Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 80 of 175
Found at i:24839338 original size:14 final size:14
Alignment explanation
Indices: 24839319--24839345 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24839309 TACATTGGAC
24839319 AGATTCATGCATGT
1 AGATTCATGCATGT
24839333 AGATTCATGCATG
1 AGATTCATGCATG
24839346 GGGAGATGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (14 bp):
AGATTCATGCATGT
Found at i:24845566 original size:80 final size:79
Alignment explanation
Indices: 24845482--24845651 Score: 198
Period size: 79 Copynumber: 2.1 Consensus size: 79
24845472 GGACTAAGAT
* *
24845482 CCGAAGGCTTTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCTTTCGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
24845546 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
24845562 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCTTTCGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
24845627 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
24845641 CCGAAGGCTTT
1 CCGAAGGCTTT
24845652 GAACGAGGAG
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 36 0.48
80 36 0.48
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCTTTCGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:24845633 original size:39 final size:39
Alignment explanation
Indices: 24845429--24845648 Score: 192
Period size: 40 Copynumber: 5.5 Consensus size: 39
24845419 TTGAATGCTG
* * * * * *
24845429 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
24845469 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGC-ATTGTGCGAGTTACTAAA
* * *
24845508 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
**
24845549 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
24845589 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
24845628 ACCGGGCTATGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
24845649 TTTGAACGAG
Statistics
Matches: 153, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.24
40 105 0.69
41 12 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:24852869 original size:40 final size:38
Alignment explanation
Indices: 24852761--24852974 Score: 179
Period size: 39 Copynumber: 5.6 Consensus size: 38
24852751 TCCTCGTTCA
* * * *
24852761 AATGCCTTCGGACAT-AGCCGG-TTTAGTAACTCACAC
1 AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCAC
* *
24852797 AATGCCTTCGGACATAA-CCGGATTTAACAACTCGCAC
1 AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCAC
24852834 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCAC
* * *
24852874 GAATGCCTTCGGGCTTAACCCGGATTT-GTATCTCGCAC
1 -AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCAC
** * * * *
24852912 AAATG-CTTCGGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGA-CTTAACCCGGATTTAATAAC-TCGCAC
*
24852952 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTC-GGACTTAACCCGGA
24852975 CAGCATTCAA
Statistics
Matches: 150, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
36 19 0.13
37 19 0.13
38 34 0.23
39 41 0.27
40 37 0.25
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:24852936 original size:38 final size:39
Alignment explanation
Indices: 24852761--24852928 Score: 186
Period size: 40 Copynumber: 4.4 Consensus size: 39
24852751 TCCTCGTTCA
* * * *
24852761 AATGCCTTCGGACAT-AGCCGG-TTTAGTAACTCACAC-
1 AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCACG
* *
24852797 AATGCCTTCGGACATAA-CCGGATTTAACAACTCGCACG
1 AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCACG
24852835 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACG
* * * *
24852875 AATGCCTTCGGGCTTAACCCGGATTT-GTATCTCGCACA
1 AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCACG
24852913 AATG-CTTCGGATCTTA
1 AATGCCTTCGGA-CTTA
24852929 GTCCGGATAT
Statistics
Matches: 116, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
36 19 0.16
37 19 0.16
38 26 0.22
39 23 0.20
40 29 0.25
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:24860800 original size:40 final size:40
Alignment explanation
Indices: 24860618--24860840 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
24860608 TCCTCGTTCA
* * * * *
24860618 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
24860657 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24860697 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
24860737 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
24860777 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
24860817 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24860841 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:24860849 original size:41 final size:41
Alignment explanation
Indices: 24860772--24860849 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
24860762 TTAGTATCTC
* * *
24860772 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
24860813 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
24860850 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:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:24866899 original size:11 final size:10
Alignment explanation
Indices: 24866869--24866898 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
24866859 TAGTTTTAGG
24866869 TTTAGTTTTC
1 TTTAGTTTTC
24866879 TTTAGGTTTTC
1 TTTA-GTTTTC
24866890 TTTAGTTTT
1 TTTAGTTTT
24866899 TTTTGAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:24876118 original size:19 final size:19
Alignment explanation
Indices: 24876082--24876121 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
24876072 CTAAAACCAT
*
24876082 TTCATTGCATTTAGGTTAA
1 TTCATTGCAGTTAGGTTAA
24876101 TTCACTTGCAGTTA-GTTAA
1 TTCA-TTGCAGTTAGGTTAA
24876120 TT
1 TT
24876122 AAATTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.47
Consensus pattern (19 bp):
TTCATTGCAGTTAGGTTAA
Found at i:24878337 original size:18 final size:18
Alignment explanation
Indices: 24878314--24878348 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24878304 ATTCTATCAT
24878314 TTCTATCATTTCCAAAGA
1 TTCTATCATTTCCAAAGA
24878332 TTCTATCATTTCCAAAG
1 TTCTATCATTTCCAAAG
24878349 GAGTCCGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (18 bp):
TTCTATCATTTCCAAAGA
Found at i:24899970 original size:27 final size:28
Alignment explanation
Indices: 24899922--24899987 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
24899912 ACAAGAACAT
24899922 ATTAAAAACATGTAATAGACTAAGACAA
1 ATTAAAAACATGTAATAGACTAAGACAA
* * *
24899950 ATTAAAAACATGTACTA-ACTATGACAT
1 ATTAAAAACATGTAATAGACTAAGACAA
24899977 ATT-AAAACATG
1 ATTAAAAACATG
24899988 CATTAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 8 0.23
27 11 0.31
28 16 0.46
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (28 bp):
ATTAAAAACATGTAATAGACTAAGACAA
Found at i:24907010 original size:6 final size:6
Alignment explanation
Indices: 24907001--24907112 Score: 50
Period size: 6 Copynumber: 18.0 Consensus size: 6
24906991 ACAATCTCAA
* *
24907001 TTTCTT TTTCAAT TTTCTT TTCTCTGT TTTCTT TTTC-- TCTCATT TTT-TT
1 TTTCTT TTTC-TT TTTCTT TT-TCT-T TTTCTT TTTCTT TTTC-TT TTTCTT
** ** * **
24907050 GATTTCTT TTTCTT TAGCAA TTTCTTT TTTCTT TTTCTT CTTCAC TTTCTT
1 --TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT
*
24907101 TTTCTT CTTCTT
1 TTTCTT TTTCTT
24907113 CTTTTTCGTT
Statistics
Matches: 77, Mismatches: 19, Indels: 20
0.66 0.16 0.17
Matches are distributed among these distances:
4 3 0.04
5 2 0.03
6 47 0.61
7 20 0.26
8 5 0.06
ACGTcount: A:0.07, C:0.20, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:24907102 original size:24 final size:24
Alignment explanation
Indices: 24907027--24907115 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 24
24907017 CTTTTCTCTG
* *
24907027 TTTTCTTTTTC-TC-TCATTTTTT
1 TTTTCTTTTTCTTCTTCAATTTCT
*
24907049 TGATTTCTTTTTCTT-TAGCAATTTCTT
1 T--TTTCTTTTTCTTCT-TCAATTTC-T
*
24907076 TTTTCTTTTTCTTCTTCACTTTCT
1 TTTTCTTTTTCTTCTTCAATTTCT
*
24907100 TTTTCTTCTTCTTCTT
1 TTTTCTTTTTCTTCTT
24907116 TTTCGTTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
22 1 0.02
24 26 0.48
25 19 0.35
26 6 0.11
27 2 0.04
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTCTTTTTCTTCTTCAATTTCT
Found at i:24923241 original size:19 final size:19
Alignment explanation
Indices: 24923214--24923250 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24923204 TAATTTACTA
24923214 CAGTAATTTAAGTTGTCTT
1 CAGTAATTTAAGTTGTCTT
* *
24923233 CAGTCATTTAATTTGTCT
1 CAGTAATTTAAGTTGTCT
24923251 AAATTGTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (19 bp):
CAGTAATTTAAGTTGTCTT
Found at i:24923262 original size:46 final size:46
Alignment explanation
Indices: 24923188--24923278 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
24923178 TAATAAGTTA
* *
24923188 AGTCATTTAATTTGTCTAATTTACTACAGTAATTTAAGTTGTCTTC
1 AGTCATTTAATTTGTCTAAATTACTACAGCAATTTAAGTTGTCTTC
**
24923234 AGTCATTTAATTTGTCTAAATTGTTACAGCAATTTAAGTTGTCTT
