Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 36 of 210
Found at i:11491708 original size:127 final size:127
Alignment explanation
Indices: 11491538--11491775 Score: 379
Period size: 127 Copynumber: 1.9 Consensus size: 127
11491528 CATTTGTAAA
* *
11491538 AAAAGCGCCGCTAAAGGTTGTGGTCTATAGCGACGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTG
1 AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGACGTTTGTGG-AAAAGCGCCGCTAAAGGTCATG
*
11491603 GTCTTTAGCGGCG-TTGTTGAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGTGGAGTTTTTGG
65 GTCTTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGTGGAGTTTTTGG
** *
11491665 AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGGTGTTTTTGGAAAAGCGCCGCTAAAGGTCATGG
1 AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGACGTTTGTGGAAAAGCGCCGCTAAAGGTCATGG
** *
11491730 TCTTTAGCGGCGTTTGTAGGTAAAGCGCCGCTAAAGGTCGTGGTCT
66 TCTTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGGTCCTGGTCT
11491776 ATAGCGGTGA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
126 34 0.34
127 67 0.66
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (127 bp):
AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGACGTTTGTGGAAAAGCGCCGCTAAAGGTCATGG
TCTTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGTGGAGTTTTTGG
Found at i:11507370 original size:29 final size:29
Alignment explanation
Indices: 11507336--11507393 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11507326 TAATGCTTAT
11507336 TAGATTAACTACATCTATTAAAAATTAAC
1 TAGATTAACTACATCTATTAAAAATTAAC
*
11507365 TAGATTAATTACATCTATTAAAAATTAAC
1 TAGATTAACTACATCTATTAAAAATTAAC
11507394 ACAACTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (29 bp):
TAGATTAACTACATCTATTAAAAATTAAC
Found at i:11512317 original size:566 final size:567
Alignment explanation
Indices: 11511203--11512902 Score: 2791
Period size: 566 Copynumber: 3.0 Consensus size: 567
11511193 GGCTAGAAAA
* *
11511203 CTTAGGCAACTCAGGCCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTGAGG
1 CTTAGGCAACTCAGGCCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
* * * * * *
11511268 GGACATCCTTCCCCATTGATCAGGGAGTATTGCTGCAATAATTGTTTGGTTTGCAGGAGCAACTA
66 GGCCATCCTTCCCCTTTGATCAGGGAGTATCGCCGCAAAAATTGTTTGGTTTGCAGGAACAACTA
* * * *
11511333 AGTTTAATGAAAAAATAGATGACTCAAAGAAGTTTCAGGTTTGAACAACATCAATTGTTTCACTA
131 AGTTTAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACTA
* * * *
11511398 GGAGCTATTGATGCAAAACGAAGAAATAAGAAGAAAGATACAGTTCGACCTTTCTGATCTTCAAG
196 GGAGCTGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCGACCATTCTGATCTTCAAG
**
11511463 GCAATGTCGCGCCTCTTCAAGAGGAGATTACGGAGGCACATGCAAAGCCATGGCAGAATGAGATG
261 GCAATGTCGCGCCTCTTCAAGAGGAGATTGTGGAGGCACATGCAAAGCCATGGCAGAATGAGATG
*
11511528 GATGCTTTACGTAGATAAGTTCAAGAATTACACCCTGATGTGCAAGACATGGACTGATTATTTTA
326 GATGCTTTGCGTAGATAAGTTCAAGAATTACACCCTGATGTGCAAGACATGGACTGATTATTTTA
* *
11511593 TTCTAACAACCTTTTGTCTCTAGAAA-TGCCAACTGTGAGCCTACCATCTGAGTTCAAAGTGCCG
391 TTCTAACAACCTTTTGTCTCTA-AAAGTGCCAACTGTGAGCCTAGCATCCGAGTTCAAAGTGCCG
11511657 AAAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAA
455 AAAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAA
* *
11511722 AGTGTTAA-GGCCTCAAATGTGGTAGAGTGTAGGCTTTTTCAATAATT
520 AGTGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGCTTTTTCAATGATT
11511769 CTTAGGCAACTCAGGCCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
1 CTTAGGCAACTCAGGCCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
* * * *
11511834 GGCCATCCTTCCCCTTTGATCAGAGAGTATCACCGTAAAAATTGTTTGGTTTACAGGAACAACTA
66 GGCCATCCTTCCCCTTTGATCAGGGAGTATCGCCGCAAAAATTGTTTGGTTTGCAGGAACAACTA
* *
11511899 AGTATAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAATATCAATTGTTTCACTA
131 AGTTTAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACTA
11511964 GGAGCTGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCGACCATT-TGATCTTCAAG
196 GGAGCTGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCGACCATTCTGATCTTCAAG
* *
11512028 GAAATGTCGCGCCTCTTCAAGAGGAGATTGTGGAGGCACATGCAAAGCCATGGTAGAATGAGATG
261 GCAATGTCGCGCCTCTTCAAGAGGAGATTGTGGAGGCACATGCAAAGCCATGGCAGAATGAGATG
* * * *
11512093 GATGCTTTGCTTAGATATGTTCAAGCATTACACCCTGATGTGCAAGACATGGACTGATTGTTTTA
326 GATGCTTTGCGTAGATAAGTTCAAGAATTACACCCTGATGTGCAAGACATGGACTGATTATTTTA
*
11512158 TTCTAACAACCTTTTGTCTCTAAAAGTGCCAACTGTGAGCCTAGCATCCGAGTTCAAATTGCCGA
391 TTCTAACAACCTTTTGTCTCTAAAAGTGCCAACTGTGAGCCTAGCATCCGAGTTCAAAGTGCCGA
*
11512223 AAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAAT
456 AAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAAA
* *
11512288 GTGTTAAGGGCCTTAAATGTGGCAGAGTGTAGGCTTTTTCAACGATT
521 GTGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGCTTTTTCAATGATT
* *
11512335 CTTAGTCAACTCAGGCCAATGGGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
1 CTTAGGCAACTCAGGCCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
* * * *
11512400 GGCTATCCTTCCCTTTTGATCAGGGAGTATCGCCACAACAATTGTTTGGTTTGCAGGAACAACTA
66 GGCCATCCTTCCCCTTTGATCAGGGAGTATCGCCGCAAAAATTGTTTGGTTTGCAGGAACAACTA
* *
11512465 AGTTTGATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACCA
131 AGTTTAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACTA
* * *
11512530 AGAGCTG--G-TACAAAACGAAGAATTAAGAAGAAAGATATAGTTCCACCATTCTGATCTTCAAG
196 GGAGCTGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCGACCATTCTGATCTTCAAG
* * *
11512592 GCAATGTCGTGCCTCTTCAAGAGGAGATTGTGGAGCCACATGCAAAGCCATGACAGAATGAGATG
261 GCAATGTCGCGCCTCTTCAAGAGGAGATTGTGGAGGCACATGCAAAGCCATGGCAGAATGAGATG
* *
11512657 GATGCTTTGCGTAGATAAGTTCAAGGATTACACCCTGATGTGCAAGACATGGATTGATTATTTTA
326 GATGCTTTGCGTAGATAAGTTCAAGAATTACACCCTGATGTGCAAGACATGGACTGATTATTTTA
* * * *
11512722 TTCTAACAACCTTTTGTCTCTAGAAGTGCCAACTGTGAGCCTAGCATCCGAGTTTAAAGTACTGA
391 TTCTAACAACCTTTTGTCTCTAAAAGTGCCAACTGTGAGCCTAGCATCCGAGTTCAAAGTGCCGA
* * *
11512787 AAGAAATTTTCGAAGGTAGAAGGGACCTCAAGGCACATCTTATGTAGTATAATGATTATATAAAA
456 AAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAAA
11512852 GTGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGCTTTTTCAATGATT
521 GTGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGCTTTTTCAATGATT
11512899 CTTA
1 CTTA
11512903 AGGGAAGTGC
Statistics
Matches: 1054, Mismatches: 77, Indels: 8
0.93 0.07 0.01
Matches are distributed among these distances:
563 40 0.04
564 305 0.29
565 261 0.25
566 448 0.43
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (567 bp):
CTTAGGCAACTCAGGCCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
GGCCATCCTTCCCCTTTGATCAGGGAGTATCGCCGCAAAAATTGTTTGGTTTGCAGGAACAACTA
AGTTTAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACTA
GGAGCTGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCGACCATTCTGATCTTCAAG
GCAATGTCGCGCCTCTTCAAGAGGAGATTGTGGAGGCACATGCAAAGCCATGGCAGAATGAGATG
GATGCTTTGCGTAGATAAGTTCAAGAATTACACCCTGATGTGCAAGACATGGACTGATTATTTTA
TTCTAACAACCTTTTGTCTCTAAAAGTGCCAACTGTGAGCCTAGCATCCGAGTTCAAAGTGCCGA
AAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAAA
GTGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGCTTTTTCAATGATT
Found at i:11524227 original size:21 final size:21
Alignment explanation
Indices: 11524203--11524314 Score: 84
Period size: 21 Copynumber: 5.3 Consensus size: 21
11524193 GTGTTTTACT
11524203 TTCTGTTAAGCTCTTTTGAGC
1 TTCTGTTAAGCTCTTTTGAGC
* * *
11524224 TTCTGTTTAA-CTCATATGAGT
1 TTCTG-TTAAGCTCTTTTGAGC
* *
11524245 TTCCGTTCAGCTCTTTTGAGC
1 TTCTGTTAAGCTCTTTTGAGC
* * * * *
11524266 TTTTGTTTAA-CCCTTATGGGT
1 TTCTG-TTAAGCTCTTTTGAGC
* *
11524287 TTCCGTTCAGCTCTTTTGAGC
1 TTCTGTTAAGCTCTTTTGAGC
11524308 TTCTGTT
1 TTCTGTT
11524315 TAACCCTTAT
Statistics
Matches: 64, Mismatches: 23, Indels: 8
0.67 0.24 0.08
Matches are distributed among these distances:
20 6 0.09
21 51 0.80
22 7 0.11
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.48
Consensus pattern (21 bp):
TTCTGTTAAGCTCTTTTGAGC
Found at i:11524273 original size:42 final size:42
Alignment explanation
Indices: 11524202--11524440 Score: 280
Period size: 42 Copynumber: 5.7 Consensus size: 42
11524192 CGTGTTTTAC
* * * * *
11524202 TTTCTGTTAAGCTCTTTTGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
*
11524244 TTTCCGTTCAGCTCTTTTGAGCTTTTGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
*
11524286 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGA
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* * * *
11524328 TTTTCATTCAGCTCTTTTGAGTTTCTGTTTCACCCTTATGGG
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* *** * *
11524370 TTTCCATTCAGCTCTTACAAGCTTCTGTTCAACCTTTATGGG
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
** * **
11524412 TTTCTATTTAGCTCTCATGAGCTTCTGTT
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTT
11524441 CAGCTTTCGA
Statistics
Matches: 171, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 171 1.00
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
Found at i:11524372 original size:21 final size:21
Alignment explanation
Indices: 11524269--11524373 Score: 61
Period size: 21 Copynumber: 5.0 Consensus size: 21
11524259 TTTGAGCTTT
*
11524269 TGTTTAACCCTTATGGGTTTC
1 TGTTTCACCCTTATGGGTTTC
* * * * *
11524290 CG-TTCAGCTCTTTTGAGCTTC
1 TGTTTCA-CCCTTATGGGTTTC
* *
11524311 TGTTTAACCCTTATGGATTT-
1 TGTTTCACCCTTATGGGTTTC
** * * *
11524331 TCATTCAGCTCTTTTGAGTTTC
1 TGTTTCA-CCCTTATGGGTTTC
11524353 TGTTTCACCCTTATGGGTTTC
1 TGTTTCACCCTTATGGGTTTC
11524374 CATTCAGCTC
Statistics
Matches: 55, Mismatches: 25, Indels: 8
0.62 0.28 0.09
Matches are distributed among these distances:
20 7 0.13
21 40 0.73
22 8 0.15
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.48
Consensus pattern (21 bp):
TGTTTCACCCTTATGGGTTTC
Found at i:11524386 original size:21 final size:21
Alignment explanation
Indices: 11524278--11524386 Score: 58
Period size: 21 Copynumber: 5.2 Consensus size: 21
11524268 TTGTTTAACC
*
11524278 CTTATGGGTTTCCGTTCAGCT
1 CTTATGGGTTTCCATTCAGCT
* * * ** * * *
11524299 CTTTTGAGCTTCTGTTTAACC
1 CTTATGGGTTTCCATTCAGCT
* *
11524320 CTTATGGATTTTCATTCAGCT
1 CTTATGGGTTTCCATTCAGCT
* * ** *
11524341 CTTTTGAGTTTCTGTTTCA-CC
1 CTTATGGGTTTC-CATTCAGCT
11524362 CTTATGGGTTTCCATTCAGCT
1 CTTATGGGTTTCCATTCAGCT
11524383 CTTA
1 CTTA
11524387 CAAGCTTCTG
Statistics
Matches: 57, Mismatches: 29, Indels: 4
0.63 0.32 0.04
Matches are distributed among these distances:
20 4 0.07
21 49 0.86
22 4 0.07
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.47
Consensus pattern (21 bp):
CTTATGGGTTTCCATTCAGCT
Found at i:11530680 original size:52 final size:52
Alignment explanation
Indices: 11530610--11530712 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
11530600 ACCAGTAACG
* *
11530610 CAGCAAAGCTGCCAGTATCTGTAACGCAGCAAAGCTACTAGTAACAGTATTA
1 CAGCAAAGCCGCCAGTATCAGTAACGCAGCAAAGCTACTAGTAACAGTATTA
* ** * *
11530662 CAGCAGAGCCGCCAGTATCAGTATTGCAGCAAAGCTGCTAGTCACAGTATT
1 CAGCAAAGCCGCCAGTATCAGTAACGCAGCAAAGCTACTAGTAACAGTATT
11530713 GGTGGCAAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (52 bp):
CAGCAAAGCCGCCAGTATCAGTAACGCAGCAAAGCTACTAGTAACAGTATTA
Found at i:11530709 original size:26 final size:26
Alignment explanation
Indices: 11530609--11530713 Score: 104
Period size: 26 Copynumber: 4.0 Consensus size: 26
11530599 CACCAGTAAC
* **
11530609 GCAGCAAAGCTGCCAGTATCTGTAAC
1 GCAGCAAAGCTGCCAGTATCAGTATT
* * *
11530635 GCAGCAAAGCTACTAGTAACAGTATT
1 GCAGCAAAGCTGCCAGTATCAGTATT
* * *
11530661 ACAGCAGAGCCGCCAGTATCAGTATT
1 GCAGCAAAGCTGCCAGTATCAGTATT
*
11530687 GCAGCAAAGCTGCTAGTCA-CAGTATT
1 GCAGCAAAGCTGCCAGT-ATCAGTATT
11530713 G
1 G
11530714 GTGGCAAAGC
Statistics
Matches: 62, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
26 61 0.98
27 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTATCAGTATT
Found at i:11530936 original size:27 final size:27
Alignment explanation
Indices: 11530920--11531347 Score: 502
