Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 53 of 378
Found at i:13190074 original size:9 final size:9
Alignment explanation
Indices: 13190060--13190085 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13190050 CCGAATTTTG
13190060 ATACTATTA
1 ATACTATTA
13190069 ATACTATTA
1 ATACTATTA
13190078 ATACTATT
1 ATACTATT
13190086 TGTATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (9 bp):
ATACTATTA
Found at i:13190212 original size:22 final size:22
Alignment explanation
Indices: 13190179--13190225 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
13190169 ATTAATTGAA
13190179 TATTTTTCATTATTGTTATT-AT
1 TATTTTTCATTATTG-TATTCAT
13190201 TATTTCTT-ATTATTGTATTCAT
1 TATTT-TTCATTATTGTATTCAT
13190223 TAT
1 TAT
13190226 AGTATTGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 17 0.74
23 2 0.09
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.66
Consensus pattern (22 bp):
TATTTTTCATTATTGTATTCAT
Found at i:13190507 original size:21 final size:21
Alignment explanation
Indices: 13190477--13190518 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13190467 ACATAGGATT
13190477 TAGGTAATAATCAAATGACGA
1 TAGGTAATAATCAAATGACGA
*
13190498 TAGGTGATAATCAAATGACGA
1 TAGGTAATAATCAAATGACGA
13190519 GTATTCTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (21 bp):
TAGGTAATAATCAAATGACGA
Found at i:13194776 original size:3 final size:3
Alignment explanation
Indices: 13194770--13194807 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
13194760 AATAATACTA
13194770 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13194808 ATTTATATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:13195405 original size:5 final size:5
Alignment explanation
Indices: 13195370--13195401 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
13195360 TATTATTTTT
*
13195370 TAAAA TAAAA TAAAA TAAAA TAAAA TATAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
13195402 TAATTTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (5 bp):
TAAAA
Found at i:13196938 original size:10 final size:10
Alignment explanation
Indices: 13196925--13196960 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
13196915 TACAATATGT
13196925 ATATATATAC
1 ATATATATAC
**
13196935 ATATATATGT
1 ATATATATAC
13196945 ATATATATAC
1 ATATATATAC
13196955 ATATAT
1 ATATAT
13196961 TGACCATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (10 bp):
ATATATATAC
Found at i:13196944 original size:20 final size:20
Alignment explanation
Indices: 13196919--13196960 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
13196909 GTGTTTTACA
13196919 ATATGTATATATATACATAT
1 ATATGTATATATATACATAT
13196939 ATATGTATATATATACATAT
1 ATATGTATATATATACATAT
13196959 AT
1 AT
13196961 TGACCATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
ATATGTATATATATACATAT
Found at i:13208469 original size:18 final size:18
Alignment explanation
Indices: 13208446--13208496 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
13208436 CACAGCCTGG
*
13208446 CCACACGGGCGTGTGTAC
1 CCACACGGGCATGTGTAC
*
13208464 CCACACGGGCTTGTGTAC
1 CCACACGGGCATGTGTAC
*
13208482 CCATACGGGCATGTG
1 CCACACGGGCATGTG
13208497 AAATCTCCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.20
Consensus pattern (18 bp):
CCACACGGGCATGTGTAC
Found at i:13209038 original size:20 final size:19
Alignment explanation
Indices: 13208989--13209049 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
13208979 TTAATATAAA
*
13208989 TAAATATTATTAAATTATTTT
1 TAAATATT-TTAAA-TATATT
** *
13209010 TGTATATTTTTAATAGTATT
1 TAAATATTTTAAATA-TATT
13209030 TAAATATTTTAAATATATT
1 TAAATATTTTAAATATATT
13209049 T
1 T
13209050 TATTTTATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
19 7 0.22
20 19 0.59
21 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TAAATATTTTAAATATATT
Found at i:13209242 original size:44 final size:44
Alignment explanation
Indices: 13209191--13209281 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
13209181 AAAACATTTG
13209191 AAATAATATAATAAAATTAAAATAATTAAAAGCTAACAACTAAT
1 AAATAATATAATAAAATTAAAATAATTAAAAGCTAACAACTAAT
13209235 AAATAATATAATAAAATTAAAATAATTAAAAGCTAACAACTAAT
1 AAATAATATAATAAAATTAAAATAATTAAAAGCTAACAACTAAT
13209279 AAA
1 AAA
13209282 AAGAGAGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (44 bp):
AAATAATATAATAAAATTAAAATAATTAAAAGCTAACAACTAAT
Found at i:13211249 original size:42 final size:41
Alignment explanation
Indices: 13211131--13211312 Score: 197
Period size: 42 Copynumber: 4.4 Consensus size: 41
13211121 AAACGGCCAG
*
13211131 GGACATGAGCGTGTGCCCAGGCCGTGTGAGCCACACGGGCAA
1 GGACATGGGCGTGTGCCCA-GCCGTGTGAGCCACACGGGCAA
* * *
13211173 GGACAT-GGCGCGTGCCCAAGCCGTGTGATCCACACAGGCAA
1 GGACATGGGCGTGTGCCC-AGCCGTGTGAGCCACACGGGCAA
* * * * *
13211214 GGACATGGGCATGTGCCCAGTTCATGTGAGACACACGGGTAA
1 GGACATGGGCGTGTGCCCAG-CCGTGTGAGCCACACGGGCAA
* * *
13211256 GGACATGGGTGTGTGCCCAGGCCGTGTAAGCCATACGGGTC-A
1 GGACATGGGCGTGTGCCCA-GCCGTGTGAGCCACACGGG-CAA
13211298 GGACATGGGCGTGTG
1 GGACATGGGCGTGTG
13211313 TCTAGGTCGT
Statistics
Matches: 114, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
41 37 0.32
42 76 0.67
43 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.37, T:0.16
Consensus pattern (41 bp):
GGACATGGGCGTGTGCCCAGCCGTGTGAGCCACACGGGCAA
Found at i:13212232 original size:5 final size:5
Alignment explanation
Indices: 13212222--13212254 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
13212212 ACATACATAC
*
13212222 TCTGT TCTGT TCTGT TCTGT T-TGT TATGT TCTG
1 TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTG
13212255 CTATATTCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.03, C:0.15, G:0.21, T:0.61
Consensus pattern (5 bp):
TCTGT
Found at i:13215650 original size:3 final size:3
Alignment explanation
Indices: 13215644--13215698 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
13215634 AATAATAATA
*
13215644 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13215692 ATT ATT A
1 ATT ATT A
13215699 AGTTTTCTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:13236505 original size:13 final size:13
Alignment explanation
Indices: 13236487--13236511 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13236477 TTAATTTAAG
13236487 AATATTTTTAAAA
1 AATATTTTTAAAA
13236500 AATATTTTTAAA
1 AATATTTTTAAA
13236512 CTAATTCTTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATTTTTAAAA
Found at i:13242638 original size:5 final size:5
Alignment explanation
Indices: 13242628--13242655 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13242618 TTGTGTGTTC
13242628 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
13242656 TTTACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:13251596 original size:7 final size:7
Alignment explanation
Indices: 13251584--13251609 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13251574 CTACATTCTT
13251584 AAAAATA
1 AAAAATA
13251591 AAAAATA
1 AAAAATA
13251598 AAAAATA
1 AAAAATA
13251605 AAAAA
1 AAAAA
13251610 AATATAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:13255770 original size:20 final size:20
Alignment explanation
Indices: 13255745--13255786 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
13255735 GATAAAAGAG
13255745 AAAGAAGTGGAAATTGATGC
1 AAAGAAGTGGAAATTGATGC
13255765 AAAGAAGTGGAAATTGATGC
1 AAAGAAGTGGAAATTGATGC
13255785 AA
1 AA
13255787 GTAGCAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.05, G:0.29, T:0.19
Consensus pattern (20 bp):
AAAGAAGTGGAAATTGATGC
Found at i:13258256 original size:50 final size:50
Alignment explanation
Indices: 13258158--13258306 Score: 133
Period size: 50 Copynumber: 3.0 Consensus size: 50
13258148 AAATATATAT
** * * * *
13258158 ATACATACCTATGTGGCCGAATTTACAA-GTTCAAT-TGGAACACCACATAA
1 ATACATACCTATAAGACCGAATATACAAGGTTCAATAT--ATCATCACATAA
* * ** * *
13258208 ATACTTACCTATATGACCGGTTATACCAA-GTTCATTATATCATTACATAA
1 ATACATACCTATAAGACCGAATATA-CAAGGTTCAATATATCATCACATAA
*
13258258 GTACATACCTATAAGACCGAATATACAAGGTTCAATATATCATCACATA
1 ATACATACCTATAAGACCGAATATACAAGGTTCAATATATCATCACATA
13258307 TGGCTGATTA
Statistics
Matches: 79, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
49 3 0.04
50 66 0.84
51 9 0.11
52 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (50 bp):
ATACATACCTATAAGACCGAATATACAAGGTTCAATATATCATCACATAA
Found at i:13258328 original size:36 final size:36
Alignment explanation
Indices: 13258277--13258399 Score: 144
Period size: 35 Copynumber: 3.5 Consensus size: 36
13258267 TATAAGACCG
** **
13258277 AATATACAAGGTTCAATATATCATCACATATGGCTG
1 AATATACAAAATTCAATATATCATCACATATGGCCA
* **
13258313 ATTATACAAAATTCAATATATTC-TCACATATAACCA
1 AATATACAAAATTCAATATA-TCATCACATATGGCCA
*
13258349 AATATAC-AAATTCAATATATCATCACATATGGTCA
1 AATATACAAAATTCAATATATCATCACATATGGCCA
13258384 AATATAC-AAATTCAAT
1 AATATACAAAATTCAAT
13258400 TGATGTGCGT
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.03
35 38 0.51
36 32 0.43
37 2 0.03
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.32
Consensus pattern (36 bp):
AATATACAAAATTCAATATATCATCACATATGGCCA
Found at i:13268198 original size:39 final size:42
Alignment explanation
Indices: 13268152--13268246 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
13268142 CACCAGCATA
13268152 AAGCCTGCTAGGCAT-AGGCCTGA-A-TCACACACCGGCAC-
1 AAGCCTGCTAGGCATAAGGCCTGATATTCACACACCGGCACT
* * * **
13268190 AAGGCCTGCTAGACCTAAGGCCTGATATTTATTCACCGGCACT
1 AA-GCCTGCTAGGCATAAGGCCTGATATTCACACACCGGCACT
