Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 119 of 345
Found at i:31636914 original size:3 final size:3
Alignment explanation
Indices: 31636906--31636983 Score: 126
Period size: 3 Copynumber: 27.0 Consensus size: 3
31636896 TTTTACTTAA
31636906 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
31636954 AAT AAT AAT AAT AA- ATT AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31636984 GTCATAATAA
Statistics
Matches: 70, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
2 5 0.07
3 65 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:31639011 original size:25 final size:23
Alignment explanation
Indices: 31638975--31639030 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
31638965 TTTACCCTAT
31638975 TTTTA-TATTATATATTGAAAAATTA
1 TTTTATTA-TATATATT--AAAATTA
*
31639000 TTTTATTATATATATTAATATTA
1 TTTTATTATATATATTAAAATTA
31639023 -TTTATTAT
1 TTTTATTAT
31639031 CTATTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.28
23 6 0.21
25 13 0.45
26 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTATTATATATATTAAAATTA
Found at i:31639301 original size:32 final size:27
Alignment explanation
Indices: 31639276--31639327 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
31639266 TATGTATATC
31639276 ATATATTA-TCTATTATATTATTTATGT
1 ATATATTATTC-ATTATATTATTTATGT
*
31639303 TTATATTATTCATTATATTATTTAT
1 ATATATTATTCATTATATTATTTAT
31639328 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATATTATTCATTATATTATTTATGT
Found at i:31644972 original size:30 final size:30
Alignment explanation
Indices: 31644938--31644998 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31644928 TCCTTAACTC
31644938 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
31644968 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
31644998 A
1 A
31644999 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:31646875 original size:15 final size:15
Alignment explanation
Indices: 31646839--31646888 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
31646829 GATATTCTTT
31646839 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
31646853 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
31646869 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
31646882 TTTGCAT
1 TTTGCAT
31646889 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:31651960 original size:17 final size:17
Alignment explanation
Indices: 31651935--31651978 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
31651925 GTTGTGCGCT
*
31651935 GATTTAGACAACTCGAA
1 GATTAAGACAACTCGAA
31651952 GATTAAGACAACTCGAA
1 GATTAAGACAACTCGAA
31651969 GATTAAGACA
1 GATTAAGACA
31651979 GTACATGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.20
Consensus pattern (17 bp):
GATTAAGACAACTCGAA
Found at i:31655280 original size:210 final size:210
Alignment explanation
Indices: 31654915--31655892 Score: 1413
Period size: 210 Copynumber: 4.7 Consensus size: 210
31654905 CTTCATCGGG
* *
31654915 GCAGATCCAAGATGACAGATCTTATCTCTCTGAATTCGGCAGGGAGCAGATCGGAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* * *
31654980 ATTTGGCTTTCACGTGTTTATGATGAAGCAAATCTAAGATGATTTGTTGCCTCTTTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGCCTCTGTATTGTCAGA
* *
31655045 GAACAAATCGAAGTCTGGAATTTCCACTTTAATGGAAGGTAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTCACCTTCA
*
31655110 GGTGTTTACGCTGAA
196 GATGTTTACGCTGAA
31655125 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
31655190 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGCCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGCCTCTGTATTGTCAGA
* * *
31655255 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGTAGATCTCACCTTTA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTCACCTTCA
31655320 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
*
31655335 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCAGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* *
31655400 ATTTGGCTTTCACGTGTTTACGGTGAAGCAAATCTAAGATGATTTGTCGCCTCTATATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGCCTCTGTATTGTCAGA
* *
31655465 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACTTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTCACCTTCA
*
31655530 GATGTTTATGCTGAA
196 GATGTTTACGCTGAA
*
31655545 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGG-TGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* * *
31655609 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATAATTTTTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGCCTCTGTATTGTCAGA
* * * * * * * *
31655674 GAACAAATCAAAGTCTGGCATCTCTACTTCAATAG-AGTGCAGATACATAGTAGATCTGACCTTC
131 GAACAAATCGAAGTCTGGCATTTCCACTTTAATGGAAG-GCAGACACATAGCAGATCTCACCTTC
* *
31655738 AGACGATTA-GACTGAA
195 AGATGTTTACG-CTGAA
* * * * * * *
31655754 ACAAGATCCAAGA-G---GAT-TTGGCATC-CT-TGTGCTT--ACAAGGAGCAAATCAAAGACAT
1 GC-AGATCCAAGATGACAGATCTT---ATCTCTCTGT-ATTCGGCAGGGAGCAGATCGAAGATAT
* * **
31655810 AGCTGATTTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTG
61 AGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGCCTCTGTATTG
* *
31655875 TTAGAAAACAAATCGAAG
126 TCAGAGAACAAATCGAAG
31655893 AAGCAGATTT
Statistics
Matches: 707, Mismatches: 53, Indels: 20
0.91 0.07 0.03
Matches are distributed among these distances:
205 2 0.00
206 96 0.14
207 4 0.01
208 6 0.01
209 149 0.21
210 450 0.64
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGCCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTCACCTTCA
GATGTTTACGCTGAA
Found at i:31657505 original size:25 final size:23
Alignment explanation
Indices: 31657469--31657524 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
31657459 TTTACCCTAT
31657469 TTTTA-TATTATATATTGAAAAATTA
1 TTTTATTA-TATATATT--AAAATTA
*
31657494 TTTTATTATATATATTAATATTA
1 TTTTATTATATATATTAAAATTA
31657517 -TTTATTAT
1 TTTTATTAT
31657525 CTATTGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.28
23 6 0.21
25 13 0.45
26 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTATTATATATATTAAAATTA
Found at i:31657797 original size:32 final size:27
Alignment explanation
Indices: 31657772--31657823 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
31657762 TATGTATATC
31657772 ATATATTA-TCTATTATATTATTTATGT
1 ATATATTATTC-ATTATATTATTTATGT
*
31657799 TTATATTATTCATTATATTATTTAT
1 ATATATTATTCATTATATTATTTAT
31657824 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATATTATTCATTATATTATTTATGT
Found at i:31658066 original size:18 final size:17
Alignment explanation
Indices: 31658043--31658078 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
31658033 TGTAAAATTA
31658043 TTATTAAATATCATATTT
1 TTATTAAATAT-ATATTT
*
31658061 TTATTATATATATATTT
1 TTATTAAATATATATTT
31658078 T
1 T
31658079 GTTAACAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTAAATATATATTT
Found at i:31659171 original size:2 final size:2
Alignment explanation
Indices: 31659164--31659197 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
31659154 AAGTTATTAT
31659164 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31659198 ACAAAACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31659289 original size:9 final size:9
Alignment explanation
Indices: 31659275--31659304 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
31659265 AGAAGGAGAA
31659275 AAAGAAAGG
1 AAAGAAAGG
31659284 AAAGAAAGG
1 AAAGAAAGG
*
31659293 ATAGAAAGG
1 AAAGAAAGG
31659302 AAA
1 AAA
31659305 AAGGGGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (9 bp):
AAAGAAAGG
Found at i:31659412 original size:26 final size:26
Alignment explanation
Indices: 31659376--31659428 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
31659366 TTAGAAGCCT
31659376 TGGAACAAGGTTTTGATGAAATTAAG
1 TGGAACAAGGTTTTGATGAAATTAAG
31659402 TGGAACAAGGTTTTGATGAAATTAAG
1 TGGAACAAGGTTTTGATGAAATTAAG
31659428 T
1 T
31659429 TAAAATTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (26 bp):
TGGAACAAGGTTTTGATGAAATTAAG
Found at i:31665527 original size:37 final size:37
Alignment explanation
Indices: 31665427--31665529 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
31665417 CGAATAGTCC
* * *
31665427 CCACACGTAGTTATTGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
31665464 CTACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
31665501 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
31665530 ATATATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:31665731 original size:48 final size:48
Alignment explanation
Indices: 31665670--31666390 Score: 1316
Period size: 48 Copynumber: 14.9 Consensus size: 48
31665660 ATATACACAC
*
31665670 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31665718 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31665766 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31665814 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31665862 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31665910 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31665958 ATCTCATACATATTTCATACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31666006 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31666054 ATCTCATACATATTTCACACTAGCCATTCGGCTTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATT---C---GGCTTTACCACATATACAT
31666108 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
31666156 ATCTTATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31666204 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31666252 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31666300 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31666348 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
31666391 CATATATATT
Statistics
Matches: 655, Mismatches: 12, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
48 606 0.93
51 2 0.00
54 47 0.07
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:31668854 original size:50 final size:50
Alignment explanation
Indices: 31668778--31668916 Score: 178
Period size: 47 Copynumber: 2.8 Consensus size: 50
31668768 TTAACTTCGA
* * *
31668778 TCACATGTGTAGTACTAACTGCAGGCTACTACGTGTA-TCAGATAGTTAAG
1 TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACT-AGATAGATAAG
* * *
31668828 TCACGTGTGTAGTACTAAGTGTAGG---CTACGTGTACTAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAGATAAG
*
