Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 150 of 284
Found at i:50214837 original size:31 final size:32
Alignment explanation
Indices: 50214797--50214857 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
50214787 ATGTAAAAGA
50214797 ATTTATAAAATAACACATAATATAA-AAATATC
1 ATTTATAAAATAACACATAATA-AATAAATATC
*
50214829 ATTT-TAAAATAATACATAATAAATAAATA
1 ATTTATAAAATAACACATAATAAATAAATA
50214858 ATTAATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.07
31 21 0.78
32 4 0.15
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (32 bp):
ATTTATAAAATAACACATAATAAATAAATATC
Found at i:50215119 original size:19 final size:19
Alignment explanation
Indices: 50215082--50215120 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50215072 ATGTAAGAAC
*
50215082 AATATATAAATAATTAATA
1 AATATATAAATAATAAATA
50215101 AATATATAATATAA-AAATA
1 AATATATAA-ATAATAAATA
50215120 A
1 A
50215121 TGATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATATAAATAATAAATA
Found at i:50217187 original size:205 final size:205
Alignment explanation
Indices: 50216823--50217726 Score: 1470
Period size: 205 Copynumber: 4.4 Consensus size: 205
50216813 CTTCAATTCA
*** * *
50216823 TTCTCTGACAATACAGAGATGATTCATCATCTTAGATTTGCTTCATCGTAAGCATGTGAAAGCCA
1 TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
* * * * *
50216888 AATCGGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTT
66 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTT
* * * * * * *
50216953 CAGTATAAACATCTGAAGTTTGA-ATCTGCTATGTGTTTGCTCTCTATTGAAGTGGAGATGCCAG
131 CAGCATAAACATCTGAAG-GTGAGATCTGCTGTGTATCTGCCCTCCATTGAAGTGGAGATGCCAG
*
50217017 ACTTCGATTTA
195 ACTTCGATTTG
* * * *
50217028 CTCTCTG-CTAATACAGAGATGCCAAATCATCTTAGAGTTGCTTCATCATAAACACGTGAAAGCC
1 TTCTCTGAC-AATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCC
*
50217092 AAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGGTACCAAACCATCTTGGATCTGCT
65 AAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCT
* * * *
50217157 TTAGCATAAACATTTGAAGGTGAGATCTGCTGTGTATCTGCTCTCCATTGAAGTGGAGATTCCAG
130 TCAGCATAAACATCTGAAGGTGAGATCTGCTGTGTATCTGCCCTCCATTGAAGTGGAGATGCCAG
50217222 ACTTCGATTTG
195 ACTTCGATTTG
*
50217233 TTCTCCGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
1 TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
50217298 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTT
66 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTT
*
50217363 CAGCATAAACATCTGAAGGTGAGATCTGCTGTGTATCTGCCCTCCATTGAAGTGGAGATGCTAGA
131 CAGCATAAACATCTGAAGGTGAGATCTGCTGTGTATCTGCCCTCCATTGAAGTGGAGATGCCAGA
50217428 CTTCGATTTG
196 CTTCGATTTG
50217438 TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
1 TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
50217503 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTT
66 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTT
*
50217568 CAGCATAAACATCTGAAGGTGAGATCTGCTGTGTATCTGCCCTCCATTGAAGTGGAGATGCTAGA
131 CAGCATAAACATCTGAAGGTGAGATCTGCTGTGTATCTGCCCTCCATTGAAGTGGAGATGCCAGA
*
50217633 CTTCAATTTG
196 CTTCGATTTG
* *
50217643 TTCTCTGACAATACAGAGATGACAAATCATCTTCGATTTGCTTTATCGTAAACACGTGAAAGCCA
1 TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
*
50217708 AATCAACTATGTCTTCGAT
66 AATCAGCTATGTCTTCGAT
50217727 CTACTCTCCG
Statistics
Matches: 655, Mismatches: 41, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
204 4 0.01
205 650 0.99
206 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTT
CAGCATAAACATCTGAAGGTGAGATCTGCTGTGTATCTGCCCTCCATTGAAGTGGAGATGCCAGA
CTTCGATTTG
Found at i:50224031 original size:31 final size:32
Alignment explanation
Indices: 50223991--50224051 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
50223981 ATGTAAAAGA
50223991 ATTTATAAAATAACACATAATATAA-AAATATC
1 ATTTATAAAATAACACATAATA-AATAAATATC
*
50224023 ATTT-TAAAATAATACATAATAAATAAATA
1 ATTTATAAAATAACACATAATAAATAAATA
50224052 ATTAATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.07
31 21 0.78
32 4 0.15
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (32 bp):
ATTTATAAAATAACACATAATAAATAAATATC
Found at i:50224137 original size:27 final size:26
Alignment explanation
Indices: 50224107--50224171 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
50224097 TTCAGAATTT
*
50224107 TAAATAATGTAAT-GAATGATATAAATA
1 TAAATAATGTAATAG-ATAATATAAA-A
*
50224134 TAAATAATATAATAGATAATATAAAA
1 TAAATAATGTAATAGATAATATAAAA
50224160 -AAATAA-GTAATA
1 TAAATAATGTAATA
50224172 TAAAAATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 5 0.15
25 6 0.18
26 1 0.03
27 21 0.62
28 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (26 bp):
TAAATAATGTAATAGATAATATAAAA
Found at i:50226481 original size:50 final size:51
Alignment explanation
Indices: 50226406--50226661 Score: 230
Period size: 55 Copynumber: 4.8 Consensus size: 51
50226396 ACGCGGGTAC
* * * *
50226406 CTTACCATTGTCATGACTTGCCATGGTCTTACATGGTATCCTTTTTA-AAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTCTTATAAA
* *
50226456 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT--CTTATAAA
* * * *
50226509 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCC--TT-CTTATA--AA
* * * * * * *
50226564 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCCTGCCTTAGAAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTAT-CCT-TCTTATAAA
50226617 CCTTACCAATTGCCATGCCTTGGA-ATGGTCTTACATGGTATCCTT
1 -CTTACC-ATTGCCATGCCTT-GACATGGTCTTACATGGTATCCTT
50226662 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 26, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
50 40 0.24
52 5 0.03
53 43 0.26
54 10 0.06
55 65 0.39
56 2 0.01
57 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (51 bp):
CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTCTTATAAA
Found at i:50226611 original size:108 final size:110
Alignment explanation
Indices: 50226454--50226654 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
50226444 TCCTTTTTAA
* * *
50226454 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCCTGCCTTA-GAAACCTCACCAA
*
50226517 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
65 TTGCCATGCCTTGGAATGGTCTTACATGGGACCTTTTCCTTATAGT
* * *
50226562 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCCTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCCTGCCTTAGAAACCTCACCAAT
50226627 TGCCATGCCTTGGAATGGTCTTACATGG
66 TGCCATGCCTTGGAATGGTCTTACATGG
50226655 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.58
109 7 0.08
110 27 0.33
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCCTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGAATGGTCTTACATGGGACCTTTTCCTTATAGT
Found at i:50233898 original size:40 final size:40
Alignment explanation
Indices: 50233820--50234040 Score: 295
Period size: 40 Copynumber: 5.5 Consensus size: 40
50233810 ACCCAAGTGT
* *
50233820 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
50233859 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
50233899 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
50233939 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
50233982 CTTCGGGACTTATCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
50234022 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
50234041 CATCATCCGA
Statistics
Matches: 161, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 12 0.07
40 113 0.70
41 1 0.01
43 35 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:50234016 original size:83 final size:79
Alignment explanation
Indices: 50233820--50234040 Score: 291
Period size: 83 Copynumber: 2.7 Consensus size: 79
50233810 ACCCAAGTGT
* * * * *
50233820 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
**
50233885 ACTAGCATGAATGC
66 ACTAGCACAAATGC
* *
50233899 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTA-CCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
50233963 CAACTACTCGCACAAATGC
65 C-ACTA---GCACAAATGC
*
50233982 CTTCGGGACTTATCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTA-CCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
50234041 CATCATCCGA
Statistics
Matches: 124, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 12 0.10
80 49 0.40
83 63 0.51
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:50240687 original size:71 final size:70
Alignment explanation
Indices: 50240571--50240711 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 70
50240561 AACTTAATTC
*
50240571 ATTTATTTACACAGTTCAATTTAAAATTTCCAGACAAGTTGGCTAACTGCATCACTGTCACCCTA
1 ATTTATTTACACAGTTCAATATAAAATTTCCAGACAAGTTGGCTAACTGCATCACTGTCACCCTA
50240636 AAAAT
66 AAAAT
50240641 NATTTATTTACACAGTTCAATATAAAATTTCCAGACAAGTTGGCTAACTGCATCACTGTCACCCT
1 -ATTTATTTACACAGTTCAATATAAAATTTCCAGACAAGTTGGCTAACTGCATCACTGTCACCCT
50240706 AAAAAT
65 AAAAAT
50240712 CATATCTTGA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.32
Consensus pattern (70 bp):
ATTTATTTACACAGTTCAATATAAAATTTCCAGACAAGTTGGCTAACTGCATCACTGTCACCCTA
AAAAT
Found at i:50242057 original size:43 final size:40
Alignment explanation
Indices: 50241931--50242111 Score: 204
Period size: 40 Copynumber: 4.5 Consensus size: 40
50241921 ACCCAAGTGT
* **
50241931 CTTCGGGATTTAG-CCGGATATAGCAACTCACACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGC
* * * **
50241970 CTTCGGGTCTTAGCCCGGATATGGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTTGCACAAATGC
* *
50242010 CTTCGGGACTTAGCCCGGGTGTAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACT--T-GCACAAATGC
* *
50242053 CTTCGGGACTTAGCCTGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGC
50242093 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
50242112 CATCATCCGA
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
39 12 0.10
40 70 0.60
41 2 0.02
43 33 0.28
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGC
Found at i:50242066 original size:83 final size:83
Alignment explanation
Indices: 50241956--50242110 Score: 238
Period size: 83 Copynumber: 1.9 Consensus size: 83
50241946 GGATATAGCA
* * * **
50241956 ACTCACACAAATGCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATGAATGCCTTCGGGACTT
1 ACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTT
50242021 AGCCCGGGTGTAGCAACT
66 AGCCCGGGTGTAGCAACT
* * *
50242039 ACTCGCACAAATGCCTTCGGGACTTAGCCTGGATATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTT
