCTCCACTTTGGACGAAGATTTTATCCGA
66 ATGCCTCAACTTTGGACGAAGATTTTATCCGA
113104149 CTACTCTTGA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 92 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (108 bp):
TGAAGAGAGAGGCACCCTCAAGAGTTTATCACTTAATTTTGAAGAGAGCTTAGGAAAAGCTTTCG
ATGCCTCAACTTTGGACGAAGATTTTATCCGAAGAGTTACCAT
Found at i:113108969 original size:18 final size:18
Alignment explanation
Indices: 113108946--113108981 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
113108936 TAGAATGTTC
113108946 CATGGTGGCTAACTTTCT
1 CATGGTGGCTAACTTTCT
*
113108964 CATGGTGGCTAAGTTTCT
1 CATGGTGGCTAACTTTCT
113108982 TAGGGGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (18 bp):
CATGGTGGCTAACTTTCT
Found at i:113114235 original size:3 final size:3
Alignment explanation
Indices: 113114215--113114263 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
113114205 CAAGTGATTT
* * *
113114215 ATC ATC AAC ATG ACC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
113114263 A
1 A
113114264 CACCATTCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.33, G:0.02, T:0.29
Consensus pattern (3 bp):
ATC
Found at i:113117020 original size:26 final size:25
Alignment explanation
Indices: 113116977--113117025 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
113116967 AACCCCACTA
113116977 ACCCACAAACCCAAACAATAACCCTT
1 ACCCACAAACCCAAACAA-AACCCTT
*
113117003 ACCCA-AAACCCATTACAAAACCC
1 ACCCACAAACCCA-AACAAAACCC
113117026 AAATACCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.47, C:0.43, G:0.00, T:0.10
Consensus pattern (25 bp):
ACCCACAAACCCAAACAAAACCCTT
Found at i:113118149 original size:16 final size:18
Alignment explanation
Indices: 113118128--113118174 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
113118118 ATTAAATTTG
113118128 TAATATTAAT-TT-TATT
1 TAATATTAATATTATATT
113118144 TAATATTAATATTATATT
1 TAATATTAATATTATATT
* *
113118162 TACTATTATTATT
1 TAATATTAATATT
113118175 TTTAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 10 0.37
17 2 0.07
18 15 0.56
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATATTAATATTATATT
Found at i:113118161 original size:18 final size:17
Alignment explanation
Indices: 113118128--113118185 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 17
113118118 ATTAAATTTG
113118128 TAATATTAAT-TTTATT
1 TAATATTAATATTTATT
113118144 TAATATTAATATTATATT
1 TAATATTAATATT-TATT
* *
113118162 TACTATTATTATTT-TT
1 TAATATTAATATTTATT
*
113118178 AAATATTA
1 TAATATTA
113118186 GTGTACTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 18 0.50
17 3 0.08
18 15 0.42
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATATTAATATTTATT
Found at i:113118243 original size:17 final size:16
Alignment explanation
Indices: 113118195--113118243 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
113118185 AGTGTACTTT
*
113118195 GTATGTCTATATTATTA
1 GTATGTATATATT-TTA
*
113118212 TTATGTATAT-TTTTA
1 GTATGTATATATTTTA
113118227 GTATGTATATATATTTA
1 GTATGTATATAT-TTTA
113118244 TGAAGTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 12 0.44
16 3 0.11
17 12 0.44
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (16 bp):
GTATGTATATATTTTA
Found at i:113120561 original size:14 final size:15
Alignment explanation
Indices: 113120536--113120577 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
113120526 CAACTTTGCA
113120536 AATGACCTAAAAATT
1 AATGACCTAAAAATT
113120551 AATGA-CTAAAAATT
1 AATGACCTAAAAATT
*
113120565 AATGGCCTAAAAA
1 AATGACCTAAAAA
113120578 AAATAGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (15 bp):
AATGACCTAAAAATT
Found at i:113126240 original size:21 final size:21
Alignment explanation
Indices: 113126214--113126254 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
113126204 ATCTGCTCAA
*
113126214 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTGTGGAGTAC
113126235 ACTCCACCTGTTGTGGAGTA
1 ACTCCACCTGTTGTGGAGTA
113126255 TTGCTCGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGTTGTGGAGTAC
Found at i:113140815 original size:7 final size:7
Alignment explanation
Indices: 113140793--113140854 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
113140783 AACCCAATCT
113140793 TTATTT-
1 TTATTTA
113140799 TTATTT-
1 TTATTTA
113140805 TTATTTA
1 TTATTTA
113140812 TTATTT-
1 TTATTTA
* *
113140818 TTCTTTCT
1 TTATTT-A
113140826 TATATTTTA
1 T-TA-TTTA
113140835 TTATTTA
1 TTATTTA
113140842 TTATTTA
1 TTATTTA
113140849 TTATTT
1 TTATTT
113140855 TATTTTATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
6 17 0.35
7 23 0.48
8 3 0.06
9 2 0.04
10 3 0.06
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATTTA
Found at i:113140869 original size:22 final size:22
Alignment explanation
Indices: 113140799--113140863 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
113140789 ATCTTTATTT
113140799 TTATTT-TTATTTATTATTTT-
1 TTATTTATTATTTATTATTTTA
*
113140819 TCTTTCTTA-TATTTTATTA-TTTA
1 T-TAT-TTATTA-TTTATTATTTTA
113140842 TTATTTATTA-TT-TTATTTTA
1 TTATTTATTATTTATTATTTTA
113140862 TT
1 TT
113140864 TTATTTTAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
19 3 0.08
20 9 0.25
21 5 0.14
22 11 0.31
23 8 0.22
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (22 bp):
TTATTTATTATTTATTATTTTA
Found at i:113140869 original size:37 final size:36
Alignment explanation
Indices: 113140792--113140871 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 36
113140782 CAACCCAATC
*
113140792 TTTA-TTT-TTATTTTTATTTATTATTTTTCTTTCT
1 TTTATTTTATTATTTTTATTTATTATTTTTCTTTAT
*
113140826 TATATTTTATTATTTATTATTTATTATTTTAT-TTTAT
1 TTTATTTTATTATTT-TTATTTATTATTTT-TCTTTAT
113140863 TTTATTTTA
1 TTTATTTTA
113140872 GGTAAATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
34 3 0.08
35 3 0.08
36 6 0.15
37 26 0.67
38 1 0.03
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (36 bp):
TTTATTTTATTATTTTTATTTATTATTTTTCTTTAT
Found at i:113141991 original size:118 final size:118
Alignment explanation
Indices: 113141783--113142013 Score: 372
Period size: 118 Copynumber: 2.0 Consensus size: 118
113141773 TGTTTTCCAT
* * * *
113141783 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCTGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTAACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
113141848 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCTAA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCTAA
**
113141901 GGTTATGAGTATGGCTCAAATCGTGACTAACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTAACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
113141966 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
113142014 ACTGGAAATA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
118 103 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTAACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCTAA
Found at i:113158542 original size:21 final size:21
Alignment explanation
Indices: 113158516--113158556 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
113158506 ATCTGCTCAA
* *
113158516 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
113158537 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
113158557 TTGCTCATCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:113171633 original size:290 final size:290
Alignment explanation
Indices: 113171113--113171657 Score: 1081
Period size: 290 Copynumber: 1.9 Consensus size: 290
113171103 TAGCAGCCAT
113171113 AAACTTCTCTTTTGCATTTTTTACGAATCCCAAATTGTCTATTCTAAGCTCTCCCCTTAAGTTGT
1 AAACTTCTCTTTTGCATTTTTTACGAATCCCAAATTGTCTATTCTAAGCTCTCCCCTTAAGTTGT
113171178 TAATCAGTCTCAATTCACTTAGATCTGCACCGCCAGGGGACCCATCTTTATCCACTACAAACAAG
66 TAATCAGTCTCAATTCACTTAGATCTGCACCGCCAGGGGACCCATCTTTATCCACTACAAACAAG
113171243 CTTAACGTCTCAAGTGAAGTCAGCTTCCCTATTCCACGTGGCATATGAGTTAAGCCAAAACAAGA
131 CTTAACGTCTCAAGTGAAGTCAGCTTCCCTATTCCACGTGGCATATGAGTTAAGCCAAAACAAGA
113171308 ACAACACGGAAGATGGGTCAGATTCACCAATTTTTCAATCTTCTTTGGCAATTCTTGAAGTTGTC
196 ACAACACGGAAGATGGGTCAGATTCACCAATTTTTCAATCTTCTTTGGCAATTCTTGAAGTTGTC
113171373 AATCAGTCTATTCTAAGGCAATTCTTTGGC
261 AATCAGTCTATTCTAAGGCAATTCTTTGGC
113171403 AAACTTCTCTTTTGCATTTTTTACGAATCCCAAATTGTCTATTCTAAGCTCTCCCCTTAAGTTGT
1 AAACTTCTCTTTTGCATTTTTTACGAATCCCAAATTGTCTATTCTAAGCTCTCCCCTTAAGTTGT
*
113171468 TAATCAGTCTCAATTCACTTAGATCTGCACCGCCATGGGACCCATCTTTATCCACTACAAACAAG
66 TAATCAGTCTCAATTCACTTAGATCTGCACCGCCAGGGGACCCATCTTTATCCACTACAAACAAG
113171533 CTTAACGTCTCAAGTGAAGTCAGCTTCCCTATTCCACGTGGCATATGAGTTAAGCCAAAACAAGA
131 CTTAACGTCTCAAGTGAAGTCAGCTTCCCTATTCCACGTGGCATATGAGTTAAGCCAAAACAAGA
113171598 ACAACACGGAAGATGGGTCAGATTCACCAATTTTTCAATCTTCTTTGGCAATTCTTGAAG
196 ACAACACGGAAGATGGGTCAGATTCACCAATTTTTCAATCTTCTTTGGCAATTCTTGAAG
113171658 CTCATAACAC
Statistics
Matches: 254, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
290 254 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (290 bp):
AAACTTCTCTTTTGCATTTTTTACGAATCCCAAATTGTCTATTCTAAGCTCTCCCCTTAAGTTGT
TAATCAGTCTCAATTCACTTAGATCTGCACCGCCAGGGGACCCATCTTTATCCACTACAAACAAG
CTTAACGTCTCAAGTGAAGTCAGCTTCCCTATTCCACGTGGCATATGAGTTAAGCCAAAACAAGA
ACAACACGGAAGATGGGTCAGATTCACCAATTTTTCAATCTTCTTTGGCAATTCTTGAAGTTGTC
AATCAGTCTATTCTAAGGCAATTCTTTGGC
Found at i:113175064 original size:107 final size:108
Alignment explanation
Indices: 113174934--113175149 Score: 398
Period size: 107 Copynumber: 2.0 Consensus size: 108
113174924 AAAAAACACG
113174934 TCAAAAAATTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAAATTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