13268233 AAGCCTGCTAGGCA
1 AAGCCTGCTAGGCA
13268247 CAAAGCCCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
38 2 0.04
39 11 0.24
40 8 0.18
41 1 0.02
42 21 0.47
43 2 0.04
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (42 bp):
AAGCCTGCTAGGCATAAGGCCTGATATTCACACACCGGCACT
Found at i:13268670 original size:11 final size:10
Alignment explanation
Indices: 13268628--13268666 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
13268618 TGAGCACTAC
13268628 TATATTTTAT
1 TATATTTTAT
*
13268638 TATATGTT-T
1 TATATTTTAT
13268647 TATATTTTTAT
1 TATA-TTTTAT
13268658 TATATTTTA
1 TATATTTTA
13268667 ATTAATTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 5 0.20
10 15 0.60
11 5 0.20
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (10 bp):
TATATTTTAT
Found at i:13270865 original size:84 final size:84
Alignment explanation
Indices: 13270736--13270932 Score: 209
Period size: 84 Copynumber: 2.3 Consensus size: 84
13270726 TTGTGTTTAC
* * * * * * ** *
13270736 TTTCCATTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGTTC-TATTGAGC
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTTGAACCCATATGAGTTTTCGTTCAACTCTTA-CGAGC
*
13270800 TTCTGTTTAACCCTTATAGG
65 TTCTGTTCAACCCTTATAGG
* * *
13270820 TTTCCGTTCAGCTC-TATTGAGCTTCTGTTGAACCCTTATGGGTTTTTGTTCAACTCTTACGAGC
1 TTTCCGTTCAGCTCTTA-TGAGCTTCTGTTGAACCCATATGAGTTTTCGTTCAACTCTTACGAGC
*
13270884 TTCTGTTCAACCCTTATTGG
65 TTCTGTTCAACCCTTATAGG
* * *
13270904 TTTCTGTTTAGCTCTTATGAGCTTTTGTT
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTT
13270933 CACCTTTCGG
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
83 1 0.01
84 88 0.95
85 4 0.04
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (84 bp):
TTTCCGTTCAGCTCTTATGAGCTTCTGTTGAACCCATATGAGTTTTCGTTCAACTCTTACGAGCT
TCTGTTCAACCCTTATAGG
Found at i:13270878 original size:21 final size:21
Alignment explanation
Indices: 13270795--13270934 Score: 88
Period size: 21 Copynumber: 6.7 Consensus size: 21
13270785 TCAGTTCTAT
*
13270795 TGAGCTTCTGTTTAACCCTTA
1 TGAGCTTCTGTTCAACCCTTA
* * * *
13270816 T-AGGTTTCCGTTCAGCTC-TA
1 TGA-GCTTCTGTTCAACCCTTA
*
13270836 TTGAGCTTCTGTTGAACCCTTA
1 -TGAGCTTCTGTTCAACCCTTA
* * * *
13270858 TGGGTTTTTGTTCAACTCTTA
1 TGAGCTTCTGTTCAACCCTTA
*
13270879 CGAGCTTCTGTTCAACCCTTA
1 TGAGCTTCTGTTCAACCCTTA
* * * *
13270900 TTG-GTTTCTGTTTAGCTCTTA
1 -TGAGCTTCTGTTCAACCCTTA
*
13270921 TGAGCTTTTGTTCA
1 TGAGCTTCTGTTCA
13270935 CCTTTCGGGC
Statistics
Matches: 85, Mismatches: 28, Indels: 12
0.68 0.22 0.10
Matches are distributed among these distances:
20 5 0.06
21 76 0.89
22 4 0.05
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (21 bp):
TGAGCTTCTGTTCAACCCTTA
Found at i:13270906 original size:42 final size:42
Alignment explanation
Indices: 13270745--13270934 Score: 179
Period size: 42 Copynumber: 4.5 Consensus size: 42
13270735 CTTTCCATTT
* * * * * *
13270745 AGCTCTCACGAGCTTCTGTTTAACTCATATGAGTTTTC-GTTC
1 AGCTCTTATGAGCTTCTGTTCAACCCTTAT-AGGTTTCTGTTC
* * *
13270787 AGTTC-TATTGAGCTTCTGTTTAACCCTTATAGGTTTCCGTTC
1 AGCTCTTA-TGAGCTTCTGTTCAACCCTTATAGGTTTCTGTTC
* * *
13270829 AGCTC-TATTGAGCTTCTGTTGAACCCTTATGGGTTTTTGTTC
1 AGCTCTTA-TGAGCTTCTGTTCAACCCTTATAGGTTTCTGTTC
* * * *
13270871 AACTCTTACGAGCTTCTGTTCAACCCTTATTGGTTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTCAACCCTTATAGGTTTCTGTTC
*
13270913 AGCTCTTATGAGCTTTTGTTCA
1 AGCTCTTATGAGCTTCTGTTCA
13270935 CCTTTCGGGC
Statistics
Matches: 125, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
41 7 0.06
42 116 0.93
43 2 0.02
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (42 bp):
AGCTCTTATGAGCTTCTGTTCAACCCTTATAGGTTTCTGTTC
Found at i:13273443 original size:33 final size:33
Alignment explanation
Indices: 13273406--13273653 Score: 187
Period size: 33 Copynumber: 7.6 Consensus size: 33
13273396 TACCCAAATG
* ** * *
13273406 GTACAACTTGAAAAGGTTATGTACATTTTTTGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* * *
13273439 GTA-CACTAGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* * *
13273471 ATACCA-TATGAAAAGGAAATGTATACTTTGTGA
1 GTACCACT-TGAAAAGGAAATGTACACTTTGTGT
* * * *
13273504 ATACCACTTGAAAAGGAAAGGTACACTATATGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
** * *
13273537 GTA-CACTTGAAAAGGTTATGTGCACTTTGAGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* * ** *
13273569 GTACAAATTGAAAAGGGTATGTACACTTCGTGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* * * * *
13273602 GTACCACTTGAAAAGGGAATGTGCACCTCGAGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* *
13273635 GTACAACTAGAAAAGGAAA
1 GTACCACTTGAAAAGGAAA
13273654 AGTCCATCGA
Statistics
Matches: 171, Mismatches: 40, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
32 49 0.29
33 121 0.71
34 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (33 bp):
GTACCACTTGAAAAGGAAATGTACACTTTGTGT
Found at i:13273483 original size:65 final size:65
Alignment explanation
Indices: 13273406--13273565 Score: 164
Period size: 65 Copynumber: 2.4 Consensus size: 65
13273396 TACCCAAATG
* * ** *
13273406 GTACAACTTGAAAAGGTTATGTACATTTTTTGTGTA-CACTAGAAAAGGAAAGGTATACT-T-TG
1 GTAC-ACTTGAAAAGGTTATGTACACTTTGTGAATACCACTAGAAAAGGAAAGGTACACTATATG
13273468 T
65 T
* ** * *
13273469 GTATACCATATGAAAAGGAAATGTATACTTTGTGAATACCACTTGAAAAGGAAAGGTACACTATA
1 GTACA-C-T-TGAAAAGGTTATGTACACTTTGTGAATACCACTAGAAAAGGAAAGGTACACTATA
13273534 TGT
63 TGT
*
13273537 GTACACTTGAAAAGGTTATGTGCACTTTG
1 GTACACTTGAAAAGGTTATGTACACTTTG
13273566 AGTGTACAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.05
64 1 0.01
65 39 0.51
66 22 0.29
67 2 0.03
68 7 0.09
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (65 bp):
GTACACTTGAAAAGGTTATGTACACTTTGTGAATACCACTAGAAAAGGAAAGGTACACTATATGT
Found at i:13281235 original size:31 final size:31
Alignment explanation
Indices: 13281200--13281259 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
13281190 TACACCATTA
* * *
13281200 GTCACTAAATTATTGGTAAGTTTTCATTTTG
1 GTCACTAAACTATTCGAAAGTTTTCATTTTG
*
13281231 GTCACTGAACTATTCGAAAGTTTTCATTT
1 GTCACTAAACTATTCGAAAGTTTTCATTT
13281260 AAGTCATTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (31 bp):
GTCACTAAACTATTCGAAAGTTTTCATTTTG
Found at i:13281271 original size:31 final size:32
Alignment explanation
Indices: 13281217--13281303 Score: 115
Period size: 31 Copynumber: 2.8 Consensus size: 32
13281207 AATTATTGGT
** *
13281217 AAGTTTTCATTTTGGTCACTGAACTATTC-GA
1 AAGTTTTCATTTAAGTCACTGAACTATTCAAA
*
13281248 AAGTTTTCATTTAAGTCATTGAACTATTCAAA
1 AAGTTTTCATTTAAGTCACTGAACTATTCAAA
*
13281280 AAATTTT-ATTTAAGTCACTGAACT
1 AAGTTTTCATTTAAGTCACTGAACT
13281304 GTTAAATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
31 42 0.86
32 7 0.14
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (32 bp):
AAGTTTTCATTTAAGTCACTGAACTATTCAAA
Found at i:13285512 original size:49 final size:48
Alignment explanation
Indices: 13285426--13285560 Score: 173
Period size: 49 Copynumber: 2.8 Consensus size: 48
13285416 GATCTCAATC
* * * *
13285426 GAAGTACCTATACCATGGCTCGAAACCAAATTAAGGTAACTTATCCCT
1 GAAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCT
* * *
13285474 -AGAGTAACTATACCATGGCCCTGTAGCCAAATCAAGGTAACTCATCTCT
1 GA-AGTACCTATACCATGGCCC-GAAGCCAAATCAAGGTAACTCATCCCT
*
13285523 GAAATACCTATACCATGGCCCGAAGCCAAATCAAGGTA
1 GAAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTA
13285561 TAATTCACAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 33 0.45
49 39 0.53
50 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (48 bp):
GAAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCT
Found at i:13286413 original size:41 final size:42
Alignment explanation
Indices: 13286368--13286450 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 42
13286358 GCAAGTGTCA
*
13286368 AACCCTAAAACTCAATCAAAGG-TTTCTTGTTCATCAATATT
1 AACCCTAAAACTCAATCAAAGGCTTTCTTCTTCATCAATATT
*
13286409 AACCCTAAAACTCAATCAAAGGCTTTGTTCTTCATCAATATT
1 AACCCTAAAACTCAATCAAAGGCTTTCTTCTTCATCAATATT
13286451 CGGCCAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 22 0.56
42 17 0.44
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (42 bp):
AACCCTAAAACTCAATCAAAGGCTTTCTTCTTCATCAATATT
Found at i:13290354 original size:40 final size:40
Alignment explanation
Indices: 13290242--13290386 Score: 136
Period size: 40 Copynumber: 3.6 Consensus size: 40
13290232 TTCGACTTCG
*
13290242 AGTTGATGAGACACTGGGTGTCACATTATTACTTCGAATT
1 AGTTGATGAGACACTGGGTGTCAAATTATTACTTCGAATT
* * * **
13290282 AATTCAATGAGGAAAACTGGGTGTC-AA-T-TTACTTCGGTTT
1 AGTT-GATGA-G-ACACTGGGTGTCAAATTATTACTTCGAATT
*
13290322 AGTTGATGAGACATTGGGTGTCAAATTATTACTTCGAATT
1 AGTTGATGAGACACTGGGTGTCAAATTATTACTTCGAATT
* * *
13290362 A-TCCGATGAGGCACTGGGTGCCAAA
1 AGT-TGATGAGACACTGGGTGTCAAA
13290387 CTGGTGTGTT
Statistics
Matches: 82, Mismatches: 16, Indels: 14
0.73 0.14 0.12
Matches are distributed among these distances:
37 10 0.12
38 3 0.04
39 6 0.07
40 45 0.55
41 5 0.06
42 2 0.02
43 11 0.13
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (40 bp):
AGTTGATGAGACACTGGGTGTCAAATTATTACTTCGAATT
Found at i:13292079 original size:30 final size:30
Alignment explanation
Indices: 13292033--13292092 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
13292023 TTCCTGAGCC
13292033 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
13292063 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
13292093 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:13294618 original size:43 final size:43
Alignment explanation
