Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 28 of 82
Found at i:9856405 original size:19 final size:19
Alignment explanation
Indices: 9856381--9856423 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
9856371 AGGAGGTAAA
9856381 GTGAAAATAGCATGGGAGC
1 GTGAAAATAGCATGGGAGC
*
9856400 GTGAAAATGGCATGGGAGC
1 GTGAAAATAGCATGGGAGC
*
9856419 ATGAA
1 GTGAA
9856424 GGAGAAGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.37, T:0.16
Consensus pattern (19 bp):
GTGAAAATAGCATGGGAGC
Found at i:9858796 original size:38 final size:39
Alignment explanation
Indices: 9858710--9858812 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 39
9858700 ACTCGGCTCA
* *
9858710 TGTACATCCCCCCACATCATGCACATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCAGG-ACCATCG
* *
9858750 TGTGCATCCCCCCACATCGTGCACA-ATCAGTG-CCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCAG-GACCATCG
*
9858788 TGTACATCCCCCCAGATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
9858813 CGGGCACTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
38 29 0.52
39 3 0.05
40 24 0.43
ACGTcount: A:0.23, C:0.41, G:0.17, T:0.19
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACATAGCAGGACCATCG
Found at i:9866889 original size:15 final size:15
Alignment explanation
Indices: 9866871--9866923 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
9866861 TTCATTAAAA
* *
9866871 TAAAATTTTCCTTTT
1 TAAAACTTTCCATTT
9866886 TAAAACTTTCCATTT
1 TAAAACTTTCCATTT
** *
9866901 TAATTCTTTCCATAAT
1 TAAAACTTTCCAT-TT
9866917 TAAAACT
1 TAAAACT
9866924 CCCTTTAATT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 24 0.80
16 6 0.20
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (15 bp):
TAAAACTTTCCATTT
Found at i:9867299 original size:77 final size:77
Alignment explanation
Indices: 9867172--9867334 Score: 254
Period size: 77 Copynumber: 2.1 Consensus size: 77
9867162 TGAATTTCTC
* *
9867172 AAATTAAAATACCATCCTTAAGTTTAGGAATTTCTTTGAAAGTAGGAAACAATTTCTTATTCTTT
1 AAATTAAAATACCATCCTTAAGTTTAAGAATTACTTTGAAAGTAGGAAACAATTTCTTATTCTTT
9867237 ATGAATCACCCA
66 ATGAATCACCCA
* * * * * *
9867249 AAATTAAAATTCTATCCTTAATTTTAAGAATTACTTTTAACGTAGGAAACAATTTCTTATTTTTT
1 AAATTAAAATACCATCCTTAAGTTTAAGAATTACTTTGAAAGTAGGAAACAATTTCTTATTCTTT
9867314 ATGAATCACCCA
66 ATGAATCACCCA
9867326 AAATTAAAA
1 AAATTAAAA
9867335 GAGATGGCAT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (77 bp):
AAATTAAAATACCATCCTTAAGTTTAAGAATTACTTTGAAAGTAGGAAACAATTTCTTATTCTTT
ATGAATCACCCA
Found at i:9873464 original size:54 final size:54
Alignment explanation
Indices: 9873393--9873550 Score: 208
Period size: 54 Copynumber: 2.9 Consensus size: 54
9873383 ATTAGTATAC
* * * * *
9873393 CACCACATCTCATCCAGCTCATATGCATTCCCCCACATCATGCACATAACCGGA
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCATGCACATAACCGAA
* * * *
9873447 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCATATCGTGAACATAGCCGAA
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCATGCACATAACCGAA
** *
9873501 CACCCCATCTCACCCAGCTTGTGTGCACCCCCCCACATCATGCACATAAC
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCATGCACATAAC
9873551 TGGAGTCATC
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.27, C:0.44, G:0.11, T:0.19
Consensus pattern (54 bp):
CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCATGCACATAACCGAA
Found at i:9874633 original size:11 final size:11
Alignment explanation
Indices: 9874614--9874647 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9874604 ATGGTTGGCC
*
9874614 ATAAGGAGAAA
1 ATAAAGAGAAA
9874625 ATAAAGAGAAA
1 ATAAAGAGAAA
*
9874636 ATAGAGAGAAA
1 ATAAAGAGAAA
9874647 A
1 A
9874648 GGAAGAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.09
Consensus pattern (11 bp):
ATAAAGAGAAA
Found at i:9889804 original size:41 final size:42
Alignment explanation
Indices: 9889697--9889812 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 42
9889687 TGGACCCGGC
* *
9889697 TATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGATCCAGC
1 TATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGATCCAGA
** * *
9889739 TATGTGTAAGTGCGAGTGCACATAAGCCGTTGTTGA-CTC-GA
1 TATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGATC-CAGA
* *
9889780 TATGTGCGAGTGGGAGTACGCATAAGCCGTTGC
1 TATGTGCGAGTGGGAGTGCACATAAGCCGTTGC
9889813 ATATGAGATG
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 29 0.48
42 32 0.52
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (42 bp):
TATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGATCCAGA
Found at i:9892300 original size:29 final size:29
Alignment explanation
Indices: 9892258--9892316 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
9892248 CATTATGTTG
*
9892258 ATATATATATATATATGTTGTGCNTTGAT
1 ATATATATATATATATGTTGTGCATTGAT
9892287 ATATATATATATATATGTTGTGCATTGAT
1 ATATATATATATATATGTTGTGCATTGAT
9892316 A
1 A
9892317 GTTGATATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.47
Consensus pattern (29 bp):
ATATATATATATATATGTTGTGCATTGAT
Found at i:9892515 original size:40 final size:40
Alignment explanation
Indices: 9892419--9892521 Score: 140
Period size: 38 Copynumber: 2.6 Consensus size: 40
9892409 ATAGTGCCCG
* *
9892419 TGTGCACGATGTGGGGGGATGTACACGATGGCATTGACTA
1 TGTGCACGATGTGGGGGGATGCACACGATGACATTGACTA
*
9892459 --TGCACGATGTGGGGGGATGCACACTATGAC-TCTGACTA
1 TGTGCACGATGTGGGGGGATGCACACGATGACAT-TGACTA
*
9892497 TGTGCAAGATGTGGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
9892522 TGAGCTGGGT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
37 1 0.02
38 33 0.59
40 22 0.39
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACACGATGACATTGACTA
Found at i:9898267 original size:258 final size:257
Alignment explanation
Indices: 9897810--9898326 Score: 1016
Period size: 258 Copynumber: 2.0 Consensus size: 257
9897800 TGCTCCTAAC
9897810 GAAAGATTAATGAAATGATATATCCCTCCGATTAAGGATGGAGAAATTTAGAGTTGGACTAATAG
1 GAAAGATTAATGAAATGATATATCCCTCCGATTAAGGATGGAGAAATTTAGAGTTGGACTAATAG
9897875 GCCGTGATAATTTATTCATTTGGTGGAGTTATAATTGAACTCATGGTTGTCAATTGGAAAAAGAT
66 GCCGTGATAATTTATTCATTTGGTGGAGTTATAATTGAACTCATGGTTGTCAATTGGAAAAAGAT
9897940 TTGGGGACTATGGATTGTATTGGGGTTAATATAAAGGAGCACGTGTGATAATGATAATAAGGAGC
131 TTGGGGACTATGGATTGTATTGGGGTTAATATAAAGGAGCACGTGTGATAATGATAATAAGGAGC
9898005 GTACTTTGGCTAGAATGAATAGTGATGGTTGTAATTCACTTGGAGTGTATAAATTAAGCATT
196 GTACTTTGGCTAGAATGAATAGTGATGGTTGTAATTCACTTGGAGTGTATAAATTAAGCATT
*
9898067 NGAAAGATTAATGAAATGATATATCCCTCCGATTAAGGATGGAGAAATTTGGAGTTGGACTAATA
1 -GAAAGATTAATGAAATGATATATCCCTCCGATTAAGGATGGAGAAATTTAGAGTTGGACTAATA
9898132 GGCCGTGATAATTTATTCATTTGGTGGAGTTATAATTGAACTCATGGTTGTCAATTGGAAAAAGA
65 GGCCGTGATAATTTATTCATTTGGTGGAGTTATAATTGAACTCATGGTTGTCAATTGGAAAAAGA
9898197 TTTGGGGACTATGGATTGTATTGGGGTTAATATAAAGGAGCACGTGTGATAATGATAATAAGGAG
130 TTTGGGGACTATGGATTGTATTGGGGTTAATATAAAGGAGCACGTGTGATAATGATAATAAGGAG
9898262 CGTACTTTGGCTAGAATGAATAGTGATGGTTGTAATTCACTTGGAGTGTATAAATTAAGCATT
195 CGTACTTTGGCTAGAATGAATAGTGATGGTTGTAATTCACTTGGAGTGTATAAATTAAGCATT
9898325 GA
1 GA
9898327 GCTAAGAGTA
Statistics
Matches: 258, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
257 2 0.01
258 256 0.99
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.32
Consensus pattern (257 bp):
GAAAGATTAATGAAATGATATATCCCTCCGATTAAGGATGGAGAAATTTAGAGTTGGACTAATAG
GCCGTGATAATTTATTCATTTGGTGGAGTTATAATTGAACTCATGGTTGTCAATTGGAAAAAGAT
TTGGGGACTATGGATTGTATTGGGGTTAATATAAAGGAGCACGTGTGATAATGATAATAAGGAGC
GTACTTTGGCTAGAATGAATAGTGATGGTTGTAATTCACTTGGAGTGTATAAATTAAGCATT
Found at i:9907535 original size:35 final size:34
Alignment explanation
Indices: 9907483--9907603 Score: 113
Period size: 35 Copynumber: 3.6 Consensus size: 34
9907473 TTCCACCACG
* * *
9907483 CTTTTACAATGGCTTTTCAATGGCTCAGCGACAAC
1 CTTTAACAATGGCTTTTCAA-GGCTCAACCACAAC
* * * *
9907518 CTTTAACAATGGTTTTTCACAAGATCAACCAAAAC
1 CTTTAACAATGGCTTTTCA-AGGCTCAACCACAAC
*
9907553 C--CAA-AATGGCTTTTCAAAGGCTCAACCACAAC
1 CTTTAACAATGGCTTTTC-AAGGCTCAACCACAAC
*
9907585 CTTTAACAATGGTTTTTCA
1 CTTTAACAATGGCTTTTCA
9907604 CAAGATCAAC
Statistics
Matches: 67, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
32 23 0.34
33 3 0.04
34 3 0.04
35 37 0.55
36 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (34 bp):
CTTTAACAATGGCTTTTCAAGGCTCAACCACAAC
Found at i:9907567 original size:32 final size:32
Alignment explanation
Indices: 9907525--9907625 Score: 123
Period size: 32 Copynumber: 3.1 Consensus size: 32
9907515 AACCTTTAAC
9907525 AATGGTTTTTCACAAGATCAACCAAAACCCAA
1 AATGGTTTTTCACAAGATCAACCAAAACCCAA
* * * *
9907557 AATGGCTTTTCA-AAGGCTCAACCACAACCTTTAA
1 AATGGTTTTTCACAA-GATCAACCAAAACC--CAA
9907591 CAATGGTTTTTCACAAGATCAACCAAAACCCAA
1 -AATGGTTTTTCACAAGATCAACCAAAACCCAA
9907624 AA
1 AA
9907626 CTAACTTTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
31 2 0.04
32 25 0.45
33 2 0.04
34 2 0.04
35 23 0.41
36 2 0.04
ACGTcount: A:0.42, C:0.26, G:0.10, T:0.23
Consensus pattern (32 bp):
AATGGTTTTTCACAAGATCAACCAAAACCCAA
Found at i:9907598 original size:67 final size:67
Alignment explanation
Indices: 9907490--9907625 Score: 245
Period size: 67 Copynumber: 2.0 Consensus size: 67
9907480 ACGCTTTTAC
* * *
9907490 AATGGCTTTTCAATGGCTCAGCGACAACCTTTAACAATGGTTTTTCACAAGATCAACCAAAACCC
1 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCACAAGATCAACCAAAACCC
9907555 AA
66 AA
9907557 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCACAAGATCAACCAAAACCC
1 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCACAAGATCAACCAAAACCC
9907622 AA
66 AA
9907624 AA
1 AA
9907626 CTAACTTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (67 bp):
AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCACAAGATCAACCAAAACCC
AA
Found at i:9907613 original size:35 final size:35
Alignment explanation
Indices: 9907515--9907620 Score: 139
Period size: 35 Copynumber: 3.1 Consensus size: 35
9907505 GCTCAGCGAC
9907515 AACCTTTAACAATGGTTTTTCACAAGATCAACCAA
1 AACCTTTAACAATGGTTTTTCACAAGATCAACCAA
* * * *
9907550 AACC--CAA-AATGGCTTTTCA-AAGGCTCAACCAC
1 AACCTTTAACAATGGTTTTTCACAA-GATCAACCAA
9907582 AACCTTTAACAATGGTTTTTCACAAGATCAACCAA
1 AACCTTTAACAATGGTTTTTCACAAGATCAACCAA
9907617 AACC
1 AACC
9907621 CAAAACTAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
31 2 0.03
32 23 0.40
33 2 0.03
34 2 0.03
35 27 0.47
36 2 0.03
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.25
Consensus pattern (35 bp):
AACCTTTAACAATGGTTTTTCACAAGATCAACCAA
Found at i:9909357 original size:23 final size:23
Alignment explanation
Indices: 9909331--9909388 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 23
9909321 TCATTAGTCT
* *
9909331 TCAAGCATTATTCTCAATTATCA
1 TCAAGCATTATTATCAATCATCA
9909354 TCAAG---TATTATCAATCATCA
1 TCAAGCATTATTATCAATCATCA
9909374 TCAAGCATTCATTAT
1 TCAAGCATT-ATTAT
9909389 TTATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 18 0.62