1 AGTCATTTAATTTGTCTAAATTACTACAGCAATTTAAGTTGTCTT
24923279 AAATTCATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (46 bp):
AGTCATTTAATTTGTCTAAATTACTACAGCAATTTAAGTTGTCTTC
Found at i:24923645 original size:31 final size:31
Alignment explanation
Indices: 24923607--24923710 Score: 120
Period size: 31 Copynumber: 3.4 Consensus size: 31
24923597 TCGGCTATGG
* *
24923607 TTGTTCACACACCAAGTCTCTTCATTGCTGA
1 TTGTTCACACACAAAGACTCTTCATTGCTGA
* * *
24923638 TTGTTCACAC-CTAGAGGCTCTTCATTGCGGA
1 TTGTTCACACAC-AAAGACTCTTCATTGCTGA
** *
24923669 TTGTTCACACGTAAAGACTCTTCATTACTGA
1 TTGTTCACACACAAAGACTCTTCATTGCTGA
24923700 TTGTTCACACA
1 TTGTTCACACA
24923711 TAAGACTATT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
30 1 0.02
31 60 0.98
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (31 bp):
TTGTTCACACACAAAGACTCTTCATTGCTGA
Found at i:24928661 original size:46 final size:46
Alignment explanation
Indices: 24928605--24928698 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
24928595 CAAAGAAAAG
*
24928605 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
1 ACCTCAACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
*
24928651 ACCTCAACCCACTATCAAGGATGATAGGAACCTTGGTATATGATGA
1 ACCTCAACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
24928697 AC
1 AC
24928699 GCCACATTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (46 bp):
ACCTCAACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
Found at i:24929364 original size:21 final size:23
Alignment explanation
Indices: 24929317--24929366 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
24929307 TCACCTGCAA
* *
24929317 TAAACACATTAAAATGAGTTAAT
1 TAAACACATTAAAATCACTTAAT
24929340 TAAACACATTAAAA-CACTT-AT
1 TAAACACATTAAAATCACTTAAT
24929361 TAAACA
1 TAAACA
24929367 TAACACACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.32
22 3 0.12
23 14 0.56
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.28
Consensus pattern (23 bp):
TAAACACATTAAAATCACTTAAT
Found at i:24932305 original size:12 final size:12
Alignment explanation
Indices: 24932232--24932305 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
24932222 ATTCCATTCA
24932232 CATTTTCTTTTT
1 CATTTTCTTTTT
*
24932244 --TTTTCTCTTT
1 CATTTTCTTTTT
24932254 CACTTACTTCTTTTT
1 CA-TT--TTCTTTTT
* *
24932269 CAATCTCTTTTT
1 CATTTTCTTTTT
* **
24932281 CCTTTTCACTTT
1 CATTTTCTTTTT
24932293 CATTTTCTTTTT
1 CATTTTCTTTTT
24932305 C
1 C
24932306 GTTTATTTCT
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
10 9 0.20
12 24 0.53
13 2 0.04
14 1 0.02
15 9 0.20
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.66
Consensus pattern (12 bp):
CATTTTCTTTTT
Found at i:24934067 original size:470 final size:470
Alignment explanation
Indices: 24933439--24934380 Score: 1875
Period size: 470 Copynumber: 2.0 Consensus size: 470
24933429 ATTGGAAGTT
24933439 TTGGAGCATGAACAGCCCAGATAATGTGAATGGATGAACTCCAATAGCCTCTAAGTGTGAAAGGA
1 TTGGAGCATGAACAGCCCAGATAATGTGAATGGATGAACTCCAATAGCCTCTAAGTGTGAAAGGA
*
24933504 CGAAATTGATCAGCCACCAGCTAAATGGACTCCATTTGAACAGCCTTGTCCATTGAATTCTTTGA
66 CGAAATTGATCAGCCACCAGCTAAATGGACTCCATTTGAACAGCCTTGTCCATTAAATTCTTTGA
24933569 ATAGCCACTTGGAGAAGCTCAACACAATAACTGGAGTTTTAATTAAGCTCATTATCCATTGAGCT
131 ATAGCCACTTGGAGAAGCTCAACACAATAACTGGAGTTTTAATTAAGCTCATTATCCATTGAGCT
24933634 CCACGAATAGTCATATGGAAAAGAGGAATCATTAGCTCCATCAATGTTGTTTCATGCATGTACTT
196 CCACGAATAGTCATATGGAAAAGAGGAATCATTAGCTCCATCAATGTTGTTTCATGCATGTACTT
24933699 GCAGTAATTAAATTCAGCCAATTAATCAAGTTAAGAAAAATTAAATTCGGCTGCAACTTAGACAA
261 GCAGTAATTAAATTCAGCCAATTAATCAAGTTAAGAAAAATTAAATTCGGCTGCAACTTAGACAA
24933764 TAAACCTGCTCATAAATTCAGCTGAATTCAGACATATTACATCAACAATAAGACACATTAATTAG
326 TAAACCTGCTCATAAATTCAGCTGAATTCAGACATATTACATCAACAATAAGACACATTAATTAG
24933829 ATGATATGAGATAGACACATTTATGCTATGTAATAACTAAAACATATTAAAACATCCATGGACAC
391 ATGATATGAGATAGACACATTTATGCTATGTAATAACTAAAACATATTAAAACATCCATGGACAC
24933894 ATTTGACATAAATAA
456 ATTTGACATAAATAA
24933909 TTGGAGCATGAACAGCCCAGATAATGTGAATGGATGAACTCCAATAGCCTCTAAGTGTGAAAGGA
1 TTGGAGCATGAACAGCCCAGATAATGTGAATGGATGAACTCCAATAGCCTCTAAGTGTGAAAGGA
24933974 CGAAATTGATCAGCCACCAGCTAAATGGACTCCATTTGAACAGCCTTGTCCATTAAATTCTTTGA
66 CGAAATTGATCAGCCACCAGCTAAATGGACTCCATTTGAACAGCCTTGTCCATTAAATTCTTTGA
24934039 ATAGCCACTTGGAGAAGCTCAACACAATAACTGGAGTTTTAATTAAGCTCATTATCCATTGAGCT
131 ATAGCCACTTGGAGAAGCTCAACACAATAACTGGAGTTTTAATTAAGCTCATTATCCATTGAGCT
24934104 CCACGAATAGTCATATGGAAAAGAGGAATCATTAGCTCCATCAATGTTGTTTCATGCATGTACTT
196 CCACGAATAGTCATATGGAAAAGAGGAATCATTAGCTCCATCAATGTTGTTTCATGCATGTACTT
24934169 GCAGTAATTAAATTCAGCCAATTAATCAAGTTAAGAAAAATTAAATTCGGCTGCAACTTAGACAA
261 GCAGTAATTAAATTCAGCCAATTAATCAAGTTAAGAAAAATTAAATTCGGCTGCAACTTAGACAA
24934234 TAAACCTGCTCATAAATTCAGCTGAATTCAGACATATTACATCAACAATAAGACACATTAATTAG
326 TAAACCTGCTCATAAATTCAGCTGAATTCAGACATATTACATCAACAATAAGACACATTAATTAG
24934299 ATGATATGAGATAGACACATTTATGCTATGTAATAACTAAAACATATTAAAACATCCATGGACAC
391 ATGATATGAGATAGACACATTTATGCTATGTAATAACTAAAACATATTAAAACATCCATGGACAC
24934364 ATTTGACATAAATAA
456 ATTTGACATAAATAA
24934379 TT
1 TT
24934381 AATTTTGTCC
Statistics
Matches: 471, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
470 471 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (470 bp):
TTGGAGCATGAACAGCCCAGATAATGTGAATGGATGAACTCCAATAGCCTCTAAGTGTGAAAGGA
CGAAATTGATCAGCCACCAGCTAAATGGACTCCATTTGAACAGCCTTGTCCATTAAATTCTTTGA
ATAGCCACTTGGAGAAGCTCAACACAATAACTGGAGTTTTAATTAAGCTCATTATCCATTGAGCT
CCACGAATAGTCATATGGAAAAGAGGAATCATTAGCTCCATCAATGTTGTTTCATGCATGTACTT
GCAGTAATTAAATTCAGCCAATTAATCAAGTTAAGAAAAATTAAATTCGGCTGCAACTTAGACAA
TAAACCTGCTCATAAATTCAGCTGAATTCAGACATATTACATCAACAATAAGACACATTAATTAG
ATGATATGAGATAGACACATTTATGCTATGTAATAACTAAAACATATTAAAACATCCATGGACAC
ATTTGACATAAATAA
Found at i:24936736 original size:30 final size:29
Alignment explanation
Indices: 24936700--24936757 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
24936690 GTAAGCTAAA
24936700 TTGAGCTTAAAT-GAGCTCAAGTGAGCTGAT
1 TTGAGC-TAAATGGAGCTCAAG-GAGCTGAT
* *
24936730 TTGAGCTGAATGGAGCTCGAGGAGCTGA
1 TTGAGCTAAATGGAGCTCAAGGAGCTGA
24936758 AGATGAGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.26
Consensus pattern (29 bp):
TTGAGCTAAATGGAGCTCAAGGAGCTGAT
Found at i:24937223 original size:18 final size:19
Alignment explanation
Indices: 24937183--24937228 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
24937173 TTGTCCAGAT
*
24937183 TTTAAAC-AAATTAATTAA
1 TTTAAACTAAATTAACTAA
*
24937201 CTTAAACTAAA-TAACTAA
1 TTTAAACTAAATTAACTAA
24937219 TTT-AACTAAA
1 TTTAAACTAAA
24937229 AACAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 7 0.29
18 14 0.58
19 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTAAACTAAATTAACTAA
Found at i:24941897 original size:23 final size:23
Alignment explanation
Indices: 24941871--24941914 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
24941861 AAGTCATTGT
**
24941871 GAAAAAAATTTTAAAAAAAATCA
1 GAAAAAAATTGAAAAAAAAATCA
*
24941894 GAAAGAAATTGAAAAAAAAAT
1 GAAAAAAATTGAAAAAAAAAT
24941915 TTAAAAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.18
Consensus pattern (23 bp):
GAAAAAAATTGAAAAAAAAATCA
Found at i:24941930 original size:13 final size:12
Alignment explanation
Indices: 24941872--24941923 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
24941862 AGTCATTGTG
*
24941872 AAAAAAATTTTA
1 AAAAAAATTTAA
* *
24941884 AAAAAAA-TCAG
1 AAAAAAATTTAA
* *
24941895 AAAGAAATTGAA
1 AAAAAAATTTAA
24941907 AAAAAAATTTAA
1 AAAAAAATTTAA
24941919 AAAAA
1 AAAAA
24941924 GAGTTTATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (12 bp):
AAAAAAATTTAA
Found at i:24943085 original size:13 final size:12
Alignment explanation
Indices: 24943067--24943108 Score: 54
Period size: 10 Copynumber: 3.7 Consensus size: 12
24943057 TGTGAGCGAG
24943067 AAAAGAACATTGA
1 AAAAGAA-ATTGA
24943080 AAAAGAAATTG-
1 AAAAGAAATTGA
24943091 -AAAGAAA-TGA
1 AAAAGAAATTGA
24943101 AAAAGAAA
1 AAAAGAAA
24943109 AAGATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 7 0.26
11 7 0.26
12 4 0.15
13 7 0.26
ACGTcount: A:0.69, C:0.02, G:0.17, T:0.12
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:24943193 original size:15 final size:15
Alignment explanation
Indices: 24943175--24943208 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24943165 AAAAGAAATT
24943175 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
24943190 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
24943205 GAAA
1 GAAA
24943209 TTGAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:24963173 original size:27 final size:27
Alignment explanation
Indices: 24963143--24963320 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
24963133 ATATTGAGCC
* *
24963143 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
24963170 CGCACACTTAGTGCTACGTAATCCAA-T
1 CGCACACTTAGTGCTACATAAT-CAACT
*