31668875 TCACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACTAGA
1 TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGA
31668917 GAGCTTCAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
47 41 0.53
48 1 0.01
50 35 0.45
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAGATAAG
Found at i:31669137 original size:16 final size:16
Alignment explanation
Indices: 31669116--31669147 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31669106 AGAATGGAGT
31669116 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
31669132 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
31669148 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:31674450 original size:28 final size:29
Alignment explanation
Indices: 31674419--31674540 Score: 101
Period size: 28 Copynumber: 4.3 Consensus size: 29
31674409 TTCGGCTGAT
31674419 GGGCCATATAAACGAG-ATTGGGCCTAAC
1 GGGCCATATAAACGAGAATTGGGCCTAAC
* * * * * *
31674447 GGGCTATATGAATGTGAATTGGGCCTGAT
1 GGGCCATATAAACGAGAATTGGGCCTAAC
* * *
31674476 GGGCCATATGAAC-ATGAATTGGG-CGAAT
1 GGGCCATATAAACGA-GAATTGGGCCTAAC
*
31674504 GGGCCATATAAATGAG-ATTGGGCCT-AC
1 GGGCCATATAAACGAGAATTGGGCCTAAC
31674531 TGGGCCATAT
1 -GGGCCATAT
31674541 GCATGTATGT
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
27 7 0.09
28 37 0.50
29 30 0.41
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (29 bp):
GGGCCATATAAACGAGAATTGGGCCTAAC
Found at i:31674471 original size:29 final size:29
Alignment explanation
Indices: 31674435--31674546 Score: 104
Period size: 29 Copynumber: 3.9 Consensus size: 29
31674425 TATAAACGAG
*
31674435 ATTGGGCCTAACGGGCTATATGAATGTGA
1 ATTGGGCCTAACGGGCCATATGAATGTGA
* * **
31674464 ATTGGGCCTGATGGGCCATATGAACATGA
1 ATTGGGCCTAACGGGCCATATGAATGTGA
* * * *
31674493 ATTGGG-CGAATGGGCCATATAAATGAG-
1 ATTGGGCCTAACGGGCCATATGAATGTGA
*
31674520 ATTGGGCCT-ACTGGGCCATATGCATGT
1 ATTGGGCCTAAC-GGGCCATATGAATGT
31674547 ATGTAGGGGT
Statistics
Matches: 65, Mismatches: 16, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
27 7 0.11
28 28 0.43
29 30 0.46
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
ATTGGGCCTAACGGGCCATATGAATGTGA
Found at i:31674477 original size:57 final size:56
Alignment explanation
Indices: 31674397--31674540 Score: 145
Period size: 56 Copynumber: 2.6 Consensus size: 56
31674387 GTGAACATGA
* * * *
31674397 ATATAATGTGATTTCGG-CTGATGGGCCATATAAAC--GAGATTGGGCCTAACGGGCT
1 ATATAATGTGAATTGGGCCTGATGGGCCATATAAACATGA-ATTGGG-CGAACGGGCC
* *
31674452 ATATGAATGTGAATTGGGCCTGATGGGCCATATGAACATGAATTGGGCGAATGGGCC
1 ATAT-AATGTGAATTGGGCCTGATGGGCCATATAAACATGAATTGGGCGAACGGGCC
*
31674509 ATATAA-ATGAGATTGGGCCT-ACTGGGCCATAT
1 ATATAATGTGA-ATTGGGCCTGA-TGGGCCATAT
31674541 GCATGTATGT
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
55 8 0.11
56 32 0.42
57 28 0.37
58 6 0.08
59 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.26
Consensus pattern (56 bp):
ATATAATGTGAATTGGGCCTGATGGGCCATATAAACATGAATTGGGCGAACGGGCC
Found at i:31677227 original size:42 final size:42
Alignment explanation
Indices: 31677180--31677286 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
31677170 TATTGGTCTC
31677180 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
31677222 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
31677264 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
31677287 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:31677351 original size:27 final size:28
Alignment explanation
Indices: 31677294--31677363 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
31677284 AAAATTGTAC
**
31677294 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
31677322 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
31677349 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
31677364 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:31679802 original size:2 final size:2
Alignment explanation
Indices: 31679795--31679825 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
31679785 TTTGGCCACA
31679795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31679826 CATCTCATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31679894 original size:46 final size:46
Alignment explanation
Indices: 31679827--31679960 Score: 137
Period size: 46 Copynumber: 2.9 Consensus size: 46
31679817 ATATATATAC
* * *
31679827 ATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* * *
31679873 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATATAT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* * * *
31679919 A-CAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 ATC-TCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACA
31679961 CATACGCATG
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 6 0.08
46 43 0.59
47 24 0.33
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (46 bp):
ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
Found at i:31679952 original size:47 final size:47
Alignment explanation
Indices: 31679890--31680037 Score: 197
Period size: 47 Copynumber: 3.1 Consensus size: 47
31679880 ACACATTTCG
*
31679890 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
* * **
31679937 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
* *
31679984 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCC-T-T-AC-CACATATATACATGTTCACATTCATCA
31680035 CAT
1 CAT
31680038 AAAATCCTAA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 58 0.67
48 1 0.01
49 1 0.01
50 1 0.01
51 25 0.29
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
Found at i:31688906 original size:42 final size:42
Alignment explanation
Indices: 31688859--31688963 Score: 183
Period size: 42 Copynumber: 2.5 Consensus size: 42
31688849 TTGGTCTCGA
*
31688859 CACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGG
1 CACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATTGG
31688901 CACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATTGG
1 CACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATTGG
* *
31688943 CACTACGTGTGCGGGTTTAAA
1 CACTAAGTGTGCGGGTATAAA
31688964 ATTGTACAGC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.23
Consensus pattern (42 bp):
CACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATTGG
Found at i:31689028 original size:27 final size:28
Alignment explanation
Indices: 31688971--31689040 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
31688961 AAAATTGTAC
**
31688971 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
31688999 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
31689026 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
31689041 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:31694557 original size:25 final size:25
Alignment explanation
Indices: 31694524--31694592 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
31694514 AGCCAAAATC
*
31694524 GGTAAGCTCCTCCGAGCTGA-AATA
1 GGTAAGCTCCTACGAGCTGAGAATA
*
31694548 TGGTAAGCTCTTACGAGCTGAGAATA
1 -GGTAAGCTCCTACGAGCTGAGAATA
* *
31694574 GGTAAGCTCATATGAGCTG
1 GGTAAGCTCCTACGAGCTG
31694593 TGGTGAGTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (25 bp):
GGTAAGCTCCTACGAGCTGAGAATA
Found at i:31696436 original size:58 final size:58
Alignment explanation
Indices: 31696341--31696475 Score: 207
Period size: 58 Copynumber: 2.3 Consensus size: 58
31696331 TTTAACGGTA
* * * *
31696341 AAAAAGATCTAGCTCGGACTGGTGATCCTGATATAAGCCCTCTCGAAGAATATGTGTG
1 AAAAGGATCTAGCCCGGACGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTG
31696399 AAAAGGATCTAGCCCGGACGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTG
1 AAAAGGATCTAGCCCGGACGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTG
* * *
31696457 AAATGGATTTACCCCGGAC
1 AAAAGGATCTAGCCCGGAC
31696476 AGGTAATCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 70 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.23
Consensus pattern (58 bp):
AAAAGGATCTAGCCCGGACGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTG
Found at i:31696664 original size:67 final size:67
Alignment explanation
Indices: 31696556--31696683 Score: 211
Period size: 67 Copynumber: 1.9 Consensus size: 67
31696546 ATGTTACAGA
* * *
31696556 GGATTTAGCTTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTTGTGGGAGTGTGCTCTCTTATA
1 GGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTTATA
31696621 GG
66 GG
**
31696623 GGATTTAGCCTGGACTGGTAATCTTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
1 GGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
31696684 GAAAAGGACT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.20, C:0.15, G:0.33, T:0.32
Consensus pattern (67 bp):
GGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTTATA
GG
Found at i:31699205 original size:22 final size:21
Alignment explanation
Indices: 31699170--31699210 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
31699160 TAGGAATAGT
31699170 TAGGATACATATGTCATGACA
1 TAGGATACATATGTCATGACA
*
31699191 TAGGATCCGATATGTCATGA
1 TAGGATAC-ATATGTCATGA
31699211 ATGGCTGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (21 bp):
TAGGATACATATGTCATGACA
Found at i:31699313 original size:43 final size:41
Alignment explanation
Indices: 31699218--31699314 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 41
31699208 TGAATGGCTG
* * ** * *
31699218 GGACGTTGGCATCATATTTGATTTCATGTAAGACTTTGTTT
1 GGACATTGGCATCATATTTGATTACATGTAAGACCATATTA
*
31699259 GAGACAGTGGCATCAATATTTGATTACATGTAAGACCATATCTA
1 G-GACATTGGCATC-ATATTTGATTACATGTAAGACCATAT-TA
31699303 GGACATTGGCAT
1 GGACATTGGCAT
31699315 TGTACGAGCT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 10 0.22
43 32 0.71
44 2 0.04
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (41 bp):
GGACATTGGCATCATATTTGATTACATGTAAGACCATATTA
Found at i:31714769 original size:26 final size:26
Alignment explanation
Indices: 31714736--31714787 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
31714726 TAAACATACC
31714736 ATATAGACAATAATTATCAAATTCAT
1 ATATAGACAATAATTATCAAATTCAT
31714762 ATATAGACAATAATTATCAAATTCAT
1 ATATAGACAATAATTATCAAATTCAT
31714788 TCATTCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (26 bp):
ATATAGACAATAATTATCAAATTCAT
Found at i:31720027 original size:177 final size:177
Alignment explanation
Indices: 31719729--31720149 Score: 641
Period size: 177 Copynumber: 2.4 Consensus size: 177