23 6 0.21
24 5 0.17
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (23 bp):
TCAAGCATTATTATCAATCATCA
Found at i:9914315 original size:35 final size:35
Alignment explanation
Indices: 9914177--9914325 Score: 183
Period size: 35 Copynumber: 4.2 Consensus size: 35
9914167 TTCTCAAGTG
* *
9914177 ATTGATTAAAATTGTTTAATTAAGTTGTTGGGCTA
1 ATTGATTTAAATTGTTTAATTAAGTTATTGGGCTA
* * *
9914212 ATTTAATTAAATTGTTTAATTAAGTCATTGGGCCTA
1 ATTGATTTAAATTGTTTAATTAAGTTATTGGG-CTA
* * *
9914248 ATTGATTGAAATTGTTTAATTAAGTTGTTGGGCTTG
1 ATTGATTTAAATTGTTTAATTAAGTTATTGGGC-TA
*
9914284 ATT-ATTTAAATTGTTTAATTAAGTTACTGGGCCTA
1 ATTGATTTAAATTGTTTAATTAAGTTATTGGG-CTA
9914319 ATTGATT
1 ATTGATT
9914326 GAATTACATA
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
35 57 0.60
36 38 0.40
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.46
Consensus pattern (35 bp):
ATTGATTTAAATTGTTTAATTAAGTTATTGGGCTA
Found at i:9914326 original size:71 final size:71
Alignment explanation
Indices: 9914177--9914328 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 71
9914167 TTCTCAAGTG
* *
9914177 ATTGATTAAAATTGTTTAATTAAGTTGTTGGGCTAATTTAATTAAATTGTTTAATTAAGTCATTG
1 ATTGATTGAAATTGTTTAATTAAGTTGTTGGGCTAATTTAATTAAATTGTTTAATTAAGTCACTG
9914242 GGCCTA
66 GGCCTA
* * *
9914248 ATTGATTGAAATTGTTTAATTAAGTTGTTGGGCTTGA-TTATTTAAATTGTTTAATTAAGTTACT
1 ATTGATTGAAATTGTTTAATTAAGTTGTTGGGC-TAATTTAATTAAATTGTTTAATTAAGTCACT
9914312 GGGCCTA
65 GGGCCTA
9914319 ATTGATTGAA
1 ATTGATTGAA
9914329 TTACATAATT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
71 73 0.97
72 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.45
Consensus pattern (71 bp):
ATTGATTGAAATTGTTTAATTAAGTTGTTGGGCTAATTTAATTAAATTGTTTAATTAAGTCACTG
GGCCTA
Found at i:9914338 original size:35 final size:35
Alignment explanation
Indices: 9914177--9914344 Score: 169
Period size: 35 Copynumber: 4.7 Consensus size: 35
9914167 TTCTCAAGTG
* *
9914177 ATTGATTAAAATTGTTTAATTAAGTTGTTGGG-CTA
1 ATTGATT-GAATTGTTTAATTAAGTTATTGGGCCTA
* * *
9914212 ATTTAATTAAATTGTTTAATTAAGTCATTGGGCCTA
1 A-TTGATTGAATTGTTTAATTAAGTTATTGGGCCTA
* * *
9914248 ATTGATTGAAATTGTTTAATTAAGTTGTTGGGCTTG
1 ATTGATTG-AATTGTTTAATTAAGTTATTGGGCCTA
* *
9914284 ATT-ATTTAAATTGTTTAATTAAGTTACTGGGCCTA
1 ATTGA-TTGAATTGTTTAATTAAGTTATTGGGCCTA
***
9914319 ATTGATTGAATTACATAATTAAGTTA
1 ATTGATTGAATTGTTTAATTAAGTTA
9914345 ATTAGGCTTC
Statistics
Matches: 110, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
35 72 0.65
36 38 0.35
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.45
Consensus pattern (35 bp):
ATTGATTGAATTGTTTAATTAAGTTATTGGGCCTA
Found at i:9914353 original size:71 final size:71
Alignment explanation
Indices: 9914218--9914353 Score: 193
Period size: 71 Copynumber: 1.9 Consensus size: 71
9914208 GCTAATTTAA
* *** * *
9914218 TTAAATTGTTTAATTAAGTCATTGGGCCTAATTGATTGAAATTGTTTAATTAAGTTGTTGGGCTT
1 TTAAATTGTTTAATTAAGTCACTGGGCCTAATTGATTGAAATTACATAATTAAGTTATTAGGCTT
9914283 GATTAT
66 GATTAT
*
9914289 TTAAATTGTTTAATTAAGTTACTGGGCCTAATTGATTG-AATTACATAATTAAGTTAATTAGGCT
1 TTAAATTGTTTAATTAAGTCACTGGGCCTAATTGATTGAAATTACATAATTAAGTT-ATTAGGCT
9914353 T
65 T
9914354 CTTACGGATA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 14 0.25
71 43 0.75
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.45
Consensus pattern (71 bp):
TTAAATTGTTTAATTAAGTCACTGGGCCTAATTGATTGAAATTACATAATTAAGTTATTAGGCTT
GATTAT
Found at i:9918973 original size:2 final size:2
Alignment explanation
Indices: 9918966--9919006 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
9918956 GGCCAGTGGT
* *
9918966 TA TA TA TA TG TT TA TA TA TGA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
9919007 GAGGTTTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9918991 original size:19 final size:19
Alignment explanation
Indices: 9918967--9919003 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9918957 GCCAGTGGTT
* *
9918967 ATATATATGTTTATATATG
1 ATATATATATATATATATG
9918986 ATATATATATATATATAT
1 ATATATATATATATATAT
9919004 ATAGAGGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
ATATATATATATATATATG
Found at i:9918992 original size:21 final size:21
Alignment explanation
Indices: 9918966--9919005 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9918956 GGCCAGTGGT
* *
9918966 TATATATATGTTTATATATGA
1 TATATATATATATATATATGA
9918987 TATATATATATATATATAT
1 TATATATATATATATATAT
9919006 AGAGGTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TATATATATATATATATATGA
Found at i:9922741 original size:35 final size:34
Alignment explanation
Indices: 9922702--9922800 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 34
9922692 TTAATTGTTT
9922702 AATTTAATCAATTACACCCAATAACTTAATTAAAC
1 AATTTAATCAATTA-ACCCAATAACTTAATTAAAC
* * *
9922737 AATTTAATTAATTAAGCCCAACAATTTAATTAAAC
1 AATTTAATCAATTAA-CCCAATAACTTAATTAAAC
* *
9922772 AATTTTAATCAATTAGGCCCAATGACTTA
1 AA-TTTAATCAATTA-ACCCAATAACTTA
9922801 TGTGAGACCT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
34 1 0.02
35 32 0.60
36 20 0.38
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.33
Consensus pattern (34 bp):
AATTTAATCAATTAACCCAATAACTTAATTAAAC
Found at i:9924150 original size:43 final size:42
Alignment explanation
Indices: 9924036--9924150 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
9924026 ACCCGACTAC
* ** * ** *
9924036 GTGCGAGTAGGAGTGTGCATAAGCCGATGATGACCCGGCTAT
1 GTGCGAGTGGGAGTGCACATAAGTCGATGATGACCCAACCAT
9924078 GTGCGAGTGGGAGTGCACATAAGTCGATGATGACCCAACCAT
1 GTGCGAGTGGGAGTGCACATAAGTCGATGATGACCCAACCAT
* * *
9924120 GTGCTAGTGGGGAGTGCACATGAGTTGATGA
1 GTGCGAGT-GGGAGTGCACATAAGTCGATGA
9924151 CGATGGGAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 42 0.68
43 20 0.32
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.22
Consensus pattern (42 bp):
GTGCGAGTGGGAGTGCACATAAGTCGATGATGACCCAACCAT
Found at i:9925511 original size:35 final size:34
Alignment explanation
Indices: 9925422--9925512 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 34
9925412 TTGGGTCGTG
*
9925422 ATAACTTAATTAACAAATTTAATCAATTAGGCCCA
1 ATAACTTAATTAAC-AATTTAATCAATTAGGACCA
*** *
9925457 ATAACTTAATTGTTTAATTTAATTAATTAGGACCA
1 ATAACTTAATT-AACAATTTAATCAATTAGGACCA
*
9925492 ATGACTTAATTCAACAATTTA
1 ATAACTTAATT-AACAATTTA
9925513 TGTCAATCCC
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (34 bp):
ATAACTTAATTAACAATTTAATCAATTAGGACCA
Found at i:9926251 original size:20 final size:21
Alignment explanation
Indices: 9926206--9926251 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
9926196 CCCTAGATGG
*
9926206 AAAAATTCAAAGGAAAAGTGT
1 AAAAATTCAAAGGAAAAGAGT
*
9926227 GAAAATTC-AAGGAAACA-AGT
1 AAAAATTCAAAGGAAA-AGAGT
9926247 AAAAA
1 AAAAA
9926252 AAAGGTAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.61, C:0.07, G:0.17, T:0.15
Consensus pattern (21 bp):
AAAAATTCAAAGGAAAAGAGT
Found at i:9931181 original size:11 final size:11
Alignment explanation
Indices: 9931165--9931192 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9931155 AGCTTTTGGG
9931165 TTTAAAGTTGT
1 TTTAAAGTTGT
9931176 TTTAAAGTTGT
1 TTTAAAGTTGT
9931187 TTTAAA
1 TTTAAA
9931193 AACTATAGTG
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:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (11 bp):
TTTAAAGTTGT
Found at i:9933543 original size:2 final size:2
Alignment explanation
Indices: 9933531--9933571 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
9933521 TACAAGTATG
*
9933531 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9933572 GGAGGACTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:9934164 original size:34 final size:35
Alignment explanation
Indices: 9934106--9934216 Score: 124
Period size: 34 Copynumber: 3.2 Consensus size: 35
9934096 TGTTGTTTTG
9934106 GCTGCTGATTTTTTGAG-AGAAAATAGAGCAGCTTA
1 GCTGCTGA-TTTTTGAGAAGAAAATAGAGCAGCTTA
9934141 GCTGCTGATTTTTGAGAAG-AAATAGAGCAGCTTA
1 GCTGCTGATTTTTGAGAAGAAAATAGAGCAGCTTA
* * **
9934175 GTTGTTGA-TTTT--GAAGTCAATATGAGCAGCCTTA
1 GCTGCTGATTTTTGAGAAGAAAATA-GAGCAG-CTTA
9934209 GCTGCTGA
1 GCTGCTGA
9934217 AAACTGAAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
31 4 0.06
32 4 0.06
33 10 0.15
34 39 0.58
35 10 0.15
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (35 bp):
GCTGCTGATTTTTGAGAAGAAAATAGAGCAGCTTA
Found at i:9934392 original size:10 final size:9
Alignment explanation
Indices: 9934346--9934396 Score: 57
Period size: 9 Copynumber: 5.3 Consensus size: 9
9934336 ACGGTGGAAG
9934346 AAAGAAAGA
1 AAAGAAAGA
*
9934355 AAAAAAAGA
1 AAAGAAAGA
*
9934364 AAACAAACGA
1 AAAGAAA-GA
9934374 AAAGAAAAGA
1 AAAG-AAAGA
9934384 ACAAGAAAGA
1 A-AAGAAAGA
9934394 AAA
1 AAA
9934397 ATGGGCATGG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 16 0.44
10 14 0.39
11 6 0.17
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:9934392 original size:15 final size:14
Alignment explanation
Indices: 9934343--9934396 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
9934333 TGGACGGTGG
9934343 AAGAAAG-AAAGAA
1 AAGAAAGAAAAGAA
* *
9934356 AAAAAAGAAAACAA
1 AAGAAAGAAAAGAA
*
9934370 ACGAAAAGAAAAGAA
1 AAG-AAAGAAAAGAA
9934385 CAAGAAAGAAAA
1 -AAGAAAGAAAA
9934397 ATGGGCATGG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
13 6 0.19
14 6 0.19
15 18 0.56
16 2 0.06
ACGTcount: A:0.78, C:0.06, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAAAGAAAAGAA
Found at i:9934447 original size:26 final size:27
Alignment explanation
Indices: 9934383--9934438 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
9934373 AAAAGAAAAG
9934383 AACAAGAAAGAAAAATGGGCATGGCCC
1 AACAAGAAAGAAAAATGGGCATGGCCC
9934410 AACAAGAAAGAAAAATGGGCATGGCCC
1 AACAAGAAAGAAAAATGGGCATGGCCC
9934437 AA
1 AA
9934439 TGGAAAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.50, C:0.18, G:0.25, T:0.07
Consensus pattern (27 bp):
AACAAGAAAGAAAAATGGGCATGGCCC
Found at i:9943816 original size:21 final size:22
Alignment explanation
Indices: 9943773--9943817 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
9943763 CCCTAGGTGA
*
9943773 AAAAATTCAAAGGGAAAATGTG
1 AAAAATTCAAAGGGAAAAAGTG
9943795 AAAAATTC-AA-GGAAACAAGTG
1 AAAAATTCAAAGGGAAA-AAGTG
9943816 AA
1 AA
9943818 TATGGTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.58, C:0.07, G:0.20, T:0.16
Consensus pattern (22 bp):
AAAAATTCAAAGGGAAAAAGTG
Found at i:9948309 original size:25 final size:25
Alignment explanation
Indices: 9948281--9948338 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
9948271 TGAAAATTTT
9948281 TGAAATAAAATAATATTTTATTCAA
1 TGAAATAAAATAATATTTTATTCAA
9948306 TGAAATAAAATAATATTTTATTCAA
1 TGAAATAAAATAATATTTTATTCAA
*
9948331 TAAAATAA
1 TGAAATAA
9948339 TATTAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (25 bp):
TGAAATAAAATAATATTTTATTCAA
Found at i:9948782 original size:2 final size:2
Alignment explanation