24963197 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
24963225 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
24963252 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
24963279 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
24963306 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24963321 GTACAATTTA
Statistics
Matches: 129, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 102 0.79
28 26 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24966560 original size:52 final size:50
Alignment explanation
Indices: 24966456--24966618 Score: 152
Period size: 50 Copynumber: 3.2 Consensus size: 50
24966446 ATGATGCTTA
* * * * *
24966456 AATGCATGA-TTTAATTAAGATGCAAAC-TAAATGAACA-AATGAGTTACTT
1 AATGCATGACTTAAATTATGATGCAAACTTAACT-AACATGA-GAGTTACAT
* * *
24966505 AATGCATGACTTAAATTAATGATGTAGACTTAAACTAACATGGGAGTTACAT
1 AATGCATGACTTAAATT-ATGATGCAAACTT-AACTAACATGAGAGTTACAT
* * * *
24966557 AATGCATGTCATAAATTATGATGCAAACTTAACTAACATTAAAGTTACAT
1 AATGCATGACTTAAATTATGATGCAAACTTAACTAACATGAGAGTTACAT
*
24966607 AAAGCATGACTT
1 AATGCATGACTT
24966619 TATTTAGTGT
Statistics
Matches: 91, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
49 9 0.10
50 32 0.35
51 19 0.21
52 28 0.31
53 3 0.03
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (50 bp):
AATGCATGACTTAAATTATGATGCAAACTTAACTAACATGAGAGTTACAT
Found at i:24969322 original size:20 final size:20
Alignment explanation
Indices: 24969258--24969324 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
24969248 GAGCTCAATA
24969258 AGCTGAATTGAGCTC-ATGTG
1 AGCTGAATTGAGCTCGA-GTG
* * *
24969278 AGTTAAATTGAGCTCGAATG
1 AGCTGAATTGAGCTCGAGTG
*
24969298 AGCTGACTTGAGCTCGAGTG
1 AGCTGAATTGAGCTCGAGTG
24969318 AGCTGAA
1 AGCTGAA
24969325 CCGCATGGAG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 37 0.97
21 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (20 bp):
AGCTGAATTGAGCTCGAGTG
Found at i:24971170 original size:6 final size:6
Alignment explanation
Indices: 24971161--24971251 Score: 76
Period size: 6 Copynumber: 15.2 Consensus size: 6
24971151 TTTTTCTTCG
* ** * * * *
24971161 TTTTCT TTTTCT CTCACT TTTTTT TATTTCT TTTTCT TTTGCA ATTT-T
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTTCT TTTTCT
* * *
24971209 TTTTCT TTTTCG TTTTCT TTTTCT TTTTCA CTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
24971252 CATTTTTGTT
Statistics
Matches: 63, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
5 3 0.05
6 55 0.87
7 5 0.08
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTTCT
Found at i:24973126 original size:20 final size:20
Alignment explanation
Indices: 24973074--24973142 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
24973064 ACGAGCTCAA
** *
24973074 TGAGCTGAATTGAGGGCGTG
1 TGAGCTGAATTGAGCTCGAG
* * *
24973094 GGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
24973114 TGAGCTGAATTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
24973134 TGAGCTGAA
1 TGAGCTGAA
24973143 CCGCATGGAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.23, C:0.13, G:0.39, T:0.25
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:24974903 original size:30 final size:29
Alignment explanation
Indices: 24974855--24974935 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
24974845 TTTCTTTTTC
*
24974855 TTCTCTTTCAATTTCTTTTTCAATCTCTTT
1 TTCT-TTTCAATTTCTTTTTCAATCTCCTT
* * *
24974885 TTCCTTTTCACTTACTTTTTCAATTTCCTT
1 TT-CTTTTCAATTTCTTTTTCAATCTCCTT
24974915 TTCTTTTGCAATTTCTTTTTC
1 TTCTTTT-CAATTTCTTTTTC
24974936 TTTTTCAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 5 0.12
30 36 0.84
31 2 0.05
ACGTcount: A:0.12, C:0.23, G:0.01, T:0.63
Consensus pattern (29 bp):
TTCTTTTCAATTTCTTTTTCAATCTCCTT
Found at i:24974911 original size:18 final size:17
Alignment explanation
Indices: 24974880--24974944 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
24974870 TTTTTCAATC
**
24974880 TCTTTTTCCTTTTCACTT
1 TCTTTTTCAATTTC-CTT
*
24974898 ACTTTTTCAATTTCCTTT
1 TCTTTTTCAATTTCC-TT
* *
24974916 TCTTTTGCAATTTCTTTT
1 TCTTTTTCAATTTC-CTT
24974934 TCTTTTTCAAT
1 TCTTTTTCAAT
24974945 GTCTTCTTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
17 1 0.03
18 37 0.97
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.65
Consensus pattern (17 bp):
TCTTTTTCAATTTCCTT
Found at i:24974949 original size:18 final size:18
Alignment explanation
Indices: 24974899--24974956 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
24974889 TTTTCACTTA
*
24974899 CTTTTTCAATTTCCTTTT
1 CTTTTTCAATTTCTTTTT
*
24974917 CTTTTGCAATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
* *
24974935 CTTTTTCAATGTCTTCTT
1 CTTTTTCAATTTCTTTTT
24974953 CTTT
1 CTTT
24974957 CATTTCTCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.66
Consensus pattern (18 bp):
CTTTTTCAATTTCTTTTT
Found at i:24977564 original size:20 final size:20
Alignment explanation
Indices: 24977540--24977627 Score: 113
Period size: 20 Copynumber: 4.4 Consensus size: 20
24977530 ACGAGCTCAA
* *
24977540 TGAGCTGAATTGAGCTCGTG
1 TGAGCTGACTTGAGCTCGAG
* * *
24977560 GGAGCTGACTTGAGCTCAAA
1 TGAGCTGACTTGAGCTCGAG
24977580 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGACTTGAGCTCGAG
*
24977600 TGAGCTGATTTGAGCTCGAG
1 TGAGCTGACTTGAGCTCGAG
*
24977620 TGGGCTGA
1 TGAGCTGA
24977628 ACCAAATGGA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (20 bp):
TGAGCTGACTTGAGCTCGAG
Found at i:24977627 original size:40 final size:40
Alignment explanation
Indices: 24977532--24977616 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
24977522 AGCTAATAAC
*
24977532 GAGCTC-AATGAGCTGAATTGAGCTCGTGGGAGCTGACTT
1 GAGCTCAAATGAGCTGAATTGAGCTCGAGGGAGCTGACTT
* * *
24977571 GAGCTCAAATGAGCTGACTTGAGCTCGAGTGAGCTGATTT
1 GAGCTCAAATGAGCTGAATTGAGCTCGAGGGAGCTGACTT
24977611 GAGCTC
1 GAGCTC
24977617 GAGTGGGCTG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 6 0.15
40 35 0.85
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (40 bp):
GAGCTCAAATGAGCTGAATTGAGCTCGAGGGAGCTGACTT
Found at i:24978917 original size:20 final size:20
Alignment explanation
Indices: 24978877--24978943 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
24978867 ATCTAATAAC
* *
24978877 GAGCTC-AATGAACTTAATT
1 GAGCTCGAATGAACTGACTT
*
24978896 GAGCTC-ATATGAGCTGACTT
1 GAGCTCGA-ATGAACTGACTT
*
24978916 GAGCTCGAATGAACTGTCTT
1 GAGCTCGAATGAACTGACTT
24978936 GAGCTCGA
1 GAGCTCGA
24978944 GTGAGCTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 7 0.17
20 33 0.80
21 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (20 bp):
GAGCTCGAATGAACTGACTT
Found at i:24979360 original size:20 final size:20
Alignment explanation
Indices: 24979335--24979372 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
24979325 AGCTGTTATG
24979335 AAGTTGAATTAAAGGCCAAC
1 AAGTTGAATTAAAGGCCAAC
24979355 AAGTTGAATTAAAGGCCA
1 AAGTTGAATTAAAGGCCA
24979373 GCAGCTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (20 bp):
AAGTTGAATTAAAGGCCAAC
Found at i:24980811 original size:14 final size:14
Alignment explanation
Indices: 24980792--24980818 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24980782 TACATTGGAC
24980792 AGATTCATGCATGT
1 AGATTCATGCATGT
24980806 AGATTCATGCATG
1 AGATTCATGCATG
24980819 GGAGATGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (14 bp):
AGATTCATGCATGT
Found at i:24982491 original size:5 final size:6
Alignment explanation
Indices: 24982409--24982531 Score: 59
Period size: 6 Copynumber: 20.0 Consensus size: 6
24982399 TCAATCTCAA
* * * ** *
24982409 TTTCTT TTTCAAT TTTCTTT TCTTCGT TTTCTT TTTCTC TCACTT TTT-TGA
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCT-T
* ** * **
24982460 TTTCTT TTTCTT TTCCAA TTTATT TTTCTT TTTAGT TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* ** *
24982508 TTGCAC TTTCTA TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT
24982532 CATTTACGTT
Statistics
Matches: 81, Mismatches: 32, Indels: 8
0.67 0.26 0.07
Matches are distributed among these distances:
5 1 0.01
6 67 0.83
7 10 0.12
8 3 0.04
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:24982500 original size:36 final size:36
Alignment explanation
Indices: 24982451--24982528 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
24982441 TTTTCTCTCA
* *
24982451 CTTTTTTGATTTCTTTTTCTTTTCCAATTTATTTTT
1 CTTTTTAGATTTCTTTTTCTTTTCCAATTTATATTT
* * * *
24982487 CTTTTTAGTTTTCTTTTTCTTTTGCACTTTCTATTT
1 CTTTTTAGATTTCTTTTTCTTTTCCAATTTATATTT
24982523 CTTTTT
1 CTTTTT
24982529 CTTCATTTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.09, C:0.15, G:0.04, T:0.72
Consensus pattern (36 bp):
CTTTTTAGATTTCTTTTTCTTTTCCAATTTATATTT
Found at i:24985024 original size:20 final size:20
Alignment explanation
Indices: 24984999--24985067 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
24984989 GATCTAATAA
*
24984999 TGAGCTGAATTGAGCTCGTG
1 TGAGCTGAATTGAGCTCGAG
*