31719719 AGGTTGGCGA
* * * *
31719729 TAGCAAGGAAACAAACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAG
1 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCACTAGTGGAGCAGATCAAAG
* *
31719794 ATGGCGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGTCCCTAAGCCTTATCTCTCT
66 ATGGCGAATCTTATCTCCATGTATCAGCAATAGAGCAGATTTAAGTCCCCAAGCCTTATCTCTCT
* *
31719859 GAGGTAGTAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAGG
131 GAGGTAGCAAGAGAGCAGGTTGAAGATTAAGTCTTATCTTCCTGAGG
*
31719906 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCACTAGTGGAGCAGATCGGAA
1 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCACTAGTGGAGCAGATC-AAA
*
31719971 GA-GGCGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTAAG-CCTCCAAGCCTTATCTCT
65 GATGGCGAATCTTATCTCCATGTATCAGCAATAGAGCAGATTTAAGTCC-CCAAGCCTTATCTCT
31720034 CTGAGGTAGCAAGAGAGCAGGTTGAAGATTAAGTCTTATCTTCCTGAGG
129 CTGAGGTAGCAAGAGAGCAGGTTGAAGATTAAGTCTTATCTTCCTGAGG
* * * * * *
31720083 TAGCAAGGAAGCAGATTGATGATTGTAGATCTTATCTCTCTAAGGTAGC-AGTGGAGAAGATCAA
1 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAA-GCA-CTAGTGGAGCAGATCAA
31720147 AGA
64 AGA
31720150 CGATGAATTC
Statistics
Matches: 223, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
176 2 0.01
177 202 0.91
178 18 0.08
179 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (177 bp):
TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCACTAGTGGAGCAGATCAAAG
ATGGCGAATCTTATCTCCATGTATCAGCAATAGAGCAGATTTAAGTCCCCAAGCCTTATCTCTCT
GAGGTAGCAAGAGAGCAGGTTGAAGATTAAGTCTTATCTTCCTGAGG
Found at i:31720131 original size:45 final size:43
Alignment explanation
Indices: 31719843--31720132 Score: 150
Period size: 43 Copynumber: 6.6 Consensus size: 43
31719833 TTTAAGTCCC
* * *
31719843 TAAGCCTTATCTCTCTGAGGTAGTAAGAGAGCAGGTTGAAGAT
1 TAAGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGATTGAAGAT
* *
31719886 TGAGTCTTATCT-TCCTGAGGTAGCAAG-GAAGCAGACTGAAGAT
1 TAAGTCTTATCTCT-CTGAGGTAGCAAGAG-AGCAGATTGAAGAT
* * * * * * *
31719929 TGAAGATCTTATCTCCCT-AAGCA-CTAGTGGAGCAGATCGGAAGAGGC
1 T-AAG-TCTTATCTCTCTGAGGTAGCAAG-AGAGCAGAT-TGAAGA--T
* * * * *
31719976 GAA-TCTTATCTC-CATGTA--TCGGCAATAGAGCAGATTTAAGCCT
1 TAAGTCTTATCTCTC-TG-AGGT-AGCAAGAGAGCAGATTGAAG-AT
* * *
31720019 CCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
1 -TAAGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGATTGAAGAT
*
31720063 TAAGTCTTATCT-TCCTGAGGTAGCAAG-GAAGCAGATTGATGAT
1 TAAGTCTTATCTCT-CTGAGGTAGCAAGAG-AGCAGATTGAAGAT
* *
31720106 TGTAGATCTTATCTCTCTAAGGTAGCA
1 T-AAG-TCTTATCTCTCTGAGGTAGCA
31720133 GTGGAGAAGA
Statistics
Matches: 185, Mismatches: 36, Indels: 50
0.68 0.13 0.18
Matches are distributed among these distances:
42 4 0.02
43 75 0.41
44 30 0.16
45 68 0.37
46 8 0.04
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
TAAGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGATTGAAGAT
Found at i:31720382 original size:6 final size:6
Alignment explanation
Indices: 31720373--31720399 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
31720363 CCAAAAATAG
31720373 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
31720400 TAAAGCCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:31721880 original size:20 final size:20
Alignment explanation
Indices: 31721855--31721892 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31721845 TTGAAATACT
31721855 TATTATTTTAAAGT-TCATAA
1 TATTA-TTTAAAGTCTCATAA
31721875 TATTATTTAAAGTCTCAT
1 TATTATTTAAAGTCTCAT
31721893 TCATTGAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTATTTAAAGTCTCATAA
Found at i:31726050 original size:40 final size:39
Alignment explanation
Indices: 31725939--31726052 Score: 183
Period size: 39 Copynumber: 2.9 Consensus size: 39
31725929 GAATGTTCGA
*
31725939 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTACGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
31725978 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
31726017 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
31726053 GGTTACCATA
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
39 53 0.76
40 17 0.24
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:31726068 original size:40 final size:40
Alignment explanation
Indices: 31725946--31726082 Score: 134
Period size: 39 Copynumber: 3.5 Consensus size: 40
31725936 CGAGTGATAT
* * *** *
31725946 CCGGGCTAAG-CCCGAAGGCAATTGTACGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
31725985 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
31726024 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
31726064 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
31726083 TGTTTTGAAC
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 46 0.53
40 40 0.47
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:31750627 original size:22 final size:22
Alignment explanation
Indices: 31750601--31750645 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
31750591 ATTATGTGTA
31750601 TTAATTCATGATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
31750623 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
31750645 T
1 T
31750646 GGATTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:31755660 original size:24 final size:24
Alignment explanation
Indices: 31755609--31755821 Score: 326
Period size: 24 Copynumber: 9.0 Consensus size: 24
31755599 GCTTTATCAT
*
31755609 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
31755634 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
31755658 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
31755681 ATAACTGGAGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
31755705 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
31755728 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
31755752 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
31755776 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
31755799 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
31755822 GCACTTCCTC
Statistics
Matches: 175, Mismatches: 9, Indels: 9
0.91 0.05 0.05
Matches are distributed among these distances:
23 66 0.38
24 97 0.55
25 12 0.07
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:31755821 original size:71 final size:71
Alignment explanation
Indices: 31755609--31755822 Score: 342
Period size: 71 Copynumber: 3.0 Consensus size: 71
31755599 GCTTTATCAT
* * *
31755609 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAA
*
31755673 GCCC-TTTA
63 GCCCTTTTG
*
31755681 ATAACTGGAGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
31755746 CTTTTG
66 CTTTTG
31755752 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
31755817 CTTTTG
66 CTTTTG
31755823 CACTTCCTCC
Statistics
Matches: 134, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
70 23 0.17
71 99 0.74
72 12 0.09
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
CTTTTG
Found at i:31755822 original size:47 final size:48
Alignment explanation
Indices: 31755609--31755821 Score: 326
Period size: 47 Copynumber: 4.5 Consensus size: 48
31755599 GCTTTATCAT
* *
31755609 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
* *
31755658 ATAACTGGGGCATAAGCCC-TTTAATAACTGGAGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
31755705 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
31755752 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
31755799 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
31755822 GCACTTCCTC
Statistics
Matches: 155, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
47 116 0.75
48 27 0.17
49 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:31755893 original size:9 final size:9
Alignment explanation
Indices: 31755879--31755935 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
31755869 ATCTCATGTG
31755879 CATATCATA
1 CATATCATA
*
31755888 CATATCATGTG
1 CATATCA--TA
31755899 CATATCATA
1 CATATCATA
* *
31755908 CATGTCATGTG
1 CATATCA--TA
31755919 CATATCATA
1 CATATCATA
31755928 CATATCAT
1 CATATCAT
31755936 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:31755895 original size:20 final size:20
Alignment explanation
Indices: 31755867--31755937 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
31755857 GCATTTATGA
*
31755867 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
31755887 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
31755907 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
31755927 ACATATCATGT
1 ACATATCATGT
31755938 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:31755902 original size:11 final size:11
Alignment explanation
Indices: 31755872--31755926 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
31755862 TATGAACATC
31755872 TCATGTGCATA
1 TCATGTGCATA
*
31755883 TCA--TACATA
1 TCATGTGCATA
31755892 TCATGTGCATA
1 TCATGTGCATA
* *
31755903 TCA--TACATG
1 TCATGTGCATA
31755912 TCATGTGCATA
1 TCATGTGCATA
31755923 TCAT
1 TCAT
31755927 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:31756020 original size:25 final size:25
Alignment explanation
Indices: 31755974--31756021 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
31755964 ATATATAAAC
* * * *
31755974 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
31755999 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
31756022 CATATTATAA
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:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:31756884 original size:20 final size:20
Alignment explanation
Indices: 31756859--31756896 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31756849 GTTTATTCGC
*
31756859 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
31756879 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
31756897 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:31758547 original size:27 final size:27
Alignment explanation
Indices: 31758509--31758566 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
31758499 GCGTAGATCA
31758509 CCTAAAGAGCAAAATTA-CGAAATTACC
1 CCTAAAGAGCAAAATTACCGAAA-TACC
*
31758536 CCTAAAGAGCAAAATTACCGATATACC
1 CCTAAAGAGCAAAATTACCGAAATACC
31758563 CCTA
1 CCTA
31758567 GGGTTTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (27 bp):
CCTAAAGAGCAAAATTACCGAAATACC
Found at i:31764838 original size:20 final size:20
Alignment explanation