113174999 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
* *
113175042 TCAAAAATTTTAT-AGAGTAATTAACAAAAATTTTAATATAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAAATTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
*
113175106 AAAACTTATTCTAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
113175149 T
1 T
113175150 TTTTTGTTTA
Statistics
Matches: 105, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 93 0.89
108 12 0.11
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.44
Consensus pattern (108 bp):
TCAAAAAATTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:113185292 original size:39 final size:39
Alignment explanation
Indices: 113185239--113185313 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
113185229 AAATATGGTT
* *
113185239 TTAATTAATAATAAAACAAAATGGCATGGGGGAGTGAGA
1 TTAATTAATAATAAAACAAAATAGCATAGGGGAGTGAGA
*
113185278 TTAATTAATAATAAAATAAAATAGCATAGGGGAGTG
1 TTAATTAATAATAAAACAAAATAGCATAGGGGAGTG
113185314 GGATCAGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.25
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAATAGCATAGGGGAGTGAGA
Found at i:113186689 original size:134 final size:128
Alignment explanation
Indices: 113186444--113186799 Score: 369
Period size: 129 Copynumber: 2.7 Consensus size: 128
113186434 TAGGTGTTTG
* * * *
113186444 GCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCGAAACAATTGAA
1 GCAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTGCAATTT-CCGTTTGCTCAAAATAATTGAA
* * * * *
113186509 TAT-TCCTTCG-GTGTTCCACTCATGTCTTTTAAAAAATATCATTAAAACGAAAGAGATGTTCTA
65 TATCTCTTTAGAAT-TT-CACTCATGTCTTTTAAAAAAAATCATTAAAAC---A-A-ATGTTCGA
113186572 TATTTA
123 TATTTA
** *
113186578 GCAATTCATGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATTGAA
1 GCAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTGCAATTTC-CGTTTGCTCAAAATAATTGAA
* * * *
113186643 TGTCTCTTTAGAATTTCATTCATGT-TTTCTAAAAAAAA-CTTATAAAACAAATGTTCGGTATTT
65 TATCTCTTTAGAATTTCACTCATGTCTTT-TAAAAAAAATCAT-TAAAACAAATGTTCGATATTT
113186706 A
128 A
* * * * *
113186707 GCAGTTCGGGGAATAGTACCCTATCGTGTTGGGTTGCAATTTCCTATTTGCTCAAAATAATCGAA
1 GCAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTGCAATTTCC-GTTTGCTCAAAATAATTGAA
* *
113186772 TATCTCTTCAGAATTTCACTCATATCTT
65 TATCTCTTTAGAATTTCACTCATGTCTT
113186800 CCAAGGTGAG
Statistics
Matches: 187, Mismatches: 28, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
128 1 0.01
129 88 0.47
130 3 0.02
131 1 0.01
133 6 0.03
134 80 0.43
135 7 0.04
136 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (128 bp):
GCAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTGCAATTTCCGTTTGCTCAAAATAATTGAAT
ATCTCTTTAGAATTTCACTCATGTCTTTTAAAAAAAATCATTAAAACAAATGTTCGATATTTA
Found at i:113189624 original size:16 final size:17
Alignment explanation
Indices: 113189603--113189638 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
113189593 TAATTAGTAA
*
113189603 ATTTTAATTTTA-TATT
1 ATTTTAATTTAATTATT
113189619 ATTTTAATTTAATTATT
1 ATTTTAATTTAATTATT
113189636 ATT
1 ATT
113189639 GAATCGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTAATTTAATTATT
Found at i:113193081 original size:17 final size:17
Alignment explanation
Indices: 113193059--113193092 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
113193049 ACTATAAAAG
113193059 GAAAAATTGTCACCTTT
1 GAAAAATTGTCACCTTT
113193076 GAAAAATTGTCACCTTT
1 GAAAAATTGTCACCTTT
113193093 ATATATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
GAAAAATTGTCACCTTT
Found at i:113200503 original size:58 final size:61
Alignment explanation
Indices: 113200431--113200547 Score: 150
Period size: 58 Copynumber: 2.0 Consensus size: 61
113200421 AAAATTGAAT
* * * * *
113200431 AGTTGAGTAACTATTTTGTAGCTTTTTATGGTTGAGTGAC-AAAAAATATTT-TTAATAAC
1 AGTTGAGTAACTATTTTATAACTTTTTATAGTTAAATGACAAAAAAATATTTATTAATAAC
* *
113200490 AGTTGA-TGACTATTTTATAATTTTTTATAGTTAAATGACAAAAAAATATTTATTAATA
1 AGTTGAGTAACTATTTTATAACTTTTTATAGTTAAATGACAAAAAAATATTTATTAATA
113200548 GTTGAGTGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 26 0.53
59 17 0.35
60 6 0.12
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (61 bp):
AGTTGAGTAACTATTTTATAACTTTTTATAGTTAAATGACAAAAAAATATTTATTAATAAC
Found at i:113210880 original size:36 final size:36
Alignment explanation
Indices: 113210833--113210924 Score: 148
Period size: 36 Copynumber: 2.6 Consensus size: 36
113210823 GACCGTTTAA
113210833 GGTACTATTCACGTATACGGCACTATTCACGTATAC
1 GGTACTATTCACGTATACGGCACTATTCACGTATAC
** *
113210869 GGTACTATTCACGTATATAGCACTATTCACGTATAT
1 GGTACTATTCACGTATACGGCACTATTCACGTATAC
*
113210905 GGTACTGTTCACGTATACGG
1 GGTACTATTCACGTATACGG
113210925 TAGTTGGGAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (36 bp):
GGTACTATTCACGTATACGGCACTATTCACGTATAC
Found at i:113210926 original size:18 final size:18
Alignment explanation
Indices: 113210833--113210926 Score: 134
Period size: 18 Copynumber: 5.2 Consensus size: 18
113210823 GACCGTTTAA
113210833 GGTACTATTCACGTATAC
1 GGTACTATTCACGTATAC
*
113210851 GGCACTATTCACGTATAC
1 GGTACTATTCACGTATAC
*
113210869 GGTACTATTCACGTATAT
1 GGTACTATTCACGTATAC
* * *
113210887 AGCACTATTCACGTATAT
1 GGTACTATTCACGTATAC
*
113210905 GGTACTGTTCACGTATAC
1 GGTACTATTCACGTATAC
113210923 GGTA
1 GGTA
113210927 GTTGGGATTG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (18 bp):
GGTACTATTCACGTATAC
Found at i:113218722 original size:72 final size:72
Alignment explanation
Indices: 113218605--113218740 Score: 229
Period size: 72 Copynumber: 1.9 Consensus size: 72
113218595 ATGCAATGGG
*
113218605 AACATCTAATAAATCTGCCAACGCTTTCTCTCGCTACTTTTCCCAATTTAACATCGCTTCCGGAG
1 AACATCTAATAAATCTGCAAACGCTTTCTCTCGCTACTTTTCCCAATTTAACATCGCTTCCGGAG
113218670 TGGATTC
66 TGGATTC
* *
113218677 AACATCTAATAAATCTGCAAAGGCTTTCTCTCGTTGAC-TTTCCCAATTTAACATCGCTTCCGGA
1 AACATCTAATAAATCTGCAAACGCTTTCTCTCGCT-ACTTTTCCCAATTTAACATCGCTTCCGGA
113218741 TGAGATGCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
72 58 0.97
73 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (72 bp):
AACATCTAATAAATCTGCAAACGCTTTCTCTCGCTACTTTTCCCAATTTAACATCGCTTCCGGAG
TGGATTC
Found at i:113221696 original size:51 final size:51
Alignment explanation
Indices: 113221637--113221751 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
113221627 AACATTGCAA
* * *
113221637 GCTAAATTTGTTAAA-CTAGAACCAAATTGACAAAATGTTTAAAAGTTGTGG
1 GCTAAATTTGTTAAATCAAG-ACCAAATTGACAAAATGTGTAAAAGTTGAGG
* **
113221688 GCTAAATTTGTTAAATCAAGATCAAATTGACAAAATGTGTAAACTTTGAGG
1 GCTAAATTTGTTAAATCAAGACCAAATTGACAAAATGTGTAAAAGTTGAGG
*
113221739 GCTAAAGTTGTTA
1 GCTAAATTTGTTA
113221752 TTATACCAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 53 0.95
52 3 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (51 bp):
GCTAAATTTGTTAAATCAAGACCAAATTGACAAAATGTGTAAAAGTTGAGG
Found at i:113222153 original size:90 final size:90
Alignment explanation
Indices: 113222001--113222200 Score: 235
Period size: 90 Copynumber: 2.2 Consensus size: 90
113221991 CTAAGGGTGT
* *** * * * *
113222001 AAAAAGCCTTCAAACTTTT-TTTAAAAAATAATTAAGCCCCTGCTTTTTTTTTTGTACTCAATTG
1 AAAAAGCCCTCAAACTTTTAAAGAAAAAACAATTAAACCCCTGCATTTTTTTTTGCACTCAATTG
* *
113222065 GGTACTTTAACT-TTCAAAATGCATCA
66 GGTACTTGAACTATT-AAAATACAT-A
113222091 AAAAAGCCCTCAAACTTTTAAAGAAAAAACAATTAAACCCCTG-ATTTTTTTTTGCACTCAATTG
1 AAAAAGCCCTCAAACTTTTAAAGAAAAAACAATTAAACCCCTGCATTTTTTTTTGCACTCAATTG
* *
113222155 GGTGCTTGAACTATTAAAGTACATA
66 GGTACTTGAACTATTAAAATACATA
*
113222180 AAAAAGGCCCTCAAACCTTTA
1 AAAAA-GCCCTCAAACTTTTA
113222201 TAGTAGTTAA
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
89 6 0.06
90 68 0.72
91 20 0.21
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (90 bp):
AAAAAGCCCTCAAACTTTTAAAGAAAAAACAATTAAACCCCTGCATTTTTTTTTGCACTCAATTG
GGTACTTGAACTATTAAAATACATA
Found at i:113222321 original size:10 final size:10
Alignment explanation
Indices: 113222306--113222357 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
113222296 GGCACGACAA
113222306 TTTTTATATT
1 TTTTTATATT
*
113222316 TTTTTATA-A
1 TTTTTATATT
*
113222325 ATTTTATATT
1 TTTTTATATT
* *
113222335 TCTTTACATT
1 TTTTTATATT
113222345 TTTTTATAATT
1 TTTTTAT-ATT
113222356 TT
1 TT
113222358 CTTGCAACTT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
9 7 0.22
10 20 0.62
11 5 0.16
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTATATT
Found at i:113222348 original size:19 final size:19
Alignment explanation
Indices: 113222302--113222347 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
113222292 TTTTGGCACG
*
113222302 ACAATTTTTATATTTTTTT
1 ACAATTTTTATATTTCTTT
* *
113222321 ATAAATTTTATATTTCTTT
1 ACAATTTTTATATTTCTTT
113222340 AC-ATTTTT
1 ACAATTTTT
113222348 TTATAATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (19 bp):
ACAATTTTTATATTTCTTT
Found at i:113222495 original size:27 final size:27
Alignment explanation
Indices: 113222444--113222496 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
113222434 TTATTTTCTA
**
113222444 ATTTTTAATAAAATTTAATTTTTTTTT
1 ATTTTTAATAAAATTTAATAATTTTTT
113222471 ATTTTTAATAAAATTTAATAATTTTT
1 ATTTTTAATAAAATTTAATAATTTTT
113222497 ATAATTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTTTAATAAAATTTAATAATTTTTT
Found at i:113222504 original size:27 final size:27
Alignment explanation
Indices: 113222447--113222506 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
113222437 TTTTCTAATT
* * *
113222447 TTTAATAAAATTTAATTTTTTTTTATT