50242104 AGCCCGG
66 AGCCCGG
50242111 ACATCATCCG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 64 1.00
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (83 bp):
ACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTT
AGCCCGGGTGTAGCAACT
Found at i:50242753 original size:38 final size:39
Alignment explanation
Indices: 50242699--50242777 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 39
50242689 GCACTACCAC
*
50242699 ATATTCACACA-TATATATATTATGCCATTTACTCATAA
1 ATATTCACACACAATATATATTATGCCATTTACTCATAA
50242737 ATATTCACACACATATATATATTATGCCATTTACTCATAA
1 ATATTCACACACA-ATATATATTATGCCATTTACTCATAA
50242777 A
1 A
50242778 CCCCATTATG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 11 0.29
40 27 0.71
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (39 bp):
ATATTCACACACAATATATATTATGCCATTTACTCATAA
Found at i:50242799 original size:25 final size:25
Alignment explanation
Indices: 50242757--50242804 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
50242747 ACATATATAT
**
50242757 ATTATGCCATTTACTCATAAACCCC
1 ATTATGCCAAATACTCATAAACCCC
* *
50242782 ATTATGCCAAATATTCATTAACC
1 ATTATGCCAAATACTCATAAACC
50242805 AATAGTCACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (25 bp):
ATTATGCCAAATACTCATAAACCCC
Found at i:50250248 original size:40 final size:39
Alignment explanation
Indices: 50250204--50250355 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 39
50250194 ATAGCAACTC
* * *
50250204 GCACAAATGCCTTTGGGTCTTAGCCCAAATATAGTCAATA
1 GCACAAATGCCTTCGGGACTTAGCCCAAATATA-TCACTA
* **
50250244 GCACAAAAGCCTTCGGGACTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCAAATAT-ATCACTA
50250284 GCACAAATGCCTTCGGGACTTAGCCCGGAAATA-ATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCC--AAATATATCACTA
* * *
50250324 GCATAAATGCCTTCGGGACTTAACCCAGATAT
1 GCACAAATGCCTTCGGGACTTAGCCCAAATAT
50250356 CATTCGAATA
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
38 4 0.04
40 88 0.92
41 1 0.01
42 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (39 bp):
GCACAAATGCCTTCGGGACTTAGCCCAAATATATCACTA
Found at i:50250306 original size:80 final size:79
Alignment explanation
Indices: 50250174--50250355 Score: 217
Period size: 80 Copynumber: 2.3 Consensus size: 79
50250164 AACCCAAGTA
* * * *
50250174 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTTGGGTCTTAGCCC-AAATATA
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGAAATA-A
50250237 GTCAATAGCACAAAAG
65 -TCAATAGCACAAAAG
*
50250253 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAATA
1 CCTTCGGGACTTAGCCCGGATAT-AGCAACTAGCACAAATGCCTTCGGGACTTAGCCC-GAAATA
* * *
50250317 ATCACTAGCATAAATG
64 ATCAATAGCACAAAAG
* *
50250333 CCTTCGGGACTTAACCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
50250356 CATTCGAATA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
79 13 0.15
80 68 0.76
81 3 0.03
82 5 0.06
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGAAATAAT
CAATAGCACAAAAG
Found at i:50250401 original size:59 final size:59
Alignment explanation
Indices: 50250309--50250427 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
50250299 GGACTTAGCC
50250309 CGGAAATAATCACTAGCATAAATGCCTTCGGGACTTAACCCAGATATCATTCGAATACT
1 CGGAAATAATCACTAGCATAAATGCCTTCGGGACTTAACCCAGATATCATTCGAATACT
50250368 CGGAAATAATCACTAGCATAAATGCCTTCGGGACTTAACCCAGATATCATTCGAATACT
1 CGGAAATAATCACTAGCATAAATGCCTTCGGGACTTAACCCAGATATCATTCGAATACT
50250427 C
1 C
50250428 ATGCACATAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (59 bp):
CGGAAATAATCACTAGCATAAATGCCTTCGGGACTTAACCCAGATATCATTCGAATACT
Found at i:50259831 original size:49 final size:49
Alignment explanation
Indices: 50259762--50259956 Score: 228
Period size: 49 Copynumber: 3.9 Consensus size: 49
50259752 TAGCCAAAGC
* *
50259762 TATCTGGTACACATAATAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
50259811 TATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * *
50259862 TATCGGGTACGCATAGTATCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * *
50259911 AATTCGGTACACGTAGTAGCTTGTACTTAGTACTACACATGTGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
50259957 TCACAATAGA
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 76 0.63
50 6 0.05
51 38 0.32
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:50259940 original size:100 final size:100
Alignment explanation
Indices: 50259762--50259954 Score: 296
Period size: 100 Copynumber: 1.9 Consensus size: 100
50259752 TAGCCAAAGC
* *
50259762 TATCTGGTACACATAATAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACACATAATAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
50259827 TAGCCTACACTTAGTACTACACACGTGATCGAAGT
66 TAGCCTACACTTAGTACTACACACGTGATCGAAGT
* * * *
50259862 TATCGGGTACGCATAGTATCCTGCACTTAGTACTACACATGCGACCAATAATTCGGTACACGTAG
1 TATCGGGTACACATAATAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
* ** *
50259927 TAGCTTGTACTTAGTACTACACATGTGA
66 TAGCCTACACTTAGTACTACACACGTGA
50259955 CCTCACAATA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (100 bp):
TATCGGGTACACATAATAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
TAGCCTACACTTAGTACTACACACGTGATCGAAGT
Found at i:50268880 original size:38 final size:38
Alignment explanation
Indices: 50268826--50268903 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
50268816 TAAATGCAAG
*
50268826 ATAGTCTTTTACGAATGTGAAATTGTTGGTATAGTTAA
1 ATAGTCTTTCACGAATGTGAAATTGTTGGTATAGTTAA
*
50268864 ATAGTCTTTCATGAATGTGAAATTGTTGGTATAGTTAA
1 ATAGTCTTTCACGAATGTGAAATTGTTGGTATAGTTAA
50268902 AT
1 AT
50268904 TTATGAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (38 bp):
ATAGTCTTTCACGAATGTGAAATTGTTGGTATAGTTAA
Found at i:50277070 original size:19 final size:21
Alignment explanation
Indices: 50277031--50277071 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
50277021 GTCCTCAATG
50277031 TACAAACAAATATAAATCATAA
1 TACAAACAAATAT-AATCATAA
50277053 TACAAACAAA-AT-ATCATAA
1 TACAAACAAATATAATCATAA
50277072 GGTAGGGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
21 2 0.11
22 10 0.53
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (21 bp):
TACAAACAAATATAATCATAA
Found at i:50277289 original size:6 final size:6
Alignment explanation
Indices: 50277273--50277320 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
50277263 AGGAAAACAT
* * *
50277273 AATAAA CATAAA AATAAA AATAAA AATAAA AATAAA CATAAA GATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
50277321 TAGACTCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:50278914 original size:17 final size:18
Alignment explanation
Indices: 50278882--50278916 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
50278872 ATAAAAAGAC
*
50278882 TAATAATGACAAGAATAA
1 TAATAATGAAAAGAATAA
50278900 TAATAAT-AAAAGAATAA
1 TAATAATGAAAAGAATAA
50278917 AGAATAGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.03, G:0.09, T:0.23
Consensus pattern (18 bp):
TAATAATGAAAAGAATAA
Found at i:50284839 original size:38 final size:38
Alignment explanation
Indices: 50284787--50284902 Score: 126
Period size: 38 Copynumber: 3.1 Consensus size: 38
50284777 AACTTTAATT
* * *
50284787 ACACCGATAATAAGCCTACTAGGCACTAAGCCTGACTA
1 ACACCGACACTAAGCCTACTAGGCACTAAGCCTGAATA
* * * *
50284825 ACATCGGCAGTAAGCCTTCTAGGCA-TAAAGCCTGAATA
1 ACACCGACACTAAGCCTACTAGGCACT-AAGCCTGAATA
* * *
50284863 ACACCGACACTAGGCCTACTAGGCACAAAGCCTAAATA
1 ACACCGACACTAAGCCTACTAGGCACTAAGCCTGAATA
50284901 AC
1 AC
50284903 GATATAACTT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
37 1 0.02
38 62 0.98
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.17
Consensus pattern (38 bp):
ACACCGACACTAAGCCTACTAGGCACTAAGCCTGAATA
Found at i:50289426 original size:26 final size:21
Alignment explanation
Indices: 50289370--50289415 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
50289360 ATATATATAC
50289370 TAAAAATAAATCTAATCATAG
1 TAAAAATAAATCTAATCATAG
50289391 TAAAAATAAATCTAATCATAG
1 TAAAAATAAATCTAATCATAG
50289412 TAAA
1 TAAA
50289416 GCAATCCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.59, C:0.09, G:0.04, T:0.28
Consensus pattern (21 bp):
TAAAAATAAATCTAATCATAG
Found at i:50291040 original size:11 final size:10
Alignment explanation
Indices: 50291002--50291047 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
50290992 TATTCTTGAA
50291002 TTTTT-TAAT
1 TTTTTATAAT
*
50291011 TTTTTTTAAT
1 TTTTTATAAT
50291021 TTCTTTATATAT
1 TT-TTTATA-AT
50291033 TTTTTATAAT
1 TTTTTATAAT
50291043 TTTTT
1 TTTTT
50291048 TAAAAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.39
11 11 0.33
12 4 0.12
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:50291123 original size:21 final size:21
Alignment explanation
Indices: 50291089--50291134 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
50291079 AATATTTTTA
50291089 TTTTGAAATTTTTTTTG-AAT
1 TTTTGAAATTTTTTTTGTAAT
*
50291109 TTTTGAATTTTTTTTTGTAAT
1 TTTTGAAATTTTTTTTGTAAT
50291130 TTTTG
1 TTTTG
50291135 TTGAGAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.70
Consensus pattern (21 bp):
TTTTGAAATTTTTTTTGTAAT
Found at i:50292016 original size:38 final size:38
Alignment explanation
Indices: 50291972--50292586 Score: 1162
Period size: 38 Copynumber: 16.2 Consensus size: 38
50291962 TGGGGTGATT
50291972 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
* *
50292010 TGGGTGGCCAAAGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
* *
50292048 TAGGTGG-GATTAGG-GTGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCA--AGGTGGGTGGCCAACAAGGGTGGTGGAG
50292086 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292124 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292162 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292200 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292238 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292276 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292314 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292352 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292390 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292428 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292466 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292504 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292542 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