24985019 TGAGCT-AACTTGAGCTCGAA
1 TGAGCTGAA-TTGAGCTCGAG
* * *
24985039 TGAGATGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCGAG
24985059 TGAGCTGAA
1 TGAGCTGAA
24985068 AATGAGCTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.05
20 36 0.92
21 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:24988309 original size:22 final size:21
Alignment explanation
Indices: 24988266--24988309 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
24988256 TGGGCTGCTA
*
24988266 TAAAGGAGGCTTAAACATCAT
1 TAAAGGAGGCTTAAACAGCAT
* *
24988287 TAAAGGAGTTCTTAAAGAGCAT
1 TAAAGGAG-GCTTAAACAGCAT
24988309 T
1 T
24988310 TTTATGCCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (21 bp):
TAAAGGAGGCTTAAACAGCAT
Found at i:24996101 original size:46 final size:46
Alignment explanation
Indices: 24996050--24996143 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
24996040 ATAGTGTGGC
24996050 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
* *
24996096 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
24996142 GT
1 GT
24996144 CTTTTAAACT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
Found at i:24997110 original size:16 final size:16
Alignment explanation
Indices: 24997071--24997112 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
24997061 AATGAGCCAT
* *
24997071 ATCCATGAATTCAGCC
1 ATCCATGTATCCAGCC
24997087 ATCCATGTATCCAGCC
1 ATCCATGTATCCAGCC
*
24997103 ATTCATGTAT
1 ATCCATGTAT
24997113 TGCTCCCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (16 bp):
ATCCATGTATCCAGCC
Found at i:25007231 original size:21 final size:20
Alignment explanation
Indices: 25007207--25007245 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25007197 GAGAGTGGAA
25007207 AGTGAAAAAGAAAAAGAAAAG
1 AGTGAAAAA-AAAAAGAAAAG
* *
25007228 AGTGTAGAAAAAAAGAAA
1 AGTGAAAAAAAAAAGAAA
25007246 GCCAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (20 bp):
AGTGAAAAAAAAAAGAAAAG
Found at i:25008432 original size:25 final size:25
Alignment explanation
Indices: 25008398--25008448 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
25008388 AAAATCAAAG
*
25008398 ACTGTTTAACTCATGCAGCATTATT
1 ACTGTTTAACTCATGCACCATTATT
25008423 ACTGTTTAACTCATGCACCATTATT
1 ACTGTTTAACTCATGCACCATTATT
25008448 A
1 A
25008449 GCCGAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (25 bp):
ACTGTTTAACTCATGCACCATTATT
Found at i:25012163 original size:20 final size:21
Alignment explanation
Indices: 25012128--25012166 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25012118 CAGCTCGTTG
25012128 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
25012149 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
25012167 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:25012574 original size:13 final size:13
Alignment explanation
Indices: 25012556--25012581 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25012546 TGTGTCCTAA
25012556 TATGAATTAAATT
1 TATGAATTAAATT
25012569 TATGAATTAAATT
1 TATGAATTAAATT
25012582 GCTTTCAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:25014334 original size:21 final size:21
Alignment explanation
Indices: 25014310--25014351 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
25014300 AACGAGATGG
25014310 GCCGAATGTTGGAGGAAAAAC
1 GCCGAATGTTGGAGGAAAAAC
*
25014331 GCCGAATTTTGGAGGAAAAAC
1 GCCGAATGTTGGAGGAAAAAC
25014352 TAAGTCCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
GCCGAATGTTGGAGGAAAAAC
Found at i:25014742 original size:6 final size:6
Alignment explanation
Indices: 25014717--25014815 Score: 58
Period size: 6 Copynumber: 16.0 Consensus size: 6
25014707 TAATGAATTC
** * *
25014717 GAAAAA GAAAGT GAAGAA GAAAAA GAAAACA -AAAAA GAAAAA GCAAACA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA-A GAAAAA GAAAAA G-AAAAA
** * * *
25014766 -AAAAA GTGAGA GAAAAA GAAAAT GAAGAAAA GAAAATT GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA G-A-AAAA GAAAA-A GAAAAA GAAAAA
25014816 TATGAAAATG
Statistics
Matches: 68, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
5 5 0.07
6 47 0.69
7 12 0.18
8 4 0.06
ACGTcount: A:0.73, C:0.03, G:0.19, T:0.05
Consensus pattern (6 bp):
GAAAAA
Found at i:25014754 original size:18 final size:18
Alignment explanation
Indices: 25014733--25014771 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
25014723 GAAAGTGAAG
25014733 AAGAAAAAGAAAACAAAA
1 AAGAAAAAGAAAACAAAA
*
25014751 AAGAAAAAGCAAACAAAA
1 AAGAAAAAGAAAACAAAA
25014769 AAG
1 AAG
25014772 TGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGAAAACAAAA
Found at i:25014796 original size:14 final size:13
Alignment explanation
Indices: 25014777--25014814 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
25014767 AAAAGTGAGA
25014777 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
25014789 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
25014804 GAAAAAGAAAA
1 GAAAAAGAAAA
25014815 ATATGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:25014858 original size:17 final size:17
Alignment explanation
Indices: 25014834--25014900 Score: 50
Period size: 18 Copynumber: 3.9 Consensus size: 17
25014824 TGAGATTTCA
*
25014834 AAAACAAAA-GAGAGTG
1 AAAAGAAAACGAGAGTG
* *
25014850 AAAAGCAAAATGAGATTG
1 AAAAG-AAAACGAGAGTG
25014868 AAAA-AGAAA-GAGAGTTTG
1 AAAAGA-AAACGAGAG--TG
25014886 AAAAGAAAACGAGAG
1 AAAAGAAAACGAGAG
25014901 AAGAATAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 9 0.22
17 7 0.17
18 19 0.46
19 6 0.15
ACGTcount: A:0.60, C:0.04, G:0.25, T:0.10
Consensus pattern (17 bp):
AAAAGAAAACGAGAGTG
Found at i:25014860 original size:36 final size:34
Alignment explanation
Indices: 25014819--25014899 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 34
25014809 AGAAAAATAT
25014819 GAAAATGAGATTTCAAAAACAAAAGAGAG-TGAAAA
1 GAAAATGAGA-TTCAAAAA-AAAAGAGAGTTGAAAA
* *
25014854 GCAAAATGAGATTGAAAAAGAAAGAGAGTTTGAAAA
1 G-AAAATGAGATTCAAAAAAAAAGAGAG-TTGAAAA
*
25014890 GAAAACGAGA
1 GAAAATGAGA
25014900 GAAGAATAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 8 0.20
35 16 0.40
36 16 0.40
ACGTcount: A:0.58, C:0.05, G:0.23, T:0.14
Consensus pattern (34 bp):
GAAAATGAGATTCAAAAAAAAAGAGAGTTGAAAA
Found at i:25014864 original size:18 final size:17
Alignment explanation
Indices: 25014833--25014882 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
25014823 ATGAGATTTC
25014833 AAAAACAAAAGAGAGTG
1 AAAAACAAAAGAGAGTG
* *
25014850 AAAAGCAAAATGAGATTG
1 AAAAACAAAA-GAGAGTG
*
25014868 AAAAA-GAAAGAGAGT
1 AAAAACAAAAGAGAGT
25014883 TTGAAAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 5 0.19
17 12 0.44
18 10 0.37
ACGTcount: A:0.62, C:0.04, G:0.24, T:0.10
Consensus pattern (17 bp):
AAAAACAAAAGAGAGTG
Found at i:25016186 original size:20 final size:21
Alignment explanation
Indices: 25016151--25016189 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25016141 CAGCTCGTTG
25016151 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
25016172 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
25016190 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:25016597 original size:13 final size:13
Alignment explanation
Indices: 25016579--25016604 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25016569 TGTGTCCTAA
25016579 TATGAATTAAATT
1 TATGAATTAAATT
25016592 TATGAATTAAATT
1 TATGAATTAAATT
25016605 GCTTTCAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:25017740 original size:12 final size:10
Alignment explanation
Indices: 25017717--25017764 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
25017707 GTAAGTGATT
*
25017717 AAAAAATTAA
1 AAAAAATAAA
25017727 AAAAAATCGAAA
1 AAAAAAT--AAA
25017739 AAAAAATAAA
1 AAAAAATAAA
*
25017749 AAAAAGTAAA
1 AAAAAATAAA
25017759 AAAAAA
1 AAAAAA
25017765 ATTTCGTGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 24 0.73
12 9 0.27
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.10
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:25017760 original size:21 final size:21
Alignment explanation
Indices: 25017717--25017766 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
25017707 GTAAGTGATT
* *
25017717 AAAAAATTAAAAAAAATCGAA
1 AAAAAAATAAAAAAAATCAAA
25017738 AAAAAAATAAAAAAAAGT-AAA
1 AAAAAAATAAAAAAAA-TCAAA
25017759 AAAAAAAT
1 AAAAAAAT
25017767 TTCGTGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.12
Consensus pattern (21 bp):
AAAAAAATAAAAAAAATCAAA
Found at i:25018743 original size:6 final size:6
Alignment explanation
Indices: 25018718--25018816 Score: 58
Period size: 6 Copynumber: 16.0 Consensus size: 6
25018708 TAATGAATTC
** * *
25018718 GAAAAA GAAAGT GAAGAA GAAAAA GAAAACA -AAAAA GAAAAA GCAAACA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA-A GAAAAA GAAAAA G-AAAAA
** * * *
25018767 -AAAAA GTGAGA GAAAAA GAAAAT GAAGAAAA GAAAATT GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA G-A-AAAA GAAAA-A GAAAAA GAAAAA
25018817 TATGAAAATG