Indices: 9948775--9948799 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9948765 TGTAACTTAA
9948775 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 A
9948800 ATAACAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9949178 original size:46 final size:47
Alignment explanation
Indices: 9949128--9949221 Score: 115
Period size: 47 Copynumber: 2.0 Consensus size: 47
9949118 AGGGAGAGCA
9949128 AAAGAAAAGCAAAG-GAAAAA-GGAAAGAAA-AATC-GTGGGAGAGGAAG
1 AAAG-AAA-CAAAGAGAAAAAGGGAAAGAAAGAA-CAGTGGGAGAGGAAG
* *
9949174 AAAGAAATAAAGAGAAAAAGGGAGAGAAAGAACAGTGGGAGAGGAAG
1 AAAGAAACAAAGAGAAAAAGGGAAAGAAAGAACAGTGGGAGAGGAAG
9949221 A
1 A
9949222 GAAAAGAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
44 4 0.10
45 9 0.21
46 13 0.31
47 16 0.38
ACGTcount: A:0.59, C:0.03, G:0.34, T:0.04
Consensus pattern (47 bp):
AAAGAAACAAAGAGAAAAAGGGAAAGAAAGAACAGTGGGAGAGGAAG
Found at i:9949423 original size:34 final size:34
Alignment explanation
Indices: 9949384--9949481 Score: 117
Period size: 34 Copynumber: 2.8 Consensus size: 34
9949374 TTGGCTGCTG
* *
9949384 AAAATTTGAGCTATTTGCTGCTAATTTGTGCAAA
1 AAAATTGGAGCTATTTGCTGCCAATTTGTGCAAA
* **
9949418 AAAATTGGAGCTGTTTGCTGCCAATTTGTGCAGG
1 AAAATTGGAGCTATTTGCTGCCAATTTGTGCAAA
9949452 AAAATTGGACAGC-ATTGTGCTGCCAATTTG
1 AAAATTGG--AGCTATT-TGCTGCCAATTTG
9949482 AGGGAGAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
34 37 0.67
35 2 0.04
36 16 0.29
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (34 bp):
AAAATTGGAGCTATTTGCTGCCAATTTGTGCAAA
Found at i:9949642 original size:25 final size:25
Alignment explanation
Indices: 9949608--9949695 Score: 131
Period size: 25 Copynumber: 3.5 Consensus size: 25
9949598 AAAGAAAAGA
*
9949608 AATAGCAAATAAATGGGCATGGCCC
1 AATAGAAAATAAATGGGCATGGCCC
9949633 AATAGAAAATAAATGGGCATGGCCC
1 AATAGAAAATAAATGGGCATGGCCC
* * *
9949658 AATAGAAAATAAGTAGACATGGCCC
1 AATAGAAAATAAATGGGCATGGCCC
*
9949683 AATAGGAAATAAA
1 AATAGAAAATAAA
9949696 AATAAATGGG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.16
Consensus pattern (25 bp):
AATAGAAAATAAATGGGCATGGCCC
Found at i:9949704 original size:25 final size:25
Alignment explanation
Indices: 9949626--9949704 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 25
9949616 ATAAATGGGC
** **
9949626 ATGGCCCAATAGAAAATAAATGGGC
1 ATGGCCCAATAGAAAATAAAAAGAA
** *
9949651 ATGGCCCAATAGAAAATAAGTAGAC
1 ATGGCCCAATAGAAAATAAAAAGAA
* *
9949676 ATGGCCCAATAGGAAATAAAAATAA
1 ATGGCCCAATAGAAAATAAAAAGAA
9949701 ATGG
1 ATGG
9949705 GCTTATCCCA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.48, C:0.14, G:0.22, T:0.16
Consensus pattern (25 bp):
ATGGCCCAATAGAAAATAAAAAGAA
Found at i:9950743 original size:26 final size:26
Alignment explanation
Indices: 9950687--9950745 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
9950677 GGCCAGCCAT
* *
9950687 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
9950713 GAGGAAAGGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
9950739 AAGGAAA
1 AAGGAAA
9950746 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Found at i:9964274 original size:43 final size:43
Alignment explanation
Indices: 9964146--9964277 Score: 142
Period size: 43 Copynumber: 3.1 Consensus size: 43
9964136 GTAATTATAT
* * *
9964146 TGACTCAGCTATGTGCGAGTAGGGAGTGTGTATAAG-TCGAG-GA
1 TGACCCAGCTATGTGCGAGTAGGGAGTGCGCATAAGCT-G-GTGA
* * * * *
9964189 TGACCCGGTTATGTGCGAGTTGGGAGTGCGCATAACCCGGTGA
1 TGACCCAGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGA
* *
9964232 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
1 TGACCCAGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGA
9964275 TGA
1 TGA
9964278 TGATGATGGG
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 71 0.99
ACGTcount: A:0.22, C:0.17, G:0.38, T:0.23
Consensus pattern (43 bp):
TGACCCAGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGA
Found at i:9964749 original size:60 final size:60
Alignment explanation
Indices: 9964672--9964787 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 60
9964662 TTATTTTTGA
*
9964672 GTTACAATTTCACTGCAGCGAGATTGAATTTCACTGCAGC-GAGAAACATTCTGTTTCTGG
1 GTTACAATTTCACTGCAGCGAGATTGAATCTCACTGCAGCGGA-AAACATTCTGTTTCTGG
* * *
9964732 GTTACAATTTCATTGCAGCGAGATTGAATCTCGCTGCAGCGGAAAACCTTCTGTTT
1 GTTACAATTTCACTGCAGCGAGATTGAATCTCACTGCAGCGGAAAACATTCTGTTT
9964788 TGGTGTCCTC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 49 0.96
61 2 0.04
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (60 bp):
GTTACAATTTCACTGCAGCGAGATTGAATCTCACTGCAGCGGAAAACATTCTGTTTCTGG
Found at i:9966504 original size:21 final size:23
Alignment explanation
Indices: 9966475--9966517 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
9966465 ACCCTAGGTG
*
9966475 GAAACATTCAAGGGAA-AAGTGT
1 GAAACATTCAAGGAAACAAGTGT
9966497 GAAA-ATTCAAGGAAACAAGTG
1 GAAACATTCAAGGAAACAAGTG
9966518 AAAAAAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.49, C:0.09, G:0.26, T:0.16
Consensus pattern (23 bp):
GAAACATTCAAGGAAACAAGTGT
Found at i:9966522 original size:21 final size:20
Alignment explanation
Indices: 9966475--9966522 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
9966465 ACCCTAGGTG
* *
9966475 GAAACATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
9966495 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
9966517 GAAAAA
1 GAAAAA
9966523 AAGGTAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.54, C:0.08, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:9968807 original size:18 final size:17
Alignment explanation
Indices: 9968784--9968843 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
9968774 GATAATTTAA
9968784 TTAATTACGCTCAATTAT
1 TTAATTA-GCTCAATTAT
** *
9968802 TTAATTA-AACAATTTAA
1 TTAATTAGCTCAA-TTAT
9968819 TTAATTAGGCTCAATTAT
1 TTAATTA-GCTCAATTAT
9968837 TTAATTA
1 TTAATTA
9968844 AACAATTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 3 0.09
17 10 0.30
18 17 0.52
19 3 0.09
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (17 bp):
TTAATTAGCTCAATTAT
Found at i:9968861 original size:35 final size:35
Alignment explanation
Indices: 9968777--9968883 Score: 166
Period size: 35 Copynumber: 3.1 Consensus size: 35
9968767 GGGTCATGAT
*
9968777 AATTTAATTAATTACGCTCAATTATTTAATTAAAC
1 AATTTAATTAATTAGGCTCAATTATTTAATTAAAC
9968812 AATTTAATTAATTAGGCTCAATTATTTAATTAAAC
1 AATTTAATTAATTAGGCTCAATTATTTAATTAAAC
* *
9968847 AATTTAATTAATTAGGCAC-A--ACTTAATTAAAC
1 AATTTAATTAATTAGGCTCAATTATTTAATTAAAC
9968879 AATTT
1 AATTT
9968884 TAATCAAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
32 16 0.23
34 1 0.01
35 52 0.75
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (35 bp):
AATTTAATTAATTAGGCTCAATTATTTAATTAAAC
Found at i:9972217 original size:25 final size:25
Alignment explanation
Indices: 9972164--9972223 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
9972154 AGCCTATGAT
** *
9972164 ATATATGTGGCAAGGCCACGGGTTT
1 ATATATGTGGCAAGGCCACAAGTTG
*
9972189 ATATATGTGGCTAGGCCACAAGTTG
1 ATATATGTGGCAAGGCCACAAGTTG
*
9972214 ATATACGTGG
1 ATATATGTGG
9972224 TTGCGACCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (25 bp):
ATATATGTGGCAAGGCCACAAGTTG
Found at i:9980245 original size:25 final size:25
Alignment explanation
Indices: 9980211--9980259 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
9980201 TCTGTGATAT
*
9980211 ATATATATGGCAAGGCCACGAGTTG
1 ATATATATGGCAAGGCCACAAGTTG
**
9980236 ATATATATGGTTAGGCCACAAGTT
1 ATATATATGGCAAGGCCACAAGTT
9980260 CATTTACGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (25 bp):
ATATATATGGCAAGGCCACAAGTTG
Found at i:9985627 original size:40 final size:40
Alignment explanation
Indices: 9985582--9985660 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
9985572 TTGCTTATTT
9985582 ACATTAAATATCTTAAATAAATAAAGAGTAAAAGGTAAAG
1 ACATTAAATATCTTAAATAAATAAAGAGTAAAAGGTAAAG
* *
9985622 ACATTAAATATCTTAAATAAATAGAGCGTAAAAGGTAAA
1 ACATTAAATATCTTAAATAAATAAAGAGTAAAAGGTAAA
9985661 AAGGACATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.56, C:0.06, G:0.13, T:0.25
Consensus pattern (40 bp):
ACATTAAATATCTTAAATAAATAAAGAGTAAAAGGTAAAG
Found at i:9985815 original size:29 final size:29
Alignment explanation
Indices: 9985773--9985841 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
9985763 GTTCATGATG
*
9985773 TATCGATACATTTTCTCCAAAACCAAATA
1 TATCGATACATTTTCTACAAAACCAAATA
* *
9985802 TATCAATACATTTTCTACAAAACCAAATG
1 TATCGATACATTTTCTACAAAACCAAATA
9985831 TATCGATACAT
1 TATCGATACAT
9985842 GGGCCAATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.32
Consensus pattern (29 bp):
TATCGATACATTTTCTACAAAACCAAATA
Found at i:9986579 original size:21 final size:21
Alignment explanation
Indices: 9986553--9986598 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
9986543 TCAAGAACGA
9986553 AAATGATTTTCCAAGAAAAAT
1 AAATGATTTTCCAAGAAAAAT
9986574 AAATGATTTTCCAAGAAAAAT
1 AAATGATTTTCCAAGAAAAAT
9986595 AAAT
1 AAAT
9986599 TCTTAGTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (21 bp):
AAATGATTTTCCAAGAAAAAT
Found at i:10004455 original size:63 final size:63
Alignment explanation
Indices: 10004351--10004469 Score: 211
Period size: 63 Copynumber: 1.9 Consensus size: 63
10004341 TCGCCGTCCC
10004351 CACAACCTTTATCATTAAACCGGCATTGCACTTCCCACTCCGCACATGTACGGTTGTAATTAT
1 CACAACCTTTATCATTAAACCGGCATTGCACTTCCCACTCCGCACATGTACGGTTGTAATTAT
* * *
10004414 CACATCCTTTATCATTCAACTGGCATTGCACTTCCCACTCCGCACATGTACGGTTG
1 CACAACCTTTATCATTAAACCGGCATTGCACTTCCCACTCCGCACATGTACGGTTG
10004470 CATCAATTTC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.30
Consensus pattern (63 bp):
CACAACCTTTATCATTAAACCGGCATTGCACTTCCCACTCCGCACATGTACGGTTGTAATTAT
Found at i:10010429 original size:22 final size:23
Alignment explanation
Indices: 10010398--10010444 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
10010388 ATATAGAGTT
10010398 ATTTAAGCTTAATT-TTGATAGTA
1 ATTTAAGCTTAATTCTTG-TAGTA
*
10010421 ATTT-AGCTTAGTTCTTGTAGTA
1 ATTTAAGCTTAATTCTTGTAGTA
10010443 AT
1 AT
10010445 GCATAGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (23 bp):
ATTTAAGCTTAATTCTTGTAGTA
Found at i:10012461 original size:19 final size:18
Alignment explanation
Indices: 10012429--10012464 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10012419 TGGAAGTTAA
*
10012429 TTTTTTTTTTTTTCCTTG
1 TTTTTTTTTATTTCCTTG
10012447 TTTTTTTTTCATTTCCTT
1 TTTTTTTTT-ATTTCCTT
10012465 TCTCTTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTTTTTTTATTTCCTTG
Found at i:10013315 original size:42 final size:42
Alignment explanation
Indices: 10013268--10013441 Score: 222
Period size: 42 Copynumber: 4.1 Consensus size: 42
10013258 GTAATGATAT
* * * *
10013268 TGACCCGGCTATGTGTGAGTAGGAGTGTGCATAAGCCGATAC
1 TGACCCGGCTATGTGCGAGGAGGAGTGCGCATAAGCCGATGC
* * * *
10013310 TGACCCGACCATGTGCGAGGGGGAGTGCGCATAAGCTGATGC
1 TGACCCGGCTATGTGCGAGGAGGAGTGCGCATAAGCCGATGC