Period size: 27 Copynumber: 15.8 Consensus size: 27
11530910 TATCCTTTAG
* * *
11530920 GGGTATTTCGATAATTTTACCATTCGT
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
11530947 GGGTATTTTGATAATTTT-CTCCTTTG-
1 GGGTATTTCGGTAATTTTAC-CCTTCGA
* *
11530973 GAGGTATTTCGATAATTTTACCTTTC-A
1 G-GGTATTTCGGTAATTTTACCCTTCGA
* * *
11531000 AGGTATTTTGGTAATTTTACCCTTTGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
11531027 GGGTATTTCGGTAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
11531054 GGGTATTTCGATAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
11531081 AGGTATTTTGGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * **
11531108 GGGTATTTCGGTAAAATTTACCTTTTAA
1 GGGTATTTCGGT-AATTTTACCCTTCGA
11531136 GGGTATTTCGGTAAATTTTACCCTTCGA
1 GGGTATTTCGGT-AATTTTACCCTTCGA
* *
11531164 GGGTATTTCGATAATTTTACCCTTCAA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
11531191 GGGTATTTTGGTAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * * *
11531218 GGGTATTCCGATAATTTTACCCATCAA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
11531245 GGGTATTTTGGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
11531272 GGGTATTTCGATAATTTTATCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
11531299 GGGTATTTCGGTAATTTAACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
11531326 GGGTATCTCAGTAATTTTACCC
1 GGGTATTTCGGTAATTTTACCC
11531348 ATGAATAACA
Statistics
Matches: 341, Mismatches: 54, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
26 22 0.06
27 273 0.80
28 46 0.13
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCTTCGA
Found at i:11536999 original size:28 final size:28
Alignment explanation
Indices: 11536967--11537066 Score: 146
Period size: 28 Copynumber: 3.6 Consensus size: 28
11536957 TAATGAGATT
11536967 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
* *
11536995 AGCACTAAGTGTGAGAGTTTAATGGTAA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
* * *
11537023 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
*
11537051 AGCACTAAATGTGCGA
1 AGCACTAAGTGTGCGA
11537067 ACTTATTAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAATTGTAA
Found at i:11545306 original size:6 final size:6
Alignment explanation
Indices: 11545295--11545328 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
11545285 AGCCAAAGGT
11545295 TTTTAA TTTTAA TTTTAA TTTTTCAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA -TTTT-AA TTTTAA TT
11545329 GTCTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 16 0.62
7 8 0.31
8 2 0.08
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:11545324 original size:14 final size:13
Alignment explanation
Indices: 11545295--11545328 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
11545285 AGCCAAAGGT
11545295 TTTTAA-TTTTAA
1 TTTTAATTTTTAA
11545307 TTTTAATTTTTCAA
1 TTTTAATTTTT-AA
11545321 TTTTAATT
1 TTTTAATT
11545329 GTCTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.30
13 4 0.20
14 10 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:11545389 original size:17 final size:19
Alignment explanation
Indices: 11545369--11545403 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
11545359 TCCCTAAGTA
11545369 CTAATT-AGTTT-ATTTTC
1 CTAATTCAGTTTAATTTTC
11545386 CTAATTCAGTTTAATTTT
1 CTAATTCAGTTTAATTTT
11545404 TCGGTATAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (19 bp):
CTAATTCAGTTTAATTTTC
Found at i:11549271 original size:19 final size:19
Alignment explanation
Indices: 11549247--11549338 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
11549237 AATCTTCAAG
11549247 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
11549266 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11549285 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
11549304 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
11549323 GATATGCAATTTTAGA
1 GATATGCAATCTTAGA
11549339 AGATATGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11549291 original size:38 final size:38
Alignment explanation
Indices: 11549247--11549345 Score: 175
Period size: 38 Copynumber: 2.7 Consensus size: 38
11549237 AATCTTCAAG
11549247 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
11549285 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
11549323 GATATGCAATTTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
11549346 ATTTTGTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
36 6 0.10
37 1 0.02
38 53 0.88
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:11557863 original size:42 final size:42
Alignment explanation
Indices: 11557812--11557901 Score: 137
Period size: 42 Copynumber: 2.1 Consensus size: 42
11557802 GACAAAAAGG
* *
11557812 GGGAAAGGAAAAAGACA-TGGAGGATGACACGAATAAAAATGA
1 GGGAAAGGAAAAAGACACAGAAGG-TGACACGAATAAAAATGA
*
11557854 GGGAAAGGAAAAAGACACAGAAGGTGACACGAATAAAAATGG
1 GGGAAAGGAAAAAGACACAGAAGGTGACACGAATAAAAATGA
11557896 GGGAAA
1 GGGAAA
11557902 TATTTTTTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 40 0.91
43 4 0.09
ACGTcount: A:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (42 bp):
GGGAAAGGAAAAAGACACAGAAGGTGACACGAATAAAAATGA
Found at i:11567796 original size:8 final size:8
Alignment explanation
Indices: 11567783--11567811 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
11567773 GTCAAATAAA
11567783 AAATAATT
1 AAATAATT
11567791 AAATAATT
1 AAATAATT
11567799 AAATAATT
1 AAATAATT
11567807 AAATA
1 AAATA
11567812 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAATAATT
Found at i:11569716 original size:18 final size:18
Alignment explanation
Indices: 11569693--11569731 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
11569683 TTCCATTAAG
*
11569693 CTAATGAGTTGGCAATAA
1 CTAATGAGTCGGCAATAA
11569711 CTAATGAGTCGGCAATAA
1 CTAATGAGTCGGCAATAA
11569729 CTA
1 CTA
11569732 CTTATCTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (18 bp):
CTAATGAGTCGGCAATAA
Found at i:11574344 original size:3 final size:3
Alignment explanation
Indices: 11574336--11574377 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
11574326 CCCACCAGCT
* * *
11574336 TCA TCA TCA TCA TCA CCA TCA TCA TCA TCA CCA TCA CCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
11574378 CCACCACCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.26
Consensus pattern (3 bp):
TCA
Found at i:11574388 original size:15 final size:15
Alignment explanation
Indices: 11574337--11574392 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
11574327 CCACCAGCTT
*
11574337 CATCATCATCATCAC
1 CATCACCATCATCAC
*
11574352 CATCATCATCATCAC
1 CATCACCATCATCAC
*
11574367 CATCACCATCACCAC
1 CATCACCATCATCAC
*
11574382 CACCACCATCA
1 CATCACCATCA
11574393 AAAAGCTCCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.34, C:0.46, G:0.00, T:0.20
Consensus pattern (15 bp):
CATCACCATCATCAC
Found at i:11579407 original size:24 final size:24
Alignment explanation
Indices: 11579363--11579411 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
11579353 ATTAAATAAT
* *
11579363 GTAATTATTATTATTTTTATATAC
1 GTAATTATTATTATATATATATAC
11579387 GTAATTATTTATATATATATATATA
1 GTAATTA-TTAT-TATATATATATA
11579412 TGCATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 4 0.19
26 10 0.48
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
GTAATTATTATTATATATATATAC
Found at i:11592571 original size:267 final size:267
Alignment explanation
Indices: 11592086--11592640 Score: 871
Period size: 267 Copynumber: 2.1 Consensus size: 267
11592076 CGCCTTGAAG
** * *
11592086 TTGCAATGGAAAAGATTGAAGCCACGACGGCGAACCTTACTTCCCTGGTGTTGTAGCGGAGTCGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAACCTTACTTCCCTGGCGTTGTAGCGGAGTCGA
**
11592151 TTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAGTGGAGCGG
66 TTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAGTGGAAAGG
* * *
11592216 ATTGAAGCAATGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGTAGATTAAAGCCGCAAC
131 ATTGAAGCAATGGGCAACAAACCCTATCTCTTTGGCATTACAGTGGAGTAGATTAAAGCCGCAAC
* * * *
11592281 GACAAATCTTACTCCCTTGGCGGTGTAGTGGAACAGATTGAAGCTAAGATGGCCAATCTTGTTTC
196 GACAAATCTTACTCCCTTGGCGGTGTAGTGGAACAGATTGAAGCTAAGACGACAAATCTTGTTTA
11592346 CCCAACA
261 CCCAACA
* * * *
11592353 TTGCAATTTAAAATATTGAAGCCGCAACGGCGAATCTTATTTCCCTGGCGTTGTAGCGGAG-CAG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAACCTTACTTCCCTGGCGTTGTAGCGGAGTC-G
11592417 ATTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAGTGGAAAG
65 ATTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAGTGGAAAG
**
11592482 GATTGAAGCTGTGGGCAACAAACCCTATCTCTTTGGCATTACAGTGGAGTAGATTAAAGCCGCAA
130 GATTGAAGCAATGGGCAACAAACCCTATCTCTTTGGCATTACAGTGGAGTAGATTAAAGCCGCAA
* * *
11592547 CGGCAAATCTTACT-TCTCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGACAAATCTTGTT
195 CGACAAATCTTACTCCCT-TGGCGGTGTAGTGGAACAGATTGAAGCTAAGACGACAAATCTTGTT
11592611 TACCCAACA
259 TACCCAACA
*
11592620 TTGCAATTTAAAAGACTGAAG
1 TTGCAATTTAAAAGATTGAAG
11592641 ATGGCGAATC
Statistics
Matches: 262, Mismatches: 24, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
266 3 0.01
267 259 0.99
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (267 bp):
TTGCAATTTAAAAGATTGAAGCCACAACGGCGAACCTTACTTCCCTGGCGTTGTAGCGGAGTCGA
TTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAGTGGAAAGG
ATTGAAGCAATGGGCAACAAACCCTATCTCTTTGGCATTACAGTGGAGTAGATTAAAGCCGCAAC
GACAAATCTTACTCCCTTGGCGGTGTAGTGGAACAGATTGAAGCTAAGACGACAAATCTTGTTTA
CCCAACA
Found at i:11592744 original size:44 final size:44
Alignment explanation
Indices: 11592647--11592758 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 44
11592637 GAAGATGGCG
* *
11592647 AATCTTATCTCCCTGAAGTTGCAGGGGTGCAAATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGGGGAGCAAATTAAAACCAAT
* * ** *
11592691 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGGGGAGCAAATTAAAACCA-AT
* **
11592735 GATCTTATCTCTTTGAAGTTGCAG
1 AATCTTATCTCCCTGAAGTTGCAG
11592759 AGAGCAGATC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 55 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGGGGAGCAAATTAAAACCAAT
Found at i:11599267 original size:19 final size:19
Alignment explanation
Indices: 11599243--11599281 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11599233 ATGCTCTTTT
*
11599243 GTACATCTATTTCTTTCGA
1 GTACATATATTTCTTTCGA
* *
11599262 GTACATATTTTTTTTTCGA
1 GTACATATATTTCTTTCGA
11599281 G
1 G
11599282 CATATTATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (19 bp):
GTACATATATTTCTTTCGA
Found at i:11608810 original size:6 final size:6
Alignment explanation
Indices: 11608801--11608836 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
11608791 AACAAATTAC
11608801 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
11608837 GGCAAAGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATTAAA
Found at i:11608875 original size:13 final size:13
Alignment explanation
Indices: 11608844--11608868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11608834 AAAGGCAAAG
11608844 ATAAAAATGAAAA
1 ATAAAAATGAAAA
11608857 ATAAAAATGAAA
1 ATAAAAATGAAA
11608869 CTTAAAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
ATAAAAATGAAAA
Found at i:11618132 original size:14 final size:15
Alignment explanation
Indices: 11618113--11618143 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
11618103 CCGAAAAATT
11618113 AAAAAATT-ATTTTA
1 AAAAAATTAATTTTA
11618127 AAAAAATTAATTTTA
1 AAAAAATTAATTTTA
11618142 AA
1 AA
11618144 GATTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAAAATTAATTTTA
Found at i:11630833 original size:35 final size:35
Alignment explanation
Indices: 11630787--11630857 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
11630777 GTTCACAGCT
*
11630787 CAGTGTACTATGTATATAGAGTGTCGCCAATTATG
1 CAGTGTACTATGTATATAGAGTGTCACCAATTATG
11630822 CAGTGTACTATGTATATAGAGTGTCACCAATTATG
1 CAGTGTACTATGTATATAGAGTGTCACCAATTATG
11630857 C
1 C