Indices: 13294570--13294706 Score: 129
Period size: 43 Copynumber: 3.2 Consensus size: 43
13294560 TCCCGGACTT
* * * *
13294570 GGTCTTACATGTAATTCAATATCGATGCCTCTGTGCCAGACAG
1 GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACAC
* * *
13294613 GGTCTTACACG-AAATCAGATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAATTCA-ATATCGATGCCTATGTCCCAGACAC
* * *
13294655 GGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGT-AAT-TCAATATCGATGCCTATGTCCCAGACAC
13294698 GGTCTTACA
1 GGTCTTACA
13294707 TGATGTCTCA
Statistics
Matches: 76, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
42 33 0.43
43 39 0.51
44 2 0.03
45 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACAC
Found at i:13305941 original size:16 final size:16
Alignment explanation
Indices: 13305906--13305976 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 16
13305896 AGTAGGTTTG
*
13305906 GTTTTAATATTTAATATA
1 GTTTTAAT-TTT-ATTTA
*
13305924 GTTTTAATTTTTTTTA
1 GTTTTAATTTTATTTA
* *
13305940 GTCTCAATTTTATTTA
1 GTTTTAATTTTATTTA
* *
13305956 ATTTTAATGTTATTTA
1 GTTTTAATTTTATTTA
*
13305972 ATTTT
1 GTTTT
13305977 TTTTTCTAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
16 33 0.75
17 3 0.07
18 8 0.18
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (16 bp):
GTTTTAATTTTATTTA
Found at i:13309586 original size:15 final size:16
Alignment explanation
Indices: 13309563--13309596 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13309553 ATTGAAAATA
13309563 TTAAATTTT-AATGAT
1 TTAAATTTTCAATGAT
*
13309578 TTAATTTTTCAATGAT
1 TTAAATTTTCAATGAT
13309594 TTA
1 TTA
13309597 TCAAGGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (16 bp):
TTAAATTTTCAATGAT
Found at i:13310145 original size:25 final size:24
Alignment explanation
Indices: 13310117--13310183 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 24
13310107 ACAGTTTTAA
13310117 TTAATAATAATTTTAAATAATATT
1 TTAATAATAATTTTAAATAATATT
*
13310141 CTTAAT-A-AATATTAAA-AATATT
1 -TTAATAATAATTTTAAATAATATT
*
13310163 TATATTAAT-ATTTT-AATAATA
1 T-TAATAATAATTTTAAATAATA
13310184 CAATTTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
21 1 0.03
22 11 0.31
23 17 0.49
24 1 0.03
25 5 0.14
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAATAATAATTTTAAATAATATT
Found at i:13310146 original size:22 final size:22
Alignment explanation
Indices: 13310121--13310162 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13310111 TTTTAATTAA
*
13310121 TAAT-AATTTTAAATAATATTCT
1 TAATAAATATTAAA-AATATTCT
13310143 TAATAAATATTAAAAATATT
1 TAATAAATATTAAAAATATT
13310163 TATATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATAAATATTAAAAATATTCT
Found at i:13315010 original size:15 final size:16
Alignment explanation
Indices: 13314967--13315011 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
13314957 GCTTACAGAA
**
13314967 AAAATAAAAAAAAAAC
1 AAAATAAACCAAAAAC
*
13314983 AAAATAAATCAAAAAC
1 AAAATAAACCAAAAAC
13314999 AAAA-AAACCAAAA
1 AAAATAAACCAAAA
13315012 TAGAAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.82, C:0.11, G:0.00, T:0.07
Consensus pattern (16 bp):
AAAATAAACCAAAAAC
Found at i:13315024 original size:25 final size:24
Alignment explanation
Indices: 13314965--13315037 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 24
13314955 GGGCTTACAG
*
13314965 AAAAAATAA-AAAAAAAACAAAAT
1 AAAAAATAACAAAAAAACCAAAAT
13314988 AAATCAAA-AACAAAAAAACCAAAAT
1 AAA--AAATAACAAAAAAACCAAAAT
13315013 AGAAAAATAACAAATAAAATCCAAA
1 A-AAAAATAACAAA-AAAA-CCAAA
13315038 TTTACAGTCC
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
23 3 0.07
24 5 0.12
25 23 0.55
26 6 0.14
27 5 0.12
ACGTcount: A:0.78, C:0.11, G:0.01, T:0.10
Consensus pattern (24 bp):
AAAAAATAACAAAAAAACCAAAAT
Found at i:13322401 original size:12 final size:12
Alignment explanation
Indices: 13322384--13322420 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
13322374 CCTTATTATA
13322384 ATATATATGTAT
1 ATATATATGTAT
13322396 ATATATATGTAT
1 ATATATATGTAT
13322408 ATGATA-ATGTAT
1 AT-ATATATGTAT
13322420 A
1 A
13322421 AAAAGAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 21 0.88
13 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:13323724 original size:26 final size:26
Alignment explanation
Indices: 13323692--13323753 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
13323682 GGGATTGGGC
* *
13323692 TTTTTGGG-CTAGGATATTGAGTTTGG
1 TTTTTGGGTCTAAG-TAATGAGTTTGG
*
13323718 TTTTTGGGTCTAAGTAATGATTTTGG
1 TTTTTGGGTCTAAGTAATGAGTTTGG
*
13323744 GTTTTGGGTC
1 TTTTTGGGTC
13323754 ATTTAATCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.15, C:0.05, G:0.32, T:0.48
Consensus pattern (26 bp):
TTTTTGGGTCTAAGTAATGAGTTTGG
Found at i:13324107 original size:44 final size:44
Alignment explanation
Indices: 13324044--13324495 Score: 670
Period size: 44 Copynumber: 10.3 Consensus size: 44
13324034 CAGGAACACC
* * * **
13324044 AATCTGTTATTTTTGATCTGCTCTCTGCCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* * *
13324088 AATCTGCTATCTTCGATCTGCTCTCTGCCGCTACAGAAACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* * *
13324132 AATTTGCTATCTTCGATCCGCTCTCCGCCGCTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* * *
13324176 AATCTGTTATCTTTGATTTACTCTCCGCCGCTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
*
13324220 AATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* * *
13324264 AATCTGTTATCTTCGATCTGTTCTCTGCCGCTACAGAGATGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* * *
13324308 AATCTGCTATCTTTGATCTGCTCTCCGCCACTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* * *
13324352 AATCTGCTATCTTCGATCTGCTCTTCGCCGCTATAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
13324396 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* *
13324440 AATCTGTTATCTTTGATCTGCTCTCCGCCGCTATAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
13324484 AATCTGTTATCT
1 AATCTGTTATCT
13324496 GCTTTAAGGA
Statistics
Matches: 369, Mismatches: 39, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 369 1.00
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (44 bp):
AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
Found at i:13326914 original size:18 final size:18
Alignment explanation
Indices: 13326891--13326994 Score: 63
Period size: 18 Copynumber: 5.8 Consensus size: 18
13326881 AAATTATCAC
13326891 TATTTTTATATATTATTA
1 TATTTTTATATATTATTA
*
13326909 TATTTTTCACATA-TATTA
1 TATTTTT-ATATATTATTA
*
13326927 TATATTTAT-TAATTATATA
1 TATTTTTATAT-ATTAT-TA
* * * *
13326946 TATATTTACATGTTATTT
1 TATTTTTATATATTATTA
* *
13326964 TA-TATTATAT-CTATTA
1 TATTTTTATATATTATTA
*
13326980 TAATTCTTATATATT
1 T-ATTTTTATATATT
13326995 TATATTACAT
Statistics
Matches: 65, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
16 6 0.09
17 8 0.12
18 31 0.48
19 19 0.29
20 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.60
Consensus pattern (18 bp):
TATTTTTATATATTATTA
Found at i:13326971 original size:44 final size:44
Alignment explanation
Indices: 13326919--13327037 Score: 123
Period size: 48 Copynumber: 2.6 Consensus size: 44
13326909 TATTTTTCAC
13326919 ATATATTATATATTTATTAATTATATATATAT-TTACATGTTATT
1 ATATATTATATATTTATT-ATTATATATATATATTACATGTTATT
* * * *
13326963 TTATATTATATCTATTATAATTCTTATATATTTATATTACATTTTATT
1 ATATATTATA--TATT-T-ATTATTATATATATATATTACATGTTATT
* * *
13327011 ATATAATATTTATTTATTTTTATATAT
1 ATATATTATATATTTATTATTATATAT
13327038 GTTATGTATA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
44 20 0.32
45 1 0.02
46 8 0.13
47 12 0.19
48 21 0.34
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (44 bp):
ATATATTATATATTTATTATTATATATATATATTACATGTTATT
Found at i:13339216 original size:119 final size:119
Alignment explanation
Indices: 13339041--13339920 Score: 1483
Period size: 119 Copynumber: 7.4 Consensus size: 119
13339031 AGATGATTTG
13339041 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGGCAGCAGATCTAGACTT
1 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGGCAGCAGATCTAGACTT
13339106 CAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
66 CAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
*
13339160 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGGCAGCAGATCTAGACTG
1 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGGCAGCAGATCTAGACTT
*
13339225 CAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTCACAA
66 CAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
* **
13339279 GGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAATACAGCAGATCTAGACTT
1 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGGCAGCAGATCTAGACTT
13339344 CAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
66 CAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
13339398 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGGCAGCAGATCTAGACTT
1 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGGCAGCAGATCTAGACTT
* *
13339463 CAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCATTGTGCTCACAA
66 CAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
* **
13339517 GGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAATACAGCAGATCTAGACTT
1 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGGCAGCAGATCTAGACTT
*
13339582 CAGATGTTTATATTGAAGCAGATCCAAGATAATTTGGCATCCTTGTGCTTACAA
66 CAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
13339636 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGGCAGCAGATCTAGACTT
1 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGGCAGCAGATCTAGACTT
*
13339701 CAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTCACAA
66 CAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
* ***
13339755 GGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAATATAGCAGATCTA-ACCT
1 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGGCAGCAGATCTAGA-CT
** * * * * *
13339819 TCAGATGTTTATGCTGAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTATAA
65 TCAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
* * * * * *
13339874 GAAACAAATCGAGGACGTTGCAGATATGACTCTCAAATGTTCTCAAA
1 GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
13339921 TAGACTCAAG
Statistics
Matches: 718, Mismatches: 42, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
118 1 0.00
119 717 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (119 bp):
GGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGGCAGCAGATCTAGACTT
CAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
Found at i:13340013 original size:83 final size:83
Alignment explanation
Indices: 13339835--13340015 Score: 254
Period size: 83 Copynumber: 2.2 Consensus size: 83
13339825 GTTTATGCTG
* * * * * * * *
13339835 AAACAGATCCAAGATGATTTGGTATTCTTGTGTTTATAAGAAACAAATCGAGGACGTTGCAGATA
1 AAACAGATTCAAGATAATTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGAACATTGCAGATA
13339900 TGACTCTCAAATGTTCTC
66 TGACTCTCAAATGTTCTC
* * *
13339918 AAATAGACTCAAGATAATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGAACATTGCAGATA
1 AAACAGATTCAAGATAATTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGAACATTGCAGATA
13339983 TGACTCTCAAATGTTCTC
66 TGACTCTCAAATGTTCTC
*
13340001 AAACAAATTCAAGAT
1 AAACAGATTCAAGAT
13340016 GATTCGCTAC
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (83 bp):
AAACAGATTCAAGATAATTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGAACATTGCAGATA
TGACTCTCAAATGTTCTC
Found at i:13341651 original size:18 final size:18
Alignment explanation
Indices: 13341628--13341731 Score: 63
Period size: 18 Copynumber: 5.8 Consensus size: 18
13341618 AAATTATCAC
13341628 TATTTTTATATATTATTA
1 TATTTTTATATATTATTA
*
13341646 TATTTTTCACATA-TATTA
1 TATTTTT-ATATATTATTA
*
13341664 TATATTTAT-TAATTATATA
1 TATTTTTATAT-ATTAT-TA
* * * *
13341683 TATATTTACATGTTATTT
1 TATTTTTATATATTATTA
* *
13341701 TA-TATTATAT-CTATTA
1 TATTTTTATATATTATTA
*
13341717 TAATTCTTATATATT
1 T-ATTTTTATATATT
13341732 TATATTACAT
Statistics
Matches: 65, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
16 6 0.09
17 8 0.12
18 31 0.48
19 19 0.29
20 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.60
Consensus pattern (18 bp):
TATTTTTATATATTATTA
Found at i:13341708 original size:44 final size:44
Alignment explanation
Indices: 13341656--13341774 Score: 123
Period size: 48 Copynumber: 2.6 Consensus size: 44
13341646 TATTTTTCAC
13341656 ATATATTATATATTTATTAATTATATATATAT-TTACATGTTATT
1 ATATATTATATATTTATT-ATTATATATATATATTACATGTTATT
* * * *
13341700 TTATATTATATCTATTATAATTCTTATATATTTATATTACATTTTATT
1 ATATATTATA--TATT-T-ATTATTATATATATATATTACATGTTATT
* * *
13341748 ATATAATATTTATTTATTTTTATATAT
1 ATATATTATATATTTATTATTATATAT
13341775 GTTATGTATA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
44 20 0.32
45 1 0.02
46 8 0.13
47 12 0.19
48 21 0.34
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (44 bp):
ATATATTATATATTTATTATTATATATATATATTACATGTTATT
Found at i:13343176 original size:30 final size:30
Alignment explanation
Indices: 13343142--13343198 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
13343132 CTTTCTGAGC
13343142 TACTTCTTCATTATTAATTTAGGCGTAACA
1 TACTTCTTCATTATTAATTTAGGCGTAACA
13343172 TACTTCTTCATTATTAATTTAGGCGTA
1 TACTTCTTCATTATTAATTTAGGCGTA
13343199 GCGAGACTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.46
Consensus pattern (30 bp):
TACTTCTTCATTATTAATTTAGGCGTAACA
Found at i:13343326 original size:4 final size:4
Alignment explanation
Indices: 13343317--13343377 Score: 67
Period size: 4 Copynumber: 16.0 Consensus size: 4
13343307 GCCTCTCCTC
* *
13343317 TTCT TTCT TT-T TT-T TTC- TT-T TTCT TTTT TTTT TTCT TTCTT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC-T TTCT
13343362 TTCT TTCT TTCT TTCT
1 TTCT TTCT TTCT TTCT
13343378 CTTTTTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
3 10 0.20
4 37 0.73
5 4 0.08
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (4 bp):
TTCT
Found at i:13343341 original size:16 final size:16
Alignment explanation
Indices: 13343317--13343385 Score: 86
Period size: 16 Copynumber: 4.1 Consensus size: 16
13343307 GCCTCTCCTC
13343317 TTCTTTCTTTTTTTTT
1 TTCTTTCTTTTTTTTT
13343333 CTT-TTTCTTTTTTTTT
1 -TTCTTTCTTTTTTTTT
*
13343349 TTCTTTCTTTTCTTTCT
1 TTCTTTCTTTT-TTTTT
13343366 TTCTTTCTTTCTCTTTTT
1 TTCTTTCTTT-T-TTTTT
13343384 TT
1 TT
13343386 TTTTGGAAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
15 2 0.04
16 21 0.45
17 16 0.34
18 8 0.17
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTCTTTCTTTTTTTTT
Found at i:13343349 original size:12 final size:12
Alignment explanation
Indices: 13343327--13343389 Score: 72
Period size: 13 Copynumber: 4.9 Consensus size: 12
13343317 TTCTTTCTTT
13343327 TTTTTTCTTTTTC
1 TTTTTT-TTTTTC
13343340 TTTTTTTTTTTC
1 TTTTTTTTTTTC
*
13343352 TTTCTTTTCTTTC
1 TTT-TTTTTTTTC
*
13343365 TTTCTTTCTTTCTC
1 TTT-TTT-TTTTTC
13343379 TTTTTTTTTTT
1 TTTTTTTTTTT
13343390 GGAAGGTCTC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
12 13 0.30
13 24 0.55
14 7 0.16
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:13345970 original size:5 final size:5
Alignment explanation
Indices: 13345960--13346018 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
13345950 AATGCAAATG
*
13345960 ATGCA ATGCA ATGCAA ATG-- ATGCA ATGCA ATGTAA ATG-- ATGCA ATGCA
1 ATGCA ATGCA ATGC-A ATGCA ATGCA ATGCA ATG-CA ATGCA ATGCA ATGCA
13346008 ATGCAA ATGCA
1 ATGC-A ATGCA
13346019 TGGGATGAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
3 6 0.13
5 27 0.59
6 13 0.28
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.22
Consensus pattern (5 bp):
ATGCA
Found at i:13346033 original size:19 final size:19
Alignment explanation
Indices: 13345950--13346016 Score: 125
Period size: 19 Copynumber: 3.5 Consensus size: 19
13345940 AGGGAAATCT
13345950 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
13345969 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
13345988 AATGTAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
13346007 AATGCAAATG
1 AATGCAAATG
13346017 CATGGGATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.22
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:13350959 original size:26 final size:26
Alignment explanation
Indices: 13350920--13350969 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
13350910 CAAAGAATTT
*
13350920 TATTTTTCGTTCTTTTTCTTTGCTGC
1 TATTTTTCGCTCTTTTTCTTTGCTGC
* *
13350946 TATTTTTTGCTCTTTTTTTTTGCT
1 TATTTTTCGCTCTTTTTCTTTGCT
13350970 TGTCCTTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.04, C:0.16, G:0.10, T:0.70
Consensus pattern (26 bp):
TATTTTTCGCTCTTTTTCTTTGCTGC
Found at i:13351172 original size:26 final size:26
Alignment explanation
Indices: 13351139--13351200 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
13351129 GGGATTGGGC
* *
13351139 TTTTTGGG-CTAGGATATTGAGTTTGG
1 TTTTTGGGTCTAAG-TAATGAGTTTGG
*
13351165 TTTTTGGGTCTAAGTAATGATTTTGG
1 TTTTTGGGTCTAAGTAATGAGTTTGG
*
13351191 GTTTTGGGTC
1 TTTTTGGGTC
13351201 ATTTAGTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.15, C:0.05, G:0.32, T:0.48
Consensus pattern (26 bp):
TTTTTGGGTCTAAGTAATGAGTTTGG
Found at i:13357310 original size:3 final size:3
Alignment explanation
Indices: 13357302--13357371 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
13357292 TGTTAAAGGT
13357302 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13357350 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
13357372 AGGTAAATTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13360627 original size:31 final size:32
Alignment explanation
Indices: 13360584--13360668 Score: 140
Period size: 31 Copynumber: 2.8 Consensus size: 32
13360574 TCAAGCTCAG
13360584 CATAT-ACTGGGCCGAAGCCTTTAT-ATTATT
1 CATATCACTGGGCCGAAGCCTTTATCATTATT
*
13360614 CATATCACTGGGCCGAAG-CTTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTATCATTATT
13360645 CATATCACTGGGCCGAAGCCTTTA
1 CATATCACTGGGCCGAAGCCTTTA
13360669 CTGTAACGAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
30 10 0.20
31 36 0.72
32 4 0.08
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (32 bp):
CATATCACTGGGCCGAAGCCTTTATCATTATT
Found at i:13360915 original size:25 final size:25
Alignment explanation
Indices: 13360887--13360981 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
13360877 CTCTTTTAAT
* *
13360887 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTTGGTA
*
13360912 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTTGGTA
* *
13360937 AACTGGGGCACAGCCCTTTTTGGTA
1 AACTAGGGCAAAGCCCTTTTTGGTA
*
13360962 AACTAGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
13360982 GCACTTCTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTTGGTA
Found at i:13360941 original size:50 final size:50
Alignment explanation
Indices: 13360887--13360981 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
13360877 CTCTTTTAAT
13360887 AACTGGGGCAAAGCCCTTTTTGATAAACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATAAACTAGGGCAAAGCCCTTTTCGGTA
* * *