* *
10013352 TGACCCGGCTATGTGCAAGGAGGAGTGCGCATAAGCCGAATGT
1 TGACCCGGCTATGTGCGAGGAGGAGTGCGCATAAGCCG-ATGC
* * *
10013395 TGACCCGGCTATGTCCGAGTAGGAGTGTGCATAAGCCGATGC
1 TGACCCGGCTATGTGCGAGGAGGAGTGCGCATAAGCCGATGC
10013437 TGACC
1 TGACC
10013442 TAGCCATGTG
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 75 0.67
43 37 0.33
ACGTcount: A:0.23, C:0.22, G:0.34, T:0.20
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGGAGGAGTGCGCATAAGCCGATGC
Found at i:10013464 original size:85 final size:84
Alignment explanation
Indices: 10013288--10013452 Score: 204
Period size: 85 Copynumber: 2.0 Consensus size: 84
10013278 ATGTGTGAGT
* * * *
10013288 AGGAGTGTGCATAAGCCGATACTGACCCGACCATGTGCGAGGGGGAGTGCGCATAAGCTGATGCT
1 AGGAGTGCGCATAAGCCGATACTGACCCGACCATGTCCGAGGAGGAGTGCGCATAAGCCGATGCT
* *
10013353 GACCCGGCTATGTGCAAGG
66 GACCCAGCCATGTGCAAGG
** * * * *
10013372 AGGAGTGCGCATAAGCCGAATGTTGACCCGGCTATGTCCGAGTAGGAGTGTGCATAAGCCGATGC
1 AGGAGTGCGCATAAGCCG-ATACTGACCCGACCATGTCCGAGGAGGAGTGCGCATAAGCCGATGC
*
10013437 TGACCTAGCCATGTGC
65 TGACCCAGCCATGTGC
10013453 TAGTGAGAGT
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
84 17 0.25
85 50 0.75
ACGTcount: A:0.24, C:0.23, G:0.34, T:0.19
Consensus pattern (84 bp):
AGGAGTGCGCATAAGCCGATACTGACCCGACCATGTCCGAGGAGGAGTGCGCATAAGCCGATGCT
GACCCAGCCATGTGCAAGG
Found at i:10017307 original size:43 final size:43
Alignment explanation
Indices: 10017219--10017350 Score: 176
Period size: 43 Copynumber: 3.1 Consensus size: 43
10017209 GTAATGACAT
* * * * *
10017219 TGACTCGGCTATGTGCGAGTAGGGAATGCACATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATGAGCTG-GTGA
*
10017262 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
* *
10017305 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
10017348 TGA
1 TGA
10017351 TGATGATGGG
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.01
43 78 0.99
ACGTcount: A:0.23, C:0.18, G:0.39, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
Found at i:10017756 original size:39 final size:39
Alignment explanation
Indices: 10017702--10017793 Score: 121
Period size: 39 Copynumber: 2.4 Consensus size: 39
10017692 AAATTCATTC
* * * *
10017702 TCGCTGCAACGAGAAACTTTTTATTTCTGGGTTACAATT
1 TCGCTGCAACGAGAAACTTTCTATTTCTAGATCACAATT
* *
10017741 TCGCTGCAGCGAGAAACTTTCTGTTTCTAGATCACAATT
1 TCGCTGCAACGAGAAACTTTCTATTTCTAGATCACAATT
*
10017780 TCGCTGCAATGAGA
1 TCGCTGCAACGAGA
10017794 TTCAATCTCG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (39 bp):
TCGCTGCAACGAGAAACTTTCTATTTCTAGATCACAATT
Found at i:10025703 original size:15 final size:16
Alignment explanation
Indices: 10025673--10025704 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10025663 CAAAAATGAC
10025673 TTTAATTCTATTAAAT
1 TTTAATTCTATTAAAT
10025689 TTTAATTCT-TTAAAT
1 TTTAATTCTATTAAAT
10025704 T
1 T
10025705 CTTCATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTAATTCTATTAAAT
Found at i:10027092 original size:21 final size:21
Alignment explanation
Indices: 10027050--10027092 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10027040 TTCTTCTCGG
* *
10027050 TTTATTGGGTTTTGCTTCTTA
1 TTTATTGGGTTATGCTTATTA
10027071 TTTATTGGGTTAATG-TTATTA
1 TTTATTGGGTT-ATGCTTATTA
10027092 T
1 T
10027093 CTTTAAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.16, C:0.05, G:0.19, T:0.60
Consensus pattern (21 bp):
TTTATTGGGTTATGCTTATTA
Found at i:10030639 original size:15 final size:16
Alignment explanation
Indices: 10030614--10030647 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10030604 AGATAATTCT
10030614 TATTAAAATTTAAACA
1 TATTAAAATTTAAACA
*
10030630 TATT-AAATTTAAATA
1 TATTAAAATTTAAACA
10030645 TAT
1 TAT
10030648 ATCATATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TATTAAAATTTAAACA
Found at i:10034558 original size:71 final size:69
Alignment explanation
Indices: 10034480--10034665 Score: 225
Period size: 71 Copynumber: 2.7 Consensus size: 69
10034470 TTACTTATTT
* *
10034480 AATTTAATCAATTAGGCCTAATAACTTAATTAAACAATTTAA-CTAATTAAGCCCAATAATTTAA
1 AATTTAATCAATTAGG-CTAATAACTTAATTAAACAATTTAATC-AACTAAGCCCAATAACTTAA
10034544 TTAAAC
64 TTAAAC
* * * *
10034550 AATTTTAATCAATTAGGTTGAATGACTTAATTAAACAATTTTAATCAACTAGGCCCAATGACTTA
1 AA-TTTAATCAATTAGGCT-AATAACTTAATTAAACAA-TTTAATCAACTAAGCCCAATAACTTA
10034615 ATTAAAC
63 ATTAAAC
* *
10034622 AATTTAATTAATTAGGC--ACAACTTAATTAAACAATTTTAATCAA
1 AATTTAATCAATTAGGCTAATAACTTAATTAAACAA-TTTAATCAA
10034666 GTGCTTGAGA
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
68 25 0.25
70 3 0.03
71 44 0.43
72 29 0.28
73 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (69 bp):
AATTTAATCAATTAGGCTAATAACTTAATTAAACAATTTAATCAACTAAGCCCAATAACTTAATT
AAAC
Found at i:10034564 original size:36 final size:36
Alignment explanation
Indices: 10034482--10034665 Score: 218
Period size: 36 Copynumber: 5.2 Consensus size: 36
10034472 ACTTATTTAA
*
10034482 TTTAATCAATTAGGCCTAATAACTTAATTAAACAA-
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
* *
10034517 TTTAA-CTAATTAAGCCCAATAATTTAATTAAACAAT
1 TTTAATC-AATTAGGCCCAATAACTTAATTAAACAAT
*** *
10034553 TTTAATCAATTAGGTTGAATGACTTAATTAAACAAT
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
* *
10034589 TTTAATCAACTAGGCCCAATGACTTAATTAAACAA-
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
* *
10034624 TTTAATTAATTAGG--C-ACAACTTAATTAAACAAT
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
10034657 TTTAATCAA
1 TTTAATCAA
10034666 GTGCTTGAGA
Statistics
Matches: 127, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
32 15 0.12
33 9 0.07
34 1 0.01
35 42 0.33
36 59 0.46
37 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.35
Consensus pattern (36 bp):
TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
Found at i:10037299 original size:19 final size:18
Alignment explanation
Indices: 10037261--10037299 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10037251 GTACTCTATT
* *
10037261 TTTCAAAATCATTATTAA
1 TTTCAAAATAATTATAAA
10037279 TTTCAAAATAATTTATAAA
1 TTTCAAAATAA-TTATAAA
10037298 TT
1 TT
10037300 AATTTCATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTCAAAATAATTATAAA
Found at i:10039886 original size:68 final size:68
Alignment explanation
Indices: 10039775--10040036 Score: 276
Period size: 68 Copynumber: 3.9 Consensus size: 68
10039765 ACAAGCTTAC
* * * * *
10039775 TCATCTCGTAAGGTATATGGAAAATACATCATATACATAATCTCATGGCATTCATCATGCTTTCT
1 TCATCTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACT
10039840 CAA
66 CAA
* * * *
10039843 TCATCTCATGTGGTATATGGAATATAAATCATGA-ACATCATCTCATGGCATTTATCATGCATAC
1 TCATCTCATATGGTATATGGAATATACATCAT-ATACATAATCTCATGGCATTCATCATGCATAC
10039907 -CTAA
65 TC-AA
* * * *** * * * *
10039911 TCACCTCATATGGTATATGAAATTTACATCATATACACGGTCTTATAGTATACATCATGCATACT
1 TCATCTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACT
*
10039976 TAA
66 CAA
* * * *
10039979 GCATCTCCTATGGTATATGGAATTTACATCATATACATAATCTTATGGCATTCATCAT
1 TCATCTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCAT
10040037 ACAAGACATG
Statistics
Matches: 157, Mismatches: 33, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
67 2 0.01
68 154 0.98
69 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (68 bp):
TCATCTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACT
CAA
Found at i:10043891 original size:14 final size:14
Alignment explanation
Indices: 10043872--10043901 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10043862 GTAATATGCC
10043872 CAAACAGTTGGCTA
1 CAAACAGTTGGCTA
10043886 CAAACAGTTGGCTA
1 CAAACAGTTGGCTA
10043900 CA
1 CA
10043902 TTATTGTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (14 bp):
CAAACAGTTGGCTA
Found at i:10045129 original size:80 final size:80
Alignment explanation
Indices: 10044964--10045130 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
10044954 ATAACATTTC
*
10044964 CATAAATCATCATCATGCTTCACCTATAGTGTATATGACTATCTCAACACATACATCTCATGCTA
1 CATAAATCATCATCATGCTTCACCTATAGTGTACATGACTATCTCAACACATACATCTCATGCTA
*
10045029 TACATTTAATAACCT
66 TACATTTAACAACCT
* ** * *
10045044 TATAAATCATTCA-CATGCTTTGCCTATAGTGTACATGA-TATGCTTAACACATACATCTGATGG
1 CATAAATCA-TCATCATGCTTCACCTATAGTGTACATGACTAT-CTCAACACATACATCTCAT-G
*
10045107 C-ATACATGTT-ACAATCT
63 CTATACAT-TTAACAACCT
10045124 CATAAAT
1 CATAAAT
10045131 GGAACTCATG
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
79 3 0.04
80 64 0.86
81 7 0.09
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (80 bp):
CATAAATCATCATCATGCTTCACCTATAGTGTACATGACTATCTCAACACATACATCTCATGCTA
TACATTTAACAACCT
Found at i:10059351 original size:20 final size:20
Alignment explanation
Indices: 10059326--10059371 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
10059316 TTTTGACCCC
10059326 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
10059346 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
10059366 ATTTGA
1 ATTTGA
10059372 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:10059447 original size:28 final size:27
Alignment explanation
Indices: 10059416--10059468 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
10059406 TTTGGAGTAT
*
10059416 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
10059444 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
10059469 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:10059474 original size:28 final size:28
Alignment explanation
Indices: 10059416--10059474 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
10059406 TTTGGAGTAT
* *
10059416 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
10059444 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
10059472 AGG
1 AGG
10059475 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:10066738 original size:28 final size:26
Alignment explanation
Indices: 10066703--10066754 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
10066693 TTATCTCCTA
10066703 TTGGGCCATGTCCATTTTTATTTTCTAC
1 TTGGGCCATG-CCATTTTT-TTTTCTAC
*
10066731 TTGGGCCATGCCCTTTTTTTTTCT
1 TTGGGCCATGCCATTTTTTTTTCT
10066755 CTCATCCACG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.26
27 7 0.30
28 10 0.43
ACGTcount: A:0.10, C:0.23, G:0.15, T:0.52
Consensus pattern (26 bp):
TTGGGCCATGCCATTTTTTTTTCTAC
Found at i:10073064 original size:2 final size:2
Alignment explanation
Indices: 10073057--10073082 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10073047 TTTACGTCTA
10073057 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10073083 TTCAAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10080647 original size:37 final size:37
Alignment explanation
Indices: 10080598--10080790 Score: 291
Period size: 37 Copynumber: 5.2 Consensus size: 37
10080588 TAATGTTGTG
10080598 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* *
10080635 TGATGATGTTGAACTGTGCGAGTAAGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