11630858 TTCTAGTGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (35 bp):
CAGTGTACTATGTATATAGAGTGTCACCAATTATG
Found at i:11632774 original size:46 final size:46
Alignment explanation
Indices: 11632707--11632800 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
11632697 CTTCATTGTT
11632707 AATTCATTATTTTCCAGATCAATGGTAGACTTTAAAGTGGCTAGAA
1 AATTCATTATTTTCCAGATCAATGGTAGACTTTAAAGTGGCTAGAA
11632753 AATTCATTATTTTCCAGATCAATGGTAGACTTTAAAGTGGCTAGAA
1 AATTCATTATTTTCCAGATCAATGGTAGACTTTAAAGTGGCTAGAA
11632799 AA
1 AA
11632801 GGTCTACCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (46 bp):
AATTCATTATTTTCCAGATCAATGGTAGACTTTAAAGTGGCTAGAA
Found at i:11638253 original size:5 final size:5
Alignment explanation
Indices: 11638243--11638267 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11638233 TCATTAAGCT
11638243 GACCC GACCC GACCC GACCC GACCC
1 GACCC GACCC GACCC GACCC GACCC
11638268 TATGTAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:11644689 original size:2 final size:2
Alignment explanation
Indices: 11644682--11644711 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11644672 TAGGAAGACA
11644682 AT AT 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
11644712 GGAGCTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11650383 original size:43 final size:43
Alignment explanation
Indices: 11650316--11650401 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
11650306 TTGTACTGTC
*
11650316 AAATATTGCATTAATATTGATTTTGTTTTAGTACTAAATAAGA
1 AAATATTGCATTAATATTGATTTTGTTTCAGTACTAAATAAGA
* *
11650359 AAATGTTGCATTAATATTGGTTTTGTTTCAGTACTAAATAAGA
1 AAATATTGCATTAATATTGATTTTGTTTCAGTACTAAATAAGA
11650402 TAATTTCCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (43 bp):
AAATATTGCATTAATATTGATTTTGTTTCAGTACTAAATAAGA
Found at i:11653498 original size:54 final size:54
Alignment explanation
Indices: 11653383--11653504 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 54
11653373 GCATTAAGTT
* * * * *
11653383 AGTGTGTTACACGGCCTAGCACACGGCCTGCGACACGGCCGTGTGTTGCAAGTC
1 AGTGAGTTACACGGCCTAGCACACGGCCTGCGACACGACCATGTGCTGCAACTC
* * *
11653437 AGAGAGTTACACGGTCT-GACACACGGCCTGCGATACGACCATGTGACT-CAACTC
1 AGTGAGTTACACGGCCTAG-CACACGGCCTGCGACACGACCATGTG-CTGCAACTC
*
11653491 AGTGAGTTGCACGG
1 AGTGAGTTACACGG
11653505 GTGGAGACAC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
53 1 0.02
54 54 0.96
55 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.20
Consensus pattern (54 bp):
AGTGAGTTACACGGCCTAGCACACGGCCTGCGACACGACCATGTGCTGCAACTC
Found at i:11669091 original size:22 final size:22
Alignment explanation
Indices: 11669063--11669126 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
11669053 TGTTGTGAAA
11669063 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
11669085 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * *
11669107 CATGAGGGTTTAGTTCGTTA
1 CATGAGAGCTTAGTACGTTA
11669127 AACAGTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:11671523 original size:23 final size:23
Alignment explanation
Indices: 11671442--11671667 Score: 134
Period size: 23 Copynumber: 9.5 Consensus size: 23
11671432 TCTACCCTGT
*
11671442 TTGGGCAGCCCATATACATAACAAA
1 TTGGGCAG--CATATACACAACAAA
* *
11671467 TTGAGCAGCATTTTTACATCAA-AAA
1 TTGGGCAGCA--TATACA-CAACAAA
* * * *
11671492 TTGGACAGCTTATAGACAACAAT
1 TTGGGCAGCATATACACAACAAA
* * *
11671515 TTGGGCAGCATATATATACCAAA
1 TTGGGCAGCATATACACAACAAA
* *
11671538 TTGAGCAGCATTTTTACATCAA-AAA
1 TTGGGCAGCA--TATACA-CAACAAA
* *
11671563 TTGGACAGCATATACACAACAAT
1 TTGGGCAGCATATACACAACAAA
*** *
11671586 TTGGGCAGCATATATGTATCAAA
1 TTGGGCAGCATATACACAACAAA
* *
11671609 TTGAGCAGCATTTTTACATCAA-AAA
1 TTGGGCAGCA--TATACA-CAACAAA
* *
11671634 TTGGACAGCATATACACAACAAT
1 TTGGGCAGCATATACACAACAAA
11671657 TTGGGCAGCAT
1 TTGGGCAGCAT
11671668 TTAAGCATAA
Statistics
Matches: 148, Mismatches: 41, Indels: 26
0.69 0.19 0.12
Matches are distributed among these distances:
22 9 0.06
23 84 0.57
25 51 0.34
26 4 0.03
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (23 bp):
TTGGGCAGCATATACACAACAAA
Found at i:11671542 original size:71 final size:71
Alignment explanation
Indices: 11671441--11671667 Score: 382
Period size: 71 Copynumber: 3.2 Consensus size: 71
11671431 ATCTACCCTG
* *
11671441 TTTGGGCAGCCCATATACATAACAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCTTATA
1 TTTGGGCAG--CATATATATAACAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATA
*
11671506 GACAACAA
64 CACAACAA
*
11671514 TTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACA
1 TTTGGGCAGCATATATATAACAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACA
11671579 CAACAA
66 CAACAA
* *
11671585 TTTGGGCAGCATATATGTATCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACA
1 TTTGGGCAGCATATATATAACAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACA
11671650 CAACAA
66 CAACAA
11671656 TTTGGGCAGCAT
1 TTTGGGCAGCAT
11671668 TTAAGCATAA
Statistics
Matches: 148, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
71 139 0.94
73 9 0.06
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (71 bp):
TTTGGGCAGCATATATATAACAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACA
CAACAA
Found at i:11671643 original size:48 final size:47
Alignment explanation
Indices: 11671463--11671670 Score: 122
Period size: 48 Copynumber: 4.4 Consensus size: 47
11671453 ATATACATAA
* * *
11671463 CAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCTTATA-GACAA
1 CAAATTGAGCAGCATTTATACA-CAAAAATTGGACAGCATATATG-CAT
* * * * * * * *
11671511 CAATTTGGGCAGCATATATATAC-CAAATT-GAGCAGCATTTTTACAT
1 CAAATTGAGCAGCATTTATACACAAAAATTGGA-CAGCATATATGCAT
* * *
11671557 CAAAAATTG-GACAGCA--TATACACAACAATTTGGGCAGCATATATGTAT
1 C--AAATTGAG-CAGCATTTATACACAA-AAATTGGACAGCATATATGCAT
* ** *
11671605 CAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACACAA
1 CAAATTGAGCAGCATTTATACA-CAAAAATTGGACAGCATATATGCAT
* *
11671653 CAATTTGGGCAGCATTTA
1 CAAATTGAGCAGCATTTA
11671671 AGCATAAAAT
Statistics
Matches: 118, Mismatches: 30, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
45 2 0.02
46 31 0.26
47 3 0.03
48 78 0.66
49 4 0.03
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (47 bp):
CAAATTGAGCAGCATTTATACACAAAAATTGGACAGCATATATGCAT
Found at i:11672129 original size:28 final size:29
Alignment explanation
Indices: 11672097--11672223 Score: 154
Period size: 28 Copynumber: 4.5 Consensus size: 29
11672087 TTTAATAAGT
* *
11672097 TCGCACACTTAGTGC-TCAATAATCAAAC
1 TCGCACACTTAGTGCTTCAACAATTAAAC
* * *
11672125 TCGCACACTTAGTGCTT-TACCATTATAC
1 TCGCACACTTAGTGCTTCAACAATTAAAC
*
11672153 TCGCACACTTAGTGCTT-TACAAATTAAAC
1 TCGCACACTTAGTGCTTCAAC-AATTAAAC
*
11672182 TCGCACACTTAGTGCTTC-ACAATTAAAT
1 TCGCACACTTAGTGCTTCAACAATTAAAC
11672210 TCGCACACTTAGTG
1 TCGCACACTTAGTG
11672224 TCGAAAGTCA
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
28 62 0.70
29 26 0.30
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (29 bp):
TCGCACACTTAGTGCTTCAACAATTAAAC
Found at i:11672193 original size:57 final size:56
Alignment explanation
Indices: 11672097--11672223 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 56
11672087 TTTAATAAGT
* * *
11672097 TCGCACACTTAGTGCTCAATAATCAAACTCGCACACTTAGTGCTTTACCATTATAC
1 TCGCACACTTAGTGCTCAATAATCAAACTCGCACACTTAGTGCTTCACAATTAAAC
* * *
11672153 TCGCACACTTAGTGCTTTACA-AATTAAACTCGCACACTTAGTGCTTCACAATTAAAT
1 TCGCACACTTAGTGC-TCA-ATAATCAAACTCGCACACTTAGTGCTTCACAATTAAAC
11672210 TCGCACACTTAGTG
1 TCGCACACTTAGTG
11672224 TCGAAAGTCA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
56 15 0.24
57 47 0.75
58 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (56 bp):
TCGCACACTTAGTGCTCAATAATCAAACTCGCACACTTAGTGCTTCACAATTAAAC
Found at i:11679948 original size:5 final size:5
Alignment explanation
Indices: 11679940--11680042 Score: 188
Period size: 5 Copynumber: 20.6 Consensus size: 5
11679930 AAGTATAACT
*
11679940 TATCA TATCA CATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
*
11679990 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATTA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
11680040 TAT
1 TAT
11680043 TGTATCATGT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 94 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
TATCA
Found at i:11703792 original size:34 final size:35
Alignment explanation
Indices: 11703748--11703814 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
11703738 CAGTAAAATA
* * *
11703748 TTTTCCGTAAATTGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
*
11703782 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
11703815 TTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:11703800 original size:20 final size:20
Alignment explanation
Indices: 11703763--11703802 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11703753 CGTAAATTGA
**
11703763 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATAATTTACT
*
11703783 TTTCTGTAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
11703803 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:11711205 original size:2 final size:2
Alignment explanation
Indices: 11711198--11711252 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
11711188 ACAAAGTGAT
*
11711198 TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11711240 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
11711253 GAAACTTATG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11716097 original size:43 final size:46
Alignment explanation
Indices: 11716036--11716125 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 46
11716026 TTTGAATGTT
11716036 TCGTTATAGAATATGTATA-TTTTTT-TTTTT-TTTTTTGGTTTAA
1 TCGTTATAGAATATGTATAGTTTTTTATTTTTATTTTTTGGTTTAA
11716079 TCGTTATAGAATATGTATATGTTTTTTATTTTTATTTTTTGGTTTAA
1 TCGTTATAGAATATGTATA-GTTTTTTATTTTTATTTTTTGGTTTAA
11716126 ACTATGGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
43 19 0.44
45 6 0.14
46 5 0.12
47 13 0.30
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (46 bp):
TCGTTATAGAATATGTATAGTTTTTTATTTTTATTTTTTGGTTTAA
Found at i:11720221 original size:22 final size:22
Alignment explanation
Indices: 11720193--11720264 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
11720183 ACAAATCCTA
11720193 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
11720215 TCTCAATTTCCTTTCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
11720237 TCTCAATTTCATTCCAAAAAT-C
1 TCTCAATTTCCTTCC-AAAATCC
11720259 TCTCAA
1 TCTCAA
11720265 ATCCATATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 41 0.89
23 5 0.11
ACGTcount: A:0.31, C:0.32, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:11720334 original size:30 final size:31
Alignment explanation
Indices: 11720298--11720363 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
11720288 CCTCAATTTC
11720298 ATTTTTTT-AAATAATTTCAAATTTTTTTAT
1 ATTTTTTTAAAATAATTTCAAATTTTTTTAT
* *
11720328 ATTTTTTTAAAATAATTTTAATTTTTTTTAT
1 ATTTTTTTAAAATAATTTCAAATTTTTTTAT
11720359 ATTTT
1 ATTTT
11720364 CATCAATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 8 0.24
31 25 0.76
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (31 bp):
ATTTTTTTAAAATAATTTCAAATTTTTTTAT
Found at i:11722919 original size:29 final size:29
Alignment explanation
Indices: 11722679--11722919 Score: 412
Period size: 29 Copynumber: 8.3 Consensus size: 29
11722669 CGTAATTTAT
**
11722679 CCCTAACCCCAACCTAATTTAATTAAAAA
1 CCCTAACCTTAACCTAATTTAATTAAAAA
11722708 CCCTAACCTTAACCTAATTTAATTAAAAA
1 CCCTAACCTTAACCTAATTTAATTAAAAA
11722737 CCCTAACCTTAACCTAATTTAATTAAAAA
1 CCCTAACCTTAACCTAATTTAATTAAAAA
*
11722766 CCCTAACAC-TACCCTAATTTAATTAAAAA
1 CCCTAAC-CTTAACCTAATTTAATTAAAAA
* *
11722795 CCCTAACCCTACCCTAATTTAATTAAAAA
1 CCCTAACCTTAACCTAATTTAATTAAAAA
*
11722824 CCCTAACCCTAACCTAATTTAATTAAAAA
1 CCCTAACCTTAACCTAATTTAATTAAAAA
11722853 CCCTAACCTTAACCTAATTTAATTAAAAA