1 TTTAATAAAATTTAATATTTTTATATA
113222474 TTTAATAAAATTTAATAATTTTTATA-A
1 TTTAATAAAATTTAAT-ATTTTTATATA
113222501 TTTAAT
1 TTTAAT
113222507 TATTTATCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTAATAAAATTTAATATTTTTATATA
Found at i:113224403 original size:51 final size:51
Alignment explanation
Indices: 113224286--113224423 Score: 129
Period size: 51 Copynumber: 2.7 Consensus size: 51
113224276 GTAGATGTTA
* * *
113224286 GACATAATGTATAAACGTTGCA-AGCTAAATTTGTTAAACTAGAACCAAATT
1 GACAAAATGCATAAACGTTG-AGGGCTAAATTTGTTAAACTAGAACCAAATT
* * * * * *
113224337 GATAGAATGCATAAACGTTGTGGGTTAAATTTGTTAAATTA-AGATCAAATT
1 GACAAAATGCATAAACGTTGAGGGCTAAATTTGTTAAACTAGA-ACCAAATT
* *
113224388 GACAAAATG-ATTAAACTTTGAGGGCTAAAGTTGTTA
1 GACAAAATGCA-TAAACGTTGAGGGCTAAATTTGTTA
113224424 TTATACGTGT
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
50 2 0.03
51 68 0.97
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (51 bp):
GACAAAATGCATAAACGTTGAGGGCTAAATTTGTTAAACTAGAACCAAATT
Found at i:113225298 original size:130 final size:131
Alignment explanation
Indices: 113224944--113225327 Score: 389
Period size: 130 Copynumber: 2.9 Consensus size: 131
113224934 AGAGAATATA
* * * * * *
113224944 AGTGAAATTCTGAAGAGATATTCGATTATCTTGAACAAACGGGAAATTGCAACCCAGCACGATAG
1 AGTGAAATT-TGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAG
* * * * * * * *
113225009 GGTACTATTCCCCGAATTGCCAAACATCGAATATTGCCTTCGTTTTGATGAGTTTTTAGGAAGAT
65 GGCACTATTCCACGAATTGCCAAATATCGAATATCGCCTTCG-TTTGAAGAGATTTTAGAAAGAC
113225074 ACG
129 ACG
* * * **
113225077 AGTGAAATTTTGAGGGGATATTTGATTATTTTAAGCAAGTGAGAAATT-CATAACCCAACACGTT
1 AGTGAAA-TTTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGC--AACCCAACACGTT
* * * * * *
113225141 AGGGCACGATTCCACGAGTTGCCAAATATTGCATATCGCCTTTGTTT-AAGGGATTTTA-AAAGA
63 AGGGCACTATTCCACGAATTGCCAAATATCGAATATCGCCTTCGTTTGAAGAGATTTTAGAAAGA
*
113225204 CATG
128 CACG
* *
113225208 AGTGAAATCTTGAAGGGTTATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAG
1 AGTGAAAT-TTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAG
* * * * *
113225273 GGCACTATTCCGCGAATTGCTAAATATCGGATTTCGCCTTCGTTTTAA-AGATTTT
65 GGCACTATTCCACGAATTGCCAAATATCGAATATCGCCTTCGTTTGAAGAGATTTT
113225328 TTAAATGAAT
Statistics
Matches: 203, Mismatches: 42, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
130 59 0.29
131 47 0.23
132 10 0.05
133 39 0.19
134 48 0.24
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (131 bp):
AGTGAAATTTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGG
GCACTATTCCACGAATTGCCAAATATCGAATATCGCCTTCGTTTGAAGAGATTTTAGAAAGACAC
G
Found at i:113228160 original size:25 final size:25
Alignment explanation
Indices: 113228132--113228182 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
113228122 ATGTTTTACT
113228132 CTTTCAATTTCCGTAAGACATTTTC
1 CTTTCAATTTCCGTAAGACATTTTC
*
113228157 CTTTTAATTTCCGTAAGACATTTTC
1 CTTTCAATTTCCGTAAGACATTTTC
113228182 C
1 C
113228183 GTACTCTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.45
Consensus pattern (25 bp):
CTTTCAATTTCCGTAAGACATTTTC
Found at i:113228555 original size:14 final size:15
Alignment explanation
Indices: 113228533--113228609 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
113228523 CAATCAAACA
113228533 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
113228547 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
113228562 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
113228582 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
113228596 ACAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
113228610 ACTGGCAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 22 0.43
15 15 0.29
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:113228574 original size:20 final size:20
Alignment explanation
Indices: 113228549--113228588 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
113228539 AATATTTTCC
*
113228549 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
113228569 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
113228589 TCATTTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:113228594 original size:34 final size:35
Alignment explanation
Indices: 113228537--113228603 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
113228527 CAAACACCAG
*
113228537 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
113228572 AAAACATTTTCCAG-AAATCATTTTACAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
113228604 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:113229133 original size:17 final size:16
Alignment explanation
Indices: 113229082--113229137 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
113229072 GTATGATAAT
* *
113229082 TTTTTATTT-TATAAA
1 TTTTTATTTCTTTACA
113229097 TTTTATATTTCTTTACA
1 TTTT-TATTTCTTTACA
*
113229114 TTTTTATTTTTTTACGA
1 TTTTTATTTCTTTAC-A
113229131 TTTTTAT
1 TTTTTAT
113229138 AAAATTTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.11
16 15 0.43
17 16 0.46
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTTATTTCTTTACA
Found at i:113244501 original size:18 final size:18
Alignment explanation
Indices: 113244478--113244571 Score: 125
Period size: 18 Copynumber: 5.0 Consensus size: 18
113244468 CCCAACTACT
*
113244478 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
113244496 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
113244514 GTATACGTACGTGAATAGTACT
1 G--TA--TACGTGAATAGTACC
113244536 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
113244554 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
113244572 ATAAACGGTC
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
18 49 0.72
20 4 0.06
22 15 0.22
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:113244534 original size:40 final size:40
Alignment explanation
Indices: 113244481--113244558 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
113244471 AACTACTGTA
113244481 TACGTGAACAGTACCGTATACGTGAATAGTACCGTATACG
1 TACGTGAACAGTACCGTATACGTGAATAGTACCGTATACG
* *
113244521 TACGTGAATAGTACTGTATACGTGAATAGTACCGTATA
1 TACGTGAACAGTACCGTATACGTGAATAGTACCGTATA
113244559 TGTGAATAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (40 bp):
TACGTGAACAGTACCGTATACGTGAATAGTACCGTATACG
Found at i:113248117 original size:21 final size:22
Alignment explanation
Indices: 113248091--113248137 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
113248081 CTCTGCTCAA
*
113248091 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
113248112 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
113248134 ACTC
1 ACTC
113248138 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:113255260 original size:38 final size:38
Alignment explanation
Indices: 113255198--113255275 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 38
113255188 TAAGATTTCA
* * *
113255198 GGTTAAATCCCACAAGCTTCGTGCTGGTCTTATATCCG
1 GGTTAAATCCCACAAGCCTAGTGCTGGTATTATATCCG
* * *
113255236 GGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATTCG
1 GGTTAAATCCCACAAGCCTAGTGCTGGTATTATATCCG
113255274 GG
1 GG
113255276 CCTTTAGGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.31
Consensus pattern (38 bp):
GGTTAAATCCCACAAGCCTAGTGCTGGTATTATATCCG
Found at i:113269888 original size:31 final size:30
Alignment explanation
Indices: 113269826--113269888 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 30
113269816 CCAAGGTCGC
** *
113269826 ATTAAATTTTTCAAAAATTTTGAGGGTTTA
1 ATTAAATTTTTCAAAAATTTAAAGGGATTA
* *
113269856 ATTAAATTTTTTTAAAAATTTAAAGTGATTA
1 ATTAAA-TTTTTCAAAAATTTAAAGGGATTA
113269887 AT
1 AT
113269889 AAGAAATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.48
Consensus pattern (30 bp):
ATTAAATTTTTCAAAAATTTAAAGGGATTA
Found at i:113271735 original size:22 final size:22
Alignment explanation
Indices: 113271694--113271735 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
113271684 TCAGATTAAA
* * *
113271694 GTAAAATAAGTTATTTTTTTTT
1 GTAAAATAACTTACTATTTTTT
113271716 GTAAAATAACTTACTATTTT
1 GTAAAATAACTTACTATTTT
113271736 GAAAAGCGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (22 bp):
GTAAAATAACTTACTATTTTTT
Found at i:113271825 original size:25 final size:24
Alignment explanation
Indices: 113271797--113271863 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 24
113271787 TTAAATCAAG
*
113271797 TTTAATATTATTTTTTATAATAATT
1 TTTAATATTATTTTTTAAAAT-ATT
* *
113271822 TTTATTTTTA-TTTTTAAAATATT
1 TTTAATATTATTTTTTAAAATATT
**
113271845 TAAAATATTATATTTTTAA
1 TTTAATATTAT-TTTTTAA
113271864 CATTATTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
23 9 0.27
24 9 0.27
25 15 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTAATATTATTTTTTAAAATATT
Found at i:113271987 original size:13 final size:14
Alignment explanation
Indices: 113271971--113272012 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
113271961 TTTCAATTTT
113271971 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
113271984 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
113271999 ATTTTAAATAATAT
1 ATTTT-AATAATAT
113272013 TATTCACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:113271997 original size:16 final size:16
Alignment explanation
Indices: 113271975--113272011 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
113271965 AATTTTATTT
113271975 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
113271992 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
113272007 TAATA
1 TAATA