50292580 TAGGTGG
1 TAGGTGG
50292587 GATTAGGGTT
Statistics
Matches: 565, Mismatches: 8, Indels: 8
0.97 0.01 0.01
Matches are distributed among these distances:
37 4 0.01
38 558 0.99
39 3 0.01
ACGTcount: A:0.21, C:0.13, G:0.50, T:0.16
Consensus pattern (38 bp):
TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
Found at i:50293210 original size:44 final size:41
Alignment explanation
Indices: 50293146--50293249 Score: 102
Period size: 44 Copynumber: 2.5 Consensus size: 41
50293136 TTTGATCTGC
* * *
50293146 TCCACTGCAACTCCATGGAGATAAGACACGT-GACTTCAATTAA
1 TCCACTGAAACTTCAAGGAGATAAG-C-CGTAG-CTTCAATTAA
** * *
50293189 TTCCACTGAAACTTCAAGGAGATCTGCTGTAGCTTCGATTAA
1 -TCCACTGAAACTTCAAGGAGATAAGCCGTAGCTTCAATTAA
50293231 TCCACTGAAACTTCAAGGA
1 TCCACTGAAACTTCAAGGA
50293250 AATCTGCTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
41 19 0.37
42 11 0.21
43 2 0.04
44 20 0.38
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (41 bp):
TCCACTGAAACTTCAAGGAGATAAGCCGTAGCTTCAATTAA
Found at i:50293240 original size:41 final size:42
Alignment explanation
Indices: 50293179--50293264 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 42
50293169 AGACACGTGA
*
50293179 CTTCAATTAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
1 CTTCAATTAATTCCACTGAAACTTCAAGGAAATCTGCTGTAG
* *
50293221 CTTCGATTAA-TCCACTGAAACTTCAAGGAAATCTGCTGTGG
1 CTTCAATTAATTCCACTGAAACTTCAAGGAAATCTGCTGTAG
50293262 CTT
1 CTT
50293265 TTAGCTGCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 32 0.78
42 9 0.22
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (42 bp):
CTTCAATTAATTCCACTGAAACTTCAAGGAAATCTGCTGTAG
Found at i:50293343 original size:68 final size:68
Alignment explanation
Indices: 50293230--50293499 Score: 452
Period size: 68 Copynumber: 4.0 Consensus size: 68
50293220 GCTTCGATTA
* *
50293230 ATCCACTGAAACTTCAAGGAAATCTGCTGTGGCTTTTAGCTGCTCCAACGCCATTTCAGGGAGAA
1 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
50293295 GAG
66 GAG
* * * *
50293298 ATTCACTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACACCATATCAGGGAGAA
1 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
50293363 GAG
66 GAG
* *
50293366 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCACTTCAGGGAAAA
1 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
50293431 GAG
66 GAG
*
50293434 ATCCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACG-CATTTCAGGGAGAA
1 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
50293498 GA
66 GA
50293500 TATTTGATTT
Statistics
Matches: 187, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
67 14 0.07
68 173 0.93
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (68 bp):
ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
GAG
Found at i:50293613 original size:44 final size:43
Alignment explanation
Indices: 50293565--50293674 Score: 132
Period size: 43 Copynumber: 2.5 Consensus size: 43
50293555 TGATCTGTTT
*
50293565 CCCTACTACTTAGGGGTTTAAGATCTTGTAAAATCA-ACCTATTA
1 CCCTACTGCTTAGGGGTTTAAGATC-TGTAAAATCAGACC-ATTA
* * * * *
50293609 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGTCCGTTA
1 CCCTACTGCTTAGGGGTTTAAGATCTGTAAAATCAGACCATTA
*
50293652 CCCTACTGCTTAGGGTTTTAAGA
1 CCCTACTGCTTAGGGGTTTAAGA
50293675 CTCATCATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
43 32 0.56
44 25 0.44
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (43 bp):
CCCTACTGCTTAGGGGTTTAAGATCTGTAAAATCAGACCATTA
Found at i:50293653 original size:43 final size:43
Alignment explanation
Indices: 50293517--50293666 Score: 151
Period size: 44 Copynumber: 3.4 Consensus size: 43
50293507 TTTTCAACCT
* * * *
50293517 GTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTCATCATTGATCT
1 GTTACCCTACTGCTTAGGGGGTTAAGATCTTGT-A-AATTCATCC
* * * * *
50293561 GTTTCCCTACTACTTAGGGGTTTAAGATCTTGTAAAATCAACC
1 GTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTCATCC
* *
50293604 TATTACCCTACTGCTTAGGGGGTTAAGATC-TGTAAATTTAGTCC
1 -GTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTCA-TCC
50293648 GTTACCCTACTGCTTAGGG
1 GTTACCCTACTGCTTAGGG
50293667 TTTTAAGACT
Statistics
Matches: 86, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
43 30 0.35
44 51 0.59
45 5 0.06
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (43 bp):
GTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTCATCC
Found at i:50293997 original size:44 final size:43
Alignment explanation
Indices: 50293819--50294023 Score: 116
Period size: 44 Copynumber: 4.7 Consensus size: 43
50293809 ATCTGTAATT
* * * * * *
50293819 TTCAGCCTATTACCCTACTACTTAGGGGGTT-AAGGTCTGTAAA
1 TTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCT-TGAC
** *
50293862 TTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATT-ATT
1 TTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTC-TTGA-C
* * * *
50293906 TTCGATCTAT-TT-CCCTACTGCTTAGGGTGAT-AAGATCTATGAAC
1 TTC-AGCT-TGTTACCCTACTGCTTAGGGGGTTAAAGCTCT-TG-AC
* *
50293950 TTCAGCTTGTTACCCTACAGCTTAGGGGGTTAAAGCTCGTTGCC
1 TTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTC-TTGAC
* * * *
50293994 TTCA-ATCTATTCCCCTACTGCTTATGGGGT
1 TTCAGCT-TGTTACCCTACTGCTTAGGGGGT
50294024 AAGATTTGTG
Statistics
Matches: 124, Mismatches: 25, Indels: 25
0.71 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 39 0.31
44 68 0.55
45 13 0.10
46 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (43 bp):
TTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCTTGAC
Found at i:50297739 original size:21 final size:21
Alignment explanation
Indices: 50297713--50297754 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
50297703 TAAGGTGTCG
50297713 ATATGAGGCAACGGGAAATTA
1 ATATGAGGCAACGGGAAATTA
50297734 ATATGAGGCAACGGGAAATTA
1 ATATGAGGCAACGGGAAATTA
50297755 TCTTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.29, T:0.19
Consensus pattern (21 bp):
ATATGAGGCAACGGGAAATTA
Found at i:50304593 original size:12 final size:12
Alignment explanation
Indices: 50304578--50304607 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50304568 ACAATAATAC
50304578 TATATATAAATG
1 TATATATAAATG
*
50304590 TATATATATATG
1 TATATATAAATG
50304602 TATATA
1 TATATA
50304608 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TATATATAAATG
Found at i:50304710 original size:19 final size:17
Alignment explanation
Indices: 50304686--50304732 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
50304676 AATTAAAGTA
*
50304686 ATAAAAAATAATACTATAT
1 ATAAAAAAT-ATA-TATAC
*
50304705 ATAAAATATATATATAC
1 ATAAAAAATATATATAC
50304722 AT-AAAAATATA
1 ATAAAAAATATA
50304733 CACTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 3 0.12
19 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATATATATAC
Found at i:50304728 original size:18 final size:19
Alignment explanation
Indices: 50304689--50304737 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
50304679 TAAAGTAATA
*
50304689 AAAAATA-ATACTATATAT
1 AAAAATATATACTATACAT
50304707 -AAAATATATA-TATACAT
1 AAAAATATATACTATACAT
*
50304724 AAAAATATACACTA
1 AAAAATATATACTA
50304738 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 12 0.46
18 12 0.46
19 2 0.08
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATATATACTATACAT
Found at i:50304964 original size:3 final size:3
Alignment explanation
Indices: 50304951--50305036 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
50304941 GAGGGCATAT
50304951 ATA AT- ATA ATA ATA AT- ATA A-A A-A ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA
* *
50304995 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
50305037 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 13 0.19
3 46 0.68
4 7 0.10
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:50304977 original size:18 final size:18
Alignment explanation
Indices: 50304956--50305036 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
50304946 CATATATAAT
50304956 ATAATAATAATATAAAAA
1 ATAATAATAATATAAAAA
* *
50304974 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-ATAAAAA
*
50304995 ATAATAATAATATAAATA
1 ATAATAATAATATAAAAA
*
50305013 ATAGTAA-AA-ATAATAAA
1 ATAATAATAATATAA-AAA
50305030 ATAATAA
1 ATAATAA
50305037 AACAAAGCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
16 4 0.08
17 10 0.19
18 18 0.34
19 5 0.09
20 5 0.09
21 11 0.21
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (18 bp):
ATAATAATAATATAAAAA
Found at i:50306255 original size:28 final size:29
Alignment explanation
Indices: 50306223--50306295 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
50306213 AATAAAAACC
*
50306223 AATAAAAATTATAAAATTA-TTGAACTTT
1 AATAAAAATTATAAAATTATTTAAACTTT
*
50306251 AATAAAAA-TATAAAAATTATTTAAATTTT
1 AATAAAAATTAT-AAAATTATTTAAACTTT
* *
50306280 ACTAAAAATTAAAAAA
1 AATAAAAATTATAAAA
50306296 AATATATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 3 0.08
28 15 0.39
29 18 0.47
30 2 0.05
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (29 bp):
AATAAAAATTATAAAATTATTTAAACTTT
Found at i:50306285 original size:29 final size:27
Alignment explanation
Indices: 50306223--50306294 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
50306213 AATAAAAACC
*
50306223 AATAAAAATTATAAAATTATTGAACTTT
1 AATAAAAATTA-AAAATTATTAAACTTT
*
50306251 AATAAAAATATAAAAATTATTTAAATTTT
1 AATAAAAAT-TAAAAATTA-TTAAACTTT
*
50306280 ACTAAAAATTAAAAA
1 AATAAAAATTAAAAA
50306295 AAATATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 22 0.56
29 17 0.44
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (27 bp):
AATAAAAATTAAAAATTATTAAACTTT
Found at i:50306636 original size:29 final size:28
Alignment explanation
Indices: 50306604--50306680 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
50306594 CGATTTTTAT
50306604 AATATTTTTCTA-ATTTTTAATAAAAATTA
1 AATATTTTT-TATATTTTT-ATAAAAATTA
* * *
50306633 AATATTTCTTATATTTTTATTAAAATTT
1 AATATTTTTTATATTTTTATAAAAATTA
* * *
50306661 AATAATTTTTAAACTTTTAT
1 AATATTTTTTATATTTTTAT
50306681 TTTTTTTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 26 0.65
29 14 0.35
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (28 bp):
AATATTTTTTATATTTTTATAAAAATTA
Found at i:50311953 original size:46 final size:46
Alignment explanation
Indices: 50311898--50312073 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
50311888 TATTTGGGCA
*
50311898 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