13360937 AACTGGGGCACAGCCCTTTTTGGTAAACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTTTGATAAACTAGGGCAAAGCCCTTTT
13360982 GCACTTCTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (50 bp):
AACTGGGGCAAAGCCCTTTTTGATAAACTAGGGCAAAGCCCTTTTCGGTA
Found at i:13367560 original size:26 final size:24
Alignment explanation
Indices: 13367530--13367578 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
13367520 AATAAAAAAT
*
13367530 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
13367556 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
13367579 TAAAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:13368230 original size:41 final size:43
Alignment explanation
Indices: 13368185--13368299 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
13368175 ATGTGTTATG
* *
13368185 GTGTAAGACCACGTCTAGGACATTGGCATC-A-ATTTGATTTC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTAC
*
13368226 GTGTAAGACC-CGATCTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCACG-TCTGGGACATTGGCATCGATATTTGATTAC
* * *
13368269 ATGTAACACCACGTCTGGGACATTGGTATCG
1 GTGTAAGACCACGTCTGGGACATTGGCATCG
13368300 TACGAGATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
40 2 0.03
41 25 0.40
42 1 0.02
43 33 0.52
44 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTAC
Found at i:13386451 original size:20 final size:20
Alignment explanation
Indices: 13386417--13386456 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13386407 CTATTCAGAC
* *
13386417 AATATTATTTAAATAGTTAT
1 AATATTATATAAATAATTAT
*
13386437 AATATTATATGAATAATTAT
1 AATATTATATAAATAATTAT
13386457 GTGTCTTTTT
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:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
AATATTATATAAATAATTAT
Found at i:13387885 original size:34 final size:34
Alignment explanation
Indices: 13387842--13387912 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
13387832 ACAAAGATAT
13387842 GATTAAAAACAATACTATCATATATTAGTTATCA
1 GATTAAAAACAATACTATCATATATTAGTTATCA
13387876 GATTAAAAACAATACTATCATATATTAGTTATCA
1 GATTAAAAACAATACTATCATATATTAGTTATCA
13387910 GAT
1 GAT
13387913 CAATTGTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (34 bp):
GATTAAAAACAATACTATCATATATTAGTTATCA
Found at i:13391666 original size:21 final size:21
Alignment explanation
Indices: 13391641--13391681 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13391631 TGTCTAATTA
13391641 AAATT-ATTAATATTTATTTAT
1 AAATTCATTAATATTT-TTTAT
*
13391662 AAATTCTTTAATATTTTTTA
1 AAATTCATTAATATTTTTTA
13391682 ATAATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
AAATTCATTAATATTTTTTAT
Found at i:13394128 original size:8 final size:8
Alignment explanation
Indices: 13394117--13394152 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
13394107 TATATTTTTT
13394117 ATTTTTCA
1 ATTTTTCA
13394125 A-TTTTCA
1 ATTTTTCA
13394132 ATTTTTCA
1 ATTTTTCA
13394140 ATTTTTC-
1 ATTTTTCA
13394147 ATTTTT
1 ATTTTT
13394153 TTAAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (8 bp):
ATTTTTCA
Found at i:13394128 original size:15 final size:15
Alignment explanation
Indices: 13394110--13394152 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
13394100 CTAAATTTAT
*
13394110 ATTTTTTATTTTTCA
1 ATTTTTAATTTTTCA
*
13394125 ATTTTCAATTTTTCA
1 ATTTTTAATTTTTCA
*
13394140 ATTTTTCATTTTT
1 ATTTTTAATTTTT
13394153 TTAAATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTTAATTTTTCA
Found at i:13394153 original size:8 final size:7
Alignment explanation
Indices: 13394110--13394152 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
13394100 CTAAATTTAT
*
13394110 ATTTTTT
1 ATTTTTC
13394117 ATTTTTC
1 ATTTTTC
*
13394124 AATTTTC
1 ATTTTTC
13394131 AATTTTTC
1 -ATTTTTC
13394139 AATTTTTC
1 -ATTTTTC
13394147 ATTTTT
1 ATTTTT
13394153 TTAAATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
7 18 0.56
8 14 0.44
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTTC
Found at i:13394236 original size:16 final size:16
Alignment explanation
Indices: 13394215--13394247 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13394205 TTTTTCCTAT
13394215 TTTTTGAAATTTT-AAA
1 TTTTTG-AATTTTGAAA
13394231 TTTTTGAATTTTGAAA
1 TTTTTGAATTTTGAAA
13394247 T
1 T
13394248 AAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (16 bp):
TTTTTGAATTTTGAAA
Found at i:13394322 original size:27 final size:28
Alignment explanation
Indices: 13394292--13394345 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
13394282 ATATTTTTGA
*
13394292 ATTTTTTTAATTTTCT-AAAATTTAAAT
1 ATTTTTTTAATTTTATAAAAATTTAAAT
*
13394319 ATTTTTTTATTTTTATAAAAATTTAAA
1 ATTTTTTTAATTTTATAAAAATTTAAA
13394346 ATTATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTTTTTTAATTTTATAAAAATTTAAAT
Found at i:13405064 original size:26 final size:26
Alignment explanation
Indices: 13405034--13405115 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
13405024 TGAAATTCCC
13405034 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13405060 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13405086 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
13405112 ATCA
1 ATCA
13405116 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13412114 original size:26 final size:26
Alignment explanation
Indices: 13412084--13412165 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
13412074 TGAAATTCCC
13412084 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13412110 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13412136 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
13412162 ATCA
1 ATCA
13412166 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13414596 original size:176 final size:176
Alignment explanation
Indices: 13414302--13414657 Score: 694
Period size: 176 Copynumber: 2.0 Consensus size: 176
13414292 CTCTTCACTT
13414302 TATAACTCTTTTGGCTTAATTTTTTTCGAAGAAATGAGATCCACAAAATTTGACTAAATTGAAGG
1 TATAACTCTTTTGGCTTAATTTTTTTCGAAGAAATGAGATCCACAAAATTTGACTAAATTGAAGG
13414367 TTTAAACATGTAATTATATCATATTAGGGAAGATTAGGATCGAAATTAAGGTTTAGAAATAAAAT
66 TTTAAACATGTAATTATATCATATTAGGGAAGATTAGGATCGAAATTAAGGTTTAGAAATAAAAT
13414432 TTGAGTGGTGAAATCATATTTTCGACAAAACTAGTTAAGTTTTCGG
131 TTGAGTGGTGAAATCATATTTTCGACAAAACTAGTTAAGTTTTCGG
13414478 TATAACTCTTTTGGCTTAATTTTTTTCGAAGAAATGAGATCCACAAAATTTGACTAAATTGAAGG
1 TATAACTCTTTTGGCTTAATTTTTTTCGAAGAAATGAGATCCACAAAATTTGACTAAATTGAAGG
*
13414543 TTTAAACATGTAATTATATCATATTAGGGAATATTAGGATCGAAATTAAGGTTTAGAAATAAAAT
66 TTTAAACATGTAATTATATCATATTAGGGAAGATTAGGATCGAAATTAAGGTTTAGAAATAAAAT
*
13414608 TTGAGTGGTGAAATCGTATTTTCGACAAAACTAGTTAAGTTTTCGG
131 TTGAGTGGTGAAATCATATTTTCGACAAAACTAGTTAAGTTTTCGG
13414654 TATA
1 TATA
13414658 GAGATCTAGA
Statistics
Matches: 178, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
176 178 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.36
Consensus pattern (176 bp):
TATAACTCTTTTGGCTTAATTTTTTTCGAAGAAATGAGATCCACAAAATTTGACTAAATTGAAGG
TTTAAACATGTAATTATATCATATTAGGGAAGATTAGGATCGAAATTAAGGTTTAGAAATAAAAT
TTGAGTGGTGAAATCATATTTTCGACAAAACTAGTTAAGTTTTCGG
Found at i:13417017 original size:40 final size:39
Alignment explanation
Indices: 13416950--13417081 Score: 115
Period size: 40 Copynumber: 3.4 Consensus size: 39
13416940 AGTTTGGCAT
* *
13416950 CTAGTGCCTCATCGGATAATTCGAAGTAATAGATTAACAC
1 CTAGTGCCTCATCGGATAATCCAAAGTAATA-ATTAACAC
* * * *
13416990 CTAGTGTCTCATCGGCTAAACCAAAGT-A-AATTAGCAC
1 CTAGTGCCTCATCGGATAATCCAAAGTAATAATTAACAC
* * * * *
13417027 CCAATGCCTCATCGAATTAATCCAAAGTAGTAAATTGACAC
1 CTAGTGCCTCATCGGA-TAATCCAAAGTAAT-AATTAACAC
*
13417068 CTAGTGTCTCATCG
1 CTAGTGCCTCATCG
13417082 CCCCGAAGTC
Statistics
Matches: 70, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 18 0.26
38 11 0.16
39 1 0.01
40 22 0.31
41 18 0.26
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (39 bp):
CTAGTGCCTCATCGGATAATCCAAAGTAATAATTAACAC
Found at i:13417079 original size:41 final size:37
Alignment explanation
Indices: 13416950--13417081 Score: 88
Period size: 41 Copynumber: 3.4 Consensus size: 37
13416940 AGTTTGGCAT
* * *
13416950 CTAGTGCCTCATCGGATAATTCGAAGTAATAGATTAACAC
1 CTAGTGCCTCATC-GATAA-TCCAAGTAGTAAATT-ACAC
* * *
13416990 CTAGTGTCTCATCGGCTAAACCAA--AGTAAATTAGCAC
1 CTAGTGCCTCATC-GATAATCCAAGTAGTAAATTA-CAC
* *
13417027 CCAATGCCTCATCGAATTAATCCAAAGTAGTAAATTGACAC
1 CTAGTGCCTCATCG-A-TAATCC-AAGTAGTAAATT-ACAC
*
13417068 CTAGTGTCTCATCG
1 CTAGTGCCTCATCG
13417082 CCCCGAAGTC
Statistics
Matches: 71, Mismatches: 14, Indels: 13
0.72 0.14 0.13
Matches are distributed among these distances:
36 2 0.03
37 19 0.27
38 5 0.07
39 5 0.07
40 17 0.24
41 22 0.31
42 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (37 bp):
CTAGTGCCTCATCGATAATCCAAGTAGTAAATTACAC
Found at i:13426900 original size:13 final size:13
Alignment explanation
Indices: 13426882--13426908 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13426872 GCTATCTCCA
13426882 TGATGCTGCTAGT
1 TGATGCTGCTAGT
13426895 TGATGCTGCTAGT
1 TGATGCTGCTAGT
13426908 T
1 T
13426909 CTTACAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (13 bp):
TGATGCTGCTAGT
Found at i:13434416 original size:8 final size:7
Alignment explanation
Indices: 13434383--13434414 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
13434373 AATTTGCATG
*
13434383 AAAACAA
1 AAAATAA
13434390 AAAATAA
1 AAAATAA
13434397 AAAATAA
1 AAAATAA
13434404 AAAATAA
1 AAAATAA
13434411 AAAA
1 AAAA
13434415 ATGGTGGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (7 bp):
AAAATAA