*
10080672 TGATGATGTT-AGAGTGTGCGAGTAGGGAGTACACACA
1 TGATGATGTTGA-AGTGTGCGAGTAGGGAGTGCACACA
10080709 TGATGATGTT-AGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGA-AGTGTGCGAGTAGGGAGTGCACACA
* * **
10080746 TGATGATGTTGAAGTGTACGAGTAGGAAAAGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
10080783 TGATGATG
1 TGATGATG
10080791 ATATTGCATT
Statistics
Matches: 144, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
36 1 0.01
37 142 0.99
38 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.35, T:0.24
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:10085276 original size:39 final size:39
Alignment explanation
Indices: 10085192--10085294 Score: 111
Period size: 39 Copynumber: 2.6 Consensus size: 39
10085182 CTTCTGCCCT
* *
10085192 ATGACTTTGATATTTCGTCAGTGGCTTTGGCACTAACCG
1 ATGACTTTGATATTTCGTCAGTGGCCTTGGCACTAACCA
* *
10085231 ACGACTTTGATA-TTCTGTCGGTGGCCTTGGCACTGAA-CA
1 ATGACTTTGATATTTC-GTCAGTGGCCTTGGCACT-AACCA
* * *
10085270 ATGACTTTGATGTTCCGTCAATGGC
1 ATGACTTTGATATTTCGTCAGTGGC
10085295 TTCGACACTA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
38 3 0.06
39 45 0.87
40 4 0.08
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.34
Consensus pattern (39 bp):
ATGACTTTGATATTTCGTCAGTGGCCTTGGCACTAACCA
Found at i:10098966 original size:27 final size:27
Alignment explanation
Indices: 10098931--10099009 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
10098921 AGTGTTGGGT
* *
10098931 GGTGTAAAATTATAATTTTGCCCCTGG
1 GGTGCAAAATGATAATTTTGCCCCTGG
* *
10098958 GGTGCAAAATGATTATTTTGCCCCTTG
1 GGTGCAAAATGATAATTTTGCCCCTGG
*
10098985 GGTGCAAAATGACT-ATTTTACCCCT
1 GGTGCAAAATGA-TAATTTTGCCCCT
10099010 ATGCTTGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTGCAAAATGATAATTTTGCCCCTGG
Found at i:10107507 original size:17 final size:17
Alignment explanation
Indices: 10107482--10107541 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
10107472 GATATTAGCA
*
10107482 TAAACATATTCTCGAGT
1 TAAAAATATTCTCGAGT
* *
10107499 TAAAAATA-TCT-TAGCG
1 TAAAAATATTCTCGAG-T
*
10107515 TAAACATATTCTCGAGT
1 TAAAAATATTCTCGAGT
10107532 TAAAAATATT
1 TAAAAATATT
10107542 TAAAGATATA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
15 2 0.06
16 10 0.30
17 19 0.58
18 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (17 bp):
TAAAAATATTCTCGAGT
Found at i:10107513 original size:33 final size:33
Alignment explanation
Indices: 10107476--10107540 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
10107466 TTTAAAGATA
10107476 TTAGCATAAACATATTCTCGAGTTAAAAATATC
1 TTAGCATAAACATATTCTCGAGTTAAAAATATC
*
10107509 TTAGCGTAAACATATTCTCGAGTTAAAAATAT
1 TTAGCATAAACATATTCTCGAGTTAAAAATAT
10107541 TTAAAGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TTAGCATAAACATATTCTCGAGTTAAAAATATC
Found at i:10108357 original size:251 final size:251
Alignment explanation
Indices: 10107520--10108475 Score: 1250
Period size: 251 Copynumber: 3.8 Consensus size: 251
10107510 TAGCGTAAAC
* * * * * * *
10107520 ATATTCTCGAGTTAAAAATATTTAAAGATATATAAATTTTAATTTTTAAATAAAGAATAATAACA
1 ATATTCTCAAGCTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAGAATAATAACG
* * * *
10107585 ATAAAAATAATTATAGTTCAAAATTTACATAGAAAAAGCTTTAATGTAAAACTGTAAGGATTGAC
66 ATAAAAATAATTATAGTTCAAAATTGACATAG-AAAAGCTTTAACGTAAAACTGTAAGAATTAAC
10107650 GTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAATGTAAATGTGTGAGAGTTAACG
130 GTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAATGTAAATGTGTGAGAGTTAACG
* * * ** *
10107715 TAGCAAGTCAATTAACGAAGAAAAATCTAATTTTAATGAAAATCAAATATTCAAATTT
195 TAACAAGTCAATTAA-AAAAAAAAATCTAATTTTAATGAAAAAAAAATATTTAAATTT
* * *
10107773 ATGTTCTCAAGCTAAAAGTGTTTAACAATATAAAAATTTT-ATTTTTAAATAAAGAATAATAAGG
1 ATATTCTCAAGCTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAGAATAATAACG
* * * ** ** * **
10107837 ATGAAAATAATTATAGTTCAAAGTTGACGTAGAATTGCCCTGACGTAAAACTACAAGAATTAACG
66 ATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCTTTAACGTAAAACTGTAAGAATTAACG
* * * **
10107902 TAAAAAGTTATAAAGGTGAAATAAATAAATTTTAAATCTTAGCGTAAATGTGTGAGAGTTAACGT
131 TAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAATGTAAATGTGTGAGAGTTAACGT
* * *
10107967 TACAATTCAATTAAGTAAAAAAAAAATCTAATTTTAATGATAAAAAAATATTTAAATTT
196 AACAAGTCAATT-A--AAAAAAAAAATCTAATTTTAATGAAAAAAAAATATTTAAATTT
* * * * * *
10108026 ATATTCTCATGTTAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAACAATAATATCG
1 ATATTCTCAAGCTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAGAATAATAACG
* * *
10108091 ATAAAAATAATTATAGTTCAAAATTAACATAGAAAAGCTTTAATGTAAAACTGTAAGAATTAACA
66 ATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCTTTAACGTAAAACTGTAAGAATTAACG
* * *
10108156 TAAAAACTTATAAAGGTAGAATAACTAAATTGTAAATCTTAATGTAAATGTATGAGAGTTAACGT
131 TAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAATGTAAATGTGTGAGAGTTAACGT
* *
10108221 AACAAGTCAATTAAATAAAAAAATCTAATTTGAATGAAAAAAAAATATTTAAATTT
196 AACAAGTCAATTAAAAAAAAAAATCTAATTTTAATGAAAAAAAAATATTTAAATTT
** * * *
10108277 ATATTCTCGGGCTAAAAGTGCTTAACGATATAAAAATTTTAATTTTTAAATAAAGAATAACAAGG
1 ATATTCTCAAGCTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAGAATAATAACG
* * * * * *
10108342 ATCAAAATAATTATAGTTCAAAGTTGACATTGAAAATG-TCTTGACGTAAAACTGTAAAAATTGA
66 ATAAAAATAATTATAGTTCAAAATTGACATAGAAAA-GCT-TTAACGTAAAACTGTAAGAATTAA
* *
10108406 CGTAAAAATTTATAAAGGTGGAATAACTAAATTTTAAATCTTAATGTAAATATGTGAGAGTTAAC
129 CGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAATGTAAATGTGTGAGAGTTAAC
10108471 GTAAC
194 GTAAC
10108476 TCTTATTTAT
Statistics
Matches: 600, Mismatches: 97, Indels: 13
0.85 0.14 0.02
Matches are distributed among these distances:
251 220 0.37
252 136 0.23
253 103 0.17
254 141 0.23
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (251 bp):
ATATTCTCAAGCTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAGAATAATAACG
ATAAAAATAATTATAGTTCAAAATTGACATAGAAAAGCTTTAACGTAAAACTGTAAGAATTAACG
TAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAATGTAAATGTGTGAGAGTTAACGT
AACAAGTCAATTAAAAAAAAAAATCTAATTTTAATGAAAAAAAAATATTTAAATTT
Found at i:10108472 original size:506 final size:506
Alignment explanation
Indices: 10107520--10108472 Score: 1489
Period size: 506 Copynumber: 1.9 Consensus size: 506
10107510 TAGCGTAAAC
*
10107520 ATATTCTCGAGTTAAAAATATTTAAAGATATATAAATTTTAATTTTTAAATAAAGAATAATAACA
1 ATATTCTCGAGTTAAAAATATTTAAAGATATATAAATTTTAATTTTTAAATAAACAATAATAACA
* * *
10107585 ATAAAAATAATTATAGTTCAAAATTTACATAGAAAAAGCTTTAATGTAAAACTGTAAGGATTGAC
66 ATAAAAATAATTATAGTTCAAAATTAACATAGAAAAAGCTTTAATGTAAAACTGTAAGAATTAAC
* * * *
10107650 GTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAATGTAAATGTGTGAGAGTTAACG
131 ATAAAAACTTATAAAGGTAGAATAACTAAATTGTAAATCTTAATGTAAATGTATGAGAGTTAACG
* * * ** *
10107715 TAGCAAGTCAATTAACGAAGAAAAATCTAATTTTAATGAAAATCAAATATTCAAATTTATGTTCT
196 TAACAAGTCAATTAAAGAAGAAAAATCTAATTTGAATGAAAAAAAAATATTCAAATTTATATTCT
* * *
10107780 CAAGCTAAAAGTGTTTAACAATATAAAAATTTTATTTTTAAATAAAGAATAATAAGGATGAAAAT
261 CAAGCTAAAAGTGCTTAACAATATAAAAATTTTATTTTTAAATAAAGAATAACAAGGATCAAAAT
* * *
10107845 AATTATAGTTCAAAGTTGACGTAGAATTGCCCTGACGTAAAACTACAAGAATTAACGTAAAAAGT
326 AATTATAGTTCAAAGTTGACATAGAAATGCCCTGACGTAAAACTACAAAAATTAACGTAAAAAGT
* *
10107910 TATAAAGGTGAAATAAATAAATTTTAAATCTTAGCGTAAATGTGTGAGAGTTAACGTTACAATTC
391 TATAAAGGTGAAATAAATAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACGTTACAATTC
10107975 AATTAAGTAAAAAAAAAATCTAATTTTAATGATAAAAAAATATTTAAATTT
456 AATTAAGTAAAAAAAAAATCTAATTTTAATGATAAAAAAATATTTAAATTT
* * *
10108026 ATATTCTC-ATGTTAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAACAATAATATC
1 ATATTCTCGA-GTTAAAAATATTTAAAGATATATAAATTTTAATTTTTAAATAAACAATAATAAC
*
10108090 GATAAAAATAATTATAGTTCAAAATTAACATAG-AAAAGCTTTAATGTAAAACTGTAAGAATTAA
65 AATAAAAATAATTATAGTTCAAAATTAACATAGAAAAAGCTTTAATGTAAAACTGTAAGAATTAA
10108154 CATAAAAACTTATAAAGGTAGAATAACTAAATTGTAAATCTTAATGTAAATGTATGAGAGTTAAC
130 CATAAAAACTTATAAAGGTAGAATAACTAAATTGTAAATCTTAATGTAAATGTATGAGAGTTAAC
* *
10108219 GTAACAAGTCAATTAAATAA-AAAAATCTAATTTGAATGAAAAAAAAATATTTAAATTTATATTC
195 GTAACAAGTCAATTAAAGAAGAAAAATCTAATTTGAATGAAAAAAAAATATTCAAATTTATATTC
** *
10108283 TCGGGCTAAAAGTGCTTAACGATATAAAAATTTTAATTTTTAAATAAAGAATAACAAGGATCAAA
260 TCAAGCTAAAAGTGCTTAACAATATAAAAATTTT-ATTTTTAAATAAAGAATAACAAGGATCAAA
* * * ** *
10108348 ATAATTATAGTTCAAAGTTGACATTGAAAATGTCTTGACGTAAAACTGTAAAAATTGACGTAAAA
324 ATAATTATAGTTCAAAGTTGACATAG-AAATGCCCTGACGTAAAACTACAAAAATTAACGTAAAA
* * * *
10108413 ATTTATAAAGGTGGAATAACTAAATTTTAAATCTTAATGTAAATATGTGAGAGTTAACGT
388 AGTTATAAAGGTGAAATAAATAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACGT
10108473 AACTCTTATT
Statistics
Matches: 403, Mismatches: 41, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
504 69 0.17
505 160 0.40
506 174 0.43
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (506 bp):
ATATTCTCGAGTTAAAAATATTTAAAGATATATAAATTTTAATTTTTAAATAAACAATAATAACA
ATAAAAATAATTATAGTTCAAAATTAACATAGAAAAAGCTTTAATGTAAAACTGTAAGAATTAAC
ATAAAAACTTATAAAGGTAGAATAACTAAATTGTAAATCTTAATGTAAATGTATGAGAGTTAACG
TAACAAGTCAATTAAAGAAGAAAAATCTAATTTGAATGAAAAAAAAATATTCAAATTTATATTCT
CAAGCTAAAAGTGCTTAACAATATAAAAATTTTATTTTTAAATAAAGAATAACAAGGATCAAAAT
AATTATAGTTCAAAGTTGACATAGAAATGCCCTGACGTAAAACTACAAAAATTAACGTAAAAAGT
TATAAAGGTGAAATAAATAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACGTTACAATTC
AATTAAGTAAAAAAAAAATCTAATTTTAATGATAAAAAAATATTTAAATTT
Found at i:10110470 original size:40 final size:40
Alignment explanation
Indices: 10110414--10110518 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
10110404 ATAGTGCCCG
* *
10110414 TGTGCACGATGTGGGGGGATGTACATGATGGCATTGA-T-
1 TGTGCACGATGTGGGGGGATGTACACGATGGCATCGATTA
* * **
10110452 TGTGCATGATGTGGGGGGGAATGCACACGATGGTGTCGATTA
1 TGTGCACGATGT-GGGGGG-ATGTACACGATGGCATCGATTA
10110494 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
10110519 GAGCCGGGTG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
38 11 0.20
39 6 0.11
40 20 0.36
41 7 0.13
42 11 0.20
ACGTcount: A:0.21, C:0.11, G:0.41, T:0.27
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGCATCGATTA
Found at i:10112993 original size:43 final size:43
Alignment explanation
Indices: 10112924--10113053 Score: 172
Period size: 43 Copynumber: 3.0 Consensus size: 43
10112914 TTGTGTGATA
* *
10112924 ATGAGGACCCAGCTATGTGCATTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTG
*
10112967 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTTG
1 ATGATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGC-TG
* * * * *
10113011 -TGATGACTCGGCTATGTGTAGTGTGAGAGTGCACATGACCTG
1 ATGATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTG
10113053 A
1 A
10113054 ATGTGGCGGG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
42 2 0.03
43 72 0.95
44 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTG
Found at i:10115459 original size:2 final size:2
Alignment explanation
Indices: 10115449--10115480 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
10115439 CATAACACAC
*
10115449 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10115481 TCACATCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:10115605 original size:42 final size:43
Alignment explanation
Indices: 10115507--10115597 Score: 157
Period size: 42 Copynumber: 2.1 Consensus size: 43
10115497 ACCATCCCAC
* *
10115507 CATCATCAGCTCATGTGCACTTCCCACTCGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTTCCCACACGCACATAACTGGGT
10115550 CATCATCAGCTCATGTGCAC-TCCCACACGCACATAACTGGGT
1 CATCATCAGCTCATGTGCACTTCCCACACGCACATAACTGGGT
10115592 CATCAT
1 CATCAT
10115598 TATCTCATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 26 0.57
43 20 0.43
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.24
Consensus pattern (43 bp):
CATCATCAGCTCATGTGCACTTCCCACACGCACATAACTGGGT
Found at i:10123019 original size:42 final size:42
Alignment explanation
Indices: 10122960--10123082 Score: 228
Period size: 42 Copynumber: 2.9 Consensus size: 42
10122950 GTTGATTTGA
10122960 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
10123002 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
10123044 ACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
10123083 TTGCCTCCGT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.22
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
Found at i:10123353 original size:26 final size:26
Alignment explanation
Indices: 10123317--10123378 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
10123307 TTGCATATGA
10123317 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
10123343 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
10123369 GTTGATGATG
1 GATGATGATG
10123379 GGTATATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.40, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:10133575 original size:20 final size:20
Alignment explanation
Indices: 10133550--10133591 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10133540 CCTATAAATA
* *
10133550 TCATTTTTCTAGCAGCTTCT
1 TCATTTCTCCAGCAGCTTCT
*
10133570 TCATTTCTCCAGCCGCTTCT
1 TCATTTCTCCAGCAGCTTCT
10133590 TC
1 TC
10133592 TTCTTCTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.33, G:0.10, T:0.45
Consensus pattern (20 bp):
TCATTTCTCCAGCAGCTTCT
Found at i:10134406 original size:43 final size:43
Alignment explanation
Indices: 10134335--10134504 Score: 209
Period size: 43 Copynumber: 3.9 Consensus size: 43
10134325 TGATAATAAG
* * *
10134335 GACCTAGCTATGTGCGGTGTGGGCGTGCACATGAACTGATGAT
1 GACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGAT
*
10134378 GACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGTTGATGAT
1 GACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGAT
*
10134421 GACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTAATGATGAT
1 GACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGC---TGATGAT
****
10134467 GATATTGCT-TGTG-GGTGTAGGGAGTGCACATGAGCTGA
1 GACCCAGCTATGTGCGGTGT-GGGAGTGCACATGAGCTGA
10134505 GTGTGGCGAG
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
42 3 0.03
43 73 0.65
44 5 0.04
45 20 0.18
46 11 0.10
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGAT
Found at i:10139618 original size:9 final size:9
Alignment explanation
Indices: 10139606--10139647 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
10139596 AGGAAGGGAG
10139606 AGAAGAAAA
1 AGAAGAAAA
*
10139615 AGAAAAAGAA
1 AGAAGAA-AA
*
10139625 AGAAAAAAA
1 AGAAGAAAA
10139634 AGAAGAAAA
1 AGAAGAAAA
10139643 AGAAG
1 AGAAG
10139648 GTGATTGGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 21 0.70
10 9 0.30
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AGAAGAAAA
Found at i:10139627 original size:16 final size:16
Alignment explanation
Indices: 10139608--10139641 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10139598 GAAGGGAGAG
10139608 AAGAAAAAGAAA-AAGA
1 AAGAAAAA-AAAGAAGA
10139624 AAGAAAAAAAAGAAGA
1 AAGAAAAAAAAGAAGA
10139640 AA
1 AA
10139642 AAGAAGGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAAAGAAGA
Found at i:10140664 original size:60 final size:60
Alignment explanation
Indices: 10140562--10140799 Score: 361
Period size: 60 Copynumber: 4.0 Consensus size: 60
10140552 TTTGATTTAA
* *
10140562 AAAGGGGGACCTGAAGCCCCGATTCATAT-TGGGTGGCGTGGGTAGTTCCCACGAGTAGGT
1 AAAGGGGGACCTGAAGCCCCGATTTATATAT-GGTGGCATGGGTAGTTCCCACGAGTAGGT
* * * *
10140622 AAAGGGGGACCTAAAGCCCCGATTTGTGTATGGTGACATGGGTAGTTCCCACGAGTAGGT
1 AAAGGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGGT
*
10140682 AAAGGGGGACCTGAAGCCCCGATTTATGTATGGTGGCATGGGTAGTTCCCACGAGTAGGT
1 AAAGGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGGT
* * *
10140742 AAAGGGGGACTTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTTCCCACGAGTA
1 AAAGGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAG-TTCCCACGAGTA
10140800 AGTTATGATG
Statistics
Matches: 163, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
60 150 0.92
61 13 0.08
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (60 bp):
AAAGGGGGACCTGAAGCCCCGATTTATATATGGTGGCATGGGTAGTTCCCACGAGTAGGT
Found at i:10150176 original size:31 final size:31
Alignment explanation
Indices: 10150116--10150176 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
10150106 TATTATGGCA
* * *
10150116 TTTGGATTTGGTATTTGTCTCGACCTTGATC
1 TTTGGATTAGGTAATTGCCTCGACCTTGATC
* *
10150147 TTTGGATTAGGTAATTGCCTTGACTTTGAT
1 TTTGGATTAGGTAATTGCCTCGACCTTGAT
10150177 GTTTAGACAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.16, C:0.13, G:0.23, T:0.48
Consensus pattern (31 bp):
TTTGGATTAGGTAATTGCCTCGACCTTGATC
Found at i:10152979 original size:43 final size:43
Alignment explanation
Indices: 10152920--10153042 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 43
10152910 TTGTGTGATA
* * *
10152920 ATGATGACCCAGCTATGTGCGTTGT-GGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCG-AGTAGGGAGTGCACATAAGCCG
*
10152963 ATGATGACCC-GACTATGTGCGAGTAGGGAGTGCGCATAAGCCG
1 ATGATGACCCAG-CTATGTGCGAGTAGGGAGTGCACATAAGCCG
* * * * * *
10153006 ATGATGACTCGGTTATGTGCGGGTAAGGAGTGGACAT
1 ATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACAT
10153043 GACGATGAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.04
43 63 0.94
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.24
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACATAAGCCG
Found at i:10155033 original size:25 final size:25
Alignment explanation
Indices: 10154999--10155049 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
10154989 TTAAGTATAC
10154999 ATCATGCCCACCTAATTGTTAGGAG
1 ATCATGCCCACCTAATTGTTAGGAG
10155024 ATCATGCCCACCTAATTGTTAGGAG
1 ATCATGCCCACCTAATTGTTAGGAG
10155049 A
1 A
10155050 GTCAAAGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
ATCATGCCCACCTAATTGTTAGGAG
Found at i:10156590 original size:38 final size:38
Alignment explanation
Indices: 10156548--10156627 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
10156538 CTGACTCAGC
10156548 TCATGTGCACTCCCTACACACACAAGGCAATATCATCA
1 TCATGTGCACTCCCTACACACACAAGGCAATATCATCA
* * * * ***
10156586 TCATGTGCTCTCCTTACTCGCACATTTCAATATCATCA
1 TCATGTGCACTCCCTACACACACAAGGCAATATCATCA
10156624 TCAT
1 TCAT
10156628 CATCATCATG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.30
Consensus pattern (38 bp):
TCATGTGCACTCCCTACACACACAAGGCAATATCATCA
Found at i:10156657 original size:47 final size:47
Alignment explanation
Indices: 10156579--10156670 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
10156569 ACAAGGCAAT
* **
10156579 ATCATCATCATGTGCTCTCCTTACTCGCACATTTCAATATCATCATC
1 ATCATCATCATGTGCTCTCCCTACTAACACATTTCAATATCATCATC
*
10156626 ATCATCATCATGTG-TACTCCCTACTAACACATTTCAATCTCATCA
1 ATCATCATCATGTGCT-CTCCCTACTAACACATTTCAATATCATCA
10156671 CACAATGATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 1 0.03
47 39 0.98
ACGTcount: A:0.28, C:0.32, G:0.05, T:0.35
Consensus pattern (47 bp):
ATCATCATCATGTGCTCTCCCTACTAACACATTTCAATATCATCATC
Found at i:10158959 original size:55 final size:55
Alignment explanation
Indices: 10158874--10159088 Score: 277
Period size: 55 Copynumber: 3.9 Consensus size: 55
10158864 GTATACAACT
* * * *
10158874 ACCGGCTCATCAACTCATGTGCATTCCCACACCGCACATAGCTGGAATCATCATCC
1 ACCGG-TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCACCC
* * *
10158930 ACCGGTCATCAGCTCATGTGCACTCCCACACTGCACATAGTTGGAATCATCACCC
1 ACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCACCC
* * * ** *
10158985 ACTGATCATTAGCTCATGTGCACTCCCACACCATACTTAGCTAGAATCATCACCC
1 ACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCACCC
* * *
10159040 ACCGGTCATTAGCTCATGGGCCCTCCCACACCGCACATAGCTAGAATCA
1 ACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCA
10159089 CCTGTCATCA
Statistics
Matches: 138, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
55 133 0.96
56 5 0.04
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (55 bp):
ACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCACCC
Found at i:10162829 original size:55 final size:54
Alignment explanation
Indices: 10162737--10162919 Score: 213
Period size: 55 Copynumber: 3.3 Consensus size: 54
10162727 GTTAGAGTTA
* * *
10162737 TTTTAACGTGTCACGGCTATTCCTGGCGTGTTGTGGGTTAACTAGTTTTTTGGG
1 TTTTAGCGTGTCACGGCTGTTCCTGGCGTGTCGTGGGTTAACTAGTTTTTTGGG
* * ** *
10162791 TTGTTAGCGTGTCACGGCTGTTCCTAGCGTGTCATGGGTTAACTAAATTTATGGG
1 TT-TTAGCGTGTCACGGCTGTTCCTGGCGTGTCGTGGGTTAACTAGTTTTTTGGG
* * * * *
10162846 TTTTTAGCGTGTCACGACTGTTCTTGGCTTGTCGTGGGTTAACTGGTTTTTTGAG
1 -TTTTAGCGTGTCACGGCTGTTCCTGGCGTGTCGTGGGTTAACTAGTTTTTTGGG
*
10162901 TTTTCAACGTGTCACGGCT
1 TTTT-AGCGTGTCACGGCT
10162920 ATTGGTGTAA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 6 0.06
55 98 0.92
56 2 0.02
ACGTcount: A:0.14, C:0.16, G:0.28, T:0.41
Consensus pattern (54 bp):
TTTTAGCGTGTCACGGCTGTTCCTGGCGTGTCGTGGGTTAACTAGTTTTTTGGG
Found at i:10163004 original size:31 final size:31
Alignment explanation
Indices: 10162969--10163051 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
10162959 CACGACAGTG
*
10162969 ATGCATGGCGTGTCACGACATTTGAC-TTGAT
1 ATGCATGGCGTGTCACAACATTTGACGTT-AT
* *
10163000 ATGCATGGCGTGTTACAACATTTTACGTTAT
1 ATGCATGGCGTGTCACAACATTTGACGTTAT
*
10163031 ATGCATGGCGTGTAACAACAT
1 ATGCATGGCGTGTCACAACAT
10163052 GACTGAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
31 45 0.96
32 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (31 bp):
ATGCATGGCGTGTCACAACATTTGACGTTAT
Found at i:10171214 original size:31 final size:31
Alignment explanation
Indices: 10171179--10171446 Score: 288
Period size: 31 Copynumber: 8.7 Consensus size: 31
10171169 ATAAATGTGA
* * *
10171179 GACACGCCATGCAAAACAAGTAAAATATTGT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* *