50311944 TCTGAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
50311989 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50312037 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50312074 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.05
45 1 0.01
46 63 0.57
47 28 0.25
48 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50312053 original size:93 final size:93
Alignment explanation
Indices: 50311894--50312065 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
50311884 AGGATATTTG
* * *
50311894 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50311959 TTGAGTCCGAGTTCAAGAGATGTAACTA
66 TTGAGTCCGAGTTCAAGAGATGTAACTA
* * *
50311987 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50312052 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
50312066 GCTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCAAGAGATGTAACTA
Found at i:50315531 original size:30 final size:30
Alignment explanation
Indices: 50315497--50315554 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
50315487 CCCTAATACG
50315497 AACTTTAACAAAATTAC-CATTTTGCCCCTA
1 AACTTTAACAAAATTACAC-TTTTGCCCCTA
* * *
50315527 AACTTTCACATATTTACACTTTTGCCCC
1 AACTTTAACAAAATTACACTTTTGCCCC
50315555 AAGGCTCGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.29, G:0.03, T:0.36
Consensus pattern (30 bp):
AACTTTAACAAAATTACACTTTTGCCCCTA
Found at i:50326374 original size:28 final size:29
Alignment explanation
Indices: 50326334--50326388 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
50326324 CACGGGCGAT
* *
50326334 GACACTGGCGTGT-CTAGGCTGTGTGAGG
1 GACACAGGCGTGTGCTAGGCCGTGTGAGG
*
50326362 GACACAGGCGTGTGCTTGGCCGTGTGA
1 GACACAGGCGTGTGCTAGGCCGTGTGA
50326389 AAACCCCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.15, C:0.20, G:0.42, T:0.24
Consensus pattern (29 bp):
GACACAGGCGTGTGCTAGGCCGTGTGAGG
Found at i:50328042 original size:18 final size:17
Alignment explanation
Indices: 50328019--50328052 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
50328009 TAACTTGTTT
*
50328019 ATCAATCACATTATTCAA
1 ATCAATC-CATAATTCAA
50328037 ATCAATCCATAATTCA
1 ATCAATCCATAATTCA
50328053 TGCTTTGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (17 bp):
ATCAATCCATAATTCAA
Found at i:50333192 original size:27 final size:27
Alignment explanation
Indices: 50333160--50333225 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
50333150 TAGTTGAACT
*
50333160 ATGGCAAAGTGATAAAGTGTGCTAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
50333187 ATGGCAAAGTGATAAAGTGTGCCAAAT
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
50333214 ATGGCAAAGTGA
1 ATGGCAAAGTGA
50333226 AATGTGACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.21
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:50341009 original size:40 final size:40
Alignment explanation
Indices: 50340942--50341111 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
50340932 GGACTAAGAT
* * *
50340942 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
**
50340982 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* ** *
50341022 CCGAAGGCATTCGTGCGAATTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
50341062 CCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
50341101 CCGAAGGCATT
1 CCGAAGGCATT
50341112 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.29
40 84 0.71
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:50341026 original size:80 final size:79
Alignment explanation
Indices: 50340889--50341113 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 79
50340879 TTGAATGCTG
* * * ** * * * *
50340889 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCATT
50340953 TGTGCGAGA-TACTAAA
64 TGTGCGA-ATTACTAAA
** * *
50340969 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
**
50341034 GTGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * *
50341049 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
50341114 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 37 0.31
80 80 0.66
81 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:50341131 original size:79 final size:80
Alignment explanation
Indices: 50340964--50341146 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
50340954 GTGCGAGATA
** *
50340964 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
50341029 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * *
50341044 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
50341108 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
* *
50341123 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
50341147 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:50349358 original size:42 final size:41
Alignment explanation
Indices: 50349311--50349464 Score: 182
Period size: 42 Copynumber: 3.7 Consensus size: 41
50349301 TGAGACTATG
* *
50349311 TGTAAGACCATATTTGGGATATGGCATCATTAAGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCA-TAAGAGATTTCA
*
50349353 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATC-ATAAGAGATTTCA
* * * **
50349395 TGTAAGACCATAGCTGGGCTATTGGCATCAAAATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCATAA-GAGATTTCA
* *
50349438 TATAAGACTATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
50349465 TGGTGTGGTA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
42 64 0.67
43 32 0.33
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCATAAGAGATTTCA
Found at i:50362276 original size:29 final size:29
Alignment explanation
Indices: 50362234--50362291 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
50362224 ATGGAGAAGA
50362234 AAGATGAACAATTTTGGCTTTTATTTTGT
1 AAGATGAACAATTTTGGCTTTTATTTTGT
50362263 AAGATGAACAATTTTGGCTTTTATTTTGT
1 AAGATGAACAATTTTGGCTTTTATTTTGT
50362292 CTTTTAGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (29 bp):
AAGATGAACAATTTTGGCTTTTATTTTGT
Found at i:50362983 original size:42 final size:41
Alignment explanation
Indices: 50362879--50363028 Score: 183
Period size: 42 Copynumber: 3.6 Consensus size: 41
50362869 ACCAATGTCG
* * * * *
50362879 TATCCTAGATATGGTCTTATATGTAATCTCGTATTGATGCCAA
1 TATCCCAGATATGGTCTTACACG-AATCTCATATAGATGCC-A
* * *
50362922 TAACCCAGCTATGGTCTTACACGAAGTCTCATATCGATGCCA
1 TATCCCAGATATGGTCTTACACGAA-TCTCATATAGATGCCA
*
50362964 TATCCCAGATATGGTCTTACACGAAATCTTATATAGATGCCA
1 TATCCCAGATATGGTCTTACACG-AATCTCATATAGATGCCA
50363006 TATCCCAGATATGGTCTTACACG
1 TATCCCAGATATGGTCTTACACG
50363029 TGATCTCAGT
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 61 0.65
43 33 0.35
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (41 bp):
TATCCCAGATATGGTCTTACACGAATCTCATATAGATGCCA
Found at i:50366526 original size:44 final size:46
Alignment explanation
Indices: 50366423--50366541 Score: 145
Period size: 44 Copynumber: 2.6 Consensus size: 46
50366413 GAGTGCCAGA
*
50366423 GTAAGACATGTCTGGGACATGCATCAACCTTGACAGAGATAGCTAGT
1 GTAAGACATGTCTGGGACATGCATC-AGCTTGACAGAGATAGCTAGT
* * * *
50366470 GTAAGACGTGTCTGGGACACGCATCAGC-T-A-AGAGTTGTGCTAGT
1 GTAAGACATGTCTGGGACATGCATCAGCTTGACAGAGAT-AGCTAGT
*
50366514 GTAAGACATGTCTAGGACATGCATCAGC
1 GTAAGACATGTCTGGGACATGCATCAGC
50366542 ATGCATATAC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
43 5 0.08
44 32 0.51
45 1 0.02
46 2 0.03
47 23 0.37
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCAGCTTGACAGAGATAGCTAGT
Found at i:50368837 original size:37 final size:37
Alignment explanation
Indices: 50368787--50368860 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
50368777 CTGGAATCAA
50368787 TTGTAACAGAGATAATATTTTTTCCAAATATATATAT
1 TTGTAACAGAGATAATATTTTTTCCAAATATATATAT
*
50368824 TTGTAACAGAGATAATATTTTTTCGAAATATATATAT
1 TTGTAACAGAGATAATATTTTTTCCAAATATATATAT
50368861 ATAAAACAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (37 bp):
TTGTAACAGAGATAATATTTTTTCCAAATATATATAT
Found at i:50368843 original size:18 final size:18
Alignment explanation
Indices: 50368787--50368843 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
50368777 CTGGAATCAA
50368787 TTGTAACAGAGATAATAT
1 TTGTAACAGAGATAATAT
* ** * *
50368805 TTTTTCCAAATATATATAT
1 TTGTAACAGAGATA-ATAT
50368824 TTGTAACAGAGATAATAT
1 TTGTAACAGAGATAATAT
50368842 TT
1 TT
50368844 TTTCGAAATA
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (18 bp):
TTGTAACAGAGATAATAT
Found at i:50370342 original size:46 final size:46
Alignment explanation
Indices: 50370288--50370463 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
50370278 TGGTTGAGCA
*
50370288 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *** * * * *
50370334 TCCAAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTA-ACTAGGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACG
*
50370381 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
50370427 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50370464 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 72 0.68
47 34 0.32
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:50375862 original size:46 final size:45
Alignment explanation
Indices: 50375812--50375984 Score: 170
Period size: 46 Copynumber: 3.8 Consensus size: 45
50375802 TTGAGCATCT
50375812 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*** * *
50375858 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-G-CGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
* * * ** *
50375905 GAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACACTT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTC-C
*
50375951 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50375985 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 2 0.02
46 62 0.61
47 31 0.30
48 1 0.01
49 2 0.02
50 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCC
Found at i:50379640 original size:8 final size:8
Alignment explanation
Indices: 50379627--50379656 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
50379617 ATACCTAATA
50379627 TGATAGCT
1 TGATAGCT
50379635 TGATAGCT
1 TGATAGCT
*
50379643 TGATAGTT
1 TGATAGCT
50379651 TGATAG
1 TGATAG
50379657 GATCTCCAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (8 bp):
TGATAGCT
Found at i:50381913 original size:39 final size:40
Alignment explanation
Indices: 50381868--50382039 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
50381858 GCTCCTCGTT
* * *