Found at i:13434532 original size:31 final size:31
Alignment explanation
Indices: 13434497--13434562 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
13434487 AAAGAGGCGA
13434497 CACCCAATGGTCACGCCTTAGGCACAAGCAG
1 CACCCAATGGTCACGCCTTAGGCACAAGCAG
* * * *
13434528 CACCCACTGGTCACGCCTTTGGCAGAGGCAG
1 CACCCAATGGTCACGCCTTAGGCACAAGCAG
13434559 CACC
1 CACC
13434563 ATCAGTCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.38, G:0.24, T:0.14
Consensus pattern (31 bp):
CACCCAATGGTCACGCCTTAGGCACAAGCAG
Found at i:13435009 original size:31 final size:31
Alignment explanation
Indices: 13434971--13435032 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
13434961 TAGTAGTGGT
* *
13434971 GCCAAAGTGATAGGCGGCACCACTTTGTCCA
1 GCCAAAGTGATAGGCGACACCACTTAGTCCA
*
13435002 GCCAAAGTGATAGGCGACACTACTTAGTCCA
1 GCCAAAGTGATAGGCGACACCACTTAGTCCA
13435033 TTCTGGTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.19
Consensus pattern (31 bp):
GCCAAAGTGATAGGCGACACCACTTAGTCCA
Found at i:13439534 original size:21 final size:21
Alignment explanation
Indices: 13439465--13439535 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
13439455 AAATTTAGAA
* *
13439465 AATTA-TGGTTGATTTTGATT
1 AATTATTGATTGACTTTGATT
* * * * *
13439485 CATTATTGACTGGCATTGGTT
1 AATTATTGATTGACTTTGATT
* *
13439506 GATGATTGATTGACTTTGATT
1 AATTATTGATTGACTTTGATT
13439527 AATTATTGA
1 AATTATTGA
13439536 CGGATGTTGA
Statistics
Matches: 35, Mismatches: 15, Indels: 1
0.69 0.29 0.02
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.25, C:0.06, G:0.21, T:0.48
Consensus pattern (21 bp):
AATTATTGATTGACTTTGATT
Found at i:13439782 original size:22 final size:19
Alignment explanation
Indices: 13439744--13439784 Score: 55
Period size: 22 Copynumber: 2.0 Consensus size: 19
13439734 TTATTTTTGG
13439744 ATTTTTTGAATTTTTAGAA
1 ATTTTTTGAATTTTTAGAA
13439763 ATTTTATTGATATATTTTAGAA
1 ATTTT-TTGA-AT-TTTTAGAA
13439785 GTTCCTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 4 0.21
21 2 0.11
22 8 0.42
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
ATTTTTTGAATTTTTAGAA
Found at i:13439968 original size:13 final size:13
Alignment explanation
Indices: 13439950--13439974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13439940 GTTAATCAAT
13439950 TTTTTTACTATAA
1 TTTTTTACTATAA
13439963 TTTTTTACTATA
1 TTTTTTACTATA
13439975 GTTAACAGCA
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:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTTACTATAA
Found at i:13440242 original size:14 final size:14
Alignment explanation
Indices: 13440225--13440255 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13440215 AAAAATGATA
13440225 AAATATAAATTATT
1 AAATATAAATTATT
13440239 AAATATAAATTATT
1 AAATATAAATTATT
13440253 AAA
1 AAA
13440256 ATGATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATATAAATTATT
Found at i:13441579 original size:2 final size:2
Alignment explanation
Indices: 13441572--13441597 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13441562 GTTTTTCATC
13441572 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
13441598 AAATAAATCA
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:13443855 original size:24 final size:24
Alignment explanation
Indices: 13443827--13443911 Score: 118
Period size: 24 Copynumber: 3.5 Consensus size: 24
13443817 CCCTCCTCGT
*
13443827 CCATTCCCTCCTCACCCACCGGGA
1 CCATTCCCTCCTCACCCACCGCGA
*
13443851 CCATTCCCTCCTCACCCGCCGCGA
1 CCATTCCCTCCTCACCCACCGCGA
* *
13443875 CCGA-TCCCTCCTCATCCACCACGA
1 CC-ATTCCCTCCTCACCCACCGCGA
13443899 CCATTCCCTCCTC
1 CCATTCCCTCCTC
13443912 CTCATCCTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.02
24 52 0.96
25 1 0.02
ACGTcount: A:0.15, C:0.56, G:0.09, T:0.19
Consensus pattern (24 bp):
CCATTCCCTCCTCACCCACCGCGA
Found at i:13447081 original size:34 final size:34
Alignment explanation
Indices: 13447042--13447109 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
13447032 AATTTAAAGG
13447042 CAAACTTGTTCTCGAATGTTCGAATGTCGCATCC
1 CAAACTTGTTCTCGAATGTTCGAATGTCGCATCC
*
13447076 CAAACTTGTTCTCGAATGTTTGAATGTCGCATCC
1 CAAACTTGTTCTCGAATGTTCGAATGTCGCATCC
13447110 TAACTTACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (34 bp):
CAAACTTGTTCTCGAATGTTCGAATGTCGCATCC
Found at i:13451015 original size:46 final size:46
Alignment explanation
Indices: 13450965--13451136 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
13450955 TGGTTGAGCA
13450965 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
13451011 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
13451056 CATCCGAACTCGTTGAGTTGAG-CCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
13451103 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
13451137 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 21 0.20
46 50 0.48
47 23 0.22
49 3 0.03
50 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:13451120 original size:92 final size:93
Alignment explanation
Indices: 13450962--13451131 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
13450952 GGATGGTTGA
* *
13450962 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13451027 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
13451055 GCATCCGAACTCGTTGAGTTGAG-CCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13451119 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13451132 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 51 0.69
93 23 0.31
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:13456534 original size:46 final size:46
Alignment explanation
Indices: 13456484--13456656 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
13456474 TGGTTGAGCA
13456484 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13456530 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
13456575 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
13456623 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
13456657 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.57
47 30 0.28
48 3 0.03
50 3 0.03
51 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:13456640 original size:93 final size:93
Alignment explanation
Indices: 13456481--13456652 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
13456471 GGATGGTTGA
* *
13456481 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13456546 TGAGTCCGAGTTCATGAAATGTAACTAG
66 TGAGTCCGAGTTCATGAAATGTAACTAG
* *
13456574 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13456639 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
13456653 CTTAGGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAAATGTAACTAG
Found at i:13462339 original size:37 final size:37
Alignment explanation
Indices: 13462276--13462347 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
13462266 TCTGTGCAAG
*
13462276 TATTCTTTTATTATTTTCATTCTATTCATAACCAAAA
1 TATTCTTTTATTATTTCCATTCTATTCATAACCAAAA
* *
13462313 TATTCTTTTATTCTTTCCATTTTATTCATAACCAA
1 TATTCTTTTATTATTTCCATTCTATTCATAACCAA
13462348 TCATATGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (37 bp):
TATTCTTTTATTATTTCCATTCTATTCATAACCAAAA
Found at i:13466852 original size:45 final size:44
Alignment explanation
Indices: 13466742--13466854 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
13466732 CACCATGGCG
* *
13466742 AATCTTATTTCCCTGAAGTTGCAGCGGAGTAGATTAAAGCCACA
1 AATCTTATTTCCCTGAAGTTGCAGCGGAGCAGATTAAAGCAACA
* * * * ** *
13466786 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGGAGATAACA
1 AATCTTATTTCCCTGAAGTTGCAGCGGAGCAGATTAAAG-CAACA
13466831 AATCTTATTTCCCTGAAGTTGCAG
1 AATCTTATTTCCCTGAAGTTGCAG
13466855 AGAAATAGAT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
44 32 0.57
45 24 0.43
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
AATCTTATTTCCCTGAAGTTGCAGCGGAGCAGATTAAAGCAACA
Found at i:13466865 original size:45 final size:44
Alignment explanation
Indices: 13466742--13466875 Score: 133
Period size: 44 Copynumber: 3.0 Consensus size: 44
13466732 CACCATGGCG
* *
13466742 AATCTTATTTCCCTGAAGTTGCAGCGGAGTAGATTAAAGCCACA
1 AATCTTATTTCCCTGAAGTTGCAGAGGAGTAGATTAAAGCAACA
* * * * * ** *
13466786 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGGAGATAACA
1 AATCTTATTTCCCTGAAGTTGCAGAGGAGTAGATTAAAG-CAACA
* * * *
13466831 AATCTTATTTCCCTGAAGTTGCAGAGAAATAGATTACAGCTACA
1 AATCTTATTTCCCTGAAGTTGCAGAGGAGTAGATTAAAGCAACA
13466875 A
1 A
13466876 GTCACAAATC
Statistics
Matches: 69, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
44 36 0.52
45 33 0.48
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATTTCCCTGAAGTTGCAGAGGAGTAGATTAAAGCAACA
Found at i:13466998 original size:44 final size:45
Alignment explanation
Indices: 13466932--13467271 Score: 178
Period size: 44 Copynumber: 7.5 Consensus size: 45
13466922 TACCATGGCG
*
13466932 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATAGAA-ACCA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATAGAAGA-CAGCA
* * * * *
13466976 AGTCTTATCTCCCTGAAATTGCAG-AGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTA-GAGTAGATAGAAGACAGCA
* * * *
13467021 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAACTATAAACAACA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA-T---A-GA-AGACAGCA
* * * * * * * * *
13467072 AACCCTATCTCTCTAAAGTTACAGTAGAGCAGGTTGAA-ATTA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATAGAAGA-CAGCA
* * * *
13467116 AATCTAATTTCCCTGAAGTTGTAGTGGAGTAGATAGAA-ACCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATAGAAGA-CAGCA
* * * * *