113272012 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:113272190 original size:5 final size:5
Alignment explanation
Indices: 113272182--113272225 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
113272172 TATTTTTAAA
*
113272182 AAAAT AAAAT AAAA- AAATTT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAA
113272226 GAATTTAGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 3 0.09
5 29 0.83
6 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:113272204 original size:15 final size:14
Alignment explanation
Indices: 113272178--113272230 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
113272168 CTTTTATTTT
113272178 TAAAAAAA-TAAAA
1 TAAAAAAATTAAAA
113272191 TAAAAAAATTTAAAA
1 TAAAAAAA-TTAAAA
*
113272206 TAAAATAAAATAAAA
1 TAAAA-AAATTAAAA
*
113272221 TAAAAGAATT
1 TAAAAAAATT
113272231 TAGTCCCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 8 0.24
14 3 0.09
15 20 0.59
16 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAAAAAATTAAAA
Found at i:113273290 original size:13 final size:13
Alignment explanation
Indices: 113273272--113273297 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113273262 TAAGCTTCCG
113273272 ATGCTTATGGAAA
1 ATGCTTATGGAAA
113273285 ATGCTTATGGAAA
1 ATGCTTATGGAAA
113273298 GAGCTAACAG
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:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
ATGCTTATGGAAA
Found at i:113279937 original size:7 final size:8
Alignment explanation
Indices: 113279920--113279945 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
113279910 TCTATATCTC
113279920 TTTCTTTT
1 TTTCTTTT
113279928 TTTCTTTT
1 TTTCTTTT
113279936 TTTCTTTT
1 TTTCTTTT
113279944 TT
1 TT
113279946 ATTTCTCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTCTTTT
Found at i:113281516 original size:10 final size:10
Alignment explanation
Indices: 113281481--113281532 Score: 63
Period size: 10 Copynumber: 5.4 Consensus size: 10
113281471 AATATGCGTG
*
113281481 TATATATATA
1 TATATGTATA
*
113281491 TATATATATA
1 TATATGTATA
113281501 TATATGTATA
1 TATATGTATA
113281511 TATATGTAT-
1 TATATGTATA
*
113281520 T-TGTGTATA
1 TATATGTATA
113281529 TATA
1 TATA
113281533 ATGACGTACG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 6 0.16
9 2 0.05
10 29 0.78
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (10 bp):
TATATGTATA
Found at i:113281526 original size:18 final size:18
Alignment explanation
Indices: 113281481--113281532 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
113281471 AATATGCGTG
*
113281481 TATATATATATATATATA
1 TATATATGTATATATATA
*
113281499 TATATATGTATATATATG
1 TATATATGTATATATATA
* *
113281517 TATTTGTGTATATATA
1 TATATATGTATATATA
113281533 ATGACGTACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (18 bp):
TATATATGTATATATATA
Found at i:113281528 original size:16 final size:16
Alignment explanation
Indices: 113281481--113281532 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
113281471 AATATGCGTG
*
113281481 TATATATATATATATA
1 TATATATATGTATATA
113281497 TATATATATGTATATA
1 TATATATATGTATATA
* * *
113281513 TATGTATTTGTGTATA
1 TATATATATGTATATA
113281529 TATA
1 TATA
113281533 ATGACGTACG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (16 bp):
TATATATATGTATATA
Found at i:113281532 original size:2 final size:2
Alignment explanation
Indices: 113281481--113281515 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
113281471 AATATGCGTG
*
113281481 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
113281516 GTATTTGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:113295814 original size:53 final size:53
Alignment explanation
Indices: 113295753--113295858 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
113295743 AATACTTATC
113295753 AATATTCTTACACATGCATACATGACACTACCCCAAATACTTGAGATCTCTTT
1 AATATTCTTACACATGCATACATGACACTACCCCAAATACTTGAGATCTCTTT
113295806 AATATTCTTACACATGCATACATGACACTACCCCAAATACTTGAGATCTCTTT
1 AATATTCTTACACATGCATACATGACACTACCCCAAATACTTGAGATCTCTTT
113295859 GTTTGATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (53 bp):
AATATTCTTACACATGCATACATGACACTACCCCAAATACTTGAGATCTCTTT
Found at i:113296943 original size:15 final size:16
Alignment explanation
Indices: 113296925--113296965 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
113296915 TACGTGAATT
*
113296925 TAAAAATTTA-TTTAA
1 TAAAAATTAACTTTAA
113296940 TAAAATATTAACTTTAA
1 TAAAA-ATTAACTTTAA
113296957 -AAAAATTAA
1 TAAAAATTAA
113296966 AATCATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 10 0.43
16 8 0.35
17 5 0.22
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAAATTAACTTTAA
Found at i:113297060 original size:20 final size:20
Alignment explanation
Indices: 113297031--113297100 Score: 54
Period size: 20 Copynumber: 3.4 Consensus size: 20
113297021 TATCTTTTGA
*
113297031 ATAATTAAAATATAT-TTAT
1 ATAATAAAAATATATATTAT
113297050 CATAATAAAAACTTTATATATTAT
1 -ATAATAAAAA---TATATATTAT
* *
113297074 -TATATAAAAATAAATCTTAT
1 ATA-ATAAAAATATATATTAT
113297094 ATAATAA
1 ATAATAA
113297101 CATAATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
20 21 0.51
21 2 0.05
22 2 0.05
23 12 0.29
24 4 0.10
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAATAAAAATATATATTAT
Found at i:113301523 original size:17 final size:17
Alignment explanation
Indices: 113301501--113301535 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
113301491 CCATTCAACC
113301501 TGTTTGAAACATTAAAA
1 TGTTTGAAACATTAAAA
**
113301518 TGTTTGAAGTATTAAAA
1 TGTTTGAAACATTAAAA
113301535 T
1 T
113301536 AGGAAAGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (17 bp):
TGTTTGAAACATTAAAA
Found at i:113306563 original size:45 final size:45
Alignment explanation
Indices: 113306499--113306588 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
113306489 AAGATAGCCA
113306499 TTAGATTAGTGGATTTATGAATTGGCATAGACCGATGAGTTGAAT
1 TTAGATTAGTGGATTTATGAATTGGCATAGACCGATGAGTTGAAT
113306544 TTAGATTAGTGGATTTATGAATTGGCATAGACCGATGAGTTGAAT
1 TTAGATTAGTGGATTTATGAATTGGCATAGACCGATGAGTTGAAT
113306589 CGGATAAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.36
Consensus pattern (45 bp):
TTAGATTAGTGGATTTATGAATTGGCATAGACCGATGAGTTGAAT
Found at i:113308273 original size:18 final size:19
Alignment explanation
Indices: 113308232--113308273 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
113308222 GAAATTCTAG
*
113308232 CTTCTCTATACTTCATCTT
1 CTTCTCTAAACTTCATCTT
* *
113308251 TTTCTCTAAAGTTC-TCTT
1 CTTCTCTAAACTTCATCTT
113308269 CTTCT
1 CTTCT
113308274 TCCTATTTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.14, C:0.29, G:0.02, T:0.55
Consensus pattern (19 bp):
CTTCTCTAAACTTCATCTT
Found at i:113309695 original size:9 final size:9
Alignment explanation
Indices: 113309681--113309712 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
113309671 TTTGGTTAAA
113309681 AATTACCCG
1 AATTACCCG
113309690 AATTACCCG
1 AATTACCCG
*
113309699 AATTAACCG
1 AATTACCCG
113309708 AATTA
1 AATTA
113309713 TCGAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:113315934 original size:39 final size:39
Alignment explanation
Indices: 113315891--113315970 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
113315881 TGTTATCTCT
113315891 TCTTACAGTGATCTCAGTCTTACTTTAGATATCCCTTCC
1 TCTTACAGTGATCTCAGTCTTACTTTAGATATCCCTTCC
113315930 TCTTACAGTGATCTCAGTCTTACTTTAGATATCCCTTCC
1 TCTTACAGTGATCTCAGTCTTACTTTAGATATCCCTTCC
113315969 TC
1 TC
113315971 CAAACTCCGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.20, C:0.29, G:0.10, T:0.41
Consensus pattern (39 bp):
TCTTACAGTGATCTCAGTCTTACTTTAGATATCCCTTCC
Found at i:113318255 original size:16 final size:18
Alignment explanation
Indices: 113318218--113318257 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
113318208 TTCATTAAAC
113318218 ATTTT-TAAATTAAGTTA
1 ATTTTGTAAATTAAGTTA
*
113318235 TTTTTGTAAA-TAA-TTA
1 ATTTTGTAAATTAAGTTA
113318251 ATTTTGT
1 ATTTTGT
113318258 TGTGGGTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 9 0.45
17 7 0.35
18 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
ATTTTGTAAATTAAGTTA
Found at i:113327903 original size:32 final size:32
Alignment explanation
Indices: 113327844--113327916 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
113327834 GTTATGTAAA
* *
113327844 AATTTTAA-TTT-T-TTTTCTTTAATTTGATT
1 AATTTTAATTTTGTATTTTCTTTAAATTGATG
*
113327873 AGTTTTAAATTTTGTATTTT-TTTAAATTGATG
1 AATTTT-AATTTTGTATTTTCTTTAAATTGATG
113327905 AATTTTAATTTT
1 AATTTTAATTTT
113327917 AATAATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 5 0.14
30 2 0.06
31 9 0.25
32 16 0.44
33 4 0.11
ACGTcount: A:0.27, C:0.01, G:0.07, T:0.64
Consensus pattern (32 bp):
AATTTTAATTTTGTATTTTCTTTAAATTGATG
Found at i:113329199 original size:102 final size:102
Alignment explanation
Indices: 113329023--113329233 Score: 298
Period size: 102 Copynumber: 2.1 Consensus size: 102
113329013 CGAGGTAGTG
* * * * * *
113329023 AAGTAATAAAAATCTTGATTTTTAAAGATATTTATGTTCAGCATTTTAGATTTTTTTTCCAAAAT
1 AAGTATTAAAAATCTCGAATTTTAAAGATATTTATGTTCAGCAATTTAGATTCTTCTTCCAAAAT
** * *
113329088 CCGAGTCAACTATGATTTTTCAAGGATATATGTGCGA
66 CCGAGTCAACTATGATTTCCCAAGGATATATGTACAA
*
113329125 AAGTATTAAAAATCTCGAATTTTAAAGATATTTATGTTTAGCAATTTAGATTCCTTCTT-CAAAA
1 AAGTATTAAAAATCTCGAATTTTAAAGATATTTATGTTCAGCAATTTAGATT-CTTCTTCCAAAA
*
113329189 TCCGAGTCAACTATGATTTCCCAATGATATATGTACAA
65 TCCGAGTCAACTATGATTTCCCAAGGATATATGTACAA
113329227 AAGTATT
1 AAGTATT