Indices: 31764813--31764850 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31764803 GTTTATTCGC
*
31764813 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
31764833 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
31764851 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:31766501 original size:27 final size:28
Alignment explanation
Indices: 31766455--31766522 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
31766445 GCGTAGATCA
31766455 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
31766483 CGAAATTA-CCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
31766510 CGATA-TACCCCTA
1 CGAAATTACCCCTA
31766523 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 2 0.05
27 28 0.74
28 8 0.21
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:31773596 original size:28 final size:27
Alignment explanation
Indices: 31773533--31773602 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
31773523 ATAGTGAGTC
31773533 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
31773560 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
31773588 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31773603 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:31781641 original size:28 final size:27
Alignment explanation
Indices: 31781578--31781647 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
31781568 ATAGTGAGTC
31781578 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
31781605 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
31781633 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31781648 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:31783779 original size:39 final size:39
Alignment explanation
Indices: 31783435--31783767 Score: 499
Period size: 39 Copynumber: 8.5 Consensus size: 39
31783425 ACAAAGCATG
* * *
31783435 CGGGACTTTAAGCCCAGATATAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
31783475 TGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
31783514 CGGGACTTAGCCCAGG-TATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCC-GGATATAACACCAGCACGAATGCCTT
*
31783553 CGGGACTTAGCTCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
31783592 CGGGACTTAGCTCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
31783631 CGGGACTTAGCTCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
31783670 CGGGACTTAGCTCGGATATAACACCAGTACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
31783709 CGGGACTTAGCCCGAATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
31783748 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
31783768 TATCTCACAC
Statistics
Matches: 273, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
38 22 0.08
39 245 0.90
40 6 0.02
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:31784865 original size:36 final size:36
Alignment explanation
Indices: 31784818--31784889 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
31784808 AAATACAAAG
31784818 AAATGAACACTTATACTCTTATGCCGAATTAGCTAA
1 AAATGAACACTTATACTCTTATGCCGAATTAGCTAA
31784854 AAATGAACACTTATACTCTTATGCCGAATTAGCTAA
1 AAATGAACACTTATACTCTTATGCCGAATTAGCTAA
31784890 CACTTATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (36 bp):
AAATGAACACTTATACTCTTATGCCGAATTAGCTAA
Found at i:31790678 original size:30 final size:30
Alignment explanation
Indices: 31790642--31790701 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31790632 TTCCCGAGCC
*
31790642 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
31790672 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
31790702 CATATCAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:31801449 original size:16 final size:16
Alignment explanation
Indices: 31801428--31801458 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
31801418 CGTGTGAGAA
31801428 ACACGGCCTACCCATC
1 ACACGGCCTACCCATC
31801444 ACACGGCCTACCCAT
1 ACACGGCCTACCCAT
31801459 ACGGGCGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.48, G:0.13, T:0.13
Consensus pattern (16 bp):
ACACGGCCTACCCATC
Found at i:31803138 original size:29 final size:29
Alignment explanation
Indices: 31803096--31803153 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
31803086 CTGTAGGGTG
31803096 AGTGATGGATCTTGTTTCAGGTGTGGTTC
1 AGTGATGGATCTTGTTTCAGGTGTGGTTC
31803125 AGTGATGGATCTTGTTTCAGGTGTGGTTC
1 AGTGATGGATCTTGTTTCAGGTGTGGTTC
31803154 TCAAGACCAC
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:0.14, C:0.10, G:0.34, T:0.41
Consensus pattern (29 bp):
AGTGATGGATCTTGTTTCAGGTGTGGTTC
Found at i:31811121 original size:43 final size:43
Alignment explanation
Indices: 31811046--31811261 Score: 235
Period size: 43 Copynumber: 5.1 Consensus size: 43
31811036 TGCAATAGCT
* * *
31811046 CATA-CAATGCC-ATGTCCCAGATATGGTATTACATGTTATCA
1 CATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
* * * * *
31811087 CATATCGATGCCACTGTCCCAGACAAGGTCTTACACGAAATCGA
1 CATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAATC-A
* * * *
31811131 -ATAACGATGCTAATGTCCCAGACATGGTCTTACACGTAATCA
1 CATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
* *
31811173 CA-ATACAATGCCAATGTCTCAGACATGGTCTTAAATGTAATCA
1 CATAT-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
*
31811216 CAATAT-AATGCCAATGTCTCAGACATGGTCTTACATGTAATCA
1 C-ATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
31811259 CAT
1 CAT
31811262 CTCGGTAATC
Statistics
Matches: 148, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
41 4 0.03
42 10 0.07
43 130 0.88
44 2 0.01
45 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (43 bp):
CATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
Found at i:31811759 original size:47 final size:47
Alignment explanation
Indices: 31811690--31811783 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
31811680 TTCAATTTAA
31811690 CCCATGCTTAGCCAATTTATACTTGAGTCCCTAGCAGCCTAAAACTT
1 CCCATGCTTAGCCAATTTATACTTGAGTCCCTAGCAGCCTAAAACTT
31811737 CCCATGCTTAGCCAATTTATACTTGAGTCCCTAGCAGCCTAAAACTT
1 CCCATGCTTAGCCAATTTATACTTGAGTCCCTAGCAGCCTAAAACTT
31811784 TCATTTATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.30
Consensus pattern (47 bp):
CCCATGCTTAGCCAATTTATACTTGAGTCCCTAGCAGCCTAAAACTT
Found at i:31824045 original size:28 final size:28
Alignment explanation
Indices: 31824013--31824138 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
31824003 TAATAAGCCT
* *
31824013 GCACACTTAGTGCT-TAATAGTCGAACTC
1 GCACACTTAGTGCTAT-ATAATCAAACTC
31824041 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
31824069 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
* ** *
31824097 GCACACTTAGTGCTATACAATTTGAACCC
1 GCACACTTAGTGCTATATAA-TCAAACTC
31824126 GCACACTTAGTGC
1 GCACACTTAGTGC
31824139 CAATCTCATG
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
28 71 0.79
29 19 0.21
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTC
Found at i:31831855 original size:28 final size:28
Alignment explanation
Indices: 31831789--31831857 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
31831779 AAAAACTTGC
* *
31831789 CAAGAGAAAGAAAAAGTAAATTAATTAG
1 CAAGAAAAATAAAAAGTAAATTAATTAG
* * * *
31831817 TAATAATAATAAAAATTAAATTAAATT-G
1 CAAGAAAAATAAAAAGTAAATT-AATTAG
31831845 CAAGAAAAATAAA
1 CAAGAAAAATAAA
31831858 TGGCTAAAGT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
28 27 0.87
29 4 0.13
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (28 bp):
CAAGAAAAATAAAAAGTAAATTAATTAG
Found at i:31832143 original size:13 final size:13
Alignment explanation
Indices: 31832125--31832153 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
31832115 GGTTGTTTAT
31832125 TAAACTAATTAAC
1 TAAACTAATTAAC
31832138 TAAACTAATTAAC
1 TAAACTAATTAAC
31832151 TAA
1 TAA
31832154 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:31841153 original size:27 final size:27
Alignment explanation
Indices: 31841120--31841540 Score: 544
Period size: 27 Copynumber: 15.6 Consensus size: 27
31841110 AAAGTACTCC
31841120 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
31841147 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** * *
31841174 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
31841201 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
31841228 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
31841255 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
31841282 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* **
31841309 TGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
31841336 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
31841362 CTAATTTACATAATTACCGTTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* * *
31841390 CGATTTACATAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
31841417 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
31841444 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
31841471 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
31841498 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
31841525 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
31841541 TAAAATACCC
Statistics
Matches: 347, Mismatches: 39, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.01
27 339 0.98
28 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:31842881 original size:9 final size:9
Alignment explanation
Indices: 31842869--31842945 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
31842859 TTTGATAAAC
31842869 ATGATATGT
1 ATGATATGT
*
31842878 ATGATATGCAC
1 ATGATATG--T
31842889 ATGATATGT
1 ATGATATGT
*
31842898 ATGATATGCAC
1 ATGATATG--T
*
31842909 ATGACATGT
1 ATGATATGT
*
31842918 ATGATATGCAC
1 ATGATATG--T
31842929 ATGATATGT
1 ATGATATGT
31842938 ATGATATG
1 ATGATATG
31842946 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:31842894 original size:11 final size:11
Alignment explanation
Indices: 31842878--31842949 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
31842868 CATGATATGT
31842878 ATGATATGCAC
1 ATGATATGCAC
*
31842889 ATGATATG--T
1 ATGATATGCAC
31842898 ATGATATGCAC
1 ATGATATGCAC
* *
31842909 ATGACATG--T
1 ATGATATGCAC
31842918 ATGATATGCAC
1 ATGATATGCAC
*
31842929 ATGATATG--T
1 ATGATATGCAC
31842938 ATGATATGCAC
1 ATGATATGCAC
31842949 A
1 A
31842950 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:31842957 original size:20 final size:20
Alignment explanation