Statistics
Matches: 68, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
5 5 0.07
6 47 0.69
7 12 0.18
8 4 0.06
ACGTcount: A:0.73, C:0.03, G:0.19, T:0.05
Consensus pattern (6 bp):
GAAAAA
Found at i:25018755 original size:18 final size:18
Alignment explanation
Indices: 25018734--25018772 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
25018724 GAAAGTGAAG
25018734 AAGAAAAAGAAAACAAAA
1 AAGAAAAAGAAAACAAAA
*
25018752 AAGAAAAAGCAAACAAAA
1 AAGAAAAAGAAAACAAAA
25018770 AAG
1 AAG
25018773 TGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGAAAACAAAA
Found at i:25018797 original size:14 final size:13
Alignment explanation
Indices: 25018778--25018815 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
25018768 AAAAGTGAGA
25018778 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
25018790 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
25018805 GAAAAAGAAAA
1 GAAAAAGAAAA
25018816 ATATGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:25018859 original size:17 final size:17
Alignment explanation
Indices: 25018835--25018901 Score: 50
Period size: 18 Copynumber: 3.9 Consensus size: 17
25018825 TGAGATTTCA
*
25018835 AAAACAAAA-GAGAGTG
1 AAAAGAAAACGAGAGTG
* *
25018851 AAAAGCAAAATGAGATTG
1 AAAAG-AAAACGAGAGTG
25018869 AAAA-AGAAA-GAGAGTTTG
1 AAAAGA-AAACGAGAG--TG
25018887 AAAAGAAAACGAGAG
1 AAAAGAAAACGAGAG
25018902 AAGAATAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 9 0.22
17 7 0.17
18 19 0.46
19 6 0.15
ACGTcount: A:0.60, C:0.04, G:0.25, T:0.10
Consensus pattern (17 bp):
AAAAGAAAACGAGAGTG
Found at i:25018861 original size:36 final size:34
Alignment explanation
Indices: 25018820--25018900 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 34
25018810 AGAAAAATAT
25018820 GAAAATGAGATTTCAAAAACAAAAGAGAG-TGAAAA
1 GAAAATGAGA-TTCAAAAA-AAAAGAGAGTTGAAAA
* *
25018855 GCAAAATGAGATTGAAAAAGAAAGAGAGTTTGAAAA
1 G-AAAATGAGATTCAAAAAAAAAGAGAG-TTGAAAA
*
25018891 GAAAACGAGA
1 GAAAATGAGA
25018901 GAAGAATAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 8 0.20
35 16 0.40
36 16 0.40
ACGTcount: A:0.58, C:0.05, G:0.23, T:0.14
Consensus pattern (34 bp):
GAAAATGAGATTCAAAAAAAAAGAGAGTTGAAAA
Found at i:25018865 original size:18 final size:17
Alignment explanation
Indices: 25018834--25018883 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
25018824 ATGAGATTTC
25018834 AAAAACAAAAGAGAGTG
1 AAAAACAAAAGAGAGTG
* *
25018851 AAAAGCAAAATGAGATTG
1 AAAAACAAAA-GAGAGTG
*
25018869 AAAAA-GAAAGAGAGT
1 AAAAACAAAAGAGAGT
25018884 TTGAAAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 5 0.19
17 12 0.44
18 10 0.37
ACGTcount: A:0.62, C:0.04, G:0.24, T:0.10
Consensus pattern (17 bp):
AAAAACAAAAGAGAGTG
Found at i:25020190 original size:20 final size:21
Alignment explanation
Indices: 25020155--25020193 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25020145 CAGCTCGTTG
25020155 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
25020176 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
25020194 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:25020601 original size:13 final size:13
Alignment explanation
Indices: 25020583--25020608 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25020573 TGTGTCCTAA
25020583 TATGAATTAAATT
1 TATGAATTAAATT
25020596 TATGAATTAAATT
1 TATGAATTAAATT
25020609 GCTTTCAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:25022781 original size:50 final size:52
Alignment explanation
Indices: 25022672--25022786 Score: 135
Period size: 50 Copynumber: 2.2 Consensus size: 52
25022662 TTAATACAAG
* * * *
25022672 ACTTAATTTAATGATGCAGACTTAAACTAACATGGGAGTTACATAATGCATG
1 ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAACGCATA
* * * *
25022724 TCATTATTT-ATGATGCATACTT-AACTAGCATGGAAGTTACATAACGCATA
1 ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAACGCATA
*
25022774 ACTTTATTAAATG
1 ACTTTATTTAATG
25022787 CAGAACACAC
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
50 30 0.59
51 15 0.29
52 6 0.12
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (52 bp):
ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAACGCATA
Found at i:25025043 original size:20 final size:21
Alignment explanation
Indices: 25025010--25025049 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
25025000 CCAAGTGCAA
* *
25025010 AATGAAGCTTAATTTTAGCTC
1 AATGAAGCTCAATTCTAGCTC
25025031 AATG-AGCTCAATTCTAGCT
1 AATGAAGCTCAATTCTAGCT
25025050 TCTTCAAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
AATGAAGCTCAATTCTAGCTC
Found at i:25025174 original size:34 final size:35
Alignment explanation
Indices: 25025128--25025200 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 35
25025118 ATAAGTATTT
25025128 AGTTGCTAGAATAAATTACTCAT-TTAGTTAATTA
1 AGTTGCTAGAATAAATTACTCATCTTAGTTAATTA
* *
25025162 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTG
1 AGTTGCTAGAATAAATTACTCATCTTAGTTAATTA
25025197 AGTT
1 AGTT
25025201 CATCTTAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 22 0.61
35 14 0.39
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (35 bp):
AGTTGCTAGAATAAATTACTCATCTTAGTTAATTA
Found at i:25025205 original size:19 final size:19
Alignment explanation
Indices: 25025181--25025219 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
25025171 AATAAATTAC
*
25025181 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
25025200 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
25025219 T
1 T
25025220 GCTGGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:25025209 original size:54 final size:53
Alignment explanation
Indices: 25025147--25025256 Score: 193
Period size: 54 Copynumber: 2.1 Consensus size: 53
25025137 AATAAATTAC
* *
25025147 TCATTTAGTTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGT
1 TCATTTAGTTAATTAAGTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGT
25025200 TCATCTTAGTTAATTAAGTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGT
1 TCAT-TTAGTTAATTAAGTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGT
25025254 TCA
1 TCA
25025257 AATTAGTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
53 4 0.07
54 50 0.93
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (53 bp):
TCATTTAGTTAATTAAGTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGT
Found at i:25025276 original size:54 final size:54
Alignment explanation
Indices: 25025151--25025284 Score: 180
Period size: 54 Copynumber: 2.5 Consensus size: 54
25025141 AATTACTCAT
* * * **
25025151 TTAGTTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATC
1 TTAGTTAATTAACTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGTTCAAA
*
25025205 TTAGTTAATTAAGTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGTTCAAA
1 TTAGTTAATTAACTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGTTCAAA
* *
25025259 TTAGTTCACTT-ACTTGCTGGATTAAA
1 TTAGTT-AATTAACTTGCTGGAATAAA
25025285 CTTTTAATGT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 69 0.96
55 3 0.04
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (54 bp):
TTAGTTAATTAACTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGTTCAAA
Found at i:25042423 original size:39 final size:40
Alignment explanation
Indices: 25042326--25042506 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
25042316 ATGATGTCCA
* * * *
25042326 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGC-GAGTTACTAAT-TCCG
* * *
25042366 GACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAATTCCG
*
25042406 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAATTCCG
* * *
25042445 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT-TCCG
*
25042485 GGCTATGACCCGAAGGCATTTG
1 GGCTAAGACCCGAAGGCATTTG
25042507 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
39 36 0.30
40 75 0.62
41 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAATTCCG
Found at i:25042458 original size:79 final size:81
Alignment explanation
Indices: 25042326--25042506 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 81
25042316 ATGATGTCCA
* *
25042326 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
*
25042390 CGAGATACTA-ATTCCG
66 CGAGATACTATA-ACCG
* * * **
25042406 GGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGT
1 GGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGT
*
25042468 GCGAGTTACTATAACCG
65 GCGAGATACTATAACCG
*
25042485 GGCTATGACCCGAAGGCATTTG
1 GGCTAAGACCCGAAGGCATTTG
25042507 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 58 0.66
80 29 0.33
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
GGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGATACTATAACCG
Found at i:25042528 original size:79 final size:79
Alignment explanation
Indices: 25042375--25042539 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
25042365 GGACTAAGAT
* **
25042375 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