113329234 GTTATAGTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 92 0.96
103 4 0.04
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (102 bp):
AAGTATTAAAAATCTCGAATTTTAAAGATATTTATGTTCAGCAATTTAGATTCTTCTTCCAAAAT
CCGAGTCAACTATGATTTCCCAAGGATATATGTACAA
Found at i:113337964 original size:209 final size:207
Alignment explanation
Indices: 113337714--113338103 Score: 557
Period size: 209 Copynumber: 1.9 Consensus size: 207
113337704 TCATTTCTTT
* * *
113337714 TTTCTTTTTGTCAGTTTTATATCTGTTGTTTGAATATTTTTGTT-TGGAATTGGGAAAACTGGTT
1 TTTCTTTTTGTCAGTTTTATATCTGTTGTTTGAATATTTTTGTTCT-GAAATGGAAAAACTAGTT
* * * *
113337778 AGTTCTTTTTGACTGTTTTCAGTTCAAAGATTTCTTCTGGTCTGAGTTCTGTACCAATCAGTGCT
65 AGTGCTTTTTGACTGTTTTCAGTTCAAAGATTTCTTCTGATCTGAATTCTCTACCAATCAGTGCT
* *
113337843 ATTGAATCACTGATTACTCTGATTTTGTATAGTTTCCCTTTTAACGCAGGTTTCTTTAATTACTT
130 ACTGAATCACTAATTACTCTGATTTTGTATAGTTT-CCTTTTAACGCAGGTTTCTTTAATTACTT
113337908 GATCCAAAATTTGA
194 GATCCAAAATTTGA
* *
113337922 TTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATATTTTTGTTCTGAAATGGAAAAACTAGTT
1 TTTC-TTTTTGTCAGTTTTATATCTGTTGTTTGAATATTTTTGTTCTGAAATGGAAAAACTAGTT
* * ** * * *
113337987 TGTGCTTTTTTACTGTTTTTGGTTCAATGATTTCTTCTGATCTGAATTCTCTACCAGTGAGTGCT
65 AGTGCTTTTTGACTGTTTTCAGTTCAAAGATTTCTTCTGATCTGAATTCTCTACCAATCAGTGCT
* * *
113338052 ACTGAATCACTAATTTCTTTGATTTTGTATAGTTTCCTTTTAATGCAGGTTT
130 ACTGAATCACTAATTACTCTGATTTTGTATAGTTTCCTTTTAACGCAGGTTT
113338104 ATATGTTGAC
Statistics
Matches: 159, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
208 20 0.13
209 138 0.87
210 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (207 bp):
TTTCTTTTTGTCAGTTTTATATCTGTTGTTTGAATATTTTTGTTCTGAAATGGAAAAACTAGTTA
GTGCTTTTTGACTGTTTTCAGTTCAAAGATTTCTTCTGATCTGAATTCTCTACCAATCAGTGCTA
CTGAATCACTAATTACTCTGATTTTGTATAGTTTCCTTTTAACGCAGGTTTCTTTAATTACTTGA
TCCAAAATTTGA
Found at i:113338496 original size:21 final size:21
Alignment explanation
Indices: 113338462--113338502 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
113338452 AATGCAAACA
* *
113338462 ACAACTATCGGAGGTACGCCG
1 ACAACAATCAGAGGTACGCCG
113338483 ACAACAATCAGAGGTACGCC
1 ACAACAATCAGAGGTACGCC
113338503 AACTCTTACT
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:0.34, C:0.29, G:0.24, T:0.12
Consensus pattern (21 bp):
ACAACAATCAGAGGTACGCCG
Found at i:113343778 original size:60 final size:60
Alignment explanation
Indices: 113343685--113343829 Score: 245
Period size: 60 Copynumber: 2.4 Consensus size: 60
113343675 GCTATTGATC
* * * *
113343685 AAAAAAGAAATTAATTAATAGTTGGGTAATCATTGTGCAACTTTTCATAATTGGGTGGCT
1 AAAAAAGAAATTTACTAATAGTTGGGTAATCATTGTGCAACTTTTCATAATTGAGTGACT
113343745 AAAAAAGAAATTTACTAATAGTTGGGTAATCATTGTGCAACTTTTCATAATTGAGTGACT
1 AAAAAAGAAATTTACTAATAGTTGGGTAATCATTGTGCAACTTTTCATAATTGAGTGACT
*
113343805 AAAAAAGAAATTTACTAATAATTGG
1 AAAAAAGAAATTTACTAATAGTTGG
113343830 ATAACTATTA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 80 1.00
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (60 bp):
AAAAAAGAAATTTACTAATAGTTGGGTAATCATTGTGCAACTTTTCATAATTGAGTGACT
Found at i:113351824 original size:18 final size:18
Alignment explanation
Indices: 113351801--113351891 Score: 130
Period size: 18 Copynumber: 5.1 Consensus size: 18
113351791 CAATCCCAAC
*
113351801 TACTGTATACGTGAACAG
1 TACTGTATACGTGAATAG
113351819 TACTGTATACGTGAATAG
1 TACTGTATACGTGAATAG
113351837 TGA-TGTATACGTGAATAG
1 T-ACTGTATACGTGAATAG
*
113351855 TACTATATACGTGAATAG
1 TACTGTATACGTGAATAG
* *
113351873 TGCCGTATACGTGAATAG
1 TACTGTATACGTGAATAG
113351891 T
1 T
113351892 GCCGTAAACG
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
17 1 0.02
18 64 0.97
19 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:113358616 original size:32 final size:32
Alignment explanation
Indices: 113358579--113358640 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 32
113358569 CTATTGTTAT
113358579 TTTGAACTCAGT-GAATTTGTATTGTGTGAGAG
1 TTTGAACTCAGTAG-ATTTGTATTGTGTGAGAG
113358611 TTTGAACTCAGTAGATTTGTATTGTGTGAG
1 TTTGAACTCAGTAGATTTGTATTGTGTGAG
113358641 TATGTTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.42
Consensus pattern (32 bp):
TTTGAACTCAGTAGATTTGTATTGTGTGAGAG
Found at i:113359403 original size:12 final size:13
Alignment explanation
Indices: 113359375--113359403 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
113359365 TAAAGATTTC
113359375 TTTTCTTATGTGT
1 TTTTCTTATGTGT
113359388 TTTTCTTATGTGT
1 TTTTCTTATGTGT
113359401 TTT
1 TTT
113359404 AGTTATAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.72
Consensus pattern (13 bp):
TTTTCTTATGTGT
Found at i:113359602 original size:15 final size:15
Alignment explanation
Indices: 113359566--113359639 Score: 64
Period size: 15 Copynumber: 4.8 Consensus size: 15
113359556 AATGTCAGTG
*
113359566 ATTAAAATGTAAAT-
1 ATTAAAATATAAATA
113359580 A-T-AAATATAAATA
1 ATTAAAATATAAATA
113359593 ATTAAAATATAATATTTTA
1 ATTAAAATATAA-A---TA
*
113359612 AATAAAAGTATAAATA
1 ATTAAAA-TATAAATA
113359628 ATTAAAATATAA
1 ATTAAAATATAA
113359640 TATTTTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
12 9 0.18
13 2 0.04
14 2 0.04
15 13 0.27
16 9 0.18
19 9 0.18
20 5 0.10
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
ATTAAAATATAAATA
Found at i:113359606 original size:20 final size:20
Alignment explanation
Indices: 113359576--113359642 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
113359566 ATTAAAATGT
113359576 AAATATAAATATAAATAATTA
1 AAATAT-AATATAAATAATTA
113359597 AAATATAATAT---T--TT-
1 AAATATAATATAAATAATTA
*
113359611 AAATAAAAGTATAAATAATTA
1 AAATATAA-TATAAATAATTA
113359632 AAATATAATAT
1 AAATATAATAT
113359643 TTTAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
14 7 0.19
15 5 0.14
17 1 0.03
18 1 0.03
20 10 0.27
21 13 0.35
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (20 bp):
AAATATAATATAAATAATTA
Found at i:113359614 original size:35 final size:35
Alignment explanation
Indices: 113359575--113359655 Score: 137
Period size: 35 Copynumber: 2.3 Consensus size: 35
113359565 GATTAAAATG
113359575 TAAATATAAA-TATAAATAATTAAAATATAATATTT
1 TAAATA-AAAGTATAAATAATTAAAATATAATATTT
113359610 TAAATAAAAGTATAAATAATTAAAATATAATATTT
1 TAAATAAAAGTATAAATAATTAAAATATAATATTT
*
113359645 TAAAAAAAAGT
1 TAAATAAAAGT
113359656 TACTATTTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 3 0.07
35 41 0.93
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (35 bp):
TAAATAAAAGTATAAATAATTAAAATATAATATTT
Found at i:113365367 original size:39 final size:39
Alignment explanation
Indices: 113365308--113365485 Score: 259
Period size: 39 Copynumber: 4.6 Consensus size: 39
113365298 TTCGTGATCT
** * *
113365308 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
113365347 GAAGCCCGGAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
113365386 GAAG-CCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * *
113365424 GAAGCCCGAAGGCTGATTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
113365463 GAAGCCCGAAGGCTAATTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
113365486 TCACCAGAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 36 0.29
39 90 0.71
ACGTcount: A:0.37, C:0.22, G:0.28, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:113365455 original size:77 final size:78
Alignment explanation
Indices: 113365324--113365485 Score: 254
Period size: 77 Copynumber: 2.1 Consensus size: 78
113365314 CGAAGTTTAG
* *
113365324 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAACTGAAGCACACAAGTGCTAAACGGAA
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAA
113365389 G-CCAAAGGCTAA
66 GCCCAAAGGCTAA
* * *
113365401 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTGATTGAAGCACAGAAGTGCTAAACGGAA
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAA
*
113365466 GCCCGAAGGCTAA
66 GCCCAAAGGCTAA
*
113365479 TTGAAGC
1 CTGAAGC
113365486 TCACCAGAGC
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
77 61 0.79
78 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (78 bp):
CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAA
GCCCAAAGGCTAA
Found at i:113365541 original size:20 final size:20
Alignment explanation
Indices: 113365516--113365567 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
113365506 CCCCAAAAGG
* *
113365516 GTTAACTGAAACTCATATGA
1 GTTAACGGAAACTCATAAGA
* *
113365536 GTTAACGGAAGCTCGTAAGA
1 GTTAACGGAAACTCATAAGA
113365556 GTTAAACGGAAA
1 GTT-AACGGAAA
113365568 GCAAACACGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (20 bp):
GTTAACGGAAACTCATAAGA
Found at i:113369379 original size:10 final size:10
Alignment explanation
Indices: 113369351--113369397 Score: 58
Period size: 10 Copynumber: 4.4 Consensus size: 10
113369341 TGGTATTGTT
113369351 ATTTTTTAATAA
1 ATTTTTT-AT-A
113369363 ATTTTTTATA
1 ATTTTTTATA
113369373 ATGTTTTTATA
1 AT-TTTTTATA
*
113369384 ATTTTTAATA
1 ATTTTTTATA
113369394 ATTT
1 ATTT
113369398 AAAATTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
10 14 0.42
11 12 0.36
12 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:113369388 original size:21 final size:23
Alignment explanation
Indices: 113369353--113369395 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
113369343 GTATTGTTAT
*
113369353 TTTTTAATAAATTTTTTATAATG
1 TTTTTAATAAATTTTTAATAATG
113369376 TTTTT-AT-AATTTTTAATAAT
1 TTTTTAATAAATTTTTAATAAT
113369396 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 2 0.11
23 5 0.26
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTTAATAAATTTTTAATAATG
Found at i:113370514 original size:55 final size:55
Alignment explanation
Indices: 113370453--113370558 Score: 212
Period size: 55 Copynumber: 1.9 Consensus size: 55
113370443 AACATGGTCC
113370453 TACATCAATGCTCCCCAAAAGCCTTTCTAATATATATTCACTAACAAATTTTCTT
1 TACATCAATGCTCCCCAAAAGCCTTTCTAATATATATTCACTAACAAATTTTCTT
113370508 TACATCAATGCTCCCCAAAAGCCTTTCTAATATATATTCACTAACAAATTT
1 TACATCAATGCTCCCCAAAAGCCTTTCTAATATATATTCACTAACAAATTT
113370559 CATAGTCCAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (55 bp):
TACATCAATGCTCCCCAAAAGCCTTTCTAATATATATTCACTAACAAATTTTCTT
Found at i:113376481 original size:5 final size:5
Alignment explanation
Indices: 113376473--113376497 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
113376463 AAAAACATAT
113376473 GATGA GATGA GATGA GATGA GATGA
1 GATGA GATGA GATGA GATGA GATGA
113376498 AATGTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (5 bp):
GATGA
Found at i:113376892 original size:31 final size:31
Alignment explanation
Indices: 113376821--113376901 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 31
113376811 AAGTTGTTGC
*
113376821 TTTAGTTTCTAT-A-TTTTAATTTAATTAAA
1 TTTAGTTTCTATAATTTTTAAATTAATTAAA
* * * *
113376850 TTTAATCTCTATAATTTTTAAATTAGTTAAT
1 TTTAGTTTCTATAATTTTTAAATTAATTAAA
*
113376881 TTTAGTTTCTATACTTTTTAA
1 TTTAGTTTCTATAATTTTTAA
113376902 TTTTGAACCA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 10 0.24
30 1 0.02
31 31 0.74
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (31 bp):
TTTAGTTTCTATAATTTTTAAATTAATTAAA
Found at i:113384929 original size:33 final size:33
Alignment explanation
Indices: 113384892--113384960 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
113384882 ATTACAACTC
*
113384892 TTCAATGATTTTGGGGATTTTGACTCATATAGG
1 TTCAATGATTTTGAGGATTTTGACTCATATAGG
113384925 TTCAATGATTTTGAGGATTTTGACTCATATAGG
1 TTCAATGATTTTGAGGATTTTGACTCATATAGG
113384958 TTC
1 TTC
113384961 TGGTAGCATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (33 bp):
TTCAATGATTTTGAGGATTTTGACTCATATAGG
Found at i:113389160 original size:21 final size:20
Alignment explanation
Indices: 113389113--113389160 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
113389103 AGATGATTTG
* *
113389113 ATAAAATTTTATAATTAGCA
1 ATAAAATTTCATAATTAACA
* *
113389133 ATTAAATTTCATCAATTAACC
1 ATAAAATTTCAT-AATTAACA
113389154 ATAAAAT
1 ATAAAAT
113389161 CCGAATTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAATTTCATAATTAACA
Found at i:113391114 original size:21 final size:19
Alignment explanation
Indices: 113391090--113391137 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
113391080 GCTAATATCG
*
113391090 ATAAATTTTTTAAAAGTTTTT
1 ATAAATTTTTT-AAA-TTTTC
113391111 ATAAACTTTTTTAAATTTTC
1 ATAAA-TTTTTTAAATTTTC
113391131 ATAAATT
1 ATAAATT
113391138 ATTAATTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 9 0.36
21 8 0.32
22 6 0.24
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
ATAAATTTTTTAAATTTTC
Found at i:113394736 original size:186 final size:186
Alignment explanation
Indices: 113394422--113394793 Score: 622
Period size: 186 Copynumber: 2.0 Consensus size: 186
113394412 GAAGTTCGAG
*
113394422 GCTTAGGTGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGTTTCAATTCTCTCCA
1 GCTTAGGTGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGTTTCAATTCCCTCCA
*
113394487 CCACAGCCTCCTCAGTATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGTTTTATTTGGAT
66 CCACAGCCTCCTCAGTATAGCTAGGACTCATTTTGCATTCATGGATTTACATGTTTTATTTGGAT
*
113394552 GTTTTACATTGTTTTCCTATCTCTGTGCTTGTTGCACTTTAATGATTACTTAGTAT
131 GTTTTACATTGTTTTCCTATCTCTATGCTTGTTGCACTTTAATGATTACTTAGTAT
* *
113394608 GCTTAGGTGCT-GCGATGTCTACATTGGAGGAACATATCGTTTATCTTATGTTTCAATTCCCTCC
1 GCTTAGGTGCTAG-GATGTCTACATTGGAGAAACATATCGCTTATCTTATGTTTCAATTCCCTCC
* *
113394672 ACCGCAGCCTTCTCAAG-ATAGCTAGGACTCATTTTGCATTCATGGATTTACATGTTTTATTTGG
65 ACCACAGCCTCCTC-AGTATAGCTAGGACTCATTTTGCATTCATGGATTTACATGTTTTATTTGG
* * *
113394736 ATGTTTTCCATTGTTTTCCTATCTCTATGTTTGTTGCACTTTCATGATTACTTAGTAT
129 ATGTTTTACATTGTTTTCCTATCTCTATGCTTGTTGCACTTTAATGATTACTTAGTAT
113394794 TTTATTTTAT
Statistics
Matches: 174, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
185 1 0.01
186 171 0.98
187 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (186 bp):
GCTTAGGTGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGTTTCAATTCCCTCCA
CCACAGCCTCCTCAGTATAGCTAGGACTCATTTTGCATTCATGGATTTACATGTTTTATTTGGAT
GTTTTACATTGTTTTCCTATCTCTATGCTTGTTGCACTTTAATGATTACTTAGTAT
Found at i:113396290 original size:18 final size:18
Alignment explanation
Indices: 113396269--113396303 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
113396259 TATAAATCAC
113396269 ATTATAATTATATTTTTT
1 ATTATAATTATATTTTTT
113396287 ATTATAATTATATTTTT
1 ATTATAATTATATTTTT
113396304 CTTTCCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTATAATTATATTTTTT
Found at i:113399429 original size:18 final size:18
Alignment explanation
Indices: 113399406--113399459 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
113399396 GACCATTTAT
113399406 GGTACTATTCACGTATAC
1 GGTACTATTCACGTATAC
113399424 GGTACTATTCACGTATAC
1 GGTACTATTCACGTATAC
* *
113399442 GGTACTGTTCATGTATAC
1 GGTACTATTCACGTATAC
113399460 AGTAGTTGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (18 bp):
GGTACTATTCACGTATAC
Found at i:113406910 original size:22 final size:22
Alignment explanation
Indices: 113406861--113406913 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
113406851 ATTCAATCCC
* *
113406861 TATTATTATTATTTATTTTAGT
1 TATTTTTATTAATTATTTTAGT
*
113406883 TATTTTTATTAATTA-TTTATT
1 TATTTTTATTAATTATTTTAGT
*
113406904 TACTTTTATT
1 TATTTTTATT
113406914 TAAAAACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
TATTTTTATTAATTATTTTAGT
Found at i:113409616 original size:21 final size:20
Alignment explanation
Indices: 113409569--113409616 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
113409559 AAATGATTTG
* *
113409569 ATAAAATTTTATAATTAGCA
1 ATAAAATTTCATAATTAACA
* *
113409589 ATTAAATTTCATCAATTAACC
1 ATAAAATTTCAT-AATTAACA
113409610 ATAAAAT
1 ATAAAAT
113409617 CCGAATTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAATTTCATAATTAACA
Found at i:113410205 original size:30 final size:31
Alignment explanation
Indices: 113410169--113410227 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
113410159 AGATAGAATT
*
113410169 TTTAACAGA-AATGACTT-ATTTGCTCTTTGA
1 TTTAACACATAATGA-TTAATTTGCTCTTTGA
113410199 TTTAACACATAATGATTAATTTGCTCTTT
1 TTTAACACATAATGATTAATTTGCTCTTT
113410228 TTTTAATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.46
Consensus pattern (31 bp):
TTTAACACATAATGATTAATTTGCTCTTTGA
Found at i:113410233 original size:30 final size:29
Alignment explanation
Indices: 113410167--113410233 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
113410157 ATAGATAGAA
*
113410167 TTTTTAACAGAAATGACTTATTTGCTCTT
1 TTTTTAACACAAATGACTTATTTGCTCTT
*
113410196 TGATTTAACACATAATGA-TTAATTTGCTCTT
1 T-TTTTAACACA-AATGACTT-ATTTGCTCTT
113410227 TTTTTAA
1 TTTTTAA
113410234 TAGAAAGAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.03
30 15 0.47
31 16 0.50
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (29 bp):
TTTTTAACACAAATGACTTATTTGCTCTT
Found at i:113411036 original size:186 final size:186
Alignment explanation
Indices: 113410708--113411075 Score: 632
Period size: 186 Copynumber: 2.0 Consensus size: 186
113410698 GAAGTTCGAG
*
113410708 GCTTAGATGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGCTTCAATTCTCTCCA
1 GCTTAGATGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGCTTCAATTCCCTCCA
*
113410773 CCACAGCCTCCTCAATATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGTTTTATTTGGAT
66 CCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGTTTTATTTGGAT
*
113410838 GTTTTACATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTAGTAT
131 ATTTTACATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTAGTAT
* * * *
113410894 GCTTAGGTGCTGGGATGTCTACATTGGAGGAACATATCG-TTAATCTTATGTTTCAATTCCCTCC
1 GCTTAGATGCTAGGATGTCTACATTGGAGAAACATATCGCTT-ATCTTATGCTTCAATTCCCTCC
113410958 ACCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGGTTTT-TTTGG
65 ACCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCAT-GTTTTATTTGG
*
113411022 ATATTTTCCATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTA
129 ATATTTTACATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTA
113411076 ATATTTTGAG
Statistics
Matches: 172, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
185 2 0.01
186 165 0.96
187 5 0.03
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (186 bp):
GCTTAGATGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGCTTCAATTCCCTCCA
CCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGTTTTATTTGGAT
ATTTTACATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTAGTAT
Found at i:113413628 original size:147 final size:147
Alignment explanation
Indices: 113413359--113413806 Score: 592
Period size: 147 Copynumber: 3.0 Consensus size: 147
113413349 TAAACTATTA
* * * ** * * * ** *
113413359 TTACTGTTATTGTGAATTGAATCTTAGTTCGCTTAGAATATGGGTTTAAGTACGTTAAAGTGTAT
1 TTACTATTATTATGGATTGAATCTTAGTTCATTTGGAATGTCGGTTCGAGTACGTTAAAGTGCAT
* * * *
113413424 TATCCTTTTATTTATACGTTGAGAAGATGTTATAAGTAATTCTAAACATTATATCAAAACAAAAA
66 TATCCTCTTATTTATAGGTTGAGAAGATGTTATAAGTAGTTCTAAACATTGTATCAAAACAAAAA
*
113413489 ATAAATATGATCAAAAC
131 ATAAATATAATCAAAAC
* *