13467160 AATCTTATCTCCAT-AAGGTTGCAATGGAGTAGATTGAAGAAAGCA
1 AATCTTATCTCCCTGAA-GTTGCAGTAGAGTAGATAGAAGACAGCA
* * * * * *
13467205 AGTCTTATCTCCTTGAAGTT-CAGTGGAGCAGACT-GAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA-TAGAAGACAGCA
* *
13467249 AATATTATTTCCCTGAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCA
13467272 ATGGAACAGA
Statistics
Matches: 224, Mismatches: 55, Indels: 33
0.72 0.18 0.11
Matches are distributed among these distances:
43 3 0.01
44 130 0.58
45 52 0.23
46 5 0.02
50 2 0.01
51 32 0.14
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATAGAAGACAGCA
Found at i:13469100 original size:18 final size:19
Alignment explanation
Indices: 13469059--13469101 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
13469049 CTTTTTTTCT
13469059 TTATT-TTTATTTTAGTTA
1 TTATTATTTATTTTAGTTA
*
13469077 TT-TTATTTATTTTA-TTC
1 TTATTATTTATTTTAGTTA
13469094 TTATTATT
1 TTATTATT
13469102 ACTATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
TTATTATTTATTTTAGTTA
Found at i:13469107 original size:24 final size:24
Alignment explanation
Indices: 13469058--13469109 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
13469048 CCTTTTTTTC
*
13469058 TTTATTTTTATTTTAGTTATTTTA
1 TTTATTTTTATTTTAGTTATTCTA
13469082 TTTA-TTTTATTCTTA-TTATTACTA
1 TTTATTTTTATT-TTAGTTATT-CTA
13469106 TTTA
1 TTTA
13469110 AAATTGTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTATTTTTATTTTAGTTATTCTA
Found at i:13469270 original size:13 final size:14
Alignment explanation
Indices: 13469252--13469293 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
13469242 ATTTTCAATA
13469252 TTTTATA-AATTAT
1 TTTTATATAATTAT
*
13469265 TTTTATATATTTA-
1 TTTTATATAATTAT
*
13469278 TTTTATATATTTAT
1 TTTTATATAATTAT
13469292 TT
1 TT
13469294 AATTACTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATATAATTAT
Found at i:13469286 original size:15 final size:14
Alignment explanation
Indices: 13469250--13469293 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 14
13469240 TTATTTTCAA
13469250 TATTTTATA-A-AT
1 TATTTTATATATAT
13469262 TATTTT-TATATATT
1 TATTTTATATATA-T
13469276 TATTTTATATAT-T
1 TATTTTATATATAT
13469289 TATTT
1 TATTT
13469294 AATTACTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
11 2 0.07
12 7 0.25
13 7 0.25
14 7 0.25
15 5 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTTTATATATAT
Found at i:13471667 original size:24 final size:25
Alignment explanation
Indices: 13471620--13471687 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
13471610 TATTCAATAC
** *
13471620 AATATATTATTTATATATTTTTTAA
1 AATATATTAAATATATATTGTTTAA
13471645 AATATATTAAATAT-TATTGTTTAA
1 AATATATTAAATATATATTGTTTAA
* *
13471669 TATATATATATATATATAT
1 AATATAT-TAAATATATAT
13471688 ATATATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 15 0.42
25 18 0.50
26 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
AATATATTAAATATATATTGTTTAA
Found at i:13471675 original size:2 final size:2
Alignment explanation
Indices: 13471668--13471697 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13471658 TTATTGTTTA
13471668 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
13471698 GCTTGTAAGC
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:13475758 original size:30 final size:30
Alignment explanation
Indices: 13475722--13475820 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
13475712 CTAGCATTTG
*
13475722 CCACCACCAACTCCACTAGCCACAATTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
13475752 CCACCACCAACTCCACTAGCCACGCTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
13475782 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
13475812 CCACCACCA
1 CCACCACCA
13475821 CTTGTACCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.26, C:0.49, G:0.07, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:13483384 original size:13 final size:14
Alignment explanation
Indices: 13483354--13483388 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
13483344 CGCTGAGTTA
13483354 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
13483368 TTTTCAAATTCTG-
1 TTTTCAAATTCTGT
13483381 TTTTCAAA
1 TTTTCAAA
13483389 AATCAACTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:13483496 original size:75 final size:75
Alignment explanation
Indices: 13483386--13483779 Score: 359
Period size: 75 Copynumber: 5.0 Consensus size: 75
13483376 TTCTGTTTTC
13483386 AAAAATCAACTCATATTGCGAGGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGA-GAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
13483451 CTGTCTTTTAA
65 CTGTCTTTTAA
* * * ** * * *
13483462 AAAAATCAATTCATATTTCGAGAAGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATGTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACGT--TGAGGTATTTTCAAT
*
13483526 TTCTATTTTAATGTCTGTTTTTA
63 TTC--------TGTC--TTTTAA
* * *
13483549 AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
13483613 CTGT-TTTTCAA
65 CTGTCTTTT-AA
*
13483624 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
*
13483689 TATCTTTTAAAAAAAAATCAA
66 TGTC-TTT---------T-AA
* *
13483710 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGCATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
13483773 TG-CTTTT
66 TGTCTTTT
13483780 CAATTTCTAC
Statistics
Matches: 262, Mismatches: 28, Indels: 59
0.75 0.08 0.17
Matches are distributed among these distances:
73 1 0.00
74 10 0.04
75 78 0.30
76 19 0.07
77 22 0.08
82 3 0.01
83 1 0.00
84 20 0.08
85 15 0.06
86 49 0.19
87 42 0.16
88 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTTAA
Found at i:13483781 original size:14 final size:14
Alignment explanation
Indices: 13483762--13483796 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
13483752 CGCTGAGGCA
*
13483762 TTTTCAATTTCTGC
1 TTTTCAATTTCTAC
13483776 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
13483790 TTTTCAA
1 TTTTCAA
13483797 AAGAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:13483887 original size:14 final size:15
Alignment explanation
Indices: 13483853--13483888 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
13483843 TGCTGAGGTA
13483853 TTTTCAATTTCTGAC
1 TTTTCAATTTCTGAC
*
13483868 TTTTCAATTTCT-AT
1 TTTTCAATTTCTGAC
13483882 TTTTCAA
1 TTTTCAA
13483889 AAGAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.22, C:0.17, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTTCAATTTCTGAC
Found at i:13483902 original size:92 final size:88
Alignment explanation
Indices: 13483604--13483955 Score: 428
Period size: 92 Copynumber: 4.0 Consensus size: 88
13483594 GCTGAGGTAA
* *
13483604 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-ACAC
* *
13483669 GTTAAGGTATTTTCAATTTCT-ATC
65 GCTGAGGTATTTTCAATTTCTGA-C
** **** *
13483693 TTTTAA---AAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AAGACG
1 TTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAACACG
*
13483754 CTGAGGCATTTTCAATTTCTG-C
66 CTGAGGTATTTTCAATTTCTGAC
* * *
13483776 TTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACTCA
1 TTTT-AATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-ACA
13483841 CGTGCTGAGGTATTTTCAATTTCTGAC
64 C--GCTGAGGTATTTTCAATTTCTGAC
* *
13483868 TTTTCAATTTCTATTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTT-AATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAACA
*
13483933 CGCTGAGGTAATTTCAATTTCTG
64 CGCTGAGGTATTTTCAATTTCTG
13483956 TTGTCAAAAA
Statistics
Matches: 227, Mismatches: 25, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
83 5 0.02
84 23 0.10
85 1 0.00
86 42 0.19
87 42 0.19
88 1 0.00
89 8 0.04
90 21 0.09
91 21 0.09
92 62 0.27
93 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (88 bp):
TTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAACACG
CTGAGGTATTTTCAATTTCTGAC
Found at i:13484036 original size:13 final size:13
Alignment explanation
Indices: 13484018--13484047 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13484008 CGCCGAGGTC
13484018 TTTTCAAATTCCA
1 TTTTCAAATTCCA
*
13484031 TTTTCAATTTCCA
1 TTTTCAAATTCCA
13484044 TTTT
1 TTTT
13484048 TTCAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTTCAAATTCCA
Found at i:13484108 original size:177 final size:173
Alignment explanation
Indices: 13483852--13484307 Score: 587
Period size: 177 Copynumber: 2.6 Consensus size: 173
13483842 GTGCTGAGGT
*
13483852 ATTTTCAATTTCTGACTTTTCAATTTCTATTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGA
1 ATTTTCAATTTCTG-CTTTTCAATTTCT-GTTTTCAAAA-AATCAACTCATATTGCGAGAGGTGA
**
13483917 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTTGTATTGCG
63 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAAAATCAACTCATATTGCG
* * * *
13483982 AGAGGTGAGTTGAGTCTCGGGCCATACGCCGAGGTCTTTTCAAATTC-C
127 AAAGGTGAGCTGAGCCTCGGGCC--ACGCCGAGGTATTTTCAAATTCTC
* * * *
13484030 ATTTTCAATTTCCAT-TTTTTCAATTTATGCTTTTGAAAAAATCAACTCATATTGCGAGTGGTGA
1 ATTTTCAATTT-C-TGCTTTTCAATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGA
* * *
13484094 GTTGAGCTTCAGGACACGCTGAGGTAATTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCG
63 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAATCAACTCATATTGCG
* * * *
13484159 AAAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTTTTAATTTCTG
127 AAAGGTGAGCTGAGCCTCGGGCCACGCCGAGGTATTTTCAAATTCTC
*
13484206 TTTTTCAATTTCTGCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGT
1 ATTTTCAATTTCTGCTTTTCAATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
13484269 TGAGCCTCAGGGCACGCTGAGATATTTTCAATTTCTGTT