1 CCCTAACCTTAACCTAATTTAATTAAAAA
11722882 CCCTAACCTTAACCTAATTTAATTAAAAA
1 CCCTAACCTTAACCTAATTTAATTAAAAA
11722911 CCCTAACCT
1 CCCTAACCT
11722920 AATTTATTTA
Statistics
Matches: 205, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
28 1 0.00
29 203 0.99
30 1 0.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.29
Consensus pattern (29 bp):
CCCTAACCTTAACCTAATTTAATTAAAAA
Found at i:11726808 original size:14 final size:14
Alignment explanation
Indices: 11726786--11726825 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
11726776 ACGGGCAATC
*
11726786 ATTTTAAATAAAAA
1 ATTTAAAATAAAAA
11726800 ATTTAAAATAAAAA
1 ATTTAAAATAAAAA
*
11726814 ATGTAAAATAAA
1 ATTTAAAATAAA
11726826 GTTATTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
ATTTAAAATAAAAA
Found at i:11728913 original size:26 final size:26
Alignment explanation
Indices: 11728877--11728928 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11728867 GCCTTCTTAC
11728877 CAACTTGGAACGTGTAAGGAGAGGCA
1 CAACTTGGAACGTGTAAGGAGAGGCA
11728903 CAACTTGGAACGTGTAAGGAGAGGCA
1 CAACTTGGAACGTGTAAGGAGAGGCA
11728929 TTGGACAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (26 bp):
CAACTTGGAACGTGTAAGGAGAGGCA
Found at i:11734999 original size:43 final size:43
Alignment explanation
Indices: 11734938--11735020 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
11734928 AAGTCAAGTG
*
11734938 ACTGCTGCTGTCTGAAATCTGTTTCATTGCAAATTTTTACGTC
1 ACTGCTGCTATCTGAAATCTGTTTCATTGCAAATTTTTACGTC
11734981 ACTGCTGCTATCTGAAATCTGTTTCATTGCAAATTTTTAC
1 ACTGCTGCTATCTGAAATCTGTTTCATTGCAAATTTTTAC
11735021 TTTTTCACAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (43 bp):
ACTGCTGCTATCTGAAATCTGTTTCATTGCAAATTTTTACGTC
Found at i:11735747 original size:50 final size:50
Alignment explanation
Indices: 11735640--11735926 Score: 281
Period size: 50 Copynumber: 5.6 Consensus size: 50
11735630 TGCGCAAGCT
* ** * * * *
11735640 ATGTCCCAGACATAGTCTTACATGGGATGTTTCCTTTAC--TGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAACGCC
* * * ** * * *
11735689 ATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
**
11735739 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
*
11735789 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACACC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
* * * *
11735839 ATGTCTCAGACATGGTCTTACATGGGACCTCTCATAACCTTAATGATGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---C-T--CGGTGCCAACGCC
* *
11735895 ATGTCCCCGACATGGTCTTACATGGGATCTCT
1 ATGTCCCAGACATGGTCTTACATGGGACCTCT
11735927 TTACCCAAAT
Statistics
Matches: 199, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 28 0.14
50 130 0.65
53 1 0.01
54 1 0.01
56 38 0.19
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
Found at i:11744182 original size:16 final size:16
Alignment explanation
Indices: 11744161--11744312 Score: 160
Period size: 16 Copynumber: 9.1 Consensus size: 16
11744151 TTATAAAAGA
11744161 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
11744177 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
*
11744195 TATGTAGGTTATGTAT
1 TATGTAAGTTATGTAT
** *
11744211 TATGTAAGTTACATAAGC
1 TATGTAAGTTATGT-A-T
11744229 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
11744245 TATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
11744261 TATGTAAATTATGTAT
1 TATGTAAGTTATGTAT
*
11744277 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
11744295 TATATAAGTTATATAT
1 TATGTAAGTTATGTAT
11744311 TA
1 TA
11744313 AAATAAAATA
Statistics
Matches: 114, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
16 69 0.61
17 6 0.05
18 39 0.34
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:11744199 original size:34 final size:34
Alignment explanation
Indices: 11744151--11744312 Score: 220
Period size: 34 Copynumber: 4.8 Consensus size: 34
11744141 TATGTATATA
* *
11744151 TTATAAAAGATATGTAAGTTATGTATTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
*
11744185 TTATATAAGTTATGTAGGTTATGTATTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
* * *
11744219 TTACATAAGCTATGTAAGTTATGTATTATATAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
* *
11744253 TTATGT-A-TTATGTAAATTATGTATTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
* *
11744285 TTATATAAGTTATATAAGTTATATATTA
1 TTATATAAGTTATGTAAGTTATGTATTA
11744313 AAATAAAATA
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
32 27 0.25
33 2 0.02
34 81 0.74
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (34 bp):
TTATATAAGTTATGTAAGTTATGTATTATGTAAG
Found at i:11744309 original size:9 final size:9
Alignment explanation
Indices: 11744113--11744306 Score: 151
Period size: 9 Copynumber: 22.7 Consensus size: 9
11744103 ATTTTGTTTC
11744113 AGTTATGT-
1 AGTTATGTA
*
11744121 A-TTAAGTA
1 AGTTATGTA
*
11744129 AATTATGTA
1 AGTTATGTA
11744138 AGTTATGTA
1 AGTTATGTA
* **
11744147 TATATTATAAA
1 -A-GTTATGTA
*
11744158 AGATATGTA
1 AGTTATGTA
11744167 AGTTATGT-
1 AGTTATGTA
11744175 A-TTATGTA
1 AGTTATGTA
*
11744183 AGTTATATA
1 AGTTATGTA
11744192 AGTTATGTA
1 AGTTATGTA
*
11744201 GGTTATGT-
1 AGTTATGTA
11744209 A-TTATGTA
1 AGTTATGTA
**
11744217 AGTTACATA
1 AGTTATGTA
*
11744226 AGCTATGTA
1 AGTTATGTA
11744235 AGTTATGT-
1 AGTTATGTA
*
11744243 A-TTATATA
1 AGTTATGTA
11744251 AGTTATGT-
1 AGTTATGTA
11744259 A-TTATGTA
1 AGTTATGTA
*
11744267 AATTATGT-
1 AGTTATGTA
11744275 A-TTATGTA
1 AGTTATGTA
*
11744283 AGTTATATA
1 AGTTATGTA
*
11744292 AGTTATATA
1 AGTTATGTA
11744301 AGTTAT
1 AGTTAT
11744307 ATATTAAAAT
Statistics
Matches: 148, Mismatches: 24, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
7 34 0.23
8 11 0.07
9 96 0.65
10 2 0.01
11 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (9 bp):
AGTTATGTA
Found at i:11744474 original size:9 final size:9
Alignment explanation
Indices: 11744426--11744517 Score: 56
Period size: 9 Copynumber: 10.9 Consensus size: 9
11744416 AGTTAATATA
11744426 TAAGTTATG
1 TAAGTTATG
11744435 T-A-TTATG
1 TAAGTTATG
*
11744442 TAAGTCATG
1 TAAGTTATG
* *
11744451 TAGGCTATG
1 TAAGTTATG
11744460 T-A-TTATG
1 TAAGTTATG
11744467 TAAGTTAT-
1 TAAGTTATG
*
11744475 T-A--TAAG
1 TAAGTTATG
11744481 TAAGTTATG
1 TAAGTTATG
* *
11744490 AAAGTTATATA
1 TAAG-T-TATG
11744501 TAAGTTATG
1 TAAGTTATG
11744510 TAAGTTAT
1 TAAGTTAT
11744518 TATGTAAGTT
Statistics
Matches: 61, Mismatches: 12, Indels: 20
0.66 0.13 0.22
Matches are distributed among these distances:
5 2 0.03
6 1 0.02
7 13 0.21
8 4 0.07
9 33 0.54
10 2 0.03
11 6 0.10
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:11744504 original size:20 final size:21
Alignment explanation
Indices: 11744462--11744528 Score: 91
Period size: 20 Copynumber: 3.1 Consensus size: 21
11744452 AGGCTATGTA
11744462 TTATGTAAGTTATTATAAGTAAG
1 TTATGTAAGTTATTAT-A-TAAG
*
11744485 TTATGAAAGTTA-TATATAAG
1 TTATGTAAGTTATTATATAAG
*
11744505 TTATGTAAGTTATTATGTAAG
1 TTATGTAAGTTATTATATAAG
11744526 TTA
1 TTA
11744529 ACTGTTGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
20 15 0.38
21 11 0.28
22 3 0.08
23 11 0.28
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (21 bp):
TTATGTAAGTTATTATATAAG
Found at i:11744579 original size:13 final size:13
Alignment explanation
Indices: 11744506--11744635 Score: 67
Period size: 12 Copynumber: 10.1 Consensus size: 13
11744496 ATATATAAGT
11744506 TATGTAAGTTAT-
1 TATGTAAGTTATG
11744518 TATGTAAGTTAACTG
1 TATGTAAGTT-A-TG
*
11744533 TTGTGTAAGTT-TG
1 -TATGTAAGTTATG
* *
11744546 TATATAAATT-T-
1 TATGTAAGTTATG
* *
11744557 AATTTAAGTTATG
1 TATGTAAGTTATG
11744570 TATGTAAGTTATCTG
1 TATGTAAGTTA--TG
*
11744585 TTGTGTAAGTT-TG
1 -TATGTAAGTTATG
* *
11744598 TATATAAATT-T-
1 TATGTAAGTTATG
* *
11744609 AATTTAAGTTATG
1 TATGTAAGTTATG
11744622 TATGTAAGTTATG
1 TATGTAAGTTATG
11744635 T
1 T
11744636 CAGTTGTGTA
Statistics
Matches: 89, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
11 14 0.16
12 28 0.31
13 26 0.29
14 1 0.01
15 2 0.02
16 18 0.20
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.49
Consensus pattern (13 bp):
TATGTAAGTTATG
Found at i:11744586 original size:52 final size:52
Alignment explanation
Indices: 11744510--11744633 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
11744500 ATAAGTTATG
*
11744510 TAAGTTAT-TATGTAAGTTAACTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
11744561 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
11744613 TAAGTTATGTATGTAAGTTAT
1 TAAGTTATGTATGTAAGTTAT
11744634 GTCAGTTGTG
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
51 8 0.11
52 63 0.89
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (52 bp):
TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
Found at i:11744599 original size:28 final size:29
Alignment explanation
Indices: 11744508--11744600 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 29
11744498 ATATAAGTTA
*
11744508 TGTAAGTTAT-TATGTAAGTTAACTGTTG
1 TGTAAGTTATGTATGTAAGTTATCTGTTG
* **
11744536 TGTAAGTT-TGTATATAA---AT-T-TAA
1 TGTAAGTTATGTATGTAAGTTATCTGTTG
*
11744559 TTTAAGTTATGTATGTAAGTTATCTGTTG
1 TGTAAGTTATGTATGTAAGTTATCTGTTG
11744588 TGTAAGTT-TGTAT
1 TGTAAGTTATGTAT
11744601 ATAAATTTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
23 8 0.16
24 9 0.18
25 1 0.02
27 3 0.06
28 20 0.41
29 8 0.16
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.49
Consensus pattern (29 bp):
TGTAAGTTATGTATGTAAGTTATCTGTTG
Found at i:11744640 original size:9 final size:9
Alignment explanation
Indices: 11744622--11744693 Score: 62
Period size: 9 Copynumber: 8.4 Consensus size: 9
11744612 TTAAGTTATG
11744622 TATGTAAGT
1 TATGTAAGT
*
11744631 TATGTCAGT
1 TATGTAAGT
*
11744640 TGTGT-A-T
1 TATGTAAGT
*
11744647 AATGTAAGT
1 TATGTAAGT
* *
11744656 TATGAAATT
1 TATGTAAGT
11744665 TATGT-A-T
1 TATGTAAGT
11744672 TATGTAAGT
1 TATGTAAGT
*
11744681 TATTTAAGT
1 TATGTAAGT
11744690 TATG
1 TATG
11744694 AAATATAAAG
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
7 10 0.20
8 4 0.08
9 35 0.71
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TATGTAAGT
Found at i:11744656 original size:25 final size:25
Alignment explanation
Indices: 11744623--11744693 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
11744613 TAAGTTATGT
** *
11744623 ATGTAAGTTATGTCAGTTGTGTATA
1 ATGTAAGTTATGAAAGTTATGTATA
* *
11744648 ATGTAAGTTATGAAATTTATGTATT
1 ATGTAAGTTATGAAAGTTATGTATA
**
11744673 ATGTAAGTTATTTAAGTTATG
1 ATGTAAGTTATGAAAGTTATG
11744694 AAATATAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (25 bp):
ATGTAAGTTATGAAAGTTATGTATA
Found at i:11744923 original size:28 final size:26
Alignment explanation
Indices: 11744857--11744923 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 26
11744847 TATATCCCCA
*
11744857 AAATATATATATTAATACGTTAAATT
1 AAATATTTATATTAATACGTTAAATT
*
11744883 AAATTTTAATATATTAATACGTTAAATT
1 AAATATT--TATATTAATACGTTAAATT
11744911 ATATATATTTATA
1 A-A-ATATTTATA
11744924 CGTTAAGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 5 0.15
28 24 0.71
29 1 0.03
30 4 0.12
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (26 bp):
AAATATTTATATTAATACGTTAAATT
Found at i:11744993 original size:13 final size:12
Alignment explanation
Indices: 11744967--11744996 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11744957 TTAAATAGCT
11744967 TATATATTAAAA
1 TATATATTAAAA
11744979 TATATATTAAAA
1 TATATATTAAAA
11744991 -ATATAT
1 TATATAT
11744997 CTATTACTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATATTAAAA
Found at i:11745002 original size:15 final size:13
Alignment explanation
Indices: 11744967--11744996 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11744957 TTAAATAGCT
11744967 TATATATT-AAAA
1 TATATATTAAAAA
11744979 TATATATTAAAAA
1 TATATATTAAAAA
11744992 TATAT
1 TATAT
11744997 CTATTACTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TATATATTAAAAA
Found at i:11745009 original size:132 final size:129
Alignment explanation