25042440 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
25042454 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
25042517 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
25042533 CCGAAGG
1 CCGAAGG
25042540 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:25047166 original size:40 final size:40
Alignment explanation
Indices: 25047118--25047381 Score: 343
Period size: 40 Copynumber: 6.6 Consensus size: 40
25047108 TCCTCGTTCA
* * * *
25047118 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25047158 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25047198 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25047238 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
25047278 AATGCCTCCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
25047318 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
25047358 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25047382 CAGCATTCAA
Statistics
Matches: 202, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.01
40 191 0.95
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:25047390 original size:41 final size:41
Alignment explanation
Indices: 25047313--25047390 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
25047303 TTAGTATCTC
* * *
25047313 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
25047354 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
25047391 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:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:25055161 original size:40 final size:40
Alignment explanation
Indices: 25055063--25055325 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
25055053 TCCTCGTTCA
* * * * *
25055063 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
25055102 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25055142 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25055182 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
25055222 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
25055262 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
25055302 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25055326 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:25058454 original size:43 final size:45
Alignment explanation
Indices: 25058370--25058470 Score: 143
Period size: 43 Copynumber: 2.3 Consensus size: 45
25058360 ACTATGTTCT
* * *
25058370 TCTCTGTTTTGTAAACATCTATGTATTTTCTTGTTCTTATTATCA
1 TCTCAGTTTTGCAAACATCTATGTATTTCCTTGTTCTTATTATCA
* *
25058415 TCTCAGTTTTGCAAACATCTGTGT-TTTCCTT-TTCTTATTATCT
1 TCTCAGTTTTGCAAACATCTATGTATTTCCTTGTTCTTATTATCA
25058458 TCTCAGTTTTGCA
1 TCTCAGTTTTGCA
25058471 GATACCTTGC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 24 0.47
44 6 0.12
45 21 0.41
ACGTcount: A:0.18, C:0.19, G:0.10, T:0.53
Consensus pattern (45 bp):
TCTCAGTTTTGCAAACATCTATGTATTTCCTTGTTCTTATTATCA
Found at i:25065103 original size:14 final size:13
Alignment explanation
Indices: 25065069--25065094 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25065059 CAAATGGGTA
25065069 GTTTTCTGCAAAT
1 GTTTTCTGCAAAT
25065082 GTTTTCTGCAAAT
1 GTTTTCTGCAAAT
25065095 CAGTTTCTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTGCAAAT
Found at i:25067693 original size:15 final size:15
Alignment explanation
Indices: 25067673--25067703 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25067663 AAAATATTGA
25067673 CATCATCAATCACAT
1 CATCATCAATCACAT
*
25067688 CATCATCAATCTCAT
1 CATCATCAATCACAT
25067703 C
1 C
25067704 CTTGGCTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (15 bp):
CATCATCAATCACAT
Found at i:25067889 original size:20 final size:20
Alignment explanation
Indices: 25067825--25067901 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
25067815 AAATCATTGC
25067825 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* * *
25067845 AA-A-ATATAAAAATTTATTA
1 AATATATGTAAAAA-TAATTT
*
25067864 ATATATATGTAAAAACAATTT
1 A-ATATATGTAAAAATAATTT
*
25067885 AATATATCTAAAAATAA
1 AATATATGTAAAAATAA
25067902 CTTTTCCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
18 8 0.18
19 6 0.14
20 17 0.39
21 5 0.11
22 8 0.18
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:25068013 original size:20 final size:20
Alignment explanation
Indices: 25067988--25068027 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25067978 AATATTTTCC
*
25067988 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
25068008 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
25068028 TCATTTTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:25080554 original size:29 final size:29
Alignment explanation
Indices: 25080512--25080578 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
25080502 GTATAAGGAA
*
25080512 GCCTTTGTGGCTATATCTATTAAATGGAT
1 GCCTTTGTGGCTATATCTATTAAATGAAT
*
25080541 GCCTTTGTGGCTATCTCTATTAAATGAAT
1 GCCTTTGTGGCTATATCTATTAAATGAAT
25080570 GCC-TTGTGG
1 GCCTTTGTGG
25080579 TAAACTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.40
Consensus pattern (29 bp):
GCCTTTGTGGCTATATCTATTAAATGAAT
Found at i:25094781 original size:39 final size:39
Alignment explanation
Indices: 25094723--25094941 Score: 189
Period size: 39 Copynumber: 5.5 Consensus size: 39
25094713 TATAATTATA
25094723 CCCTATTGTACTT-TGGTACCCCTGAATGCACATACTTGC
1 CCCTATTGTACTTCT-GTACCCCTGAATGCACATACTTGC
* * *
25094762 CCCTATTGTACTTCTGTACCCCTGAATGTACATGCGTGC
1 CCCTATTGTACTTCTGTACCCCTGAATGCACATACTTGC
* * * *
25094801 CCCTATTGTACTTC-GATACCCCTAAAAGTACATACGTGC
1 CCCTATTGTACTTCTG-TACCCCTGAATGCACATACTTGC
* *
25094840 CCCTGTTGTACTTC-GATACCCCTGAATGCACATA-TGTGA
1 CCCTATTGTACTTCTG-TACCCCTGAATGCACATACT-TGC
* * *
25094879 CCCTATTTTACTT-TGGTACCCCTTAATCATTCACATA-TGTGC
1 CCCTATTGTACTTCT-GTACCCC-TGA--ATGCACATACT-TGC
* *
25094921 CCCTGTTGTACTTCGGTACCC
1 CCCTATTGTACTTCTGTACCC
25094942 ATGATTCACA
Statistics
Matches: 151, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 117 0.77
40 4 0.03
42 29 0.19
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (39 bp):
CCCTATTGTACTTCTGTACCCCTGAATGCACATACTTGC
Found at i:25094803 original size:20 final size:20
Alignment explanation
Indices: 25094741--25094844 Score: 63
Period size: 20 Copynumber: 5.3 Consensus size: 20
25094731 TACTTTGGTA
* *
25094741 CCCCTGAATGCACATACTTG
1 CCCCTGAATGTACATACGTG
* * *
25094761 CCCCT-ATTGTAC-TTCTGTA
1 CCCCTGAATGTACATAC-GTG
*
25094780 CCCCTGAATGTACATGCGTG
1 CCCCTGAATGTACATACGTG
* * *
25094800 CCCCT-ATTGTAC-TTCGATA
1 CCCCTGAATGTACATACG-TG
* *
25094819 CCCCTAAAAGTACATACGTG
1 CCCCTGAATGTACATACGTG
25094839 CCCCTG
1 CCCCTG
25094845 TTGTACTTCG
Statistics
Matches: 62, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
18 5 0.08
19 23 0.37
20 29 0.47
21 5 0.08
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (20 bp):
CCCCTGAATGTACATACGTG
Found at i:25094822 original size:19 final size:18
Alignment explanation
Indices: 25094761--25094862 Score: 69
Period size: 19 Copynumber: 5.3 Consensus size: 18
25094751 CACATACTTG
25094761 CCCCTATTGTACTTCTGTA
1 CCCCTATTGTACTTC-GTA
* * *
25094780 CCCCTGAATGTACATGCGTG
1 CCCCT-ATTGTAC-TTCGTA
25094800 CCCCTATTGTACTTCGATA
1 CCCCTATTGTACTTCG-TA
** * *
25094819 CCCCTAAAAGTACATACGTG
1 CCCCT-ATTGTAC-TTCGTA
*
25094839 CCCCTGTTGTACTTCGATA
1 CCCCTATTGTACTTCG-TA
25094858 CCCCT
1 CCCCT
25094863 GAATGCACAT
Statistics
Matches: 62, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
18 6 0.10
19 27 0.44
20 24 0.39
21 5 0.08
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.31
Consensus pattern (18 bp):
CCCCTATTGTACTTCGTA
Found at i:25094852 original size:78 final size:77
Alignment explanation
Indices: 25094722--25094941 Score: 251
Period size: 78 Copynumber: 2.8 Consensus size: 77
25094712 ATATAATTAT
* * * * *
25094722 ACCCTATTGTACTTTGGTACCCCTGAATGCACATACTTGCCCCTATTGTACTTCTGTACCCCTGA
1 ACCCTATTGTACTTTGGTACCCCTAAAAGTACATACGTGCCCCTGTTGTACTTC-GTACCCCTGA
* *
25094787 ATGTACATGCGTG
65 ATGCACATACGTG
* * *
25094800 CCCCTATTGTACTTCGATACCCCTAAAAGTACATACGTGCCCCTGTTGTACTTCGATACCCCTGA
1 ACCCTATTGTACTTTGGTACCCCTAAAAGTACATACGTGCCCCTGTTGTACTTCG-TACCCCTGA
*
25094865 ATGCACATATGTG
65 ATGCACATACGTG
* * * *
25094878 ACCCTATTTTACTTTGGTACCCCTTAATCATTCACATATGTGCCCCTGTTGTACTTCGGTACCC
1 ACCCTATTGTACTTTGGTACCCC-TAA-AAGT-ACATACGTGCCCCTGTTGTACTTC-GTACCC
25094942 ATGATTCACA
Statistics
Matches: 119, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
77 1 0.01
78 84 0.71
79 3 0.03
80 2 0.02
81 28 0.24
82 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.33
Consensus pattern (77 bp):
ACCCTATTGTACTTTGGTACCCCTAAAAGTACATACGTGCCCCTGTTGTACTTCGTACCCCTGAA
TGCACATACGTG
Found at i:25098451 original size:20 final size:20
Alignment explanation
Indices: 25098413--25098452 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25098403 GTCTTTAACC
* *
25098413 TTCAAATTAATTAATTAGCA