10171210 GACACGCCGTGCATATCAAGTAAAAT-TTCT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* ** *
10171240 AACAAACCATGCATAACAAGTAAATTGTTCT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* * *
10171271 GACACGCCATGCATAACAAGTTAAACGTTGT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* * *
10171302 GACACGCCATGCATAACAATTAAATTGTTTT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
*
10171333 GAC-CTGCCATGCATAACAAGTAAATTGTTCT
1 GACAC-GCCATGCATAACAAGTAAAATGTTCT
* * * *
10171364 GACACACCATGCATAACAAGTTAAACGTTGT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* * *
10171395 GACACGCCATGCGTAACAATTAAATTGTTCT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* *
10171426 GACCCGTCATGCATAACAAGT
1 GACACGCCATGCATAACAAGT
10171447 TCTGGTGTGT
Statistics
Matches: 194, Mismatches: 40, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
30 24 0.12
31 169 0.87
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (31 bp):
GACACGCCATGCATAACAAGTAAAATGTTCT
Found at i:10171375 original size:93 final size:93
Alignment explanation
Indices: 10171179--10171446 Score: 376
Period size: 93 Copynumber: 2.9 Consensus size: 93
10171169 ATAAATGTGA
* * ** * * * * *
10171179 GACACGCCATGCAAAACAAGTAAAATATTGTGACACGCCGTGCATATCAAGTAAAAT-TTCTAAC
1 GACACGCCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAACAATTAAATTGTTCTGAC
* *
10171243 AAACCATGCATAACAAGTAAATTGTTCT
66 CAGCCATGCATAACAAGTAAATTGTTCT
*
10171271 GACACGCCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAACAATTAAATTGTTTTGAC
1 GACACGCCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAACAATTAAATTGTTCTGAC
*
10171336 CTGCCATGCATAACAAGTAAATTGTTCT
66 CAGCCATGCATAACAAGTAAATTGTTCT
* *
10171364 GACACACCATGCATAACAAGTTAAACGTTGTGACACGCCATGCGTAACAATTAAATTGTTCTGAC
1 GACACGCCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAACAATTAAATTGTTCTGAC
* *
10171429 CCGTCATGCATAACAAGT
66 CAGCCATGCATAACAAGT
10171447 TCTGGTGTGT
Statistics
Matches: 157, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 49 0.31
93 108 0.69
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (93 bp):
GACACGCCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAACAATTAAATTGTTCTGAC
CAGCCATGCATAACAAGTAAATTGTTCT
Found at i:10172257 original size:31 final size:31
Alignment explanation
Indices: 10172219--10172277 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
10172209 CCCAATTGTT
*
10172219 CTGACACGCTGAGTGAAAGTAGATTTATGGG
1 CTGACACGCTGAGTGAAAGCAGATTTATGGG
*
10172250 CTGACACGCTGAGTGGAAGCAGATTTAT
1 CTGACACGCTGAGTGAAAGCAGATTTAT
10172278 CAACTGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (31 bp):
CTGACACGCTGAGTGAAAGCAGATTTATGGG
Found at i:10172598 original size:16 final size:16
Alignment explanation
Indices: 10172579--10172640 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 16
10172569 TACAATGAAT
10172579 TGTATAAAATAAATTG
1 TGTATAAAATAAATTG
*
10172595 TGTATACAAA-AATTTTG
1 TGTATA-AAATAA-ATTG
*
10172612 TGTATAAAATTAA-T-
1 TGTATAAAATAAATTG
*
10172626 TGTATAAAAAAAATT
1 TGTATAAAATAAATT
10172641 CTATATACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
14 11 0.30
15 2 0.05
16 11 0.30
17 13 0.35
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.39
Consensus pattern (16 bp):
TGTATAAAATAAATTG
Found at i:10174231 original size:31 final size:31
Alignment explanation
Indices: 10174193--10174552 Score: 429
Period size: 31 Copynumber: 11.6 Consensus size: 31
10174183 AACCATAAAT
* *
10174193 AGTAAAATGTTGTGACACGCCGTGCATATCA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* *
10174224 AGTAAAATGTTGTTACACGCCATGCAAAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
10174255 AGT-AAATGGTTGTGACACGCCATGCATAACA
1 AGTAAAAT-GTTGTGACACGCCATGCATAACA
**
10174286 AGTAAAATGTTGTGACACGCCACACATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* *
10174317 AGATAAACT-TTGTGACATGCCATGCATAACA
1 AG-TAAAATGTTGTGACACGCCATGCATAACA
10174348 AGTAAAATGTTGTGACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * *
10174379 AGTTAAACGTTGTGACACGCCATCCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * * *
10174410 AGCAAATTGTTGTGACACGTCAAAG-ATAACA
1 AGTAAAATGTTGTGACACG-CCATGCATAACA
* * * *
10174441 AGCAAAATGTTCTGACACGCCATACATATCA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * * *
10174472 AATCAAACGTTGTGACACGCCATGAATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* *
10174503 AGTAAAATGTTGTGACGCGCCATGCATATCA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* *
10174534 AGTCAAATGTTGTCACACG
1 AGTAAAATGTTGTGACACG
10174553 TTAAGGCTGA
Statistics
Matches: 276, Mismatches: 47, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
30 11 0.04
31 254 0.92
32 11 0.04
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (31 bp):
AGTAAAATGTTGTGACACGCCATGCATAACA
Found at i:10175228 original size:155 final size:156
Alignment explanation
Indices: 10174913--10175285 Score: 378
Period size: 155 Copynumber: 2.4 Consensus size: 156
10174903 AGGTCAATTG
* *
10174913 CAATAACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTTAACATTAACCGTTACA
1 CAATTACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTACA
* **** * * *
10174978 ACTTTAATATCCTAATCGGGTGCTCGTTAGCAGTCTGCGGTAGAGCCAGAATGATCGGTACTTGA
66 ACTTTAATATCCTAACCGCCAACTAGTTAGCAGTCTGCGGTAGAGCCAGAACGATCAGTACTTGA
* **
10175043 GGACCTGTCGTCACTTTTGTAACTAT
131 AGACCTGTCGTCACTTCCGTAACTAT
* * *
10175069 -AATTACATATGTAACTGTGTTATTTAATAATCATATATGGAATTGTTGAACATTAATCGTTACA
1 CAATTACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTACA
* ** * * * *
10175133 ACTTTAATATCCTTACCGCCAAC-AGTTAGTTGTGTGCGGTTGAG-CAGGACCGATCAGTGCTTG
66 ACTTTAATATCCTAACCGCCAACTAGTTAGCAGTCTGCGGTAGAGCCA-GAACGATCAGTACTTG
* *
10175196 AAGACTTGTCGTCGCTTCCGTAAACT-T
130 AAGACCTGTCGTCACTTCCGT-AACTAT
* * * * * * * * *
10175223 CAATTACAGAAATTACTGTGTTACTCGATAAACATATGTGGGAA-TGTAGAACATAAACCGTTA
1 CAATTACATATATAACTGTGTTATTCAATAATCATATAT-GGAATTGTTGAACATTAACCGTTA
10175286 GAACCAATCT
Statistics
Matches: 176, Mismatches: 37, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
153 2 0.01
154 45 0.26
155 125 0.71
156 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (156 bp):
CAATTACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTACA
ACTTTAATATCCTAACCGCCAACTAGTTAGCAGTCTGCGGTAGAGCCAGAACGATCAGTACTTGA
AGACCTGTCGTCACTTCCGTAACTAT
Found at i:10176886 original size:31 final size:31
Alignment explanation
Indices: 10176848--10177113 Score: 311
Period size: 31 Copynumber: 8.6 Consensus size: 31
10176838 AATAAGGAAT
* *
10176848 AAATGTTGTGACACGCCATGCAT-TGCAAGCA
1 AAATGTTGTCACACGCCATGCATAT-CAAGTA
* * *
10176879 AAATGTTGTGACACGCCATGCATAACAAGTT
1 AAATGTTGTCACACGCCATGCATATCAAGTA
** * *
10176910 AAACATTGTGACACGCCATGTATATCAAGTA
1 AAATGTTGTCACACGCCATGCATATCAAGTA
* *
10176941 AAATGTTGTCACACACCATGCATAACAAGTA
1 AAATGTTGTCACACGCCATGCATATCAAGTA
* *
10176972 AAATGTTGTGACACGCCATGCATATTAAGTA
1 AAATGTTGTCACACGCCATGCATATCAAGTA
* * *
10177003 AAATGCTATCACACACCATGCATATCAAGTA
1 AAATGTTGTCACACGCCATGCATATCAAGTA
* *
10177034 AAATGTTATCACATGCCATG-ATTATCAAGTA
1 AAATGTTGTCACACGCCATGCA-TATCAAGTA
*
10177065 AAATGCTGTCACACGCCATGCATATCAAGTA
1 AAATGTTGTCACACGCCATGCATATCAAGTA
* *
10177096 AAATGCTATCACACGCCA
1 AAATGTTGTCACACGCCA
10177114 ATAACTAACT
Statistics
Matches: 202, Mismatches: 30, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
30 1 0.00
31 200 0.99
32 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.25
Consensus pattern (31 bp):
AAATGTTGTCACACGCCATGCATATCAAGTA
Found at i:10178148 original size:43 final size:42
Alignment explanation
Indices: 10178100--10178255 Score: 165
Period size: 43 Copynumber: 3.6 Consensus size: 42
10178090 TTCCCAGCTC
** *
10178100 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCACCGAGTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCA-CGAGTT
*
10178143 ATGCGCACTCCCTACTCACACATAACCAGGTCATCA-GTAGGTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCACG-A-GTT
* * *
10178186 ATGCGCATTCCCCACTCGCACATAACCGGGTCATCATCG-GCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCA-CGAG-TT
*
10178229 ATGCGCACTCCTTACAT-GCACATAACC
1 ATGCGCACTCCCTAC-TCGCACATAACC
10178256 TAGTCAATTT
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 91 0.95
44 1 0.01
45 1 0.01
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCACGAGTT
Found at i:10178429 original size:43 final size:43
Alignment explanation
Indices: 10178355--10178507 Score: 202
Period size: 43 Copynumber: 3.6 Consensus size: 43
10178345 TTCCCAGCTC
* **
10178355 ATGCGCACTCCCTACTCGTACAT-GGCTAGGTCATCA-CTGGGTT
1 ATGCGCACTCCCTACTCGCACATAATC-AGGTCATCATC-GGGTT
*
10178398 ATGCGCACTCCCTACTCGCACATAATCAGGTCATCATCGAGTT
1 ATGCGCACTCCCTACTCGCACATAATCAGGTCATCATCGGGTT
** *
10178441 ATGCGCACTCCCTACTCGCACATAATTGGGTCATCATCGGCTT
1 ATGCGCACTCCCTACTCGCACATAATCAGGTCATCATCGGGTT
*
10178484 ATGCGCACTCTCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
10178508 GCCGAGTCAA
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
43 97 0.98
44 2 0.02
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAATCAGGTCATCATCGGGTT
Found at i:10178490 original size:255 final size:255
Alignment explanation
Indices: 10178039--10178550 Score: 814
Period size: 255 Copynumber: 2.0 Consensus size: 255
10178029 ACATATTTGC
*
10178039 ATTTACAACCATATACCCATCATCATCATGCACACCATCCCAGCATCATCATTCCCAGCTCATGC
1 ATTTACAACCATATACCCATCATCATCATGCACACCATCCCAGCATCAGCATTCCCAGCTCATGC
10178104 GCACTCCCTACTCGCACATGGCTAGGTCATCACCGAGTTATGCGCACTCCCTACTCACACATAAC
66 GCACTCCCTACTCGCACATGGCTAGGTCATCACCGAGTTATGCGCACTCCCTACTCACACATAAC
*
10178169 CAGGTCATCAGTAGGTTATGCGCATTCCCCACTCGCACATAACCGGGTCATCATCGGCTTATGCG
131 CAGGTCATCAGTAGGTTATGCGCACTCCCCACTCGCACATAACCGGGTCATCATCGGCTTATGCG
* * * *
10178234 CACTC-CTTACAT-GCACATAACCTAGTCAATTTCATTACACAATAATGTATTCATATATAT
196 CACTCTC-TAC-TCGCACATAACCGAGTCAATATCATTACACAACAATGTATTCATAAATAT
*
10178294 ATTTACAACCATATACCCATCATCATCATGCACACCATCCCATCATCAGCATTCCCAGCTCATGC
1 ATTTACAACCATATACCCATCATCATCATGCACACCATCCCAGCATCAGCATTCCCAGCTCATGC
* * * * *
10178359 GCACTCCCTACTCGTACATGGCTAGGTCATCACTGGGTTATGCGCACTCCCTACTCGCACATAAT
66 GCACTCCCTACTCGCACATGGCTAGGTCATCACCGAGTTATGCGCACTCCCTACTCACACATAAC
* * **
10178424 CAGGTCATCA-TCGAGTTATGCGCACTCCCTACTCGCACATAATTGGGTCATCATCGGCTTATGC
131 CAGGTCATCAGTAG-GTTATGCGCACTCCCCACTCGCACATAACCGGGTCATCATCGGCTTATGC
* *
10178488 GCACTCTCTACTCGCACATAGCCGAGTCAATATCATTACAGAACAATGTATTCATAAATAT
195 GCACTCTCTACTCGCACATAACCGAGTCAATATCATTACACAACAATGTATTCATAAATAT
10178549 AT
1 AT
10178551 ATATATATAT
Statistics
Matches: 236, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
254 3 0.01
255 232 0.98
256 1 0.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (255 bp):
ATTTACAACCATATACCCATCATCATCATGCACACCATCCCAGCATCAGCATTCCCAGCTCATGC