113413506 TTACTATTATTATGGATTGAGTCTTAGTTCATTTGGAATGTCGGTTCGAGTACGTTGAAGTGCAT
1 TTACTATTATTATGGATTGAATCTTAGTTCATTTGGAATGTCGGTTCGAGTACGTTAAAGTGCAT
* * *
113413571 TATCCTCTTATTTATGGGTCGAGAAGATGTTATAAGTAGTTCTAAACATTGTTTCAAAACAAAAA
66 TATCCTCTTATTTATAGGTTGAGAAGATGTTATAAGTAGTTCTAAACATTGTATCAAAACAAAAA
113413636 ATAAATATAATCAAAAC
131 ATAAATATAATCAAAAC
* * * *
113413653 TTACTATTATTGTGGATTGAATCTTAGTTCATTTGGAATGTGGGTTTGAGTACGTTAAAGCGCAT
1 TTACTATTATTATGGATTGAATCTTAGTTCATTTGGAATGTCGGTTCGAGTACGTTAAAGTGCAT
* *
113413718 TATCCTCTTATTTATAGGTTAAGAAGA-GATTATAAGTAGTTCTAAACATTGTATCAGAACAAAA
66 TATCCTCTTATTTATAGGTTGAGAAGATG-TTATAAGTAGTTCTAAACATTGTATC---A-AAAC
*
113413782 AAAAAACAAATATAATCAAAAC
126 AAAAAATAAATATAATCAAAAC
113413804 TTA
1 TTA
113413807 TGACATAATT
Statistics
Matches: 263, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
146 1 0.00
147 234 0.89
150 1 0.00
151 27 0.10
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (147 bp):
TTACTATTATTATGGATTGAATCTTAGTTCATTTGGAATGTCGGTTCGAGTACGTTAAAGTGCAT
TATCCTCTTATTTATAGGTTGAGAAGATGTTATAAGTAGTTCTAAACATTGTATCAAAACAAAAA
ATAAATATAATCAAAAC
Found at i:113417892 original size:43 final size:43
Alignment explanation
Indices: 113417831--113417917 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
113417821 TTGCGTTGGG
* *
113417831 TTTAATAGAAAAAAGGTCTCGAGTTAAATCTAATGAAATTGAC
1 TTTAATAGAAAAAAGGTCTCGAGCTAAATCTAACGAAATTGAC
113417874 TTTAATAGAAAAAAGGTCTCGAGCTAAATCTAACGAAATTGAC
1 TTTAATAGAAAAAAGGTCTCGAGCTAAATCTAACGAAATTGAC
113417917 T
1 T
113417918 CAAATACAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (43 bp):
TTTAATAGAAAAAAGGTCTCGAGCTAAATCTAACGAAATTGAC
Found at i:113420887 original size:30 final size:30
Alignment explanation
Indices: 113420851--113420910 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
113420841 CTGGACTTGA
113420851 AATTAATGGAAGTCCAGTAGCCAATGGTGC
1 AATTAATGGAAGTCCAGTAGCCAATGGTGC
113420881 AATTAATGGAAGTCCAGTAGCCAATGGTGC
1 AATTAATGGAAGTCCAGTAGCCAATGGTGC
113420911 TTCCAACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (30 bp):
AATTAATGGAAGTCCAGTAGCCAATGGTGC
Found at i:113422219 original size:17 final size:17
Alignment explanation
Indices: 113422199--113422231 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
113422189 TCCGTTAGAA
113422199 GATAAAGTGTATTAGTT
1 GATAAAGTGTATTAGTT
113422216 GATAAAGTGTATTAGT
1 GATAAAGTGTATTAGT
113422232 CGGATGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (17 bp):
GATAAAGTGTATTAGTT
Found at i:113424291 original size:12 final size:12
Alignment explanation
Indices: 113424274--113424300 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
113424264 CTCACTCCAA
113424274 AAACACTTTTAG
1 AAACACTTTTAG
113424286 AAACACTTTTAG
1 AAACACTTTTAG
113424298 AAA
1 AAA
113424301 GAAAGCATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (12 bp):
AAACACTTTTAG
Found at i:113429126 original size:31 final size:31
Alignment explanation
Indices: 113429049--113429130 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 31
113429039 AAAAGTGGGT
113429049 TTTTTATTTACATTTTTATATATTAATAAATTA
1 TTTTTATTT-CATTTTTATATATTAAT-AATTA
* * *
113429082 -TTCTATTT-GTTTTTATGATATTCAT-ATTA
1 TTTTTATTTCATTTTTAT-ATATTAATAATTA
113429111 TTTTTATTTCATTTTTATAT
1 TTTTTATTTCATTTTTATAT
113429131 TGTACCTCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
29 4 0.10
30 16 0.39
31 14 0.34
32 7 0.17
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (31 bp):
TTTTTATTTCATTTTTATATATTAATAATTA
Found at i:113429426 original size:30 final size:30
Alignment explanation
Indices: 113429392--113429448 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
113429382 AAAATAAAAT
113429392 TTTATGATTA-AAAATTTTAAATAATTATGA
1 TTTATGATTATAAAATTTT-AATAATTATGA
* * *
113429422 TTTATTATTATTAAGTTTTAATAATTA
1 TTTATGATTATAAAATTTTAATAATTA
113429449 AATGAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 17 0.74
31 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (30 bp):
TTTATGATTATAAAATTTTAATAATTATGA
Found at i:113430209 original size:84 final size:84
Alignment explanation
Indices: 113430068--113430228 Score: 232
Period size: 84 Copynumber: 1.9 Consensus size: 84
113430058 TAGCGGGGAA
* ** * ** *
113430068 GGACTGCTGTTGTCCAGCCTGGAATCTACAAGAAACCTTCGACAGCCTGGGAGGGCGACGCCTGA
1 GGACTGCCGTTGTCCAGCCACGAATCTACAAGAAACCTTCGACAGCCTGGGAAGGCGAAACCTCA
*
113430133 AGTTCAAGATGGGACGAAC
66 AGTACAAGATGGGACGAAC
* *
113430152 GGACTGCCGTTGTCCAGCCACGAATCTACAGGAAACCTTCGACAGCTTGGGAAGGCGAAACCTCA
1 GGACTGCCGTTGTCCAGCCACGAATCTACAAGAAACCTTCGACAGCCTGGGAAGGCGAAACCTCA
113430217 AGTACAAGATGG
66 AGTACAAGATGG
113430229 CGCCAATGGA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 67 1.00
ACGTcount: A:0.28, C:0.25, G:0.29, T:0.17
Consensus pattern (84 bp):
GGACTGCCGTTGTCCAGCCACGAATCTACAAGAAACCTTCGACAGCCTGGGAAGGCGAAACCTCA
AGTACAAGATGGGACGAAC
Found at i:113435379 original size:10 final size:10
Alignment explanation
Indices: 113435364--113435417 Score: 60
Period size: 10 Copynumber: 5.7 Consensus size: 10
113435354 TTGACAATAT
113435364 TATAAAAGTC
1 TATAAAAGTC
113435374 TATAAAAGTC
1 TATAAAAGTC
** *
113435384 --T-AACTTT
1 TATAAAAGTC
113435391 TATAAAAGTC
1 TATAAAAGTC
113435401 TATAAAAGTC
1 TATAAAAGTC
113435411 TATAAAA
1 TATAAAA
113435418 CACCAAGCCC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
7 3 0.09
8 1 0.03
9 1 0.03
10 30 0.86
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.33
Consensus pattern (10 bp):
TATAAAAGTC
Found at i:113436028 original size:120 final size:118
Alignment explanation
Indices: 113435808--113436033 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 118
113435798 TTTCCACATA
*
113435808 CTCTAAAAAAAGATATATTTCCTTAAATTTTAAAAAAATCAGCCTATTTTGCTAATTAATATTTT
1 CTCTAAAAAAAGATATATTTCCTTAAAATTTAAAAAAATCAGCCTATTTTGCTAATTAATATTTT
* * *
113435873 TTTTGGCATTTAGGTCTAATTTAGTTACTGAATTATGAAAATTTTCACATACT
66 TTTTGGCATTTAGGTATAATTTAGTCACTAAATTATGAAAATTTTCACATACT
* * * * *
113435926 CTCTCAAAAAATGATATATTTTCTTAAAATTTCAAAATATCATCCTATTTTG-TCAATTAATCAT
1 CTCT-AAAAAAAGATATATTTCCTTAAAATTTAAAAAAATCAGCCTATTTTGCT-AATTAAT-AT
** * *
113435990 TTTTTTTGTTATTTAGGTATAATTTAGTCGCTAAATTATTAAAA
63 TTTTTTTGGCATTTAGGTATAATTTAGTCACTAAATTATGAAAA
113436034 GTTGCAAAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
118 5 0.05
119 48 0.52
120 39 0.42
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.45
Consensus pattern (118 bp):
CTCTAAAAAAAGATATATTTCCTTAAAATTTAAAAAAATCAGCCTATTTTGCTAATTAATATTTT
TTTTGGCATTTAGGTATAATTTAGTCACTAAATTATGAAAATTTTCACATACT
Found at i:113439037 original size:15 final size:15
Alignment explanation
Indices: 113439017--113439047 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
113439007 CTTTTATCAC
*
113439017 ACACCTATAATAATT
1 ACACCTACAATAATT
113439032 ACACCTACAATAATT
1 ACACCTACAATAATT
113439047 A
1 A
113439048 ATTTTATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (15 bp):
ACACCTACAATAATT
Found at i:113444521 original size:40 final size:40
Alignment explanation
Indices: 113444466--113444544 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
113444456 ATGAAAGCTA
113444466 ACCCAAATGCACTAAGTGATTAGAAACCTAAGGCTTAACT
1 ACCCAAATGCACTAAGTGATTAGAAACCTAAGGCTTAACT
113444506 ACCCAAATGCACTAAGTGATTAGAAACCTAAGGCTTAAC
1 ACCCAAATGCACTAAGTGATTAGAAACCTAAGGCTTAAC
113444545 CGCGACTAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.22
Consensus pattern (40 bp):
ACCCAAATGCACTAAGTGATTAGAAACCTAAGGCTTAACT
Found at i:113451758 original size:32 final size:32
Alignment explanation
Indices: 113451722--113451827 Score: 100
Period size: 32 Copynumber: 3.5 Consensus size: 32
113451712 TTATTCATCA
113451722 TTGGAAATTTAATAAATTCATTAAGGTTAATT
1 TTGGAAATTTAATAAATTCATTAAGGTTAATT
* * * *
113451754 TTGG--ATATAA-AAA-TGATT-A--TTCATCA
1 TTGGAAATTTAATAAATTCATTAAGGTTAAT-T
*
113451780 TTGGAAATTTAATAAATCCATTAAGGTTAATT
1 TTGGAAATTTAATAAATTCATTAAGGTTAATT
*
113451812 TTGGAAAGTTAATAAA
1 TTGGAAATTTAATAAA
113451828 ATAAAGATGA
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
25 4 0.07
26 4 0.07
27 1 0.02
28 9 0.16
29 6 0.11
30 8 0.14
31 1 0.02
32 19 0.34
33 4 0.07
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (32 bp):
TTGGAAATTTAATAAATTCATTAAGGTTAATT
Found at i:113451769 original size:58 final size:58
Alignment explanation
Indices: 113451700--113451816 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
113451690 AGTAGTTAGT
*
113451700 ATATAAAAATGATTATTCATCATTGGAAATTTAATAAATTCATTAAGGTTAATTTTGG
1 ATATAAAAATGATTATTCATCATTGGAAATTTAATAAATCCATTAAGGTTAATTTTGG
113451758 ATATAAAAATGATTATTCATCATTGGAAATTTAATAAATCCATTAAGGTTAATTTTGG
1 ATATAAAAATGATTATTCATCATTGGAAATTTAATAAATCCATTAAGGTTAATTTTGG
113451816 A
1 A
113451817 AAGTTAATAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (58 bp):
ATATAAAAATGATTATTCATCATTGGAAATTTAATAAATCCATTAAGGTTAATTTTGG
Found at i:113452877 original size:42 final size:42
Alignment explanation
Indices: 113452829--113452975 Score: 170
Period size: 42 Copynumber: 3.3 Consensus size: 42
113452819 CATAGTTCAA
*
113452829 CTATGGTCTTACACATCTTCACATAAT-GATGCCATAGCCTAG
1 CTATGGTCTTACACATCTTCACAT-ATCGATGCCATAGCCCAG
* * *
113452871 CTATGGTCTTACACATATTCATATATCGATACCATAGCCCAG
1 CTATGGTCTTACACATCTTCACATATCGATGCCATAGCCCAG
*
113452913 TTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC---AT--C-T-TCACATATCGATGCCATAGCCCAG
113452962 CTATGGTCTTACAC
1 CTATGGTCTTACAC
113452976 GAATCACATA
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
41 2 0.02