1 TTCAAATTAATCAACTAGCA
25098433 TTCAAATTAATCAACTAGCA
1 TTCAAATTAATCAACTAGCA
25098453 CATGAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (20 bp):
TTCAAATTAATCAACTAGCA
Found at i:25100302 original size:11 final size:11
Alignment explanation
Indices: 25100288--25100337 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
25100278 TGGTACAAGA
25100288 GTGGTGGTATG
1 GTGGTGGTATG
*
25100299 GTGGTGCTATG
1 GTGGTGGTATG
* *
25100310 GTGGTTGTATA
1 GTGGTGGTATG
*
25100321 GTGGTGATATG
1 GTGGTGGTATG
25100332 GTGGTG
1 GTGGTG
25100338 TTTCAGTTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.12, C:0.02, G:0.48, T:0.38
Consensus pattern (11 bp):
GTGGTGGTATG
Found at i:25100313 original size:22 final size:22
Alignment explanation
Indices: 25100288--25100337 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
25100278 TGGTACAAGA
* *
25100288 GTGGTGGTATGGTGGTGCTATG
1 GTGGTGGTATAGTGGTGATATG
*
25100310 GTGGTTGTATAGTGGTGATATG
1 GTGGTGGTATAGTGGTGATATG
25100332 GTGGTG
1 GTGGTG
25100338 TTTCAGTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.12, C:0.02, G:0.48, T:0.38
Consensus pattern (22 bp):
GTGGTGGTATAGTGGTGATATG
Found at i:25108091 original size:39 final size:39
Alignment explanation
Indices: 25108048--25108146 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
25108038 AACTTGTTTT
* * * *
25108048 TGAGTATTGTGATATATGCTTGAACATTATGCGATTATG
1 TGAGTATTGTGATATATGCTTGAACATCATGCAATCATA
** * *
25108087 TGAGTATTGCAATATGTGCTTGAACATCATGTAATCATA
1 TGAGTATTGTGATATATGCTTGAACATCATGCAATCATA
* *
25108126 TGTGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
25108147 AGAAGTGAAC
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAACATCATGCAATCATA
Found at i:25110804 original size:38 final size:39
Alignment explanation
Indices: 25110723--25110812 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 39
25110713 TATACCGTAC
25110723 TGTACTTCAGTACCCCTAAATGCACACACATGCCCCTGT
1 TGTACTTCAGTACCCCTAAATGCACACACATGCCCCTGT
* * * *
25110762 TGTACTTCGGTACCCCTGAATGCACATAC-TGCCCTTGT
1 TGTACTTCAGTACCCCTAAATGCACACACATGCCCCTGT
25110800 TGTACTTCAGTAC
1 TGTACTTCAGTAC
25110813 TTATGATTCG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 20 0.43
39 26 0.57
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (39 bp):
TGTACTTCAGTACCCCTAAATGCACACACATGCCCCTGT
Found at i:25120513 original size:25 final size:25
Alignment explanation
Indices: 25120485--25120537 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
25120475 ACACCATTGC
* *
25120485 TAACAATTATTTCTCTGTGGTGGTG
1 TAACAATTATTTCCCTGTGGTGATG
*
25120510 TAACAATTCTTTCCCTGTGGTGATG
1 TAACAATTATTTCCCTGTGGTGATG
25120535 TAA
1 TAA
25120538 TTGAGTTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.42
Consensus pattern (25 bp):
TAACAATTATTTCCCTGTGGTGATG
Found at i:25130817 original size:15 final size:15
Alignment explanation
Indices: 25130797--25130825 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25130787 CTTAATTTTG
25130797 TTAGTTTTATTTAAC
1 TTAGTTTTATTTAAC
25130812 TTAGTTTTATTTAA
1 TTAGTTTTATTTAA
25130826 TTTCTACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (15 bp):
TTAGTTTTATTTAAC
Found at i:25138452 original size:10 final size:10
Alignment explanation
Indices: 25138437--25138463 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
25138427 TTTGAAAATT
25138437 AATTTAGGTG
1 AATTTAGGTG
25138447 AATTTAGGTG
1 AATTTAGGTG
25138457 AATTTAG
1 AATTTAG
25138464 CCTCAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (10 bp):
AATTTAGGTG
Found at i:25143944 original size:13 final size:13
Alignment explanation
Indices: 25143928--25143970 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
25143918 ACATATTTTT
*
25143928 AAAACATAGCTTG
1 AAAACATAACTTG
25143941 AAAACATAACTTG
1 AAAACATAACTTG
* *
25143954 GAAACATATCTTG
1 AAAACATAACTTG
25143967 AAAA
1 AAAA
25143971 ACTAATATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (13 bp):
AAAACATAACTTG
Found at i:25151860 original size:15 final size:14
Alignment explanation
Indices: 25151835--25151864 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
25151825 TTAAAAATAG
25151835 TGCAATGACTAAAT
1 TGCAATGACTAAAT
25151849 TGCAAGTGACTAAAT
1 TGCAA-TGACTAAAT
25151864 T
1 T
25151865 TGTGGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (14 bp):
TGCAATGACTAAAT
Found at i:25161345 original size:27 final size:27
Alignment explanation
Indices: 25161315--25161489 Score: 172
Period size: 27 Copynumber: 6.4 Consensus size: 27
25161305 TTGAGCCCGT
* * * *
25161315 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* *
25161342 ACACTTAGTGCTACGTAATCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
25161369 ACACTTAGTGCCACATAGTCCATCTCGC
1 ACACTTAGTGCTACATAGT-CAAATCGC
** * *
25161397 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
25161424 ACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTA-CATAGTCAAATCGC
*
25161451 ACACTTAGTGCAACATAGTCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
25161478 ACACTTAGTGCT
1 ACACTTAGTGCT
25161490 GTACAATTTA
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAGTCAAATCGC
Found at i:25161452 original size:82 final size:81
Alignment explanation
Indices: 25161333--25161488 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
25161323 TGCTATATAA
* * **
25161333 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-CAAATCGCA
25161398 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25161415 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25161479 CACTTAGTGC
65 CACTTAGTGC
25161489 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25161472 original size:54 final size:54
Alignment explanation
Indices: 25161337--25161488 Score: 198
Period size: 54 Copynumber: 2.8 Consensus size: 54
25161327 ATATAATCAA
* * *
25161337 CTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCAT
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTG-CACATAGTCCAT
** * * *
25161392 CTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATA-TTCAT
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCA-CATAGTCCAT
*
25161446 TTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
25161489 TGTACAATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
54 44 0.52
55 40 0.48
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (54 bp):
CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCACATAGTCCAT
Found at i:25170260 original size:27 final size:27
Alignment explanation
Indices: 25170230--25170406 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
25170220 AAATTGTACA
* * *
25170230 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
25170257 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
25170284 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
25170311 GCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCGA-ATTGACTATGTG
* * * *
25170339 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAATTGACTATGTG
* * * *
25170366 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTG
*
25170393 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
25170407 GGCTCAATAA
Statistics
Matches: 125, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 100 0.80
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:25170349 original size:82 final size:81
Alignment explanation
Indices: 25170230--25170385 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
25170220 AAATTGTACA
* * * * *
25170230 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
25170294 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
25170311 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
25170376 TGCGAGTTGA
65 TGCGAATTGA
25170386 TTATATAGCA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 14 0.22
82 48 0.76
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25170370 original size:55 final size:54
Alignment explanation
Indices: 25170230--25170406 Score: 187
Period size: 54 Copynumber: 3.3 Consensus size: 54
25170220 AAATTGTACA
* * * *
25170230 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGATGAATATGAT
* * ** *
25170284 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGATGGACTATG-T
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAT-GAATATGAT
* * * *
25170338 GGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 -GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGATGAATATGAT
*
25170392 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
25170407 GGCTCAATAA
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
54 58 0.57
55 44 0.43
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (54 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGATGAATATGAT
Found at i:25170397 original size:82 final size:81
Alignment explanation
Indices: 25170226--25170406 Score: 193
Period size: 82 Copynumber: 2.2 Consensus size: 81
25170216 GATTAAATTG