GCACTCCCTACTCGCACATGGCTAGGTCATCACCGAGTTATGCGCACTCCCTACTCACACATAAC
CAGGTCATCAGTAGGTTATGCGCACTCCCCACTCGCACATAACCGGGTCATCATCGGCTTATGCG
CACTCTCTACTCGCACATAACCGAGTCAATATCATTACACAACAATGTATTCATAAATAT
Found at i:10180649 original size:94 final size:94
Alignment explanation
Indices: 10180535--10181164 Score: 745
Period size: 94 Copynumber: 6.7 Consensus size: 94
10180525 TAAACCATGA
* * * * *
10180535 CCATGGCGTGTCACCAACTCTGAACTTTAGCGTGTCATAGCTTCCCTCCATGGAGTGTCACCAAC
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCTCCATGGAGTCTCACCAAC
* *
10180600 TCTAAACTCTGGCGTGTCATAGATTCCCT
66 TCTGAACTCTGGCGTGTCACAGATTCCCT
* * *
10180629 CCATGGCGTGTCACCAACTCTTAACTCTAGTGTGTCACAAATTCCTTCCATGGCA-TCTCACCAA
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCTCCATGG-AGTCTCACCAA
* * *
10180693 CTCTGAACACTGGCATATCACAGATTCCCT
65 CTCTGAACTCTGGCGTGTCACAGATTCCCT
* * *
10180723 CCAT-GCTGTGTCACCAACTCTTAACTCTAGCTTGTCACAGATTCCCTCCATGGCGTCTCTCCAA
1 CCATGGC-GTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCTCCATGGAGTCTCACCAA
* *
10180787 CTCTGAACGT-TGTCGTGTCACAGATTCCCA
65 CTCTGAAC-TCTGGCGTGTCACAGATTCCCT
* * * *
10180817 ACATGGCATGTCACCAACTCTTAACTCTAGTGTGTCACAGATTCCTTCCATGGCA-TCTCACCAA
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCTCCATGG-AGTCTCACCAA
* ** *
10180881 CTCTGAATTCTAACGTGTCACTGATTCCCT
65 CTCTGAACTCTGGCGTGTCACAGATTCCCT
* * * *
10180911 CCATGGCGAGTCA-CAACTCTTAACTCTAGCTTGTCACAGATT-CTTCCATGGCGTCTCACCAAC
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCTCCATGGAGTCTCACCAAC
* * *
10180974 TCTGAACACTGGCATATCACAGATTCCCT
66 TCTGAACTCTGGCGTGTCACAGATTCCCT
* * * *
10181003 CCAT-GCTGTGTCACCAACTCTTAACTCTAGCTTGTCACAAATTCCCTCCATGGTGTCTCTCCAA
1 CCATGGC-GTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCTCCATGGAGTCTCACCAA
* * *
10181067 CTCTTAACGT-TGTCGTGTCACAGATTCCCA
65 CTCTGAAC-TCTGGCGTGTCACAGATTCCCT
* * * * *
10181097 ACATGGCATGTCACCAAATCTTAACTCTAGCGTCTCACAGATTCCCTCCATGGCGTCTCACCAAC
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCTCCATGGAGTCTCACCAAC
10181162 TCT
66 TCT
10181165 AAGTGGTGTC
Statistics
Matches: 455, Mismatches: 68, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
91 2 0.00
92 50 0.11
93 58 0.13
94 340 0.75
95 5 0.01
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (94 bp):
CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCTCCATGGAGTCTCACCAAC
TCTGAACTCTGGCGTGTCACAGATTCCCT
Found at i:10181183 original size:47 final size:47
Alignment explanation
Indices: 10180535--10181164 Score: 673
Period size: 47 Copynumber: 13.4 Consensus size: 47
10180525 TAAACCATGA
* * * *
10180535 CCATGGCGTGTCACCAACTCTGAACTTTAGCGTGTCATAGCTTCCCT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* * * *
10180582 CCATGGAGTGTCACCAACTCTAAACTCTGGCGTGTCATAGATTCCCT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* * *
10180629 CCATGGCGTGTCACCAACTCTTAACTCTAGTGTGTCACAAATTCCTT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* * * * * * *
10180676 CCATGGCATCTCACCAACTCTGAACACTGGCATATCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
*
10180723 CCAT-GCTGTGTCACCAACTCTTAACTCTAGCTTGTCACAGATTCCCT
1 CCATGGC-GTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* * * *
10180770 CCATGGCGTCTCTCCAACTCTGAACGT-T-GTCGTGTCACAGATTCCCA
1 CCATGGCGTGTCACCAACTCTTAAC-TCTAG-CGTGTCACAGATTCCCT
* * * *
10180817 ACATGGCATGTCACCAACTCTTAACTCTAGTGTGTCACAGATTCCTT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* * * * * *
10180864 CCATGGCATCTCACCAACTCTGAATTCTAACGTGTCACTGATTCCCT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* * *
10180911 CCATGGCGAGTCA-CAACTCTTAACTCTAGCTTGTCACAGATT-CTT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* * * * * *
10180956 CCATGGCGTCTCACCAACTCTGAACACTGGCATATCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* *
10181003 CCAT-GCTGTGTCACCAACTCTTAACTCTAGCTTGTCACAAATTCCCT
1 CCATGGC-GTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* * * *
10181050 CCATGGTGTCTCTCCAACTCTTAACGT-T-GTCGTGTCACAGATTCCCA
1 CCATGGCGTGTCACCAACTCTTAAC-TCTAG-CGTGTCACAGATTCCCT
* * * *
10181097 ACATGGCATGTCACCAAATCTTAACTCTAGCGTCTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
*
10181144 CCATGGCGTCTCACCAACTCT
1 CCATGGCGTGTCACCAACTCT
10181165 AAGTGGTGTC
Statistics
Matches: 477, Mismatches: 92, Indels: 28
0.80 0.15 0.05
Matches are distributed among these distances:
45 13 0.03
46 56 0.12
47 401 0.84
48 7 0.01
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (47 bp):
CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
Found at i:10186949 original size:20 final size:20
Alignment explanation
Indices: 10186924--10187000 Score: 83
Period size: 20 Copynumber: 4.1 Consensus size: 20
10186914 GGTCGGTTTG
*
10186924 AAGAAAGGAGAAAGGAAAGA
1 AAGAAAAGAGAAAGGAAAGA
*
10186944 AAGAAAAGAGAAAGGAAAGG
1 AAGAAAAGAGAAAGGAAAGA
* *
10186964 AAGGAGA-AG-AA-GAAAGA
1 AAGAAAAGAGAAAGGAAAGA
10186981 AA-AAAAGAGAAAGG-AAGA
1 AAGAAAAGAGAAAGGAAAGA
10186999 AA
1 AA
10187001 AACTTGGTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
16 2 0.04
17 9 0.19
18 10 0.21
19 3 0.06
20 23 0.49
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (20 bp):
AAGAAAAGAGAAAGGAAAGA
Found at i:10186968 original size:36 final size:36
Alignment explanation
Indices: 10186928--10186996 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
10186918 GGTTTGAAGA
*
10186928 AAGGAGAA-AGGAAAGAAAGAAAAGAGAAAGGAAAGG
1 AAGGAGAAGAAGAAAGAAA-AAAAGAGAAAGGAAAGG
10186964 AAGGAGAAGAAGAAAGAAAAAAAGAGAAAGGAA
1 AAGGAGAAGAAGAAAGAAAAAAAGAGAAAGGAA
10186997 GAAAAACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 22 0.71
37 9 0.29
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (36 bp):
AAGGAGAAGAAGAAAGAAAAAAAGAGAAAGGAAAGG
Found at i:10190873 original size:37 final size:38
Alignment explanation
Indices: 10190821--10190923 Score: 122
Period size: 37 Copynumber: 2.7 Consensus size: 38
10190811 TGATGATATT
*
10190821 GCTTGTGCGCGATGTGGGGGTTGCACATAATGGCCTT-A
1 GCTTGTGCGCGATGTGGGGGTTGCACATAAT-GACTTCA
* *
10190859 G-TTGTGCGCGATGTGGGGG-TGCATACAATGACTTCA
1 GCTTGTGCGCGATGTGGGGGTTGCACATAATGACTTCA
* *
10190895 GCTATGTGCACAATGTGGGGGTTGCACAT
1 GCT-TGTGCGCGATGTGGGGGTTGCACAT
10190924 GAGCTGGGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
35 4 0.07
36 10 0.19
37 19 0.35
38 16 0.30
39 5 0.09
ACGTcount: A:0.18, C:0.17, G:0.36, T:0.28
Consensus pattern (38 bp):
GCTTGTGCGCGATGTGGGGGTTGCACATAATGACTTCA
Found at i:10193393 original size:38 final size:40
Alignment explanation
Indices: 10193302--10193404 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 40
10193292 ACCCAGCTCA
10193302 TGTACATCCCCCCACATCGTGCAC-ATAGCTGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACAATAGCTGG-ACCATCG
* *
10193342 TGTGCGTCCCCCCACATCGTGCACAATCAG-T-G-CCATCG
1 TGTACATCCCCCCACATCGTGCACAAT-AGCTGGACCATCG
* *
10193380 TGTACATCGCCCCACATCATGCACA
1 TGTACATCCCCCCACATCGTGCACA
10193405 CAGGCACTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
38 27 0.49
40 23 0.42
41 3 0.05
42 2 0.04
ACGTcount: A:0.22, C:0.40, G:0.17, T:0.20
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACAATAGCTGGACCATCG
Found at i:10197386 original size:28 final size:28
Alignment explanation
Indices: 10197335--10197389 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
10197325 TGACAAGTGC
10197335 TAGGGCAAAAAATTTATCGATTTGCCCA
1 TAGGGCAAAAAATTTATCGATTTGCCCA
10197363 TAGGGCAGAAAAA-TTA-CGATTTTGCCC
1 TAGGGCA-AAAAATTTATCGA-TTTGCCC
10197390 CTATACTCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 3 0.12
28 17 0.68
29 5 0.20
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (28 bp):
TAGGGCAAAAAATTTATCGATTTGCCCA
Found at i:10198456 original size:40 final size:39
Alignment explanation
Indices: 10198401--10198503 Score: 127
Period size: 38 Copynumber: 2.6 Consensus size: 39
10198391 ATCCGGCTCA
*
10198401 TGTGCATCCCCCCACATCGTGCACATAACCAGAGTCATCG
1 TGTGCATCCCCCCACATCGTGCACA-AACCAGAGCCATCG
* * *
10198441 TGTGCATCCCCCCACATCATGCAC-AATCAGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACAAACCAGAGCCATCG
* * *
10198479 TGTACCTCCCCCCACATCGTACACA
1 TGTGCATCCCCCCACATCGTGCACA
10198504 CGGGCACTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 31 0.57
40 23 0.43
ACGTcount: A:0.24, C:0.41, G:0.15, T:0.20
Consensus pattern (39 bp):
TGTGCATCCCCCCACATCGTGCACAAACCAGAGCCATCG
Found at i:10200381 original size:43 final size:43
Alignment explanation
Indices: 10200315--10200426 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 43
10200305 TATTAACTCG
* *
10200315 GCTATGTGTGAGTAGGGAATGCGCATAAGCCAAG-GATGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAA-CCAAGTGATGACCCA
* *** **
10200358 GTTATGTGCGAGTAGGGAGTGCGCATAACTTGGTGATGACTTA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCAAGTGATGACCCA
*
10200401 GCCATGTGCGAGTAGGGAGTGCGCAT
1 GCTATGTGCGAGTAGGGAGTGCGCAT
10200427 GAGCTGGTGA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 2 0.03
43 56 0.97
ACGTcount: A:0.25, C:0.16, G:0.36, T:0.23
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAACCAAGTGATGACCCA
Found at i:10200466 original size:23 final size:23
Alignment explanation
Indices: 10200436--10200495 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
10200426 TGAGCTGGTG
* * *
10200436 ATGATGATGATGTGATGGTGTGT
1 ATGATGATGATGGGATGATGTGC
10200459 ATGATGATGATGGGATGATGTGC
1 ATGATGATGATGGGATGATGTGC
*
10200482 ATGATAATGATGGG
1 ATGATGATGATGGG
10200496 TATACGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.38, T:0.33
Consensus pattern (23 bp):
ATGATGATGATGGGATGATGTGC
Found at i:10224012 original size:38 final size:38
Alignment explanation
Indices: 10223961--10224066 Score: 176
Period size: 38 Copynumber: 2.8 Consensus size: 38
10223951 TAGCTGGAGT
* *
10223961 CATCGTGTGCATCCCCCCACATCGTGCACAATCAGTGC
1 CATCGAGTACATCCCCCCACATCGTGCACAATCAGTGC
*
10223999 CATCGAGTACATCCCCCCAAATCGTGCACAATCAGTGC
1 CATCGAGTACATCCCCCCACATCGTGCACAATCAGTGC
*
10224037 CATCAAGTACATCCCCCCACATCGTGCACA
1 CATCGAGTACATCCCCCCACATCGTGCACA
10224067 CGGGCACTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.26, C:0.40, G:0.15, T:0.19
Consensus pattern (38 bp):
CATCGAGTACATCCCCCCACATCGTGCACAATCAGTGC
Found at i:10226461 original size:32 final size:34
Alignment explanation
Indices: 10226390--10226480 Score: 125
Period size: 32 Copynumber: 2.7 Consensus size: 34
10226380 AGAGGCTTTG
*
10226390 TGCTGC-AATTTATGAGAGGGAAAAAGAAAGAGTTT
1 TGCTGCAAATTT-TGAGAGAG-AAAAGAAAGAGTTT
10226425 TGCTGCAAATTTTGAGAGAGAAAAG-AA-AGTTT
1 TGCTGCAAATTTTGAGAGAGAAAAGAAAGAGTTT
*
10226457 TGCTGCAAATTTTGATAGAGAAAA
1 TGCTGCAAATTTTGAGAGAGAAAA
10226481 CAAGGGCTGC
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
32 28 0.53
33 2 0.04
34 5 0.09
35 13 0.25
36 5 0.09
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (34 bp):
TGCTGCAAATTTTGAGAGAGAAAAGAAAGAGTTT
Done.