50381868 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
50381908 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
50381947 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
50381987 CAAAGGCCTTCGGGGCTTAACTCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
50382027 CAAATGCCTTCGG
1 CAAATGCCTTCGG
50382040 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.30
40 79 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:50381968 original size:40 final size:39
Alignment explanation
Indices: 50381870--50382092 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
50381860 TCCTCGTTCA
* * * *
50381870 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
50381909 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
50381948 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
50381988 AAAGGCCTTCGGGGCTTAACTCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
50382028 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
50382069 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50382093 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 103 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:50382101 original size:41 final size:41
Alignment explanation
Indices: 50382024--50382101 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
50382014 TTTGTATCTC
* * *
50382024 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
50382065 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
50382102 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:50383225 original size:10 final size:11
Alignment explanation
Indices: 50383199--50383236 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
50383189 ACTACACACA
50383199 CATTTTTTTTT
1 CATTTTTTTTT
50383210 CATTTTTTTTT
1 CATTTTTTTTT
*
50383221 C-TTTTGTTTTC
1 CATTTT-TTTTT
50383232 CATTT
1 CATTT
50383237 CTTTATTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 4 0.17
11 17 0.71
12 3 0.12
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (11 bp):
CATTTTTTTTT
Found at i:50388060 original size:48 final size:48
Alignment explanation
Indices: 50387906--50388053 Score: 215
Period size: 48 Copynumber: 3.1 Consensus size: 48
50387896 ATATATACAC
* * **
50387906 ATCTCATACATATTTCACATTATCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** * *
50387954 GGCTCATACATATTTCACATTAGCCTTTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
50388002 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
50388050 ATCT
1 ATCT
50388054 TGTACATCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:50389369 original size:26 final size:27
Alignment explanation
Indices: 50389324--50389376 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50389314 TTAAATTCTG
* *
50389324 GCATGCATTCGGACACTTAAAAATTCA
1 GCATACATTCGAACACTTAAAAATTCA
*
50389351 GCATACATTCGAACA-TTAAAATTTCA
1 GCATACATTCGAACACTTAAAAATTCA
50389377 CTAGCTGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
GCATACATTCGAACACTTAAAAATTCA
Found at i:50396465 original size:20 final size:21
Alignment explanation
Indices: 50396420--50396465 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
50396410 TGGAAATATG
*
50396420 ACATGAAAGAATATTACATGA
1 ACATGAAAGAATAATACATGA
50396441 A-ATGAAAGAA-AATA-ATGA
1 ACATGAAAGAATAATACATGA
50396459 TACATGA
1 -ACATGA
50396466 CAAGTGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 13 0.59
21 1 0.05
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.22
Consensus pattern (21 bp):
ACATGAAAGAATAATACATGA
Found at i:50399149 original size:23 final size:23
Alignment explanation
Indices: 50399115--50399158 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
50399105 TCTTGCAAGC
50399115 TAATTCTATTTTATTTTATTTAT
1 TAATTCTATTTTATTTTATTTAT
*
50399138 TAATT-TACTTTTTTTTTATTT
1 TAATTCTA-TTTTATTTTATTT
50399159 TTTCTTGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (23 bp):
TAATTCTATTTTATTTTATTTAT
Found at i:50402861 original size:18 final size:18
Alignment explanation
Indices: 50402838--50402882 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
50402828 TAGGCCATTG
50402838 AACTTATTGTTTTAGCTA
1 AACTTATTGTTTTAGCTA
* *
50402856 AACTTAGTAGTTTTGGCTA
1 AACTTA-TTGTTTTAGCTA
*
50402875 AACATATT
1 AACTTATT
50402883 CATGGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (18 bp):
AACTTATTGTTTTAGCTA
Found at i:50416318 original size:37 final size:37
Alignment explanation
Indices: 50416268--50416346 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
50416258 TTATTACGAA
* * *
50416268 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
50416305 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
50416342 GTCTT
1 GTCTT
50416347 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:50416552 original size:47 final size:47
Alignment explanation
Indices: 50416465--50416751 Score: 423
Period size: 47 Copynumber: 6.1 Consensus size: 47
50416455 CCTTTCGGGA
* * * * * * * * *
50416465 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50416512 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50416559 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50416606 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50416653 CTTATCACGTATA-ACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50416699 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50416748 CTTA
1 CTTA
50416752 CTATCATTTC
Statistics
Matches: 220, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 40 0.18
47 140 0.64
48 4 0.02
49 36 0.16
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50421428 original size:24 final size:23
Alignment explanation
Indices: 50421399--50421461 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
50421389 AACCGAATTT
* * *
50421399 GCACACATAGTGCTTATTACACTC
1 GCACACATAGTGCATAGTAAAC-C
50421423 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTG-CATAGTAAACC
50421447 GCACACATAGTGCAT
1 GCACACATAGTGCAT
50421462 TGGATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.09
24 25 0.71
25 7 0.20
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (23 bp):
GCACACATAGTGCATAGTAAACC
Found at i:50426408 original size:23 final size:23
Alignment explanation
Indices: 50426378--50426424 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
50426368 AGCCTGGACT
*
50426378 GGTAATCCTAATTGAGCTCTTCC
1 GGTAATCCTAATTGAACTCTTCC
50426401 GGTAATCCTAATTGAACTCTTCC
1 GGTAATCCTAATTGAACTCTTCC
50426424 G
1 G
50426425 AGCATACGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (23 bp):
GGTAATCCTAATTGAACTCTTCC
Found at i:50435992 original size:40 final size:40
Alignment explanation
Indices: 50435962--50436171 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
50435952 GGACTAAGAT
* * * *
50435962 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
50436002 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
50436042 CCAAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
50436082 CCGAAGGCATTCGTGCGAGTTATTAAATCTGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * * *
50436122 CCGAAGGCGTT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
50436161 CCGAAGGCATT
1 CCGAAGGCATT
50436172 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 32 0.21
40 123 0.79
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:50443116 original size:6 final size:6
Alignment explanation
Indices: 50443099--50443171 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
50443089 TATCAAAACT
* * *
50443099 AGAATC AAAATC AGAATC AGAGTC AGAATC AGGTGAT- AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
*
50443148 AGTATC AGGTAA-C AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAAT
50443172 GTGAATGTGA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.08
6 41 0.77
7 5 0.09
8 3 0.06
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:50443142 original size:25 final size:25
Alignment explanation
Indices: 50443110--50443171 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
50443100 GAATCAAAAT
* *
50443110 CAGAATCAGAGTCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
50443135 TAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
50443160 CAGAATCAGAAT
1 CAGAATCAGAAT
50443172 GTGAATGTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:50443521 original size:98 final size:98
Alignment explanation
Indices: 50443347--50443550 Score: 273
Period size: 98 Copynumber: 2.1 Consensus size: 98
50443337 TGGCACAAAG
* * *
50443347 CCATCGATAACGGGTTTATAATCGGCATAAAGCCCACAATATCGATACGAAGCCCACAATAATGG
1 CCATCGATAACGGGTCTATAATCGGCACAAAGCCCACAATATCGATACGAAGCCCACAATAACGG
* *
50443412 AACACAACCTTCGGTAGCATGATCAACACTCAA
66 AACACAACCTTCGGTAACAGGATCAACACTCAA
* * * * *
50443445 CCATCGATAACGGGTCTATAATCGGTACGAAGCCCACAATATCGCTATGAAGCCCACAATAACGT
1 CCATCGATAACGGGTCTATAATCGGCACAAAGCCCACAATATCGATACGAAGCCCACAATAACGG
* * * * *
50443510 CACATAGCCTTCGGTAACAGGATCGACACTCAG
66 AACACAACCTTCGGTAACAGGATCAACACTCAA
50443543 CCATCGAT
1 CCATCGAT
50443551 CAGTCCATAG
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.20
Consensus pattern (98 bp):
CCATCGATAACGGGTCTATAATCGGCACAAAGCCCACAATATCGATACGAAGCCCACAATAACGG
AACACAACCTTCGGTAACAGGATCAACACTCAA
Found at i:50443910 original size:27 final size:27
Alignment explanation
Indices: 50443870--50443982 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
50443860 GGAAAAATGG
*
50443870 TAATTTTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
50443897 TATTTCTACTCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
50443924 TAATTCTACCCTACAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
*
50443950 GTAATTCTACCCTACAGGGGTATTTCAA
1 -TAATTCTACCCTACAGGGGTATTTCGA
50443978 TAATT
1 TAATT
50443983 TTTAAAAAGT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
26 1 0.01
27 75 0.97
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:50448188 original size:42 final size:42
Alignment explanation
Indices: 50448082--50448239 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
50448072 TGTGTTTTTG
* * * *
50448082 TGTAAGACCACATCTAGGACGTTGGCATCA-ACTTATAATTTGCG
1 TGTAAGACCACGTCTAGGACATTGGCATCATAC-T-TGATTT-CA
*
50448126 TGTAAGACCACGTCTGGGACATTGGCATCATACTTGATTTCA
1 TGTAAGACCACGTCTAGGACATTGGCATCATACTTGATTTCA
* * * * *
50448168 TGTAAGACC-CTCTCTAGGACAGTGGCAACGATATTTGATTACA
1 TGTAAGACCAC-GTCTAGGACATTGGCATC-ATACTTGATTTCA