Indices: 11744823--11745082 Score: 396
Period size: 132 Copynumber: 2.0 Consensus size: 129
11744813 AATAATATAG
*
11744823 ATTAAATAGCTTATATATTAAAATTATATCCCCAAAATATATATATTAATACGTTAAATTAAATT
1 ATTAAATAGCTTATATATTAAAATTATAT-CCAAAAATATATATATTAATACGTTAAATTAAATT
* ** *
11744888 TTAATATATTAATACGTTAAATTATATATATTTATACGTTAAGTAACTACCGAAATTAAGACTAA
65 TTAATATATTAATACGTTAAATTATAGATATCAATACGTTAAGT---TACCCAAATTAAGACTAA
11744953 TAT
127 TAT
* * *
11744956 ATTAAATAGCTTATATATTAAAATATATAT-TAAAAATATATCTATTACTACGTTAAATTAAATT
1 ATTAAATAGCTTATATATTAAAAT-TATATCCAAAAATATATATATTAATACGTTAAATTAAATT
11745020 TTAATATATTAATACGTTAAATTATAGATATCAATACGTTAAGTTACCCAAATTAAGACTAAT
65 TTAATATATTAATACGTTAAATTATAGATATCAATACGTTAAGTTACCCAAATTAAGACTAAT
11745083 TCGAACATTT
Statistics
Matches: 118, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
129 18 0.15
132 71 0.60
133 24 0.20
134 5 0.04
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (129 bp):
ATTAAATAGCTTATATATTAAAATTATATCCAAAAATATATATATTAATACGTTAAATTAAATTT
TAATATATTAATACGTTAAATTATAGATATCAATACGTTAAGTTACCCAAATTAAGACTAATAT
Found at i:11745015 original size:28 final size:29
Alignment explanation
Indices: 11744984--11745043 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
11744974 TAAAATATAT
* *
11744984 ATTAAAAATAT-ATCTATTACTACGTTAA
1 ATTAAAAATATAATATATTAATACGTTAA
* *
11745012 ATT-AAATTTTAATATATTAATACGTTAA
1 ATTAAAAATATAATATATTAATACGTTAA
11745040 ATTA
1 ATTA
11745044 TAGATATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (29 bp):
ATTAAAAATATAATATATTAATACGTTAA
Found at i:11746448 original size:18 final size:18
Alignment explanation
Indices: 11746425--11746467 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
11746415 TTTTCATTAA
*
11746425 GCGAAACGGTGACGTTTT
1 GCGAAACGGCGACGTTTT
11746443 GCGAAACGGCGACGTTTT
1 GCGAAACGGCGACGTTTT
11746461 GCGAAAC
1 GCGAAAC
11746468 TTTAATTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.21
Consensus pattern (18 bp):
GCGAAACGGCGACGTTTT
Found at i:11746720 original size:82 final size:83
Alignment explanation
Indices: 11746565--11746772 Score: 231
Period size: 83 Copynumber: 2.5 Consensus size: 83
11746555 TATATAAATA
* * * **
11746565 ATTGCGGCGTTTT-CTTAAAAAAAACACCACCATTAAATTATTTTCCAGTACAAAAACGGCGCCG
1 ATTGCGGCGTTTTCCTT---AAAAACGCCACTATAAAATT-TTTTCCAACACAAAAACGGCGCCG
* * *
11746629 CATA-GGGAAATTTAATTAATC
62 CATACGGAAAAGTTAATCAATC
** * *
11746650 ATTGCGGCGTTTTCCTTAAAAACGCCACTATAAAATTTTTTCCAACACTGAAACGGCGCCTCATT
1 ATTGCGGCGTTTTCCTTAAAAACGCCACTATAAAATTTTTTCCAACACAAAAACGGCGCCGCATA
11746715 CGGAAAAGTTAATCAATC
66 CGGAAAAGTTAATCAATC
* * *
11746733 ATTGCGGCGTTTCCCCTAAAAACGCCACTATCAAATTTTT
1 ATTGCGGCGTTTTCCTTAAAAACGCCACTATAAAATTTTT
11746773 ATTACTATTA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
82 22 0.21
83 68 0.64
85 13 0.12
86 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (83 bp):
ATTGCGGCGTTTTCCTTAAAAACGCCACTATAAAATTTTTTCCAACACAAAAACGGCGCCGCATA
CGGAAAAGTTAATCAATC
Found at i:11747577 original size:14 final size:14
Alignment explanation
Indices: 11747550--11747598 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
11747540 ACTAAAGCAG
**
11747550 CCTAAACCCCAAAC
1 CCTAAACCTTAAAC
11747564 CCTAAACCTTAAA-
1 CCTAAACCTTAAAC
11747577 CCTCAAACTCTTAAAC
1 CCT-AAAC-CTTAAAC
11747593 CCTAAA
1 CCTAAA
11747599 TCCAAAACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 3 0.10
14 15 0.50
15 9 0.30
16 3 0.10
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (14 bp):
CCTAAACCTTAAAC
Found at i:11747577 original size:21 final size:22
Alignment explanation
Indices: 11747552--11747616 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
11747542 TAAAGCAGCC
11747552 TAAACCCCAAAC-CCTAAACCT
1 TAAACCCCAAACACCTAAACCT
* * * *
11747573 TAAACCTCAAACTCTTAAACCC
1 TAAACCCCAAACACCTAAACCT
* * *
11747595 TAAATCCAAAACACCAAAACCT
1 TAAACCCCAAACACCTAAACCT
11747617 ACATCATAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
21 11 0.33
22 22 0.67
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (22 bp):
TAAACCCCAAACACCTAAACCT
Found at i:11747867 original size:49 final size:47
Alignment explanation
Indices: 11747760--11747877 Score: 110
Period size: 49 Copynumber: 2.4 Consensus size: 47
11747750 ACTCTCAAAC
* * * * *
11747760 CCTAAACTAAAAACACTAAACCTATATAGTAAACCTTAAACCCTAAA
1 CCTAAACCAAAAATAATAAACCTATATAATAAACCCTAAACCCTAAA
* * * *
11747807 CTGTAATCCAAAAATAATAAACATTATATAATGAACCCTAATACCCTAAA
1 C-CTAAACCAAAAATAATAAAC-CTATATAATAAACCCTAA-ACCCTAAA
* *
11747857 CCTAAACCAAATATGATAAAC
1 CCTAAACCAAAAATAATAAAC
11747878 TAAATATATA
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
47 1 0.02
48 15 0.27
49 30 0.55
50 9 0.16
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (47 bp):
CCTAAACCAAAAATAATAAACCTATATAATAAACCCTAAACCCTAAA
Found at i:11748146 original size:115 final size:112
Alignment explanation
Indices: 11747915--11748184 Score: 339
Period size: 115 Copynumber: 2.4 Consensus size: 112
11747905 ATGCATGGTT
**
11747915 AAGACCAAAACG-ATGCGTTTTGGTTAAGATATTTTGCAACGCTTCTCAAGCGCCGCTAATACTA
1 AAGACCAAAACGCA-GCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAGCGCCGCTAATACTA
* * * * * *
11747979 TGCTTTAGCGGTATTTTCTAGTAAGTGCCACAAATTCTAGTATACATT
65 TGCATTAGCAGCATTTTCTAGTAAGCGCCACAAATTCTAATATACATC
* *
11748027 AAGACCAAAACGCAGCGTTTTGGTTAAGATATTTTGTGGCGCTTCTCACAAAGTGCCGCTAATAC
1 AAGACCAAAACGCAGCGTTTTGGTTAAGATATTTTGCGGCGCTTCT--C-AAGCGCCGCTAATAC
* * *
11748092 TATGCATTAGCAGCGTTTTCTCA-TAAGCGCCACTAATTCTAATATACCTC
63 TATGCATTAGCAGCATTTTCT-AGTAAGCGCCACAAATTCTAATATACATC
* *
11748142 AAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
1 AAGACCAAAACGCAGCGTTTTGGTTAAGATATTTTGCGGCGCTT
11748185 TGTGCCTTAG
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
112 41 0.30
113 1 0.01
114 35 0.26
115 59 0.43
116 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (112 bp):
AAGACCAAAACGCAGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAGCGCCGCTAATACTAT
GCATTAGCAGCATTTTCTAGTAAGCGCCACAAATTCTAATATACATC
Found at i:11748257 original size:93 final size:92
Alignment explanation
Indices: 11748098--11748368 Score: 400
Period size: 93 Copynumber: 2.9 Consensus size: 92
11748088 ATACTATGCA
*
11748098 TTAGCAGCGTTTTCTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
1 TTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
11748163 GTTAAGATATTTTGCGGCGCTTTGTGCC
66 GTTAAGATATTTTGCGGCGCTTT-TGCC
* *
11748191 TTAGCGGCATTTTCTCATAAGTGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
1 TTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
* * *
11748256 GTTAAGATATTTTGCAGCAC-TTTGCT
66 GTTAAGATATTTTGCGGCGCTTTTGCC
* * * * *
11748282 TTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGCTGCGTTTT
1 TTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAATATACCTCAAGACC-AAACTCTGCGTTTT
* *
11748347 GGTTAAGAGATTTTGCGACGCT
65 GGTTAAGATATTTTGCGGCGCT
11748369 ATTCACAAAG
Statistics
Matches: 159, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
91 47 0.30
92 32 0.20
93 80 0.50
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (92 bp):
TTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
GTTAAGATATTTTGCGGCGCTTTTGCC
Found at i:11748571 original size:114 final size:113
Alignment explanation
Indices: 11748277--11748711 Score: 566
Period size: 114 Copynumber: 3.8 Consensus size: 113
11748267 TTGCAGCACT
* *
11748277 TTGCTTTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGCTGC
1 TTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGC
* * *
11748342 GTTTTGGTTAAGAGATTTTGCGACGCTATTCACAAAGCGCCGCTAATAC
66 GTTTTGGTTAAGAGATTTTGCGGCGCTTTTCACAAAGC-ACGCTAATAC
* * * *
11748391 TATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAATACC-AAACTCTG
1 T-TGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTG
* * *
11748455 CGTTTTGGTTAATATATTTTGCGGCGCTTTTTACAAAGCACAGCTAATAC
65 CGTTTTGGTTAAGAGATTTTGCGGCGCTTTTCACAAAGCAC-GCTAATAC
* ** * * * *
11748505 TTGCTTTAGCGGCATTTTTTCGTATGCGCCACTAATTCTAATATACATCAAGACTAAAACGATGC
1 TTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGC
** * * *
11748570 GTTTTCCTTAAAAAATTTTGCGGCGCTTTTCACGAAGCATCGCTAATAC
66 GTTTTGGTTAAGAGATTTTGCGGCGCTTTTCACAAAGCA-CGCTAATAC
* * *
11748619 TTGCTTTAGCGGCGTTTTCCCATAATCGCCACTAATTCTAGTATACATAAAGACCAAAACGCTGC
1 TTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGC
* *
11748684 ATTTTGGTTAAGAGATTTTGCAGCGCTT
66 GTTTTGGTTAAGAGATTTTGCGGCGCTT
11748712 GATGGTAAAC
Statistics
Matches: 272, Mismatches: 45, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
113 46 0.17
114 176 0.65
115 50 0.18
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (113 bp):
TTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGC
GTTTTGGTTAAGAGATTTTGCGGCGCTTTTCACAAAGCACGCTAATAC
Found at i:11758650 original size:2 final size:2
Alignment explanation
Indices: 11758643--11758679 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
11758633 ACATTTACAC
11758643 AT AT AT AT AT AT AT AT AT AT AT -T CAT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
11758680 TCCAATTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 2 0.06
2 29 0.91
3 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11759508 original size:13 final size:13
Alignment explanation
Indices: 11759487--11759522 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
11759477 TTTGATTAAT
*
11759487 TAATGTAATATAA
1 TAATATAATATAA
11759500 TAATATAATATAA
1 TAATATAATATAA
11759513 TAATATAATA
1 TAATATAATA
11759523 ATATTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
TAATATAATATAA
Found at i:11769144 original size:21 final size:21
Alignment explanation
Indices: 11769118--11769161 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
11769108 TGCGTGTATG
11769118 CTCACTAAATTAATTAAGCAA
1 CTCACTAAATTAATTAAGCAA
*
11769139 CTCACTCAATTAATTAAGCAA
1 CTCACTAAATTAATTAAGCAA
11769160 CT
1 CT
11769162 GAATCTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.30
Consensus pattern (21 bp):
CTCACTAAATTAATTAAGCAA
Found at i:11769951 original size:2 final size:2
Alignment explanation
Indices: 11769913--11769938 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11769903 AATACTAGCT
11769913 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
11769939 AAGGATAATA
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):
TA
Found at i:11779186 original size:27 final size:27
Alignment explanation
Indices: 11779148--11779214 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
11779138 AATTCAAGGG
11779148 TGGTGCCGCCAACAAGGAACCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
* **
11779175 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
11779202 TGGTGCCGCCAAC
1 TGGTGCCGCCAAC
11779215 CTGCTTCCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.16, C:0.31, G:0.28, T:0.24
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGAACCCTTGTT
Found at i:11779222 original size:27 final size:27
Alignment explanation
Indices: 11779148--11779224 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
11779138 AATTCAAGGG
**
11779148 TGGTGCCGCCAACAAGG-AACCCTTGTT
1 TGGTGCCGCCAAC-AGGCTTCCCTTGTT
*
11779175 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGCTTCCCTTGTT
**
11779202 TGGTGCCGCCAACCTGCTTCCCT
1 TGGTGCCGCCAACAGGCTTCCCT
11779225 CCACCCAGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.07
27 41 0.93
ACGTcount: A:0.14, C:0.34, G:0.26, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGCTTCCCTTGTT
Found at i:11779270 original size:11 final size:10
Alignment explanation
Indices: 11779254--11779291 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
11779244 ATCAGTCCAG
11779254 GTTTTTTTTCT
1 GTTTTTTTT-T
11779265 G-TTTTTTTT
1 GTTTTTTTTT
*
11779274 ATTTTTTTTT
1 GTTTTTTTTT
11779284 GTTTTTTT
1 GTTTTTTT
11779292 GATATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 1 0.04
10 22 0.92