Indices: 31842867--31842949 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
31842857 ATTTTGATAA
31842867 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
31842887 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
31842907 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
31842927 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
31842947 ACA
1 ACA
31842950 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:31843060 original size:24 final size:23
Alignment explanation
Indices: 31843004--31843170 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
31842994 GAGGAAGTGA
31843004 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
31843027 TAAAGGGCTTACGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
31843050 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
31843074 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
31843098 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
31843121 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
31843146 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
31843170 A
1 A
31843171 TGATAAAGCA
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
23 42 0.33
24 75 0.59
25 11 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:31843073 original size:47 final size:47
Alignment explanation
Indices: 31843004--31843170 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 47
31842994 GAGGAAGTGA
*
31843004 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTACGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTACGCCCCAGTTAT
*
31843050 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTACGCCCCAGTTAT
* **
31843098 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTACGCCCCAGTTA-T
*
31843146 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
31843171 TGATAAAGCA
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
47 65 0.60
48 32 0.29
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTACGCCCCAGTTAT
Found at i:31843120 original size:71 final size:71
Alignment explanation
Indices: 31843004--31843169 Score: 253
Period size: 71 Copynumber: 2.3 Consensus size: 71
31842994 GAGGAAGTGA
* *
31843004 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTACGCCCCAGTTATAAAAAGGGCTTATGCCCCA
31843069 GTTATC
66 GTTATC
* *
31843075 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTACGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
31843140 GTTATT
66 GTTATC
*
31843146 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
31843170 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 76 0.87
72 11 0.13
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTACGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:31843398 original size:31 final size:31
Alignment explanation
Indices: 31843363--31843426 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
31843353 CGTTTACCGT
*
31843363 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
31843394 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
31843425 AA
1 AA
31843427 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:31847030 original size:43 final size:43
Alignment explanation
Indices: 31846978--31847171 Score: 196
Period size: 43 Copynumber: 4.5 Consensus size: 43
31846968 TATCTCAAAT
* * * *
31846978 ATGGTCTTACATGTTATCACATTTCAATGCCACTGTCCCAGAC
1 ATGGTCTTACACGTAATCACATTACAATGCCAATGTCCCAGAC
* * * *
31847021 AAGGTCTTACACGAAATCGA-ATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATC-ACATTACAATGCCAATGTCCCAGAC
* *
31847064 ATGATCTTACACGTAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATTACAATGCCAATGTCCCAGAC
* * *
31847107 ATGGTCTTCCATGTAATCACCA-AACAATGCCAATG-CCCTAGAC
1 ATGGTCTTACACGTAATCA-CATTACAATGCCAATGTCCC-AGAC
** *
31847150 ATATTCTTACATGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
31847172 CTCAGTAATC
Statistics
Matches: 125, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
42 6 0.05
43 116 0.93
44 3 0.02
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATTACAATGCCAATGTCCCAGAC
Found at i:31847101 original size:86 final size:85
Alignment explanation
Indices: 31846982--31847170 Score: 222
Period size: 86 Copynumber: 2.2 Consensus size: 85
31846972 TCAAATATGG
* * * *
31846982 TCTTACATGTTATCACATTTCAATGCCACTGTCCCAGACAAGGTCTTACACGAAATCGA-ATAAC
1 TCTTACATGTAATCACAATACAATGCCAATGTCCCAGACAAGGTCTTACACGAAATC-ACA-AAC
*
31847046 GATGCCAATGTCCC-AGACATGA-
64 AATGCCAATG-CCCTAGACAT-AT
* * * * *
31847068 TCTTACACGTAATCACAATACAATGCCAATGTCCCAGACATGGTCTTCCATGTAATCACCAAACA
1 TCTTACATGTAATCACAATACAATGCCAATGTCCCAGACAAGGTCTTACACGAAATCA-CAAACA
31847133 ATGCCAATGCCCTAGACATAT
65 ATGCCAATGCCCTAGACATAT
31847154 TCTTACATGTAATCACA
1 TCTTACATGTAATCACA
31847171 TCTCAGTAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
85 5 0.06
86 82 0.93
87 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.26
Consensus pattern (85 bp):
TCTTACATGTAATCACAATACAATGCCAATGTCCCAGACAAGGTCTTACACGAAATCACAAACAA
TGCCAATGCCCTAGACATAT
Found at i:31848002 original size:5 final size:5
Alignment explanation
Indices: 31847992--31848020 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
31847982 GAAGATGGAC
31847992 TATTT TATTT TATTT TATTT TATTT TATT
1 TATTT TATTT TATTT TATTT TATTT TATT
31848021 AATCTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:31850573 original size:23 final size:22
Alignment explanation
Indices: 31850530--31850574 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
31850520 GTTAAATTGA
* **
31850530 ATTGTATGTATGTGAGTGTATT
1 ATTGTATGTATATGAAAGTATT
31850552 ATTGTCATGTATATGAAAGTATT
1 ATTGT-ATGTATATGAAAGTATT
31850575 TATATATCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (22 bp):
ATTGTATGTATATGAAAGTATT
Found at i:31863388 original size:27 final size:27
Alignment explanation
Indices: 31863048--31863387 Score: 432
Period size: 27 Copynumber: 12.6 Consensus size: 27
31863038 AAAGTACTCC
*
31863048 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
31863075 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
31863102 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
31863129 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
31863156 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
31863183 CGATTTACAAAATTATCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
31863210 CAATTTACATAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
31863237 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
31863264 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
31863291 TAATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
31863318 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
31863345 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
31863372 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
31863388 TAAAATACCC
Statistics
Matches: 275, Mismatches: 34, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 271 0.99
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:31863424 original size:81 final size:81
Alignment explanation
Indices: 31863079--31863431 Score: 224
Period size: 81 Copynumber: 4.4 Consensus size: 81
31863069 TACCCTCAGG
*** ** * * *
31863079 TTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTA
1 TTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTA
****
31863144 CCGTTTTACCCTC-AGT
66 CCAAAATACCCTCGA-T
* ***** * * * *
31863160 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTATCGTTTTACCCCCAATTTACATAATTA
1 TTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTA
**** *
31863225 CCGTTTTACCCCCGAT
66 CCAAAATACCCTCGAT
* * * *** * *
31863241 TTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTACAGAATTA
1 TTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTA
***
31863306 CCATTTTACCCTCGAT
66 CCAAAATACCCTCGAT
* *** * * *
31863322 TTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTA
1 TTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTA
* * *
31863387 CTAAAATACCCTTGGT
66 CCAAAATACCCTCGAT
* *
31863403 TTGT-GAAATTACCGCAATACCCTCAATTT
1 TTATAG-AATTACCGCAATACCCTCGATTT
31863432 GTAAAACTAC
Statistics
Matches: 227, Mismatches: 43, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
80 1 0.00
81 225 0.99
82 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (81 bp):
TTATAGAATTACCGCAATACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTA
CCAAAATACCCTCGAT
Found at i:31864723 original size:9 final size:9
Alignment explanation
Indices: 31864711--31864787 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
31864701 TTTGATAAAC
31864711 ATGATATGA
1 ATGATATGA
31864720 ATGATATGCA
1 ATGATATG-A
*
31864730 CATGATATGT
1 -ATGATATGA
31864740 ATGATATGCA
1 ATGATATG-A
* *
31864750 CATGACATGT
1 -ATGATATGA
31864760 ATGATATGCA
1 ATGATATG-A
*
31864770 CATGATATGT
1 -ATGATATGA
31864780 ATGATATG
1 ATGATATG
31864788 CACACGAGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
9 31 0.56
10 1 0.02
11 23 0.42
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (9 bp):
ATGATATGA
Found at i:31864742 original size:4 final size:5
Alignment explanation
Indices: 31864711--31864787 Score: 63
Period size: 5 Copynumber: 15.6 Consensus size: 5
31864701 TTTGATAAAC
* * *
31864711 ATGAT ATGA- ATGAT ATGCAC ATGAT ATG-T ATGAT ATGCAC ATGAC ATG-T
1 ATGAT ATGAT ATGAT ATG-AT ATGAT ATGAT ATGAT ATG-AT ATGAT ATGAT
*
31864760 ATGAT ATGCAC ATGAT ATG-T ATGAT ATG
1 ATGAT ATG-AT ATGAT ATGAT ATGAT ATG
31864788 CACACGAGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
4 15 0.25
5 32 0.54
6 12 0.20
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (5 bp):
ATGAT
Found at i:31864799 original size:20 final size:20
Alignment explanation
Indices: 31864709--31864791 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
31864699 ATTTTGATAA
*
31864709 ACATGATATGAATGATATGC
1 ACATGATATGTATGATATGC
31864729 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
31864749 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
31864769 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
31864789 ACA
1 ACA
31864792 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:31864903 original size:24 final size:24
Alignment explanation
Indices: 31864847--31865012 Score: 212
Period size: 24 Copynumber: 7.0 Consensus size: 24
31864837 GAGGAAGTGA
31864847 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