*
50448211 TGTAAGACCACGTCTAGGACGTTGGCATC
1 TGTAAGACCACGTCTAGGACATTGGCATC
50448240 GAGTTATCCC
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 24 0.25
43 39 0.41
44 29 0.31
45 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGACATTGGCATCATACTTGATTTCA
Found at i:50455776 original size:42 final size:43
Alignment explanation
Indices: 50455712--50455823 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 43
50455702 CCGATATGTG
*
50455712 TTTTCGTGTAAGACCACGTCTGGGAC-GTTGGTATCG-TACTTGA
1 TTTT-GTGTAAGACCACGTCTGGGACAG-TGGCATCGATACTTGA
*
50455755 TTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGA
1 TTTTGTGTAAGACCAC-GTCTGGGACAGTGGCATCGATACTTGA
***
50455798 TTACATGTAAGACCACGTCTGGGACA
1 TTTTGTGTAAGACCACGTCTGGGACA
50455824 TTGACATTGT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 32 0.53
44 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (43 bp):
TTTTGTGTAAGACCACGTCTGGGACAGTGGCATCGATACTTGA
Found at i:50459207 original size:27 final size:27
Alignment explanation
Indices: 50459166--50459219 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50459156 TGTCATGTGA
* *
50459166 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
50459193 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
50459220 GGTTGTATGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:50459599 original size:50 final size:49
Alignment explanation
Indices: 50459459--50459648 Score: 211
Period size: 50 Copynumber: 3.8 Consensus size: 49
50459449 CGAATGAGCT
* * * *
50459459 ATAGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG
1 ATAGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAG
* * *
50459509 ATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
1 AT-AGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAG
* * * *
50459560 ATGGTTAGGTCACTTGTGTAGTACTAAGTGCAGGCTACTACTTGTACTGG
1 ATAGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-AG
** *
50459610 ATAGTT-GGTGGCATGTGTAGTACTAAGTGCAGGCTACTA
1 ATAGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
50459649 TGCGTACCAG
Statistics
Matches: 119, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
49 31 0.26
50 46 0.39
51 42 0.35
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
ATAGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAG
Found at i:50465639 original size:21 final size:24
Alignment explanation
Indices: 50465613--50465659 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
50465603 TCAATTGACC
50465613 TAAGCAT-CA-TTCAAACA-CTTA
1 TAAGCATACATTTCAAACATCTTA
50465634 TAAGCATACCATTTCAAACATCTTA
1 TAAGCATA-CATTTCAAACATCTTA
50465659 T
1 T
50465660 TTAATCTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.32
23 2 0.09
24 8 0.36
25 5 0.23
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.32
Consensus pattern (24 bp):
TAAGCATACATTTCAAACATCTTA
Found at i:50472353 original size:27 final size:27
Alignment explanation
Indices: 50472297--50472431 Score: 168
Period size: 27 Copynumber: 5.0 Consensus size: 27
50472287 ACCCTATAGA
* * **
50472297 GGTATTTCATTAATTTTACACTAC-AAG
1 GGTATTTCAGTAATTTTACA-AACTGGG
50472324 GGTATTTC-GATAATTTTACAAACTGGG
1 GGTATTTCAG-TAATTTTACAAACTGGG
*
50472351 GGTATTTCAGTAATTTTACAATCT-GG
1 GGTATTTCAGTAATTTTACAAACTGGG
*
50472377 GGTATTTCAGTAATTTTACAAATTGGG
1 GGTATTTCAGTAATTTTACAAACTGGG
*
50472404 GGTATTTCAGTAATTTTACAAACCGGG
1 GGTATTTCAGTAATTTTACAAACTGGG
50472431 G
1 G
50472432 TCTTAACGAC
Statistics
Matches: 95, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 26 0.27
27 68 0.72
28 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAACTGGG
Found at i:50472396 original size:53 final size:54
Alignment explanation
Indices: 50472297--50472424 Score: 188
Period size: 53 Copynumber: 2.4 Consensus size: 54
50472287 ACCCTATAGA
* *
50472297 GGTATTTCATTAATTTTACACTACAAGGGTATTTCGATAATTTTACAAACTGGG
1 GGTATTTCAGTAATTTTACAATACAAGGGTATTTCGATAATTTTACAAACTGGG
** *
50472351 GGTATTTCAGTAATTTTACAAT-CTGGGGTATTTC-AGTAATTTTACAAATTGGG
1 GGTATTTCAGTAATTTTACAATACAAGGGTATTTCGA-TAATTTTACAAACTGGG
50472404 GGTATTTCAGTAATTTTACAA
1 GGTATTTCAGTAATTTTACAA
50472425 ACCGGGGTCT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 47 0.69
54 20 0.29
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTACAATACAAGGGTATTTCGATAATTTTACAAACTGGG
Found at i:50485279 original size:19 final size:19
Alignment explanation
Indices: 50485255--50485313 Score: 100
Period size: 19 Copynumber: 3.1 Consensus size: 19
50485245 TCCACACGGT
*
50485255 CTCACATACGGGTATGTGA
1 CTCACATACGGGCATGTGA
50485274 CTCACATACGGGCATGTGA
1 CTCACATACGGGCATGTGA
*
50485293 CTCACATACAGGCATGTGA
1 CTCACATACGGGCATGTGA
50485312 CT
1 CT
50485314 GGCCATGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (19 bp):
CTCACATACGGGCATGTGA
Found at i:50486770 original size:15 final size:15
Alignment explanation
Indices: 50486750--50486784 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
50486740 GACATACAAC
*
50486750 TGTGTCACTAGGCCA
1 TGTGTCACCAGGCCA
*
50486765 TGTGTCGCCAGGCCA
1 TGTGTCACCAGGCCA
50486780 TGTGT
1 TGTGT
50486785 TACACACAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (15 bp):
TGTGTCACCAGGCCA
Found at i:50494255 original size:25 final size:24
Alignment explanation
Indices: 50494227--50494300 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
50494217 GCTATAAACA
50494227 GTAAGCACTTCTGAGCTGAATAACG
1 GTAAGC-CTTCTGAGCTGAATAACG
* * * *
50494252 GTAAGCTCCTCAGAGGTGAATAATG
1 GTAAGC-CTTCTGAGCTGAATAACG
50494277 GTAAG-CTTCTCAGAGCTGAATAAC
1 GTAAGCCTTCT--GAGCTGAATAAC
50494301 ATTAAGCTCA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
23 3 0.08
25 35 0.92
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (24 bp):
GTAAGCCTTCTGAGCTGAATAACG
Found at i:50494306 original size:25 final size:25
Alignment explanation
Indices: 50494239--50494309 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
50494229 AAGCACTTCT
50494239 GAGCTGAATAACGGTAAGCTCCTCA
1 GAGCTGAATAACGGTAAGCTCCTCA
* * *
50494264 GAGGTGAATAATGGTAAGCTTCTCA
1 GAGCTGAATAACGGTAAGCTCCTCA
**
50494289 GAGCTGAATAACATTAAGCTC
1 GAGCTGAATAACGGTAAGCTC
50494310 ATTCGAGCTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (25 bp):
GAGCTGAATAACGGTAAGCTCCTCA
Found at i:50494317 original size:25 final size:25
Alignment explanation
Indices: 50494239--50494346 Score: 85
Period size: 25 Copynumber: 4.3 Consensus size: 25
50494229 AAGCACTTCT
* * *
50494239 GAGCTGAATAACGGTAAGCTCCTCA
1 GAGCTGAATAACGATAAGCTCATTA
* * * *
50494264 GAGGTGAATAATGGTAAGCTTC-TCA
1 GAGCTGAATAACGATAAGC-TCATTA
*
50494289 GAGCTGAATAAC-ATTAAGCTCATTC
1 GAGCTGAATAACGA-TAAGCTCATTA
* *
50494314 GAGCTGAGTATCGATAAGCTCATTA
1 GAGCTGAATAACGATAAGCTCATTA
*
50494339 AAGCTGAA
1 GAGCTGAA
50494347 ATCGGTAACC
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.03
25 62 0.93
26 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (25 bp):
GAGCTGAATAACGATAAGCTCATTA
Found at i:50497211 original size:29 final size:29
Alignment explanation
Indices: 50497178--50497244 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
50497168 AACGTATTGA
50497178 ACAAAGAGGTGAAAATGTAATAATTAAAT
1 ACAAAGAGGTGAAAATGTAATAATTAAAT
50497207 ACAAAGAGGTGAAAATGTAATAATTAAAT
1 ACAAAGAGGTGAAAATGTAATAATTAAAT
50497236 ACAAGAGAG
1 ACAA-AGAG
50497245 TATAGGTACG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 33 0.89
30 4 0.11
ACGTcount: A:0.55, C:0.04, G:0.19, T:0.21
Consensus pattern (29 bp):
ACAAAGAGGTGAAAATGTAATAATTAAAT
Found at i:50498538 original size:27 final size:27
Alignment explanation
Indices: 50498508--50498653 Score: 179
Period size: 27 Copynumber: 5.4 Consensus size: 27
50498498 ATTACCAAAG
*
50498508 TACCCTCGATTTATAGAATAATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* * *
50498535 TACCTTCGATTTATAGAAGTA-CTGCTT
1 TACCCTCGATTTATAGAATTATC-GTTT
* *
50498562 TACCATCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
*
50498589 TACCCTCGATTTATTGAATTA-CTGTTT
1 TACCCTCGATTTATAGAATTATC-GTTT
* *
50498616 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
50498643 TACCCTCGATT
1 TACCCTCGATT
50498654 GTGAAATTAC
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
26 2 0.02
27 100 0.97
28 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTATCGTTT
Found at i:50498598 original size:54 final size:54
Alignment explanation
Indices: 50498508--50498653 Score: 211
Period size: 54 Copynumber: 2.7 Consensus size: 54
50498498 ATTACCAAAG
* *
50498508 TACCCTCGATTTATAGAATAATCGTTTTACCTTCGATTTATAGAAGTACTGCTT
1 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAAGTACTGCTT
* * * * *
50498562 TACCATCGATTTATAGAATTACCGTTTTACCCTCGATTTATTGAATTACTGTTT
1 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAAGTACTGCTT
* *
50498616 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
50498654 GTGAAATTAC
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAAGTACTGCTT
Found at i:50498675 original size:27 final size:26
Alignment explanation
Indices: 50498645--50498786 Score: 92
Period size: 27 Copynumber: 5.3 Consensus size: 26
50498635 TATTGTTTTA
**
50498645 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
50498672 CCCTG-TAGGGTAGAATTACCAAAATAC
1 CCCTGATTGTG-A-AATTACCAAAATAC
* *
50498699 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* * **
50498726 CACTGGTTTGTG-AATTACTGAAATA-
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
50498751 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTGAAATTACCAAAATAC
50498779 CCCTGATT
1 CCCTGATT
50498787 TACAAAATTA
Statistics
Matches: 88, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
25 6 0.07
26 19 0.22
27 55 0.62
28 6 0.07
29 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.30
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCAAAATAC
Found at i:50498787 original size:27 final size:27
Alignment explanation
Indices: 50498685--50498805 Score: 115
Period size: 27 Copynumber: 4.5 Consensus size: 27
50498675 TGTAGGGTAG
50498685 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * *
50498712 AATTACCAAAATACCACTGGTTTGT-G
1 AATTACCAAAATACCCCTGATTTGTAA
** *
50498738 AATTACTGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
50498765 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
50498792 AATTA-CAGAAATAC
1 AATTACCA-AAATAC
50498806 GCTTGACTTT
Statistics