11 1 0.04
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.87
Consensus pattern (10 bp):
GTTTTTTTTT
Found at i:11779301 original size:19 final size:20
Alignment explanation
Indices: 11779259--11779301 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
11779249 TCCAGGTTTT
* *
11779259 TTTTCTGTTTTTTTTAT-TT
1 TTTTCTGTTTTTTTGATATA
*
11779278 TTTTTTGTTTTTTTGATATA
1 TTTTCTGTTTTTTTGATATA
11779298 TTTT
1 TTTT
11779302 GGTAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.81
Consensus pattern (20 bp):
TTTTCTGTTTTTTTGATATA
Found at i:11779325 original size:27 final size:29
Alignment explanation
Indices: 11779293--11779361 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
11779283 TGTTTTTTTG
11779293 ATATATTTTGGTAAAT-AAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
11779320 ATATATTTTGGTAAATAAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
*
11779349 A-ACATTTTGGTAA
1 ATATATTTTGGTAA
11779362 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 16 0.41
28 18 0.46
29 5 0.13
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:11779825 original size:17 final size:17
Alignment explanation
Indices: 11779800--11779833 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11779790 CATGCAAATC
11779800 AATTCAAAATAAATAAT
1 AATTCAAAATAAATAAT
* *
11779817 AATTTAAAATAAGTAAT
1 AATTCAAAATAAATAAT
11779834 TTACAACAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
AATTCAAAATAAATAAT
Found at i:11781778 original size:20 final size:21
Alignment explanation
Indices: 11781750--11781789 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11781740 AGAGATTTGC
*
11781750 AAAAGAAGA-AAAAATAAAAT
1 AAAAGAAGATAAAAAGAAAAT
*
11781770 AAAATAAGATAAAAAGAAAA
1 AAAAGAAGATAAAAAGAAAA
11781790 CGAAGAGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAAGAAGATAAAAAGAAAAT
Found at i:11782727 original size:44 final size:44
Alignment explanation
Indices: 11782679--11782825 Score: 154
Period size: 44 Copynumber: 3.3 Consensus size: 44
11782669 AAGTCTGCTT
* *
11782679 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCCGC-A
1 TCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCCGCTA
* * *
11782723 TCTTCGATCCACTTCCTACCAATATAGGAATACAAGA-CCTGCTA
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCC-GCTA
* * * * * * *
11782767 TCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCCGCTA
11782811 TCTTCGATCTACTTC
1 TCTTCGATCTACTTC
11782826 GGCGTTAACG
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
42 2 0.02
43 20 0.24
44 61 0.73
45 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (44 bp):
TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCCGCTA
Found at i:11783034 original size:86 final size:87
Alignment explanation
Indices: 11782829--11783035 Score: 299
Period size: 87 Copynumber: 2.4 Consensus size: 87
11782819 CTACTTCGGC
* * *
11782829 GTTAACGCAGGAAGGTAAGATCTGCTATCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGC
1 GTTAACGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGC
*
11782894 TTTGTTTTCGATCTGCTTCACT
66 TTTGTTTTCGATCTGCTCCACT
* * * *
11782916 GTTAATGCAGGAAGACAAGATCTGCTATCTTTGACCAGCTCCATTGCAATCGATGGAGGCAAGG-
1 GTTAACGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGC
* *
11782980 TTTTTTTTCGATCTGCTCCGCT
66 TTTGTTTTCGATCTGCTCCACT
* *
11783002 GTTAACGCAAGAAGGCAAGATCTGCTTTCTTTGA
1 GTTAACGCAGGAAGGCAAGATCTGCTATCTTTGA
11783036 TCTACTTCGC
Statistics
Matches: 106, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
86 49 0.46
87 57 0.54
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (87 bp):
GTTAACGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGC
TTTGTTTTCGATCTGCTCCACT
Found at i:11783058 original size:131 final size:132
Alignment explanation
Indices: 11782916--11783167 Score: 364
Period size: 131 Copynumber: 1.9 Consensus size: 132
11782906 CTGCTTCACT
* * * *
11782916 GTTAATGCAGGAAGACAAGATCTGCTATCTTTGACCAGCTCCATTGCAA-TCGATGGAGGCAAGG
1 GTTAACGCAGGAAGACAAGATCTACTATCTTTAACCAGCTCCACTGCAACT-GATGGAGGCAAGG
* *
11782980 -TTTTTTTTCGATCTGCTCCGCTGTTAACGCAAGAAGGCAAGATCTGCTTTCTTTGATCTACTTC
65 CTTTGTTTTCGATCTGCTCCGCTGTTAACGCAAGAAGGCAAGATCTGCTATCTTTGATCTACTTC
11783044 GCC
130 GCC
* *
11783047 GTTAACGCAGGAAGATAAGATCTACTATCTTTAACCAGTTCCACTGCAACTGATGGAGGCAAGGC
1 GTTAACGCAGGAAGACAAGATCTACTATCTTTAACCAGCTCCACTGCAACTGATGGAGGCAAGGC
* * ** *
11783112 TTTGTTTTCTATCTGCTTCGCTGTTATTGCAGGAAGGCAAGATCTGCTATCTTTGA
66 TTTGTTTTCGATCTGCTCCGCTGTTAACGCAAGAAGGCAAGATCTGCTATCTTTGA
11783168 CCAACTCCAC
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
131 56 0.53
132 50 0.47
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (132 bp):
GTTAACGCAGGAAGACAAGATCTACTATCTTTAACCAGCTCCACTGCAACTGATGGAGGCAAGGC
TTTGTTTTCGATCTGCTCCGCTGTTAACGCAAGAAGGCAAGATCTGCTATCTTTGATCTACTTCG
CC
Found at i:11783060 original size:218 final size:219
Alignment explanation
Indices: 11782794--11783246 Score: 710
Period size: 218 Copynumber: 2.1 Consensus size: 219
11782784 GCCAATACAT
* * * *
11782794 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGGCGTTAACGCAGGAAGGTAAGATCTGCTATCT
1 GAAGGCAAGATCTGCTTTCTTCGATCTACTTCGCCGTTAACGCAGGAAGATAAGATCTACTATCT
*
11782859 TTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAATGC
66 TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAATGC
* * *
11782924 AGGAAGACAAGATCTGCTATCTTTGACCAGCTCCATTGCAATCGATGGAGGCAAGGTTTT-TTTT
131 AGGAAGACAAGATCTGCTATCTTTGACCAACTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTT
*
11782988 CGATCTGCTCCGCTGTTAACGCAA
196 CGATCTGCTCCGCTGTTAACACAA
*
11783012 GAAGGCAAGATCTGCTTTCTTTGATCTACTTCGCCGTTAACGCAGGAAGATAAGATCTACTATCT
1 GAAGGCAAGATCTGCTTTCTTCGATCTACTTCGCCGTTAACGCAGGAAGATAAGATCTACTATCT
* * * * *
11783077 TTAACCAGTTCCACTGCAACTGATGGAGGCAAGGCTTTGTTTTCTATCTGCTTCGCTGTTATTGC
66 TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAATGC
*
11783142 AGGAAGGCAAGATCTGCTATCTTTGACCAACTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTT
131 AGGAAGACAAGATCTGCTATCTTTGACCAACTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTT
* ** * *
11783207 CGATCTGGTTTGCTGTTAATACAG
196 CGATCTGCTCCGCTGTTAACACAA
11783231 GAAGGCAAGATCTGCT
1 GAAGGCAAGATCTGCT
11783247 ATATTTGACC
Statistics
Matches: 213, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
218 175 0.82
219 38 0.18
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (219 bp):
GAAGGCAAGATCTGCTTTCTTCGATCTACTTCGCCGTTAACGCAGGAAGATAAGATCTACTATCT
TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAATGC
AGGAAGACAAGATCTGCTATCTTTGACCAACTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTT
CGATCTGCTCCGCTGTTAACACAA
Found at i:11783189 original size:87 final size:87
Alignment explanation
Indices: 11783034--11783455 Score: 637
Period size: 87 Copynumber: 4.9 Consensus size: 87
11783024 TGCTTTCTTT
* * * ** * * * *
11783034 GATCTACTTCGCCGTTAACGCAGGAAGATAAGATCTACTATCTTTAACCAGTTCCACTGCAACTG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCG
*
11783099 ATGGAGGCAAGGCTTTGTTTTC
66 ATGGAGGCAAGGTTTTGTTTTC
* * *
11783121 TATCTGCTTCGCTGTTATTGCAGGAAGGCAAGATCTGCTATCTTTGACCAACTCCACTGCAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCG
11783186 ATGGAGGCAAGGTTTTGTTTTC
66 ATGGAGGCAAGGTTTTGTTTTC
* * * *
11783208 GATCTGGTTTGCTGTTAATACAGGAAGGCAAGATCTGCTATATTTGACCAGCTCCACTGCAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCG
*
11783273 ATGGAGGCAATGTTTTGTTTTC
66 ATGGAGGCAAGGTTTTGTTTTC
* *
11783295 GATCTGTTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCG
*
11783360 ATGGAGGTAAGGTTTTGTTTTC
66 ATGGAGGCAAGGTTTTGTTTTC
* *
11783382 GATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACTG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCG
11783447 ATGGAGGCA
66 ATGGAGGCA
11783456 GACTTTGCTT
Statistics
Matches: 302, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 302 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (87 bp):
GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCG
ATGGAGGCAAGGTTTTGTTTTC
Found at i:11783874 original size:13 final size:13
Alignment explanation
Indices: 11783856--11783883 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11783846 CAATTTAAGG
11783856 ATACAGGATCTGC
1 ATACAGGATCTGC
11783869 ATACAGGATCTGC
1 ATACAGGATCTGC
11783882 AT
1 AT
11783884 CATTCTGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (13 bp):
ATACAGGATCTGC
Found at i:11784688 original size:14 final size:14
Alignment explanation
Indices: 11784669--11784723 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
11784659 TTAGCCTCTC
11784669 CATTTTT-ACTCTTT
1 CATTTTTCA-TCTTT
*
11784683 CATTTTTCATTTTT
1 CATTTTTCATCTTT
*
11784697 CATTTTCCAT-TTT
1 CATTTTTCATCTTT
*
11784710 CATTCTTCATCTTT
1 CATTTTTCATCTTT
11784724 TTCTTTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
13 11 0.31
14 23 0.66
15 1 0.03
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.64
Consensus pattern (14 bp):
CATTTTTCATCTTT
Found at i:11784692 original size:7 final size:7
Alignment explanation
Indices: 11784680--11784724 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
11784670 ATTTTTACTC
11784680 TTTCATT
1 TTTCATT
11784687 TTTCATT
1 TTTCATT
11784694 TTTCATT
1 TTTCATT
*
11784701 TTCCA-T
1 TTTCATT
11784707 TTTCATT
1 TTTCATT
*
11784714 CTTCATCT
1 TTTCAT-T
11784722 TTT
1 TTT
11784725 TCTTTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 5 0.16
7 24 0.75
8 3 0.09
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTCATT
Found at i:11785136 original size:29 final size:26
Alignment explanation
Indices: 11785099--11785157 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 26
11785089 TCATATTTTA
11785099 TTTTGACTTTGATTGATTTCTCTTTTTGC
1 TTTTGACTTTGATT--TTT-TCTTTTTGC
*
11785128 TTTTGACTTTGATTTTTTCTTTTTGT
1 TTTTGACTTTGATTTTTTCTTTTTGC
11785154 TTTT
1 TTTT
11785158 TTATTTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 12 0.41
27 3 0.10
29 14 0.48
ACGTcount: A:0.08, C:0.10, G:0.12, T:0.69
Consensus pattern (26 bp):
TTTTGACTTTGATTTTTTCTTTTTGC
Found at i:11789874 original size:17 final size:17
Alignment explanation
Indices: 11789849--11789882 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11789839 CATGCAAATC
11789849 AATTCAAAATAAATAAT
1 AATTCAAAATAAATAAT
* *
11789866 AATTTAAAATAAGTAAT
1 AATTCAAAATAAATAAT
11789883 TTACAACAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
AATTCAAAATAAATAAT
Found at i:11795644 original size:95 final size:95
Alignment explanation
Indices: 11795541--11795908 Score: 673
Period size: 95 Copynumber: 3.9 Consensus size: 95
11795531 TAAAAATTAC
** * *
11795541 ATCAATAATTAAAATAAGGACTTTAATATTTTCCTAGAATAAGGACTCATCAATAATTAAATAAG
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAATAAG
* *
11795606 GACTTTAATATCTTAGTGCTATAAGGACTA
66 GACTTTAATATTTTATTGCTATAAGGACTA
11795636 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAATAAG
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAATAAG
11795701 GACTTTAATATTTTATTGCTATAAGGACTA
66 GACTTTAATATTTTATTGCTATAAGGACTA
11795731 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAATAAG
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAATAAG
11795796 GACTTTAATATTTTATTGCTATAAGGACTA
66 GACTTTAATATTTTATTGCTATAAGGACTA
11795826 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATT-AAATAA
11795891 GGACTTTAATATTTTATT
65 GGACTTTAATATTTTATT
11795909 AAAAATCACG
Statistics
Matches: 266, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
95 242 0.91
96 24 0.09
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (95 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAATAAG
GACTTTAATATTTTATTGCTATAAGGACTA
Found at i:11795910 original size:48 final size:48
Alignment explanation
Indices: 11795541--11795912 Score: 588
Period size: 48 Copynumber: 7.8 Consensus size: 48
11795531 TAAAAATTAC
** * *
11795541 ATCAATAATTAAAATAAGGACTTTAATATTTTCCTAGAATAAGGACTC