31864870 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
31864894 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
31864918 AAAAGGGCTTACGCCTCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
31864942 -AAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
31864965 AAAAGAGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
31864989 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
31865013 ATGATAAAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
23 41 0.33
24 73 0.59
25 10 0.08
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:31864916 original size:47 final size:48
Alignment explanation
Indices: 31864847--31865013 Score: 214
Period size: 47 Copynumber: 3.5 Consensus size: 48
31864837 GAGGAAGTGA
*
31864847 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATC
* * * *
31864894 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCTCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATC
* * *
31864942 -AAAGGGCTTATGCCCCAGTTATAAAAAGAGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATC
*
31864989 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
31865014 TGATAAAGCA
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
47 63 0.61
48 29 0.28
49 12 0.12
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATC
Found at i:31865005 original size:71 final size:71
Alignment explanation
Indices: 31864847--31864998 Score: 223
Period size: 71 Copynumber: 2.1 Consensus size: 71
31864837 GAGGAAGTGA
* * * * * *
31864847 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCTCAATTATCAAAGGGCTTATGCCCCAGTTATAAAAAGAGCTTATGCCCCA
31864912 GTTATC
66 GTTATC
*
31864918 AAAAGGGCTTACGCCTCAATTATCAAAGGGCTTATGCCCCAGTTATAAAAAGAGCTTTTGCCCCA
1 AAAAGGGCTTACGCCTCAATTATCAAAGGGCTTATGCCCCAGTTATAAAAAGAGCTTATGCCCCA
*
31864983 GTTATT
66 GTTATC
31864989 AAAAGAGGCT
1 AAAAG-GGCT
31864999 AGGCCTCCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
71 68 0.94
72 4 0.06
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTACGCCTCAATTATCAAAGGGCTTATGCCCCAGTTATAAAAAGAGCTTATGCCCCA
GTTATC
Found at i:31865269 original size:31 final size:31
Alignment explanation
Indices: 31865206--31865269 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
31865196 CGTTTACAGT
* * *
31865206 AAAGGCTTCTGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCACTAATATGAAATATGA
** *
31865237 AAAGGCTTCAGCCCACTGTTATGGAATATGA
1 AAAGGCTTCAGCCCACTAATATGAAATATGA
31865268 AA
1 AA
31865270 CATGAAAAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCAGCCCACTAATATGAAATATGA
Found at i:31866744 original size:66 final size:68
Alignment explanation
Indices: 31866668--31866854 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
31866658 TAGTACCACT
*
31866668 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
31866730 CACG
65 CACG
31866734 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
31866799 ATCACG
63 ATCACG
31866805 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
31866855 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:31866779 original size:71 final size:71
Alignment explanation
Indices: 31866691--31866854 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31866681 CGATTTGTCT
31866691 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31866756 CTTTCA
66 CTTTCA
31866762 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31866827 CTTTCA
66 CTTTCA
31866833 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
31866855 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:31866892 original size:71 final size:70
Alignment explanation
Indices: 31866691--31866888 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
31866681 CGATTTGTCT
* * *
31866691 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
31866756 CTTTCA
65 CTTTCA
* * *
31866762 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
31866827 CTTTCA
65 CTTTCA
* *
31866833 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
31866889 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:31869249 original size:13 final size:13
Alignment explanation
Indices: 31869231--31869293 Score: 126
Period size: 13 Copynumber: 4.8 Consensus size: 13
31869221 TCAGCAGGGA
31869231 CACGCCCGTGTGC
1 CACGCCCGTGTGC
31869244 CACGCCCGTGTGC
1 CACGCCCGTGTGC
31869257 CACGCCCGTGTGC
1 CACGCCCGTGTGC
31869270 CACGCCCGTGTGC
1 CACGCCCGTGTGC
31869283 CACGCCCGTGT
1 CACGCCCGTGT
31869294 CTGATTGCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.08, C:0.46, G:0.30, T:0.16
Consensus pattern (13 bp):
CACGCCCGTGTGC
Found at i:31870345 original size:31 final size:31
Alignment explanation
Indices: 31870310--31870373 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
31870300 CCTTTTCATG
*
31870310 TTTCATATTCCATAACACTGGGCTGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
31870341 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
31870372 TT
1 TT
31870374 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:31870616 original size:24 final size:24
Alignment explanation
Indices: 31870565--31870707 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
31870555 GCTTTATCAT
*
31870565 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
31870590 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
31870614 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
31870637 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
31870661 ATAACTGGGGCATAAGCCATTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
31870685 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
31870708 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 74 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:31870644 original size:47 final size:48
Alignment explanation
Indices: 31870565--31870706 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
31870555 GCTTTATCAT
* *
31870565 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
31870614 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
* *
31870661 ATAACTGGGGCATAAGCCATTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
31870707 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 43 0.50
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:31870668 original size:71 final size:72
Alignment explanation
Indices: 31870564--31870707 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
31870554 TGCTTTATCA
* *
31870564 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCATTTCAATAACTGGGGCATAA
31870629 GCCCTTT
66 GCCCTTT
* * **
31870636 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCATTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCATTTCAATAACTGGGGCATA
31870699 AGCCCTTT
65 AGCCCTTT
31870707 T
1 T
31870708 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 52 0.80
72 13 0.20
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCATTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:31870782 original size:20 final size:20
Alignment explanation
Indices: 31870757--31870817 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
31870747 TTATGATTAC
31870757 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
31870777 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
31870797 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
31870817 A
1 A
31870818 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:31872925 original size:23 final size:24
Alignment explanation
Indices: 31872899--31872970 Score: 60
Period size: 25 Copynumber: 3.0 Consensus size: 24
31872889 TTGTCCTGAG
31872899 CTTCCCG-ATATGGCTCATTT-GAA
1 CTTCCCGAATATGGCT-ATTTGGAA
**
31872922 CTTCTTGATATATGGCTATTTGGAA
1 CTTCCCGA-ATATGGCTATTTGGAA
*
31872947 CTTCCC-AATTAATGGCTCTTTGGA
1 CTTCCCGAA-T-ATGGCTATTTGGA
31872971 GCTACCTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
23 6 0.15
24 6 0.15
25 27 0.69
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (24 bp):
CTTCCCGAATATGGCTATTTGGAA
Found at i:31880453 original size:80 final size:81
Alignment explanation
Indices: 31880313--31880495 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
31880303 AATGATGTCC
* * *
31880313 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATTATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGGCTACGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGT
*
31880377 GCGAGTTACTA-AATCT
66 GCGAGTTACTATAA-CA
* * * **
31880393 GGGTTACGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 GGGCTACGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTG
31880456 TGCGAGTTACTATAACA
65 TGCGAGTTACTATAACA
*
31880473 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTACGTCCCGAAGGCATTTG
31880496 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 1 0.01
80 79 0.89
81 9 0.10
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (81 bp):
GGGCTACGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGT
GCGAGTTACTATAACA
Found at i:31880502 original size:80 final size:79
Alignment explanation
Indices: 31880363--31880518 Score: 217
Period size: 80 Copynumber: 2.0 Consensus size: 79
31880353 GGACTAAGAT
* * **
31880363 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGTTACGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCAGGGCTACGTCCCGAAGGCATTTGAACGAG-TAGCT
31880427 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
*
31880443 CCGAAGGCATTTGTGCGAGTTACTATAA-CAGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCAGGGCTACGTCCCGAAGGCATTTGAACGAGTAGCT
*
31880507 ATATCCGGTTAA
65 AAATCCGGTTAA
31880519 ACTCCGAAGG
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
79 8 0.12
80 58 0.85
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCAGGGCTACGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:31880509 original size:40 final size:41
Alignment explanation
Indices: 31880313--31880495 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 41
31880303 AATGATGTCC
* * * *
31880313 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATTAT-ATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAATCA
* *
31880353 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAATCA
* * *
31880393 GGGTTACGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCA
*
31880433 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCA
*
31880473 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