Matches: 75, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
25 3 0.04
26 18 0.24
27 50 0.67
28 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:50498858 original size:27 final size:26
Alignment explanation
Indices: 50498785--50498870 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 26
50498775 ATACCCCTGA
* *
50498785 TTTACAAAATTACAGAAATACGCTTGAC
1 TTTACAAAATTACTGAAATAC-CTTG-G
50498813 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACC-TTGG
50498841 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATA-CCTTGG
50498868 TTT
1 TTT
50498871 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
27 21 0.43
28 10 0.20
29 18 0.37
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (26 bp):
TTTACAAAATTACTGAAATACCTTGG
Found at i:50498953 original size:27 final size:27
Alignment explanation
Indices: 50498923--50498974 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
50498913 TACCCCTAAT
50498923 AGGTAAAAAGACCGTAAAGCCCCTGCA
1 AGGTAAAAAGACCGTAAAGCCCCTGCA
**
50498950 AGGTAAAGTGACCGTAAAGCCCCTG
1 AGGTAAAAAGACCGTAAAGCCCCTG
50498975 TTGGGTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.25, G:0.25, T:0.13
Consensus pattern (27 bp):
AGGTAAAAAGACCGTAAAGCCCCTGCA
Found at i:50498981 original size:27 final size:26
Alignment explanation
Indices: 50498932--50499010 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 26
50498922 TAGGTAAAAA
**
50498932 GACCGTAAAGCCCCTGCAAGGTAAAGT
1 GACCGTAAAGCCCCTG-TTGGTAAAGT
50498959 GACCGTAAAGCCCCTGTTGGGTAAAGT
1 GACCGTAAAGCCCCTGTT-GGTAAAGT
*
50498986 GACCATAATA-CCCCTGTATGGTAAA
1 GACCGTAA-AGCCCCTGT-TGGTAAA
50499011 ATGTCGAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 44 0.96
28 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (26 bp):
GACCGTAAAGCCCCTGTTGGTAAAGT
Found at i:50499672 original size:25 final size:25
Alignment explanation
Indices: 50499644--50499692 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
50499634 TTATAATATG
* * *
50499644 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACCATTATACCCCTAGGT
50499669 AAAAATGACCATTATACCCCTAGG
1 AAAAATGACCATTATACCCCTAGG
50499693 GTGTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAAATGACCATTATACCCCTAGGT
Found at i:50499744 original size:10 final size:10
Alignment explanation
Indices: 50499729--50499789 Score: 70
Period size: 10 Copynumber: 5.9 Consensus size: 10
50499719 ATATTGTTAT
50499729 ACATGATATG
1 ACATGATATG
50499739 ACATGATATG
1 ACATGATATG
50499749 CACATGATATG
1 -ACATGATATG
* *
50499760 TCATGAGATG
1 ACATGATATG
50499770 CACATGATATG
1 -ACATGATATG
50499781 -CTATGATAT
1 AC-ATGATAT
50499790 ACTCATTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
9 1 0.02
10 25 0.57
11 18 0.41
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (10 bp):
ACATGATATG
Found at i:50499754 original size:21 final size:20
Alignment explanation
Indices: 50499729--50499805 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 20
50499719 ATATTGTTAT
50499729 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
*
50499750 ACATGATATGTCATGAGATGC
1 ACATGATATG-CATGATATGC
*
50499771 ACATGATATGCTATGATATAC
1 ACATGATATGC-ATGATATGC
* *
50499792 TCATTATATGCATG
1 ACATGATATGCATG
50499806 GGTTGGGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
20 4 0.08
21 45 0.92
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:50502225 original size:27 final size:27
Alignment explanation
Indices: 50502195--50502340 Score: 213
Period size: 27 Copynumber: 5.4 Consensus size: 27
50502185 ATTACCAAAG
**
50502195 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTATTT
* *
50502222 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTATTT
*
50502249 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTATTT
50502276 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTATTT
* *
50502303 TACCCTCGATTTACAAAATTA-TCATTT
1 TACCCTCGATTTATAGAATTACT-ATTT
50502330 TACCCTCGATT
1 TACCCTCGATT
50502341 GTGAAATTAC
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
26 1 0.01
27 109 0.99
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTATTT
Found at i:50502362 original size:27 final size:26
Alignment explanation
Indices: 50502332--50502474 Score: 94
Period size: 27 Copynumber: 5.3 Consensus size: 26
50502322 TATCATTTTA
*
50502332 CCCTCGATTGTGAAATTACTTAAATAC
1 CCCT-GATTGTGAAATTACTAAAATAC
* * *
50502359 CCCTG-TAGGGTAGAATTACCAAAATAC
1 CCCTGATTGTG-A-AATTACTAAAATAC
* * *
50502386 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTGAAATTACTAAAATAC
* *
50502413 CACTGGTTTGTGAAATTACTAAAATA-
1 CCCT-GATTGTGAAATTACTAAAATAC
* *
50502439 CCCTCAATTTGTAAAATTA-TCAAAATAC
1 CCCT-GA-TTGTGAAATTACT-AAAATAC
50502467 CCCTGATT
1 CCCTGATT
50502475 TACAAAATTA
Statistics
Matches: 92, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
25 3 0.03
26 8 0.09
27 73 0.79
28 6 0.07
29 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACTAAAATAC
Found at i:50502413 original size:54 final size:53
Alignment explanation
Indices: 50502330--50502471 Score: 137
Period size: 54 Copynumber: 2.7 Consensus size: 53
50502320 ATTATCATTT
* * **
50502330 TACCCTCGA-TTGTGAAATTACTTAAATACCCCTGTAGGGT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGT-GGGTGA-AATTACCAAAA
* * ** *
50502383 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACTAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCCT-GTGGGTGAAATTACCAAAA
*
50502437 TACCCTCAATTTGTAAAATTATCAAAATACCCCTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTG
50502472 ATTTACAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
52 1 0.01
53 6 0.08
54 61 0.85
55 4 0.06
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.30
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTGTGGGTGAAATTACCAAAA
Found at i:50502475 original size:27 final size:26
Alignment explanation
Indices: 50502372--50502493 Score: 113
Period size: 27 Copynumber: 4.5 Consensus size: 26
50502362 TGTAGGGTAG
50502372 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTA-CAAAATACCCCTGA-TTTGTAA
* * *
50502399 AATTACCAAAATACCACTGGTTTGTGA
1 AATTA-CAAAATACCCCTGATTTGTAA
*
50502426 AATTACTAAAATA-CCCTCAATTTGTAA
1 AATTAC-AAAATACCCCT-GATTTGTAA
**
50502453 AATTATCAAAATACCCCTGATTTACAA
1 AATTA-CAAAATACCCCTGATTTGTAA
50502480 AATTACAGAAATAC
1 AATTACA-AAATAC
50502494 GCTTGACTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
26 6 0.08
27 68 0.86
28 5 0.06
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (26 bp):
AATTACAAAATACCCCTGATTTGTAA
Found at i:50502483 original size:54 final size:54
Alignment explanation
Indices: 50502372--50502552 Score: 170
Period size: 54 Copynumber: 3.3 Consensus size: 54
50502362 TGTAGGGTAG
* * * ***
50502372 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACTAAAATACCCTC-AATTTGTAAAATTATCAAAATACCACTGGTTTACAA
* *
50502426 AATTACTAAAATACCCTCAATTTGTAAAATTATCAAAATACCCCTGATTTACAA
1 AATTACTAAAATACCCTCAATTTGTAAAATTATCAAAATACCACTGGTTTACAA
* * * * *
50502480 AATTAC-AGAAATACGCTTGACTTTCTACAAATTAT-AGAAATACCATTGGTTTACAA
1 AATTACTA-AAATAC-CCTCAATTTGTA-AAATTATCA-AAATACCACTGGTTTACAA
*
50502536 AATTACTGAAATACCCT
1 AATTACTAAAATACCCT
50502553 TGGTTTGTAG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
53 1 0.01
54 56 0.54
55 12 0.12
56 35 0.34
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTCAATTTGTAAAATTATCAAAATACCACTGGTTTACAA
Found at i:50502546 original size:27 final size:26
Alignment explanation
Indices: 50502473--50502558 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 26
50502463 ATACCCCTGA
* *
50502473 TTTACAAAATTACAGAAATACGCTTGAC
1 TTTACAAAATTACTGAAATAC-CTTG-G
50502501 TTT-CTACAAATTA-TAGAAATACCATTGG
1 TTTAC-A-AAATTACT-GAAATACC-TTGG
50502529 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATA-CCTTGG
50502556 TTT
1 TTT
50502559 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
27 20 0.41
28 12 0.24
29 17 0.35
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (26 bp):
TTTACAAAATTACTGAAATACCTTGG
Found at i:50502669 original size:27 final size:27
Alignment explanation
Indices: 50502611--50502677 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
50502601 TACCCCTAAT
**
50502611 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAGTGACCGTAAAGCCCCTGTA
*
50502638 AGGTAAAGTGACCGTAAAGCCCCTGTT
1 AGGTAAAGTGACCGTAAAGCCCCTGTA
*
50502665 GGGTAAAGTGACC
1 AGGTAAAGTGACC
50502678 ATAATACCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (27 bp):
AGGTAAAGTGACCGTAAAGCCCCTGTA
Found at i:50502687 original size:27 final size:27
Alignment explanation
Indices: 50502611--50502698 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
50502601 TACCCCTAAT
** *
50502611 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAGTGACCATAAAGCCCCTGTA
* *
50502638 AGGTAAAGTGACCGTAAAGCCCCTGTT
1 AGGTAAAGTGACCATAAAGCCCCTGTA
* *
50502665 GGGTAAAGTGACCATAATA-CCCCTATA
1 AGGTAAAGTGACCATAA-AGCCCCTGTA
*
50502692 TGGTAAA
1 AGGTAAA
50502699 ATGTCGAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
AGGTAAAGTGACCATAAAGCCCCTGTA
Found at i:50503491 original size:258 final size:258
Alignment explanation
Indices: 50503034--50503550 Score: 1007
Period size: 258 Copynumber: 2.0 Consensus size: 258
50503024 AGTTGGGCCT
*
50503034 CAATGGGCTGGAATTTAGACCAATGGGCTTTCGGGCACATTTGTCTAAAATTGATAGAAAATGGA
1 CAATGGGCTGGAATTTAGACCAATGGGCTTTCGAGCACATTTGTCTAAAATTGATAGAAAATGGA
50503099 ATTTGGAAATATTGCATGTTAACACGGTTAGTACTGTTGTAAAATTTGGGTTAAGTGGGCTTAAT
66 ATTTGGAAATATTGCATGTTAACACGGTTAGTACTGTTGTAAAATTTGGGTTAAGTGGGCTTAAT
*
50503164 GGGCTAAATCGGCATTCGTAGGGCCCATTAAGGGATTTGGGCCCAAAAGGTCGAATTTGATAAAG
131 GGGCTAAATCGGCATTCGTAGGGCCCATTAAGGGATTTGGGCCCAAAAGGCCGAATTTGATAAAG
50503229 TGGGTTAAAGATCATTGTTTAAACACTCAGAAATATTGATAATTGTTAATGAACATAGAAAAC
196 TGGGTTAAAGATCATTGTTTAAACACTCAGAAATATTGATAATTGTTAATGAACATAGAAAAC
50503292 CAATGGGCTGGAATTTAGACCAATGGGCTTTCGAGCACATTTGTCTAAAATTGATAGAAAATGGA
1 CAATGGGCTGGAATTTAGACCAATGGGCTTTCGAGCACATTTGTCTAAAATTGATAGAAAATGGA
*
50503357 ATTTGGAAATATTGCATGTTAACATGGTTAGTACTGTTGTAAAATTTGGGTTAAGTGGGCTTAAT
66 ATTTGGAAATATTGCATGTTAACACGGTTAGTACTGTTGTAAAATTTGGGTTAAGTGGGCTTAAT
50503422 GGGCTAAATCGGCATTCGTAGGGCCCATTAAGGGATTTGGGCCCAAAAGGCCGAATTTGATAAAG
131 GGGCTAAATCGGCATTCGTAGGGCCCATTAAGGGATTTGGGCCCAAAAGGCCGAATTTGATAAAG
50503487 TGGGTTAAAGATCATTGTTTAAACACTCAGAAATATTGATAATTGTTAATGAACATAGAAAAC