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
* * ***
11795589 ATCAATAATT-AAATAAGGACTTTAATATCTTAGTGCTATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
11795636 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
***
11795684 ATCAATAATT-AAATAAGGACTTTAATATTTTATTGCTATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
11795731 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
***
11795779 ATCAATAATT-AAATAAGGACTTTAATATTTTATTGCTATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
11795826 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
11795874 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
11795913 ATCACGAAAT
Statistics
Matches: 297, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 128 0.43
48 169 0.57
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:11807075 original size:24 final size:24
Alignment explanation
Indices: 11807048--11807097 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
11807038 AGACTGCAGG
11807048 GAAAGATTTGGTGGCTGATAAAGT
1 GAAAGATTTGGTGGCTGATAAAGT
11807072 GAAAGATTTGGTGGCTGATAAAGT
1 GAAAGATTTGGTGGCTGATAAAGT
11807096 GA
1 GA
11807098 CTTATCCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.04, G:0.34, T:0.28
Consensus pattern (24 bp):
GAAAGATTTGGTGGCTGATAAAGT
Found at i:11808420 original size:22 final size:22
Alignment explanation
Indices: 11808390--11808432 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11808380 ACACCAAAAC
* *
11808390 AGGCTTTTAGCGGCGTTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
11808412 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
11808433 AGCGCCGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:11808585 original size:43 final size:43
Alignment explanation
Indices: 11808527--11808756 Score: 289
Period size: 43 Copynumber: 5.3 Consensus size: 43
11808517 TTATTTGAAA
* * *
11808527 AAACGCCGCTGAAGAACATGATCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* ** *
11808570 AAACGTCGCTAAAGAACATGATTTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* *
11808613 AAACACCGCTAAAGAACATGACCTTTAGCGGCGGTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
11808656 AAATGCCGCTAAAGAACCTGACCTTTAGCGGCGGTTTTCCTAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * *
11808699 TAACGCCGCTAAAGAACCTGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* *
11808742 AAATGCCTCTAAAGA
1 AAACGCCGCTAAAGA
11808757 TCATAAAAAA
Statistics
Matches: 165, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 165 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:11812724 original size:29 final size:30
Alignment explanation
Indices: 11812665--11812722 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11812655 TCCGAGCCTT
*
11812665 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* * *
11812695 GGGGTAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
11812723 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.33
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:11813171 original size:50 final size:50
Alignment explanation
Indices: 11813068--11813308 Score: 320
Period size: 50 Copynumber: 4.7 Consensus size: 50
11813058 AAAGAGATCT
11813068 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GA-CATGAGAGGTCC
* *
11813124 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGGTCC
* *
11813174 CATGTAAGACCATGTCTGGGTCATGGCATTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGGTCC
* * * * **
11813224 CCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATGAGAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAG-AGGTCC
*
11813275 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
11813309 TGTTATTATC
Statistics
Matches: 168, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
50 97 0.58
51 36 0.21
55 2 0.01
56 33 0.20
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGGTCC
Found at i:11822683 original size:50 final size:50
Alignment explanation
Indices: 11822572--11822820 Score: 318
Period size: 50 Copynumber: 4.8 Consensus size: 50
11822562 ATTTGGGTAA
*
11822572 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GA-CATG
* *
11822628 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
* *
11822678 AGAGGTCCCATGTAAGACCATGTCTGGGTCATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
* * * *
11822728 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
** * *
11822778 AGAACATTCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
11822821 TGTTATTATC
Statistics
Matches: 174, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
50 97 0.56
51 35 0.20
55 2 0.01
56 40 0.23
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
Found at i:11823872 original size:2 final size:2
Alignment explanation
Indices: 11823865--11823900 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11823855 CTTTGTCCCC
11823865 AT AT AT AT AT 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 AT AT
11823901 TAGGTTAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11827473 original size:108 final size:105
Alignment explanation
Indices: 11827156--11827475 Score: 390
Period size: 106 Copynumber: 3.0 Consensus size: 105
11827146 ACGACATGGA
* * * *
11827156 TTAAAATTT-AAGAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAATCCAGCACGTTAGGG
1 TTAAAATTTAAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGG
* * **
11827220 CACATTCTCTCGAATTTCCAAACGCAAAACATTGCCTCGTT
66 CACATTTTCTCG-ATTTCCAAACGCAAAATATTGCCTTATT
* * * * * *
11827261 TTAAAATTTCAAAAGGATATTCGACTATTTGGCCAAACGAGTAATCGAAACCCAACACGTTAGGG
1 TTAAAATTTAAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGG
* * *
11827326 CACATTTTCTCGGATTTCCAAACGCGAAATATGGTCTTATT
66 CACATTTTCTC-GATTTCCAAACGCAAAATATTGCCTTATT
* *
11827367 TTGAAAGTTTAAAAAGGGTATTTGGCTATTTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAG
1 TT-AAAATTTAAAAAGGATATTTGGCTA-TTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAG
* * *
11827432 GGCGCGTTTTCTCGATTTCCCAAACGCAAAATATTACCTTATT
64 GGCACATTTTCTCGATTT-CCAAACGCAAAATATTGCCTTATT
11827475 T
1 T
11827476 AGATTTTTTT
Statistics
Matches: 180, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
105 9 0.05
106 80 0.44
107 26 0.14
108 65 0.36
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (105 bp):
TTAAAATTTAAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGG
CACATTTTCTCGATTTCCAAACGCAAAATATTGCCTTATT
Found at i:11829047 original size:108 final size:107
Alignment explanation
Indices: 11828776--11829102 Score: 415
Period size: 106 Copynumber: 3.1 Consensus size: 107
11828766 GACATGGATT
* * * * *
11828776 AAAATTT-AAGAGGATATTTAGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCA
1 AAAATTTAAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCA
* * * * **
11828840 CATTCTCTCGAATTTTCAAACGCAAAACATTGTCTCGTTTT-
66 CGTTTTCTCGAATTTCCAAACGCAAAATATTGTCTTATTTTG
** * * * *
11828881 AAAATTTCGAAAGGATATTCGACTATTTGGCCAAACGAGTAATCGAAACCCAACACGTTAGGGCA
1 AAAATTTAAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCA
*
11828946 CGTTTTCTCGAATTTCCAAACGCGAAATATTGTCTTATTTTG
66 CGTTTTCTCGAATTTCCAAACGCAAAATATTGTCTTATTTTG
* *
11828988 AAAGTTTAAAAAGGGTATTTGGCTATTTTGGTCAAACGAGAAATCGAAACCCAACACGTTAGGGC
1 AAAATTTAAAAAGGATATTTGGCTA-TTTGGTCAAACGAGAAATCGAAACCCAACACGTTAGGGC
* ** *
11829053 ACGTTTTCTCGATTTTCCAAACGCAAAATATTACCTTATTTAG
65 ACGTTTTCTCGAATTTCCAAACGCAAAATATTGTCTTATTTTG
11829096 AAAATTT
1 AAAATTT
11829103 TCTTTTTTGA
Statistics
Matches: 188, Mismatches: 31, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
105 7 0.04
106 81 0.43
107 19 0.10
108 81 0.43
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (107 bp):
AAAATTTAAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCA
CGTTTTCTCGAATTTCCAAACGCAAAATATTGTCTTATTTTG
Found at i:11829597 original size:2 final size:2
Alignment explanation
Indices: 11829590--11829615 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11829580 ATGTATATGC
11829590 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
11829616 CTCACCTTCA
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:11834324 original size:16 final size:16
Alignment explanation
Indices: 11834303--11834335 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11834293 TCAGTGGAAG
*
11834303 CAAAAAAAACCAAAAA
1 CAAAAAAAACAAAAAA
11834319 CAAAAAAAACAAAAAA
1 CAAAAAAAACAAAAAA
11834335 C
1 C
11834336 CTCTACCGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (16 bp):
CAAAAAAAACAAAAAA
Found at i:11834801 original size:18 final size:17
Alignment explanation
Indices: 11834771--11834804 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11834761 TCACTCGAAA
*
11834771 AAAAGAAACGAAAAGAC
1 AAAAGAAAAGAAAAGAC
11834788 AAAAGAAAAAGAAAAGA
1 AAAAG-AAAAGAAAAGA
11834805 AGAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.76, C:0.06, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAAAAGAC
Found at i:11834815 original size:24 final size:23
Alignment explanation
Indices: 11834770--11834822 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
11834760 TTCACTCGAA
* * *
11834770 AAAAAGAAACGAAAAGACAAAAG
1 AAAAAGAAAAGAAAACAAAAAAG
11834793 AAAAAGAAAAGAAGAACAAAAAAG
1 AAAAAGAAAAGAA-AACAAAAAAG
11834817 AAAAAG
1 AAAAAG
11834823 GAGAGACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAGAAAACAAAAAAG
Found at i:11835737 original size:24 final size:24
Alignment explanation
Indices: 11835705--11835762 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
11835695 ATGTCTCTAA
11835705 ATTACAGTGGACTGAACCTTGAAG
1 ATTACAGTGGACTGAACCTTGAAG
* * *
11835729 ATTATAGTGGATTGAACTTTGAAG
1 ATTACAGTGGACTGAACCTTGAAG
11835753 ATTACAGTGG
1 ATTACAGTGG
11835763 GGCAGTTCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (24 bp):
ATTACAGTGGACTGAACCTTGAAG
Found at i:11836259 original size:100 final size:100
Alignment explanation
Indices: 11836054--11836721 Score: 796
Period size: 100 Copynumber: 6.7 Consensus size: 100
11836044 TCCCTAGCAG
* * *
11836054 TGCAGTGGAGTAGATTGAAGCTACAACGGCGAATCTTG-TTCCCCGACATTGCAATTTAAGAGAT
1 TGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGAT
* * * *
11836118 TGAAGCCACAACGGCGAATCTCATTTCCCTGGC-A
66 TGAAGCCGCAACGGCGAATCTTACTTCCCAGGCGA
* * * * *
11836152 GTACAGTGGAGCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCTGATATTGCAATTTAAAAGA
1 -TGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGA
* * *
11836217 TTGAAGCCACAACGGCGAATCTTACTTCTCAGGTGA
65 TTGAAGCCGCAACGGCGAATCTTACTTCCCAGGCGA
* * * * * *
11836253 TGCAGTGGATCAAATTAAAGCTACAACGGTGAATCTT-ATTCTCCGACATTACAATTTAAAAGAT
1 TGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGAT
*
11836317 TGAAGCCGCAACGGCGAATCTTACTT-CTATGGCGA
66 TGAAGCCGCAACGGCGAATCTTACTTCCCA-GGCGA
* * * *
11836352 TACAGTGGAGCAGATTAAAGCTACAACGGTGAATCTAGCTTCCCCGACATTGCAATTTAAAATAT
1 TGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGAT
* *
11836417 TGAAGCTGCAACGACGAATCTTACTT-CCATGGCGA
66 TGAAGCCGCAACGGCGAATCTTACTTCCCA-GGCGA
* * * *
11836452 TGCAGTGGGGCAGATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
1 TGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGAT
* *
11836517 TAAAGCCGCAACGGCGAATCTTACTTCCCTGGCGA
66 TGAAGCCGCAACGGCGAATCTTACTTCCCAGGCGA
* * *
11836552 TGCAGTGGATCAGATTGAAA-CTACAACGACGAATCTTG-TTCCCCGACATTGCAATTAAAAAGA
1 TGCAGTGGAGCAGATT-AAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGA
* *
11836615 TTGAAGCCGCAACGGCGAATCTTACTTCCCTGG-TA
65 TTGAAGCCGCAACGGCGAATCTTACTTCCCAGGCGA
** * * * * *
11836650 GTGCAGTGGAATAGATTGAAGCTACAACGGCGAATC-TGGTTCCCTGACATTGTAGTTTAAAAAG
1 -TGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTT-AAAAG
*
11836714 ATTAAAGC
64 ATTGAAGC
11836722 TATACACCAC
Statistics
Matches: 492, Mismatches: 67, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
98 6 0.01
99 217 0.44
100 263 0.53
101 6 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (100 bp):
TGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGAT
TGAAGCCGCAACGGCGAATCTTACTTCCCAGGCGA
Found at i:11836379 original size:50 final size:50
Alignment explanation
Indices: 11836054--11836686 Score: 284
Period size: 50 Copynumber: 12.7 Consensus size: 50
11836044 TCCCTAGCAG
** * * *
11836054 TGCAGTGGAGTAGATTGAAGCTACAACGGCGAATCTT-GTTCCCCGAC-A
1 TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGGCGA
* ** * * * * * *
11836102 TTGCAATTTAAGAGATTGAAGCCACAACGGCGAATCTCATTTCCCTGGC-A
1 -TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGGCGA
* * * * * * **
11836152 GTACAGTGGAGCAGATTAAAGCTACGACGGCAAATCTTGCTT-CCCTGATA
1 -TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGGCGA
* ** * * * * * *
11836202 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGTGA
1 -TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGGCGA
* * * * *
11836253 TGCAGTGGATCAAATTAAAGCTACAACGGTGAATCTTA-TTCTCCGAC-A
1 TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGGCGA
* * ** * * ** ***
11836301 TTACAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCTATGGCGA
1 -TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGGCGA
* * * *
11836352 TACAGTGGAGCAGATTAAAGCTACAACGGTGAATC-TAGCTTCCCCGAC-A
1 TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTA-CTTCCCCGGCGA
* ** * * * * * **
11836401 TTGCAATTTAAAATATTGAAGCTGCAACGACGAATCTTACTTCCATGGCGA
1 -TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGGCGA
** * * * *
11836452 TGCAGTGGGGCAGATTAAAGCTACGATGGCGAATCTTGCTTCCCCGAC-A
1 TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGGCGA
* ** * ** *
11836501 TTGCAATTAAAAAGATTAAAGCCGCAACGGCGAATCTTACTTCCCTGGCGA
1 -TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGGCGA
* * * *
11836552 TGCAGTGGATCAGATTGAAA-CTACAACGACGAATCTT-GTTCCCCGAC-A
1 TGCAGTGGAACAGATT-AAAGCTACAACGGCGAATCTTACTTCCCCGGCGA
* ** * * ** * *
11836600 TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGG-TA
1 -TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGGCGA
* *
11836650 GTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCT
1 -TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCT
11836687 GGTTCCCTGA
Statistics
Matches: 411, Mismatches: 156, Indels: 33
0.69 0.26 0.05
Matches are distributed among these distances:
48 4 0.01
49 102 0.25
50 294 0.72
51 11 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGGCGA
Found at i:11836395 original size:199 final size:197
Alignment explanation
Indices: 11836054--11836721 Score: 822
Period size: 199 Copynumber: 3.4 Consensus size: 197
11836044 TCCCTAGCAG
* * *
11836054 TGCAGTGGAGTAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTTAAGAGATT
1 TGCAGTGGA-TAGATTAAAGCTACAACGGCGAATCTTATTCCCCGACATTGCAATTTAAAAGATT
* * * *
11836119 GAAGCCACAACGGCGAATCTCATTTCCCTGGC-AGTACAGTGGAGCAGATTAAAGCTACGACGGC
65 GAAGCCGCAACGGCGAATCTTACTTCCCTGGCGA-TACAGTGGAGCAGATTAAAGCTACAACGGC
* * * *
11836183 AAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCA
129 GAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTC-CA
11836248 GGTGA
193 GGTGA
* * * *
11836253 TGCAGTGGATCAAATTAAAGCTACAACGGTGAATCTTATTCTCCGACATTACAATTTAAAAGATT
1 TGCAGTGGAT-AGATTAAAGCTACAACGGCGAATCTTATTCCCCGACATTGCAATTTAAAAGATT
** *
11836318 GAAGCCGCAACGGCGAATCTTACTTCTATGGCGATACAGTGGAGCAGATTAAAGCTACAACGGTG
65 GAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATACAGTGGAGCAGATTAAAGCTACAACGGCG
* * * *
11836383 AATCTAGCTTCCCCGACATTGCAATTTAAAATATTGAAGCTGCAACGACGAATCTTACTTCCATG
130 AATCTTGCTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCA-G
*
11836448 GCGA
194 GTGA
** * * * *
11836452 TGCAGTGGGGCAGATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
1 TGCAGT-GGATAGATTAAAGCTACAACGGCGAATCTT-ATTCCCCGACATTGCAATTTAAAAGAT
* * * *
11836517 TAAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGATCAGATTGAAA-CTACAACGA
64 TGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATACAGTGGAGCAGATT-AAAGCTACAACGG
*
11836581 CGAATCTTG-TTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCC
128 CGAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTT-CC
*
11836645 TGGT-A
192 AGGTGA
* ** * * *
11836650 GTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCTGGTTCCCTGACATTGTAGTTTAAAAAGA
1 -TGCAGTGG-ATAGATTAAAGCTACAACGGCGAATCTTATTCCCCGACATTGCAATTT-AAAAGA
*
11836715 TTAAAGC
63 TTGAAGC
11836722 TATACACCAC
Statistics
Matches: 401, Mismatches: 58, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
198 21 0.05
199 288 0.72
200 89 0.22
201 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (197 bp):
TGCAGTGGATAGATTAAAGCTACAACGGCGAATCTTATTCCCCGACATTGCAATTTAAAAGATTG
AAGCCGCAACGGCGAATCTTACTTCCCTGGCGATACAGTGGAGCAGATTAAAGCTACAACGGCGA
ATCTTGCTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCAGGT
GA
Found at i:11836630 original size:299 final size:297
Alignment explanation
Indices: 11836056--11836721 Score: 888
Period size: 299 Copynumber: 2.2 Consensus size: 297
11836046 CCTAGCAGTG
*
11836056 CAGTGGAGTAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTTAAGAGATTGA
1 CAGTGGAGTAGATTGAAGCTACAACGGCGAATC-TGTTCCCCGACATTGCAATTTAAAAGATTGA
* * *
11836121 AGCCACAACGGCGAATCTCATTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCAAA
65 AGCCACAACGACGAATCTCACTTCCATGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCAAA
* * * * * *
11836186 TCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGT
130 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCAGGC
** * *
11836251 GATGCAGTGGATCAAATTAAAGCTACAACGGTGAATCTTATTCTCCGACATTACAATTTAAAAGA
195 GATGCAGTGGATCAAATTAAAGCTACAACGACGAATCTTATTCCCCGACATTACAATTAAAAAGA
*
11836316 TTGAAGCCGCAACGGCGAATCTTACTTCTATGGCGA-TA
260 TTGAAGCCGCAACGGCGAATCTTACTTCCATGG-GAGTA
* * * *
11836354 CAGTGGAGCAGATTAAAGCTACAACGGTGAATCTAGCTTCCCCGACATTGCAATTTAAAATATTG
1 CAGTGGAGTAGATTGAAGCTACAACGGCGAATCT-G-TTCCCCGACATTGCAATTTAAAAGATTG
** * * * * *
11836419 AAGCTGCAACGACGAATCTTACTTCCATGGC-GATGCAGTGGGGCAGATTAAAGCTACGATGGCG
64 AAGCCACAACGACGAATCTCACTTCCATGGCAG-TACAGTGGAGCAGATTAAAGCTACGACGGCA
* *
11836483 AATCTTGCTTCCCCGACATTGCAATTAAAAAGATTAAAGCCGCAACGGCGAATCTTACTTCCCTG
128 AATCTTGCTTCCCCGACATTGCAATTAAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCAG
* * *
11836548 GCGATGCAGTGGATCAGATTGAAA-CTACAACGACGAATCTTGTTCCCCGACATTGCAATTAAAA
193 GCGATGCAGTGGATCAAATT-AAAGCTACAACGACGAATCTTATTCCCCGACATTACAATTAAAA
* * *
11836612 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGTAGTG
257 AGATTGAAGCCGCAACGGCGAATCTTACTTCCATGGGAGTA
* * * * *
11836653 CAGTGGAATAGATTGAAGCTACAACGGCGAATCTGGTTCCCTGACATTGTAGTTTAAAAAGATTA
1 CAGTGGAGTAGATTGAAGCTACAACGGCGAATCT-GTTCCCCGACATTGCAATTT-AAAAGATTG
11836718 AAGC
64 AAGC
11836722 TATACACCAC
Statistics
Matches: 318, Mismatches: 44, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
297 1 0.00
298 49 0.15
299 265 0.83
300 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (297 bp):
CAGTGGAGTAGATTGAAGCTACAACGGCGAATCTGTTCCCCGACATTGCAATTTAAAAGATTGAA
GCCACAACGACGAATCTCACTTCCATGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCAAAT
CTTGCTTCCCCGACATTGCAATTAAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCAGGCG
ATGCAGTGGATCAAATTAAAGCTACAACGACGAATCTTATTCCCCGACATTACAATTAAAAAGAT
TGAAGCCGCAACGGCGAATCTTACTTCCATGGGAGTA
Found at i:11836790 original size:40 final size:40
Alignment explanation
Indices: 11836735--11837260 Score: 533
Period size: 40 Copynumber: 12.8 Consensus size: 40
11836725 ACACCACAAA
*
11836735 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
* * * *
11836775 TCTTATCTCCCTAAGCAATAGTGGAGCAGA-CAAAACCACGG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAATCA-AG
* **
11836816 ATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGCCTCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
*
11836857 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAATCA-AG
* *
11836898 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
* *
11836939 TCTTATCTCCCTAAGCAGCAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAATCA-AG
*
11836980 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCGAA-
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATC-AAG
* *
11837021 TCTTATCTCCCTAAGCAGTGGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAATCA-AG
* *
11837062 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATTAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
* *
11837103 TCTTATCTCCCTAAGCAATAGTGGAGCAGATAGAAAAAAATCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-----AATCAAG
* ** * ** ** *
11837147 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATCA-AG
* *
11837190 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
11837231 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
11837261 CAGAAAAAAA
Statistics
Matches: 400, Mismatches: 58, Indels: 56
0.78 0.11 0.11
Matches are distributed among these distances:
39 5 0.01
40 189 0.47
41 16 0.04
42 133 0.33
43 17 0.04
44 22 0.05
45 16 0.04
46 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
Found at i:11836864 original size:82 final size:82
Alignment explanation
Indices: 11836727--11837260 Score: 709
Period size: 82 Copynumber: 6.5 Consensus size: 82
11836717 AAAGCTATAC
*
11836727 ACCACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
1 ACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
* *
11836792 ATAGTGGAGCAGACAAA
66 GTAGTGGAGCAGACAGA
* * *
11836809 ACCACGGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAAGCA
1 ACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
11836874 GTAGTGGAGCAGACAGA
66 GTAGTGGAGCAGACAGA
*
11836891 ACCACAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
1 ACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
*
11836956 GCAGTGGAGCAGACAGA
66 GTAGTGGAGCAGACAGA
11836973 ACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCGAA-TCTTATCTCCCTAAGC
1 ACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATC-AAGTCTTATCTCCCTAAGC
*
11837037 AGTGGTGGAGCAGACAGA
65 AGTAGTGGAGCAGACAGA
*
11837055 ACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATTAAGTCTTATCTCCCTAAGCA
1 ACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
* *
11837120 ATAGTGGAGCAGATAGAAA
66 GTAGTGGAGCAGACAG--A
** * ** * ** *** *
11837139 AAAATCA-ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCT
1 ACCA-CAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGCATCA-AG-TCTTATCTCCCT
* *
11837203 AAGCAATAGTGGAGCAGATC-GC
61 AAGCAGTAGTGGAGCAGA-CAGA
*
11837225 ATCA-AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 ACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
11837261 CAGAAAAAAA
Statistics
Matches: 400, Mismatches: 41, Indels: 21
0.87 0.09 0.05
Matches are distributed among these distances:
81 2 0.00
82 303 0.76
83 15 0.04
84 27 0.07
85 15 0.04
86 5 0.01
87 2 0.00
88 31 0.08
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (82 bp):
ACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
GTAGTGGAGCAGACAGA
Found at i:11837720 original size:17 final size:18
Alignment explanation
Indices: 11837688--11837721 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11837678 GGATTGGAAT
*
11837688 GAAGCTACTTGAAGAAGA
1 GAAGCTACTAGAAGAAGA
11837706 GAAGC-ACTAGAAGAAG
1 GAAGCTACTAGAAGAAG
11837722 TCAAGACTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.12, G:0.29, T:0.12
Consensus pattern (18 bp):
GAAGCTACTAGAAGAAGA
Found at i:11839248 original size:18 final size:21
Alignment explanation
Indices: 11839225--11839268 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11839215 CATATACATG
11839225 CATACA-TTTT-A-TAATACA
1 CATACATTTTTAATTAATACA
11839243 CATACATTTTTAATTAATACA
1 CATACATTTTTAATTAATACA
11839264 CATAC
1 CATAC
11839269 TTATACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.26
19 4 0.17
20 1 0.04
21 12 0.52
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (21 bp):
CATACATTTTTAATTAATACA
Done.