* * * * * *
25170226 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
25170291 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
25170307 TGCGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
25170371 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
25170389 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
25170407 GGCTCAATAA
Statistics
Matches: 80, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
81 17 0.21
82 63 0.79
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25178072 original size:26 final size:26
Alignment explanation
Indices: 25178015--25178187 Score: 152
Period size: 26 Copynumber: 6.5 Consensus size: 26
25178005 AAATTGTACA
* **
25178015 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAGATGACTATG-T
* *
25178042 GCACTCAGTGTGCGA-ATGAATATGAT
1 GCACTAAGTGTGCGAGATGACTATG-T
* *
25178068 GCACTAAGTGTGCGA-ATTGACCATGCG
1 GCACTAAGTGTGCGAGA-TGACTATG-T
25178095 GCACTAAGTGTGCGAGATGACTATGT
1 GCACTAAGTGTGCGAGATGACTATGT
** * *
25178121 GCACTAAGTGTGCGATTTGATTACGT
1 GCACTAAGTGTGCGAGATGACTATGT
* * *
25178147 GCACTAAGTGTGCGAGTTGATTATAT
1 GCACTAAGTGTGCGAGATGACTATGT
*
25178173 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
25178188 GGCTCAATAA
Statistics
Matches: 123, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 68 0.55
27 54 0.44
28 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGAGATGACTATGT
Found at i:25178081 original size:53 final size:53
Alignment explanation
Indices: 25178015--25178187 Score: 199
Period size: 53 Copynumber: 3.3 Consensus size: 53
25178005 AAATTGTACA
* *
25178015 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGA-ATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATG-TGCACTAAGTGTGCGAGATGAATATGAT
* * * *
25178068 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGATGACTATG-T
1 GCACTAAGTGTGCGATTTGACTATG-TGCACTAAGTGTGCGAGATGAATATGAT
* * * *
25178121 GCACTAAGTGTGCGATTTGATTACGTGCACTAAGTGTGCGAGTTGATTAT-AT
1 GCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAGATGAATATGAT
*
25178173 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
25178188 GGCTCAATAA
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
52 23 0.23
53 71 0.70
54 8 0.08
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (53 bp):
GCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAGATGAATATGAT
Found at i:25178153 original size:79 final size:80
Alignment explanation
Indices: 25178015--25178166 Score: 209
Period size: 79 Copynumber: 1.9 Consensus size: 80
25178005 AAATTGTACA
** * *
25178015 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAATGAATATGATGCACTAAGTGTG
1 GCACTAAGGGTGCGAGATGACTATGTTGCACTAAGTGTGCGAATGAATACGATGCACTAAGTGTG
25178080 CGAATTGACCATGCG
66 CGAATTGACCATGCG
* * *
25178095 GCACTAAGTGTGCGAGATGACTATG-TGCACTAAGTGTGCGATTTGATTACG-TGCACTAAGTGT
1 GCACTAAGGGTGCGAGATGACTATGTTGCACTAAGTGTGCGA-ATGAATACGATGCACTAAGTGT
*
25178158 GCGAGTTGA
65 GCGAATTGA
25178167 TTATATAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.56
80 28 0.44
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (80 bp):
GCACTAAGGGTGCGAGATGACTATGTTGCACTAAGTGTGCGAATGAATACGATGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:25178178 original size:79 final size:80
Alignment explanation
Indices: 25178011--25178187 Score: 205
Period size: 79 Copynumber: 2.2 Consensus size: 80
25178001 GATTAAATTG
* ** * *
25178011 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAATGAATATGATGCACTAAG
1 TACAGCACTAAGTGTGCGAGATGACTATGTTGCACTAAGTGTGCGAATGAATACGATGCACTAAG
25178076 TGTGCGAATTGACCA
66 TGTGCGAATTGACCA
* * * *
25178091 TGCGGCACTAAGTGTGCGAGATGACTATG-TGCACTAAGTGTGCGATTTGATTACG-TGCACTAA
1 TACAGCACTAAGTGTGCGAGATGACTATGTTGCACTAAGTGTGCGA-ATGAATACGATGCACTAA
* **
25178154 GTGTGCGAGTTGATTA
65 GTGTGCGAATTGACCA
* *
25178170 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
25178188 GGCTCAATAA
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 50 0.62
80 30 0.38
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (80 bp):
TACAGCACTAAGTGTGCGAGATGACTATGTTGCACTAAGTGTGCGAATGAATACGATGCACTAAG
TGTGCGAATTGACCA
Found at i:25189725 original size:37 final size:37
Alignment explanation
Indices: 25189669--25189748 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
25189659 CCGGGCTCTA
* * *
25189669 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
25189706 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
25189743 AAGACT
1 AAGACT
25189749 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:25199271 original size:14 final size:14
Alignment explanation
Indices: 25199252--25199280 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25199242 ATATATGATC
25199252 ATTTTAGTATAGTT
1 ATTTTAGTATAGTT
25199266 ATTTTAGTATAGTT
1 ATTTTAGTATAGTT
25199280 A
1 A
25199281 AATATGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (14 bp):
ATTTTAGTATAGTT
Found at i:25202647 original size:24 final size:24
Alignment explanation
Indices: 25202619--25202665 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
25202609 TATAGTAAAA
*
25202619 TTTATT-TAATTATGATTTGAATTT
1 TTTATTATAATAAT-ATTTGAATTT
*
25202643 TTTATTATTATAATATTTGAATT
1 TTTATTATAATAATATTTGAATT
25202666 GTTAAATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (24 bp):
TTTATTATAATAATATTTGAATTT
Found at i:25206855 original size:22 final size:21
Alignment explanation
Indices: 25206826--25206866 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
25206816 CCTTGTCAAG
**
25206826 CCTTGATGTTGCGACACCCAA
1 CCTTGATGTCACGACACCCAA
25206847 CCTTCGATGTCACGACACCC
1 CCTT-GATGTCACGACACCC
25206867 TCGATAGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.22, C:0.39, G:0.17, T:0.22
Consensus pattern (21 bp):
CCTTGATGTCACGACACCCAA
Found at i:25211421 original size:27 final size:27
Alignment explanation
Indices: 25211388--25211489 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
25211378 TCTTTAGAGT
25211388 TCGCCACAAAGGCTTCCTTTTCATAGA
1 TCGCCACAAAGGCTTCCTTTTCATAGA
*
25211415 TCGCCACAAAGGC-TCTATTTTCATAGA
1 TCGCCACAAAGGCTTC-CTTTTCATAGA
* * * * *
25211442 TCACCAAAAAGACTTCTTTTTCATTGA
1 TCGCCACAAAGGCTTCCTTTTCATAGA
* * *
25211469 TAGCTACAAAAGCTTCCTTTT
1 TCGCCACAAAGGCTTCCTTTT
25211490 TCTGGCATGT
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
26 2 0.03
27 56 0.93
28 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (27 bp):
TCGCCACAAAGGCTTCCTTTTCATAGA
Found at i:25223901 original size:42 final size:41
Alignment explanation
Indices: 25223754--25223903 Score: 138
Period size: 42 Copynumber: 3.6 Consensus size: 41
25223744 TCTCACGAGC
* * * *
25223754 TTCTATTTAACTCATATGAGTTTCCGTTCAACCCTAATGGGT
1 TTCTGTTTAGCTC-TATGAGCTTCCGTTCAACCCTTATGGGT
* * * **
25223796 TTCTGTTTAGCTCTATTGAGCTTCTGTTTAACCTTTATGAAT
1 TTCTGTTTAGCTCTA-TGAGCTTCCGTTCAACCCTTATGGGT
* * * *
25223838 TTCCGTTCAGCTTTTACGAGCTTCCGTTCAACCCTTATGGGT
1 TTCTGTTTAGC-TCTATGAGCTTCCGTTCAACCCTTATGGGT
*
25223880 TTCTGTTTAGCTCCCATGAGCTTC
1 TTCTGTTTAGCT-CTATGAGCTTC
25223904 TATTTAGCCT
Statistics
Matches: 82, Mismatches: 23, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
41 3 0.04
42 76 0.93
43 3 0.04
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (41 bp):
TTCTGTTTAGCTCTATGAGCTTCCGTTCAACCCTTATGGGT
Found at i:25227369 original size:10 final size:10
Alignment explanation
Indices: 25227354--25227379 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
25227344 AACATAACTG
25227354 AAAATTACAT
1 AAAATTACAT
25227364 AAAATTACAT
1 AAAATTACAT
25227374 AAAATT
1 AAAATT
25227380 CTTATTTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTACAT
Found at i:25236354 original size:21 final size:21
Alignment explanation
Indices: 25236328--25236395 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
25236318 TGTTTTTGAG
25236328 TACTGAATTGAATTGTGAAGT
1 TACTGAATTGAATTGTGAAGT
* *
25236349 TACTGAA-T--ATTGTTATGT
1 TACTGAATTGAATTGTGAAGT
* * *
25236367 GTACTGCATTGAACTGTGAAAT
1 -TACTGAATTGAATTGTGAAGT
25236389 TACTGAA
1 TACTGAA
25236396 GTAATGAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 8 0.23
19 6 0.17
20 2 0.06
21 13 0.37
22 6 0.17
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (21 bp):
TACTGAATTGAATTGTGAAGT
Found at i:25236385 original size:40 final size:41
Alignment explanation
Indices: 25236308--25236395 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 41
25236298 CATTATGGAA
* * *
25236308 TACTGAATATTGTTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTGTTTATGAGTACTGAATTGAACTGTGAAAT
* *
25236349 TACTGAATATTG-TTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTTATGAGTACTGAATTGAACTGTGAAAT
25236389 TACTGAA
1 TACTGAA
25236396 GTAATGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 30 0.71
41 12 0.29
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (41 bp):
TACTGAATATTGTTTATGAGTACTGAATTGAACTGTGAAAT
Done.