42 48 0.55
45 2 0.02
48 1 0.01
49 35 0.40
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (42 bp):
CTATGGTCTTACACATCTTCACATATCGATGCCATAGCCCAG
Found at i:113452955 original size:49 final size:49
Alignment explanation
Indices: 113452882--113453065 Score: 193
Period size: 49 Copynumber: 3.8 Consensus size: 49
113452872 TATGGTCTTA
* * *
113452882 CACATATTCATATATCGATACCATAGCCCAGTTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
*
113452932 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* * * *
113452980 CACATATCTCACTA---ATGCCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACA-TATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAAT
* * *
113453027 CATATATCAC--ACCGATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTA
113453066 TACGGAAATC
Statistics
Matches: 118, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
44 1 0.01
46 25 0.21
47 35 0.30
48 13 0.11
49 38 0.32
50 6 0.05
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
Found at i:113453068 original size:47 final size:46
Alignment explanation
Indices: 113452897--113453065 Score: 185
Period size: 47 Copynumber: 3.6 Consensus size: 46
113452887 ATTCATATAT
* * *
113452897 CGATACCATAGCCCAGTTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC--AC
* * *
113452946 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
** * * * *
113452992 TAATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACAC
*
113453039 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATAGCCCAGATATGGTCTTA
113453066 TACGGAAATC
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
46 26 0.25
47 37 0.36
48 11 0.11
49 29 0.28
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (46 bp):
CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
Found at i:113453129 original size:31 final size:31
Alignment explanation
Indices: 113453101--113453304 Score: 291
Period size: 31 Copynumber: 6.6 Consensus size: 31
113453091 CTTGTAGCCA
* *
113453101 AAGCTACCACTATTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
** *
113453132 GTGCTACCATTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
* * *
113453163 GAGCTACCACTTTTCACTGATTAGGTAGTTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
* * *
113453194 GAGTTACCACTTTTCACTGATCAGGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
* *
113453225 AAGCTACCACTTTTCACTGATCAGGTAACTA
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
113453256 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
113453287 AAGCTACCACTTTTCACT
1 AAGCTACCACTTTTCACT
113453305 TGTCATTTGT
Statistics
Matches: 153, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 153 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCTG
Found at i:113453380 original size:50 final size:51
Alignment explanation
Indices: 113453280--113453408 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
113453270 CACTGATCAG
* *
113453280 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
113453331 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
113453381 GTAGCTGAAGCTGTCACTTATCACTTGT
1 GTAGCTGAAGCTATCACTTATCACTTGT
113453409 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 47 0.66
51 24 0.34
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (51 bp):
GTAGCTGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:113458168 original size:9 final size:9
Alignment explanation
Indices: 113458142--113458379 Score: 135
Period size: 9 Copynumber: 26.4 Consensus size: 9
113458132 TTTAAATTAT
113458142 TTTTTAATAA
1 TTTTT-ATAA
113458152 -TTTT-TAA
1 TTTTTATAA
113458159 TTTTTATAA
1 TTTTTATAA
*
113458168 TTTATTAGAA
1 TTT-TTATAA
*
113458178 -TTTTATAT
1 TTTTTATAA
113458186 TTTTTATAA
1 TTTTTATAA
*
113458195 GTTTTCATAA
1 -TTTTTATAA
*
113458205 ATTTTA-AA
1 TTTTTATAA
113458213 TAATTTTATAA
1 T--TTTTATAA
113458224 TTTATTAT-A
1 TTT-TTATAA
113458233 TTTATTAT--
1 TTT-TTATAA
113458241 TGTTTTATAA
1 T-TTTTATAA
*
113458251 TATTTATAA
1 TTTTTATAA
*
113458260 GTTTTTATTA
1 -TTTTTATAA
113458270 TTTTTA-AA
1 TTTTTATAA
*
113458278 TTTTTACAA
1 TTTTTATAA
113458287 TTTTTATAA
1 TTTTTATAA
*
113458296 GTTTATATCAA
1 -TTTTTAT-AA
113458307 --TTT-TAA
1 TTTTTATAA
113458313 TTTTT-TAA
1 TTTTTATAA
* *
113458321 TATTTATTA
1 TTTTTATAA
113458330 TTTTTATAA
1 TTTTTATAA
113458339 GTTTTTATAAA
1 -TTTTTAT-AA
*
113458350 ATTTTA-AA
1 TTTTTATAA
*
113458358 -TTTTATTA
1 TTTTTATAA
*
113458366 TATTTATTAA
1 TTTTTA-TAA
113458376 TTTT
1 TTTT
113458380 ATTAAAAAAT
Statistics
Matches: 180, Mismatches: 24, Indels: 48
0.71 0.10 0.19
Matches are distributed among these distances:
6 2 0.01
7 9 0.05
8 37 0.21
9 72 0.40
10 53 0.29
11 7 0.04
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:113458235 original size:17 final size:17
Alignment explanation
Indices: 113458137--113458235 Score: 53
Period size: 17 Copynumber: 5.5 Consensus size: 17
113458127 AAGGGTTTAA
*
113458137 ATTATTTTTTAATAATTT
1 ATTATATTTT-ATAATTT
113458155 -TTA-ATTTTTATAATTT
1 ATTATA-TTTTATAATTT
*
113458171 ATTAGAATTTTAT-ATTT
1 ATTA-TATTTTATAATTT
*
113458188 TTTATAAGTTTTCATAAATTT
1 ATTAT-A-TTTT-AT-AATTT
*
113458209 -TAAATAATTTTATAATTT
1 AT-TAT-ATTTTATAATTT
113458227 ATTATATTT
1 ATTATATTT
113458236 ATTATTGTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 23
0.70 0.05 0.25
Matches are distributed among these distances:
16 7 0.11
17 22 0.34
18 17 0.26
19 6 0.09
20 5 0.08
21 8 0.12
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTATATTTTATAATTT
Found at i:113458271 original size:17 final size:17
Alignment explanation
Indices: 113458251--113458336 Score: 52
Period size: 17 Copynumber: 5.0 Consensus size: 17
113458241 TGTTTTATAA
113458251 TATTTATAAGTTTTTAT
1 TATTTATAAGTTTTTAT
* *
113458268 TATTTTTAAATTTTTACAAT
1 TATTTATAAGTTTTT---AT
*
113458288 T-TTTATAAGTTTATAT
1 TATTTATAAGTTTTTAT
* * *
113458304 CAATTT-TAATTTTTTAA
1 -TATTTATAAGTTTTTAT
*
113458321 TATTTATTA-TTTTTAT
1 TATTTATAAGTTTTTAT
113458337 AAGTTTTTAT
Statistics
Matches: 51, Mismatches: 12, Indels: 13
0.67 0.16 0.17
Matches are distributed among these distances:
16 12 0.24
17 23 0.45
18 3 0.06
19 10 0.20
20 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TATTTATAAGTTTTTAT
Found at i:113458370 original size:38 final size:38
Alignment explanation
Indices: 113458323--113458411 Score: 110
Period size: 38 Copynumber: 2.3 Consensus size: 38
113458313 TTTTTTAATA
* *
113458323 TTTATTATTTTTATAAGTTT-TTATAAAATTTTAAATTT
1 TTTA-TATTTTTATAAGTTTATTAAAAAATTATAAATTT
* *
113458361 TATTATATTTAT-TAATTTTATTAAAAAATTATAAATTT
1 T-TTATATTTTTATAAGTTTATTAAAAAATTATAAATTT
113458399 TTTATATTTTTAT
1 TTTATATTTTTAT
113458412 TATGTTCATA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
37 15 0.35
38 25 0.58
39 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (38 bp):
TTTATATTTTTATAAGTTTATTAAAAAATTATAAATTT
Found at i:113458397 original size:45 final size:44
Alignment explanation
Indices: 113458305--113458410 Score: 106
Period size: 45 Copynumber: 2.3 Consensus size: 44
113458295 AGTTTATATC
* ****
113458305 AATTTTAATTTTTTAATATTTATTATTTTTATAAGTTTTTATAA
1 AATTTTAATTTTTTAATATTTATTAATTTTATAAAAAATTATAA
113458349 AATTTTAAATTTTATT-ATATTTATTAATTTTATTAAAAAATTATAA
1 AATTTT-AATTTT-TTAATATTTATTAATTTTA-TAAAAAATTATAA
* *
113458395 ATTTTTTATATTTTTA
1 AATTTTAAT-TTTTTA
113458411 TTATGTTCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
44 6 0.12
45 25 0.50
46 19 0.38
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (44 bp):
AATTTTAATTTTTTAATATTTATTAATTTTATAAAAAATTATAA
Found at i:113458951 original size:31 final size:30
Alignment explanation
Indices: 113458910--113458982 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
113458900 TTAATTTGAT
*
113458910 TAAA-TTTAGTCTGTGTA-TTTTTTGAATTGG
1 TAAATTTTAGTCTCTGTACTTTTTT-AATT-G
* *
113458940 TAAATTTTAGTCTCTTTACTTTTTTAATTT
1 TAAATTTTAGTCTCTGTACTTTTTTAATTG
113458970 TAAAATTTTAGTC
1 T-AAATTTTAGTC
113458983 CTGATTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 5 0.14
31 26 0.70
32 6 0.16
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (30 bp):
TAAATTTTAGTCTCTGTACTTTTTTAATTG
Found at i:113461749 original size:19 final size:20
Alignment explanation
Indices: 113461707--113461749 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
113461697 TTATTTTTTT
* *
113461707 ATTAGAATTGAAAATGTTTA
1 ATTAGAATAGAAAATGTATA
113461727 ATTAGAATAGAAAA-GTATA
1 ATTAGAATAGAAAATGTATA
113461746 ATTA
1 ATTA
113461750 AAGTTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (20 bp):
ATTAGAATAGAAAATGTATA
Found at i:113463242 original size:6 final size:6
Alignment explanation
Indices: 113463231--113463421 Score: 195
Period size: 6 Copynumber: 31.8 Consensus size: 6
113463221 GGCTTCTTCC
* * * *
113463231 TCAAGT TCAAGT TCAAGA TCAAGT TGAAGA TCAAGA TCAAGT TCAAGT
1 TCAAGT TCAAGT TCAAGT TCAAGT TCAAGT TCAAGT TCAAGT TCAAGT
* * * * * * * *
113463279 TGAAGA TCAAGT TGAAGA TCAAGA TCAAGA TCAAGT TGAAGA TCAAGT
1 TCAAGT TCAAGT TCAAGT TCAAGT TCAAGT TCAAGT TCAAGT TCAAGT
* * * *
113463327 TCAAGT TCAAGA TCAAGT TGAA-T ATCAAGT TCAAGA TCAAGA TCAAGT
1 TCAAGT TCAAGT TCAAGT TCAAGT -TCAAGT TCAAGT TCAAGT TCAAGT
* * *
113463375 TCAAGT TCAAGT TCAAGA TCAAGA TCAAGT TCAAGA TCAAGT TCAAG
1 TCAAGT TCAAGT TCAAGT TCAAGT TCAAGT TCAAGT TCAAGT TCAAG
113463422 AAAATTTGTT
Statistics
Matches: 155, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
5 1 0.01
6 153 0.99
7 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (6 bp):
TCAAGT
Done.