196 TGGGTTAAAGATCATTGTTTAAACACTCAGAAATATTGATAATTGTTAATGAACATAGAAAAC
50503550 C
1 C
50503551 TTGATATTTG
Statistics
Matches: 256, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
258 256 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (258 bp):
CAATGGGCTGGAATTTAGACCAATGGGCTTTCGAGCACATTTGTCTAAAATTGATAGAAAATGGA
ATTTGGAAATATTGCATGTTAACACGGTTAGTACTGTTGTAAAATTTGGGTTAAGTGGGCTTAAT
GGGCTAAATCGGCATTCGTAGGGCCCATTAAGGGATTTGGGCCCAAAAGGCCGAATTTGATAAAG
TGGGTTAAAGATCATTGTTTAAACACTCAGAAATATTGATAATTGTTAATGAACATAGAAAAC
Found at i:50503700 original size:10 final size:10
Alignment explanation
Indices: 50503685--50503745 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
50503675 ATATTGTTAT
50503685 ACATGATATG
1 ACATGATATG
50503695 ACATGATATG
1 ACATGATATG
50503705 CACATGATATG
1 -ACATGATATG
** *
50503716 TTATGAGATG
1 ACATGATATG
50503726 CACATGATATG
1 -ACATGATATG
50503737 -CTATGATAT
1 AC-ATGATAT
50503746 ACTCATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (10 bp):
ACATGATATG
Found at i:50503710 original size:21 final size:20
Alignment explanation
Indices: 50503685--50503761 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 20
50503675 ATATTGTTAT
50503685 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* *
50503706 ACATGATATGTTATGAGATGC
1 ACATGATATG-CATGATATGC
*
50503727 ACATGATATGCTATGATATAC
1 ACATGATATGC-ATGATATGC
* *
50503748 TCATTATATGCATG
1 ACATGATATGCATG
50503762 GGTTGGGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:50508950 original size:468 final size:467
Alignment explanation
Indices: 50508075--50509327 Score: 2382
Period size: 468 Copynumber: 2.7 Consensus size: 467
50508065 TTTTTTATAC
*
50508075 AAAGACATTTAAAAATATTAAATATTAAAATCACACATTATTAATATAACAAAATAGTAATTTGA
1 AAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGA
50508140 ATATAATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGT
66 ATATAATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGT
**
50508205 TATATAAATATTCAATAGCGATAAAAC-TTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCAT
131 TATATAAATATTCAATAGCGATGGAACTTTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCAT
50508269 ACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTC
196 ACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTC
*
50508334 AGGTTTCCAGCCTATATACTTTGAATCTTTAAAATACTTAAAATAAGGAATGGACAAGCAAGCTA
261 AGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTA
*
50508399 CATATATGGTAATAAAATTAATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACGAAAA
326 CATATATGGTAATAAAATTAATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAA
*
50508464 TATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTA
391 TATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAATA
50508529 TTTATAACTTTT
456 TTTATAACTTTT
50508541 AAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGA
1 AAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGA
50508606 ATATAATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGT
66 ATATAATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGT
50508671 TATATAAATATTCAATAGCGATGGAACTTTTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCA
131 TATATAAATATTCAATAGCGATGGAAC-TTTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCA
*
50508736 TACGTGGCGTTGTTACACCTAGGGAGGATCTATTATATCTTGCAACTCGATATAAGGCAACCCGT
195 TACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGT
*
50508801 CAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCT
260 CAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCT
50508866 ACATATATGGTAATAAAATTAATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAA
325 ACATATATGGTAATAAAATTAATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAA
*
50508931 ATATAAAAACTTGTTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAAT
390 ATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAAT
50508996 ATTTATAACTTTT
455 ATTTATAACTTTT
50509009 AAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGA
1 AAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGA
50509074 ATATAATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGT
66 ATATAATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGT
*
50509139 TATATAAATATTCAATAGCGATGGAACTTTTTTCAATTCTTCTTGATTTTTTTAAGATTCATCAT
131 TATATAAATATTCAATAGCGATGGAACTTTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCAT
*
50509204 ACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTC
196 ACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTC
*
50509269 AGGTTTCCAGCCTATATATTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGC
261 AGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGC
50509328 TCAGCTATTG
Statistics
Matches: 771, Mismatches: 14, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
466 154 0.20
467 157 0.20
468 460 0.60
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (467 bp):
AAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGA
ATATAATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGT
TATATAAATATTCAATAGCGATGGAACTTTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCAT
ACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTC
AGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTA
CATATATGGTAATAAAATTAATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAA
TATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAATA
TTTATAACTTTT
Found at i:50513326 original size:79 final size:78
Alignment explanation
Indices: 50513224--50513446 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
50513214 GCTCCTCGTT
* *
50513224 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
50513289 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
50513304 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCAG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
50513367 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
50513382 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
50513445 GA
63 GA
50513447 CATCATTCAA
Statistics
Matches: 123, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 46 0.37
79 56 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:50513341 original size:39 final size:40
Alignment explanation
Indices: 50513224--50513446 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
50513214 GCTCCTCGTT
* *
50513224 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
50513264 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
50513304 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
50513343 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
50513382 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
50513423 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50513447 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:50517145 original size:60 final size:60
Alignment explanation
Indices: 50517052--50517170 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
50517042 GTCTTTGTCG
50517052 CAGATTCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAATACATA
1 CAGATTCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAATACATA
* *
50517112 CAGATTTAAGTCTCTTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAATACAT
1 CAGATTCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAATACAT
50517171 GGCACTTTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (60 bp):
CAGATTCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAATACATA
Found at i:50521653 original size:40 final size:40
Alignment explanation
Indices: 50521616--50521885 Score: 291
Period size: 40 Copynumber: 6.7 Consensus size: 40
50521606 GCTACTCGTT
*
50521616 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
50521656 CAATTGCCTTCGGGACTTCA-CCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-AGCCCGGATTTAGTAACTCGCA
*
50521696 CAAATGCCTTCGGCACTTAACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGAC-T----TAGCCCGGATT-TAGTAACTCGCA
*
50521741 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
50521781 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
50521820 CAAATGCC-TCCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
50521861 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50521886 CATCATTCGA
Statistics
Matches: 195, Mismatches: 21, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
38 4 0.02
39 29 0.15
40 106 0.54
41 19 0.10
44 4 0.02
45 33 0.17
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:50521738 original size:85 final size:85
Alignment explanation
Indices: 50521630--50521793 Score: 301
Period size: 85 Copynumber: 1.9 Consensus size: 85
50521620 TGCCTTCGGG
* *
50521630 ACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTCACCCGGATTTAGTAACTCGC
1 ACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGC
50521695 ACAAATGCCTTCGGCACTTA
66 ACAAATGCCTTCGGCACTTA
50521715 ACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGC
1 ACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGC
*
50521780 ACCAATGCCTTCGG
66 ACAAATGCCTTCGG
50521794 GCTTAGCCCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (85 bp):
ACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGC
ACAAATGCCTTCGGCACTTA
Found at i:50521845 original size:79 final size:79
Alignment explanation
Indices: 50521618--50521884 Score: 290
Period size: 85 Copynumber: 3.3 Consensus size: 79
50521608 TACTCGTTCA
* *
50521618 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTCACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT-ACCCGGAT
*
50521683 TTAGTAACTCGCACA
65 TTAGTAACTCGCACC
*
50521698 AATGCCTTCGGCACTTAACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACC
1 AATGCCTTCGGGAC-T----TAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT-ACC
50521763 CGGATTTAGTAACTCGCACC
60 CGGATTTAGTAACTCGCACC
* * * *
50521783 AATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCACAAATGCC-TCCGGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTA-CCCGG
* * * *
50521845 ATATGGTCACTTAGCA-C
63 ATTTAGTAAC-TCGCACC
*
50521862 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
50521885 ACATCATTCG
Statistics
Matches: 162, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
78 7 0.04
79 53 0.33
80 27 0.17
83 1 0.01
84 1 0.01
85 73 0.45
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTACCCGGATT
TAGTAACTCGCACC
Done.