31880496 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 114 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCA
Found at i:31888515 original size:40 final size:40
Alignment explanation
Indices: 31888432--31888616 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
31888422 TCGAATGATG
* * * *
31888432 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
31888472 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
31888512 TCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31888551 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31888592 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31888617 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
38 1 0.01
39 37 0.28
40 84 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31888568 original size:79 final size:82
Alignment explanation
Indices: 31888432--31888616 Score: 256
Period size: 79 Copynumber: 2.3 Consensus size: 82
31888422 TCGAATGATG
* *
31888432 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
31888496 TGTGCGAGTTACTA-AA
66 TGTGCGAGTTACTATAA
* * **
31888512 TCCGGG-TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
31888574 TTGTGCGAGTTACTATAA
65 TTGTGCGAGTTACTATAA
*
31888592 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31888617 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.64
80 33 0.35
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATAA
Found at i:31888638 original size:79 final size:78
Alignment explanation
Indices: 31888432--31888649 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 78
31888422 TCGAATGATG
** * * * *
31888432 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGG-TAAGTCCCGAAGGCATTTGAAC-GAGTTACTATATCCGG-TTAAGATCCGAAGGCATT
31888496 TGTGCGAGTTACTAAA
63 TGTGCGAGTTACTAAA
** *
31888512 TCCGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 TCCGGGTAAGTCCCGAAGGCATTTGAACGAGTTACTATATCC-GGTTAAGAT-CCGAAGGCATTT
31888576 GTGCGAGTTACTATAA
64 GTGCGAGTTACTA-AA
*
31888592 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAA-ACTCCGAAGG
1 TCCGGG-TAAGTCCCGAAGGCATTTGAACGAGTTA-CTATATCCGGTTAAGA-TCCGAAGG
31888650 TACGTGATTC
Statistics
Matches: 121, Mismatches: 9, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
78 1 0.01
79 73 0.60
80 47 0.39
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGTAAGTCCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAAA
Found at i:31888647 original size:119 final size:119
Alignment explanation
Indices: 31888432--31888649 Score: 264
Period size: 119 Copynumber: 1.8 Consensus size: 119
31888422 TCGAATGATG
* *
31888432 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGATTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
** *
31888497 GTGCGAGTTACTAAATCCGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GAACGAGTTACTAAATCCGGGTAACTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
31888551 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
* *
31888614 TTGAACGAG-TAGCTATATCCGGTTAAACT-CCGAAGG
64 TTGAACGAGTTA-CTAAATCCGGGT-AACTCCCGAAGG
31888650 TACGTGATTC
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
118 3 0.04
119 70 0.84
120 10 0.12
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAATCCGGGTAACTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31893130 original size:15 final size:16
Alignment explanation
Indices: 31893110--31893146 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
31893100 TCACAAAAGT
31893110 CTCAAATATTT-ATGA
1 CTCAAATATTTGATGA
31893125 CTCAAATATTTGATGA
1 CTCAAATATTTGATGA
31893141 CTCAAA
1 CTCAAA
31893147 GAGACTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (16 bp):
CTCAAATATTTGATGA
Found at i:31896768 original size:40 final size:40
Alignment explanation
Indices: 31896630--31896785 Score: 183
Period size: 40 Copynumber: 3.9 Consensus size: 40
31896620 GGACTAAGAT
* * * *
31896630 CCGAAAGCATTTGTGCGAGTTACTAAATCTGGGTTACGTC
1 CCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTC
* *
31896670 CCGAAGGCATTTGTGCGAGTTACTAAATTCGGGTTAAGTC
1 CCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTC
* *
31896710 CCGAAGGCATTTGTACGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTACGAGTTACTA-AATCCGGGTTAAGTC
* *
31896750 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGTACGAGTTA-CTAAATCCGGGTTAA
31896786 ACTCCGAAGG
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
39 7 0.07
40 92 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTC
Found at i:31900796 original size:25 final size:25
Alignment explanation
Indices: 31900718--31900807 Score: 117
Period size: 25 Copynumber: 3.6 Consensus size: 25
31900708 GACTCTTATG
*
31900718 AGCTTCCCGTTATACAGCCCAGATA
1 AGCTTCCCGTTATATAGCCCAGATA
31900743 AGCTTCCCGTTATATAGCCCAGATA
1 AGCTTCCCGTTATATAGCCCAGATA
* * * * *
31900768 AGCTTCCCGTTACATGGCTCACATG
1 AGCTTCCCGTTATATAGCCCAGATA
*
31900793 AGCTTCCTGTTATAT
1 AGCTTCCCGTTATAT
31900808 GGCTTAAGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (25 bp):
AGCTTCCCGTTATATAGCCCAGATA
Found at i:31900809 original size:25 final size:25
Alignment explanation
Indices: 31900669--31900811 Score: 103
Period size: 25 Copynumber: 5.8 Consensus size: 25
31900659 TAGCTTTTCG
* *
31900669 GAGCTACCCGTTAT-TGGCTCGCAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * **
31900693 GAGCTT-CC-TAATTATGACTCTTAT
1 GAGCTTCCCGTTA-TATGGCTCACAT
** * *
31900717 GAGCTTCCCGTTATACAGCCCAGAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * * *
31900742 AAGCTTCCCGTTATATAGCCCAGAT
1 GAGCTTCCCGTTATATGGCTCACAT
* *
31900767 AAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
*
31900792 GAGCTTCCTGTTATATGGCT
1 GAGCTTCCCGTTATATGGCT
31900812 TAAGAGAGAG
Statistics
Matches: 94, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
22 2 0.02
23 3 0.03
24 18 0.19
25 69 0.73
26 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:31906745 original size:11 final size:11
Alignment explanation
Indices: 31906729--31906756 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
31906719 ATCTGAATCC
31906729 ATCTTGGGATG
1 ATCTTGGGATG
31906740 ATCTTGGGATG
1 ATCTTGGGATG
31906751 ATCTTG
1 ATCTTG
31906757 TGAAACACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.11, G:0.32, T:0.39
Consensus pattern (11 bp):
ATCTTGGGATG
Found at i:31909939 original size:26 final size:25
Alignment explanation
Indices: 31909902--31909960 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 25
31909892 CCCTCTCGAT
31909902 CCATATAACAGGAAACTCACAAAGAG
1 CCAT-TAACAGGAAACTCACAAAGAG
*
31909928 CCATTAATCAGGAAGCTCACAAAGAG
1 CCATTAA-CAGGAAACTCACAAAGAG
31909954 CCTATTA
1 CC-ATTA
31909961 GGAAGCTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 3 0.10
26 23 0.77
27 4 0.13
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.17
Consensus pattern (25 bp):
CCATTAACAGGAAACTCACAAAGAG
Found at i:31909967 original size:23 final size:25
Alignment explanation
Indices: 31909906--31910024 Score: 88
Period size: 25 Copynumber: 4.9 Consensus size: 25
31909896 CTCGATCCAT
*
31909906 ATAA-CAGGAAACTCACAAAGAGCC
1 ATAATCAGGAAGCTCACAAAGAGCC
31909930 ATTAATCAGGAAGCTCACAAAGAGCC
1 A-TAATCAGGAAGCTCACAAAGAGCC
* * * *
31909956 -T-ATTAGGAAGCTTATC-TA-AGCT
1 ATAATCAGGAAGCTCA-CAAAGAGCC
* * *
31909978 ATATAACAGAAAGCTCA-TAAGAGCC
1 ATA-ATCAGGAAGCTCACAAAGAGCC
*
31910003 ATAATCAGGAAGTTCACAAAGA
1 ATAATCAGGAAGCTCACAAAGA
31910025 ACTTTGAGGA
Statistics
Matches: 71, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
22 3 0.04
23 13 0.18
24 14 0.20
25 22 0.31
26 19 0.27
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (25 bp):
ATAATCAGGAAGCTCACAAAGAGCC
Found at i:31916984 original size:755 final size:754
Alignment explanation
Indices: 31915220--31917480 Score: 3758
Period size: 755 Copynumber: 3.0 Consensus size: 754
31915210 TCCGGTATGT
* *
31915220 AATATACAGATCAAGTAAACATTAAATTCAAGCATGTAGATATACATAATTTAGTTACACGAACT
1 AATATACAGATCAAGTAAACATTTAATTCAAGCATGTAAATATACATAATTTAGTTACACGAACT
** * * * *
31915285 TACCTCAACAAATGTTCATATATGTAAAATCTACTAATCCGACACTTTCTCTTGTCCTCGTTCTA
66 TACCTTGACAAATGTTCGTGTACGTAAAATCTACTAATCCGACACTTTCTCTTTTCCTCGTTCTA
** * *
31915350 ACACCGAATTTAATCTATCCGAATCTATATGAATGAATTTTACATCAATTCATGTTCATTTCAAT
131 ACACCGAATTTGGTCTATCCGGATCTATATGAATGAATTTAACATCAATTCATGTTCATTTCAAT
*
31915415 TCAATTCGCATCTTTGGCAAAATTACTATTTTGCTCCTAAACTTTTAATTAATTCCAATTTCGTC
196 TCAATTCGCATCTTTGGCAAAATTACTGTTTTGCTCCTAAACTTTTAATTAATTCCAATTTCGTC
* * *
31915480 CTTAGGCTCGGAATATGAAATTCATGCACTTTAATCCTTATTCCAAGCCTAAACAATTTTTTCAT
261 CCTAGGCTCGGAATATGAAATTCATGCAATTTAATCCTTATTCCAAGCCTAACCAATTTTTTCAT
* * * * * *
31915545 ATAATATTTACAACCCATGTATTACACAAAATTCAAAAATTTTCCATGAATTTTACATCTTTACA
326 GTAATATTTAAAACCCATGTATTTCAAAAAATTTAGAAATTTTCCATGAATTTTACATCTTTACA
* *
31915610 ATTTAGTCCCTAAATCACAAGTTCATCAAAATTCTCTTAACAAAAGTTGTTTATCTATCAACAAC
391 ATTTAGTCCCTAAATCACAATTTCATCAAAATTCACTTAACAAAAGTTGTTTATCTATCAACAAC
*
31915675 CTTTCATTTTCTACCATAAAACTTCATAATTCATCTATACTCATCCATGGCAAAACCCTAGTACT
456 CTTTCATTTTCTACCATAAAACTTCATAATTCATCTATACTCATCCATGGAAAAACCCTAGTACT
* * *
31915740 TTGATATCTTTACAAATTAATCCCCGAGATAGTTAAATTAAGCGATTACGATCTCAGATACATAA
521 TTGATATCTTTACAAATTAATCCTCGAGATAGTTAAATTAAGCTATTACGATCTCAGAAACATAA
31915805 AAATTACTAAAAATGGGACAAG-AA--TACCTAATTGATCAAAATAAGCTTGTCTATCTTCAAGA
586 AAATTACTAAAAATGGGACAAGAAACTTACCTAATTGATCAAAATAAGCTTGTCTATCTTCAAGA
*
31915867 TTTCAAACTAGGGTTTCCATGGGTTTTTGTTATGGGAAAGATGATAATATGATGATATTTTTCTT
651 TTTCAAACTAGGGTTTCCATGGCTTTTTGTTATGGGAAAGATGATAATATGATG--ATTTTT-TT
31915932 AATCATTTATCATCTTTTATTATTTCACTTTCCAATTACCGA
713 AATCATTTATCATCTTTTATTATTTCACTTTCCAATTACCGA
*
31915974 AATATACAGATCAAGTAAACATTTCATTCAAGCATGTAAATATACATAATTTAGTTACACGAACT
1 AATATACAGATCAAGTAAACATTTAATTCAAGCATGTAAATATACATAATTTAGTTACACGAACT
*
31916039 TACCTTGACAAATGTTCGTGTACGTAAAATCTACTAATCCAACACTTTCTCTTTTCCTCGTTCTA
66 TACCTTGACAAATGTTCGTGTACGTAAAATCTACTAATCCGACACTTTCTCTTTTCCTCGTTCTA
*
31916104 ACTCCGAATTTGGTCTATCCGGATCTATATGAATGAATTTAACATCAATTCATGTTCATTTCAAT
131 ACACCGAATTTGGTCTATCCGGATCTATATGAATGAATTTAACATCAATTCATGTTCATTTCAAT
*
31916169 TCAATTCGCATCTTTGGCAAAATTA-TCGTTTTGCTCCTAAACTTTTAATTAATTCCAATTTCAT
196 TCAATTCGCATCTTTGGCAAAATTACT-GTTTTGCTCCTAAACTTTTAATTAATTCCAATTTCGT
* * * * *
31916233 CCCTAGACTTGGAAAATGAAATTCATGCAATTTAATCCTTATTGCAAGCCTAACCAAATTTTTCA
260 CCCTAGGCTCGGAATATGAAATTCATGCAATTTAATCCTTATTCCAAGCCTAACCAATTTTTTCA
*
31916298 TGTAATATTTAAAACCCATGTATTTCAAAAAATTTAGAAATTTTCCATGAATTTTACATCTTTAA
325 TGTAATATTTAAAACCCATGTATTTCAAAAAATTTAGAAATTTTCCATGAATTTTACATCTTTAC
* *
31916363 AAATTAGTCCCTAAATCA-AATTTCATCAAAATTCACTTAACAAAAGTTTTTTTATCTATCAACA
390 AATTTAGTCCCTAAATCACAATTTCATCAAAATTCACTTAACAAAAG-TTGTTTATCTATCAACA
* *
31916427 ACCTTTCATTTTCTACCATAAAACTTCATAATTCATTTATATTCATCCATGGAAAAACCCTAGTA
454 ACCTTTCATTTTCTACCATAAAACTTCATAATTCATCTATACTCATCCATGGAAAAACCCTAGTA
*
31916492 CTTTGATATCTTTACAAATTAATCCTCGAGATAGTTAAATTAAGCTATTACGATCTCGGAAACAT
519 CTTTGATATCTTTACAAATTAATCCTCGAGATAGTTAAATTAAGCTATTACGATCTCAGAAACAT
* * *
31916557 AAAAATTACTAAAAATGGGACAAGAAGACTTACCTAATTGGTTAAAATAAGCTTATCTATCTTCA
584 AAAAATTACTAAAAATGGGACAAGAA-ACTTACCTAATTGATCAAAATAAGCTTGTCTATCTTCA
31916622 AGATTTCAAACTAGGGTTTCCATGGCTTTTTGTTATGGGAAAGATGATAATATGATGATTTTTTT
648 AGATTTCAAACTAGGGTTTCCATGGCTTTTTGTTATGGGAAAGATGATAATATGATGATTTTTTT
* *
31916687 AATCATTTATCATCATTTATTATTTCACTTTCCAATTATCGA
713 AATCATTTATCATCTTTTATTATTTCACTTTCCAATTACCGA
*
31916729 AATATACAGATCAAGTAGACATTTAATTCAAGCATGTAAATATACATAATTTAGTTACACGAACT
1 AATATACAGATCAAGTAAACATTTAATTCAAGCATGTAAATATACATAATTTAGTTACACGAACT
* * * *
31916794 TACCTTGATAAAAGTTCGCGTACGTAAAATCTACTAATCTGACACTTTCTCTTTTCCTCGTTCTA
66 TACCTTGACAAATGTTCGTGTACGTAAAATCTACTAATCCGACACTTTCTCTTTTCCTCGTTCTA
* *
31916859 ACACTGAATTTGGTCTATCCGGATATATATGAATGAATTTAACATCAATTCATGTTCATTTCAAT
131 ACACCGAATTTGGTCTATCCGGATCTATATGAATGAATTTAACATCAATTCATGTTCATTTCAAT
*
31916924 TCAATTCGCATCTTTGGAAAAATTACTGTTTTGCTCCTAAACTTTTAATTAATTCCAATTTCGTC
196 TCAATTCGCATCTTTGGCAAAATTACTGTTTTGCTCCTAAACTTTTAATTAATTCCAATTTCGTC
31916989 CCTAGGCTCGGAATATGAAATTCATGCAATTTAATCCTTATTCCAAGCCTAACCAATTTTTTCAT
261 CCTAGGCTCGGAATATGAAATTCATGCAATTTAATCCTTATTCCAAGCCTAACCAATTTTTTCAT
* *
31917054 GTAATATTTAAAACCCATGTATTTTAAAAAATTTAGAAATTTTTCATGAATTTTACATCTTTACA
326 GTAATATTTAAAACCCATGTATTTCAAAAAATTTAGAAATTTTCCATGAATTTTACATCTTTACA
* *
31917119 ATTTAGTCCCTAAATTACAATTTCATCAAAATTCACATAACAAAAGTTGTTTATCTATCAACAAC
391 ATTTAGTCCCTAAATCACAATTTCATCAAAATTCACTTAACAAAAGTTGTTTATCTATCAACAAC
*
31917184 CTATCATTTTCTACCATAAAACTTCATAATTCATCTATACTCATCCATGGAAAAACCCTAGTACT
456 CTTTCATTTTCTACCATAAAACTTCATAATTCATCTATACTCATCCATGGAAAAACCCTAGTACT
* * *
31917249 TTGATATCTTTACAAATTAATCATCGAGATAGTGAAATTAAGCTATTACGATCTCAAAAACATAA
521 TTGATATCTTTACAAATTAATCCTCGAGATAGTTAAATTAAGCTATTACGATCTCAGAAACATAA
* * *
31917314 AAATTACTAAAAATGGGACAAGAATACTTACCCAATTGATCACAATAAGCTTGTCCATCTTCAAG
586 AAATTACTAAAAATGGGACAAGAA-ACTTACCTAATTGATCAAAATAAGCTTGTCTATCTTCAAG
* *
31917379 ATTTCAAACTAGGGTTTCCATGGCTTTTTGTTATGTGAAAGATGATAATATGATAATATTTTTTT
650 ATTTCAAACTAGGGTTTCCATGGCTTTTTGTTATGGGAAAGATGATAATATGAT--GATTTTTTT
* *
31917444 TATCATTTATCATCTTTTATTTTTTCACTTTCCAATT
713 AATCATTTATCATCTTTTATTATTTCACTTTCCAATT
31917481 TCATCTTTTT
Statistics
Matches: 1405, Mismatches: 92, Indels: 17
0.93 0.06 0.01
Matches are distributed among these distances:
753 27 0.02
754 535 0.38
755 678 0.48
756 35 0.02
757 42 0.03
758 88 0.06
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (754 bp):
AATATACAGATCAAGTAAACATTTAATTCAAGCATGTAAATATACATAATTTAGTTACACGAACT
TACCTTGACAAATGTTCGTGTACGTAAAATCTACTAATCCGACACTTTCTCTTTTCCTCGTTCTA
ACACCGAATTTGGTCTATCCGGATCTATATGAATGAATTTAACATCAATTCATGTTCATTTCAAT
TCAATTCGCATCTTTGGCAAAATTACTGTTTTGCTCCTAAACTTTTAATTAATTCCAATTTCGTC
CCTAGGCTCGGAATATGAAATTCATGCAATTTAATCCTTATTCCAAGCCTAACCAATTTTTTCAT
GTAATATTTAAAACCCATGTATTTCAAAAAATTTAGAAATTTTCCATGAATTTTACATCTTTACA
ATTTAGTCCCTAAATCACAATTTCATCAAAATTCACTTAACAAAAGTTGTTTATCTATCAACAAC
CTTTCATTTTCTACCATAAAACTTCATAATTCATCTATACTCATCCATGGAAAAACCCTAGTACT
TTGATATCTTTACAAATTAATCCTCGAGATAGTTAAATTAAGCTATTACGATCTCAGAAACATAA
AAATTACTAAAAATGGGACAAGAAACTTACCTAATTGATCAAAATAAGCTTGTCTATCTTCAAGA
TTTCAAACTAGGGTTTCCATGGCTTTTTGTTATGGGAAAGATGATAATATGATGATTTTTTTAAT
CATTTATCATCTTTTATTATTTCACTTTCCAATTACCGA
Found at i:31918925 original size:31 final size:31
Alignment explanation
Indices: 31918887--31918946 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
31918877 ATAATTTATG
31918887 TGTAAGACCACGTCTGGGACGTTGGCATCGT
1 TGTAAGACCACGTCTGGGACGTTGGCATCGT
*
31918918 TGTAAGACCACTTCTGGGACGTTGGCATC
1 TGTAAGACCACGTCTGGGACGTTGGCATC
31918947 ATATTTGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (31 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGT
Found at i:31918993 original size:42 final size:42
Alignment explanation
Indices: 31918918--31919021 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
31918908 TTGGCATCGT
** * *
31918918 TGTAAGACCACTTCTGGGACGTTGGCATCATATTTGATTTCG
1 TGTAAGACCACTTCTGGGACAATGGCATCATATTTGATTACA
31918960 TGTAAGACC-CTGTCT-GGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCACT-TCTGGGACAATGGCATC-ATATTTGATTACA
31919002 TGTAAGACCACGTT-TGGGAC
1 TGTAAGACCAC-TTCTGGGAC
31919022 GTTTGCATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
41 13 0.25
42 33 0.62
43 6 0.11
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACTTCTGGGACAATGGCATCATATTTGATTACA
Found at i:31921818 original size:47 final size:47
Alignment explanation
Indices: 31921758--31921875 Score: 209
Period size: 47 Copynumber: 2.5 Consensus size: 47
31921748 TGGCACTAAA
31921758 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
*
31921805 ACAAGGATGCCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
* *
31921852 ATAAGGATATCATGTAAGACCATG
1 ACAAGGATACCATGTAAGACCATG
31921876 CCAAGGCATG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
Found at i:31921922 original size:54 final size:56
Alignment explanation
Indices: 31921854--31921998 Score: 179
Period size: 54 Copynumber: 2.6 Consensus size: 56
31921844 TTGGTAAGAT
* *
31921854 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-TTATATGGC-
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTATAAGGCA
* * ** * *
31921908 AAGGAAATAATGTAAGACCATATCAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTATAAGGCA
**
31921964 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCAT
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCAT
31921999 CGGTGAGTTT
Statistics
Matches: 74, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
54 39 0.53
55 31 0.42
56 4 0.05
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (56 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTATAAGGCA
Found at i:31922769 original size:31 final size:31
Alignment explanation
Indices: 31922731--31922794 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
31922721 CCTTTTCATA
*
31922731 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCACAACACTGGGCCGAAGCCT
**
31922762 TTTCATATTTCACATTACTGGGCCGAAGCCT
1 TTTCATATTTCACAACACTGGGCCGAAGCCT
31922793 TT
1 TT
31922795 AATGTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTTCACAACACTGGGCCGAAGCCT
Found at i:31923118 original size:25 final size:24
Alignment explanation
Indices: 31923002--31923157 Score: 260
Period size: 24 Copynumber: 6.4 Consensus size: 24
31922992 CTGGAGGCCT
31923002 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
31923026 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
31923050 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
31923074 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
31923098 AGCCCTTTATCATAACTGGGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
*
31923123 AGCCCTTTATCATAACTGGGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
31923148 AGCCCTTTTA
1 AGCCCTTTTA
31923158 CACTTCCTCC
Statistics
Matches: 128, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
23 18 0.14
24 62 0.48
25 48 0.38
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:31923231 original size:20 final size:19
Alignment explanation
Indices: 31923206--31923268 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
31923196 TTATGAATAC
31923206 ATCATGTGCATTTCATACAT
1 ATCATGTGCA-TTCATACAT
31923226 ATCATGTGCA-T--TACAT
1 ATCATGTGCATTCATACAT
31923242 ATCATGTGCATATCATATCA-
1 ATCATGTGCAT-TCATA-CAT
31923262 ATCATGT
1 ATCATGT
31923269 ATATCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
16 15 0.39
18 2 0.05
20 19 0.50
21 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATGTGCATTCATACAT
Found at i:31923242 original size:16 final size:15
Alignment explanation
Indices: 31923219--31923261 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
31923209 ATGTGCATTT
31923219 CATACATATCATGTG
1 CATACATATCATGTG
31923234 CATTACATATCATGTG
1 CA-TACATATCATGTG
31923250 CATATCATATCA
1 CATA-CATATCA
31923262 ATCATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (15 bp):
CATACATATCATGTG
Found at i:31925794 original size:19 final size:18
Alignment explanation
Indices: 31925757--31925800 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
31925747 ATACTTACAG
31925757 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
31925774 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
31925793 TACTAATT
1 TAATAATT
31925801 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:31932437 original size:47 final size:47
Alignment explanation
Indices: 31932379--31932500 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
31932369 GAATTGGCAC
*
31932379 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGAATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
* * *
31932426 TAAGACAAGGATACCATGTAAGGCTATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
* *
31932473 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
31932501 CCAAGGCATG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
Found at i:31932543 original size:54 final size:54
Alignment explanation
Indices: 31932479--31932660 Score: 235
Period size: 55 Copynumber: 3.4 Consensus size: 54
31932469 TTGGTAAGAT
* *
31932479 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * * * *
31932533 AAGGAAATCATGTAGGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* *
31932588 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCGTTGATGAGTTC-ATAA-GC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
*
31932640 AAGGATACCACGTAAGACCAT
1 AAGGATACCATGTAAGACCAT
31932661 ATCAAGACAT
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
51 4 0.04
52 16 0.14
53 4 0.04
54 41 0.37
55 42 0.38
56 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Done.