65 TGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
13484308 TTTCAATTTT
Statistics
Matches: 243, Mismatches: 29, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
172 2 0.01
173 61 0.25
174 12 0.05
175 24 0.10
176 10 0.04
177 98 0.40
178 34 0.14
179 1 0.00
180 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (173 bp):
ATTTTCAATTTCTGCTTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCATATTGCGAAAG
GTGAGCTGAGCCTCGGGCCACGCCGAGGTATTTTCAAATTCTC
Found at i:13484167 original size:73 final size:73
Alignment explanation
Indices: 13484047--13484213 Score: 217
Period size: 73 Copynumber: 2.3 Consensus size: 73
13484037 ATTTCCATTT
* ** * *
13484047 TTTCAATTTATGCTTTTGAAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCTTCAGGACACG
1 TTTCAATTTATGCTTTT-CAAAAATCAACTCATATTGCGAAAGGTGAGCTGAGCCTCAGGACACG
*
13484112 CTGAGGTAA
65 CCGAGGTAA
* *
13484121 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGCTGAGCCTCGGGGCACGC
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGCTGAGCCTCAGGACACGC
*
13484186 CGAGGTAT
66 CGAGGTAA
* * *
13484194 TTTTAATTTCTGTTTTTCAA
1 TTTCAATTTATGCTTTTCAA
13484214 TTTCTGCTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
73 64 0.79
74 17 0.21
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (73 bp):
TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGCTGAGCCTCAGGACACGC
CGAGGTAA
Found at i:13484237 original size:13 final size:13
Alignment explanation
Indices: 13484193--13484237 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
13484183 CGCCGAGGTA
13484193 TTTTTAATTTCTG
1 TTTTTAATTTCTG
13484206 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
13484220 CTTTTAATTTCTG
1 TTTTTAATTTCTG
13484233 TTTTT
1 TTTTT
13484238 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:13484302 original size:100 final size:101
Alignment explanation
Indices: 13484124--13484409 Score: 400
Period size: 100 Copynumber: 2.9 Consensus size: 101
13484114 GAGGTAATTT
* * * * *
13484124 CAATTTATGCTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGCTGAGCCTCGGGGCACGCCGA
1 CAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
* * *
13484189 GGTATTTTTAATTTCTGTTTTTCAA-TTTCTGCTTT
66 GGTATTTTCAATTTCTGTTTTTCAATTTTCTCCTTA
* *
13484224 TAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
1 CAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
* *
13484289 GATATTTTCAATTTCTGTTTTTCAATTTTTTCCTTA
66 GGTATTTTCAATTTCTGTTTTTCAATTTTCTCCTTA
* * *
13484325 CAAATTCTGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
1 CAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
13484388 GGTATTTTCAATTT-TCGTTTTT
66 GGTATTTTCAATTTCT-GTTTTT
13484410 TTAATTTATG
Statistics
Matches: 166, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
98 1 0.01
99 65 0.39
100 81 0.49
101 19 0.11
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (101 bp):
CAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
GGTATTTTCAATTTCTGTTTTTCAATTTTCTCCTTA
Found at i:13484535 original size:75 final size:73
Alignment explanation
Indices: 13484407--13484715 Score: 383
Period size: 75 Copynumber: 4.2 Consensus size: 73
13484397 AATTTTCGTT
* * * *
13484407 TTTTTAATTTATGTTTCAAAAAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTTTGTTTCTAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
13484472 CGTCGAGGTA
65 CGT-GAGGTA
* * *
13484482 TTTTCAATTTTTGTCTTCTAAAAAAATCAGCTCATATTGCGAGATGTGAGTTGAACCTCAAGACG
1 TTTTCAATTTTTGT-TTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
13484547 C-TGAGGTA
65 CGTGAGGTA
* * * * *
13484555 ATTTCAATTTTTGTTTGT-CAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTTTGTTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
13484619 GTTGAGGTA
66 G-TGAGGTA
*
13484628 TTTTCAATTTCTTTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAA-TT-TTTGTTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
* *
13484692 GC-TGAGGTG
64 ACGTGAGGTA
* *
13484701 CTTTCCATTTTTGTT
1 TTTTCAATTTTTGTT
13484716 CTTCAATTTC
Statistics
Matches: 202, Mismatches: 26, Indels: 16
0.83 0.11 0.07
Matches are distributed among these distances:
71 45 0.22
72 5 0.02
73 43 0.21
74 3 0.01
75 96 0.48
76 10 0.05
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (73 bp):
TTTTCAATTTTTGTTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
GTGAGGTA
Found at i:13484600 original size:146 final size:147
Alignment explanation
Indices: 13484427--13484715 Score: 476
Period size: 146 Copynumber: 2.0 Consensus size: 147
13484417 ATGTTTCAAA
*
13484427 AAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTCAATTT
1 AAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTCAATTT
* *
13484492 -TTGTC-TTCTAAAAAAATCAGCTCATATTGCGAGATGTGAGTTGAACCTCAAGACGCTGAGGTA
66 CTT-TCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTA
13484555 ATTTCAATTTTTGTTTGTC
129 ATTTCAATTTTTGTTTGTC
*
13484574 AAAAA-TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTCAATTT
**
13484638 CTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGCT
66 CTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTAAT
*
13484703 TTCCATTTTTGTT
131 TTCAATTTTTGTT
13484716 CTTCAATTTC
Statistics
Matches: 133, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
146 123 0.92
147 10 0.08
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (147 bp):
AAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTTCAATTT
CTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTAAT
TTCAATTTTTGTTTGTC
Found at i:13484941 original size:91 final size:91
Alignment explanation
Indices: 13484628--13485135 Score: 467
Period size: 87 Copynumber: 5.6 Consensus size: 91
13484618 CGTTGAGGTA
* * * *
13484628 TTTTCAATTTCT-TTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA--AG
1 TTTTCAATTTATGTT-TGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
** * *
13484690 ACGCTGAGGTGCTTTCCA-TT-TTTGT
65 ACGCTGAGGTATTTTCAATTTCTTTTT
* * * * * **
13484715 TCTTCAATTTCTGTATT-TCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTC
1 TTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GG
* *
13484779 ACACGCTGAGGTATTTTCAAATTC-TGTT
63 ACACGCTGAGGTATTTTCAATTTCTTTTT
* * *
13484807 TTTTAAATTT-TGTTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGAC
1 TTTTCAATTTATGTTTGT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
13484871 ACGCTAAGGTATTTTCAATTTCTTTTT
65 ACGCTGAGGTATTTTCAATTTCTTTTT
13484898 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
* *
13484963 CACGCCGAGGTATTTTCAATTGATGTTTTT
64 CACGCTGAGGTATTTTCAATT--TCTTTTT
* * * *
13484993 TTTTCAATTTATGCTTTG-C--AAAAATCAACTCATATTACGAGAGGTGGGTTGAGCCTCGGGTC
1 TTTTCAATTTATG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
** ** *
13485055 ACATATCGAGGTATTTTCAAAATC--TGT
65 AC-GCT-GAGGTATTTTCAATTTCTTTTT
* *
13485082 TTTACAAATTT-TGTTT-T---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTTC-AATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
13485136 TGGCTCACGT
Statistics
Matches: 357, Mismatches: 43, Indels: 42
0.81 0.10 0.10
Matches are distributed among these distances:
87 82 0.23
88 7 0.02
89 9 0.03
90 29 0.08
91 81 0.23
92 54 0.15
93 71 0.20
95 20 0.06
96 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (91 bp):
TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTATTTTCAATTTCTTTTT
Found at i:13485028 original size:93 final size:88
Alignment explanation
Indices: 13484648--13485135 Score: 422
Period size: 93 Copynumber: 5.4 Consensus size: 88
13484638 CTTTCTTTCA
* * * ** *
13484648 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA----AGACGCTGAGGTGCTTTC-CA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAA
* *
13484708 TTTTTGTTCTTCAATTTCTGTATTTC
66 TTTTT-TTTTTCAATTT-TGT-TTGC
* * * * *
13484734 AAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGACTCACACGCTGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GTCACACGCCGAGGTATTTTCA
* * *
13484798 AATTCTGTTTTTTAAATTTTGTTTTTCC
64 AATT-TTTTTTTTCAATTTTG--TTTGC
* **
13484826 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG--ACACGCTAAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
*
13484889 TTTCTTTTTTTTTCAATTTATGTTTGTC
65 -AT-TTTTTTTTTCAATTT-TGTTTG-C
13484917 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
13484982 TTGATGTTTTTTTTTCAATTTATGCTTTGC
65 ---AT-TTTTTTTTTCAATTT-TG-TTTGC
* * * ***
13485012 -AAAAATCAACTCATATTACGAGAGGTGGGTTGAGCCTCGGGTCACATATCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAA
* * * *
13485076 ATCTGTTTTACAAATTTTGTTT--
66 TTTTTTTTTTC-AATTTTGTTTGC
* *
13485098 TAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
13485136 TGGCTCACGT
Statistics
Matches: 339, Mismatches: 41, Indels: 42
0.80 0.10 0.10
Matches are distributed among these distances:
87 69 0.20
88 3 0.01
89 9 0.03
90 28 0.08
91 73 0.22
92 54 0.16
93 79 0.23
95 20 0.06
96 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (88 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAA
TTTTTTTTTTCAATTTTGTTTGC
Found at i:13485908 original size:18 final size:18
Alignment explanation
Indices: 13485885--13485940 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
13485875 CCACCACCAA
13485885 CTCCACTAGCCACAATTG
1 CTCCACTAGCCACAATTG
*
13485903 CTCCACCA--C-CAA---
1 CTCCACTAGCCACAATTG
*
13485915 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACAATTG
13485933 CTCCACTA
1 CTCCACTA
13485941 CCTACTCCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
12 7 0.24
14 1 0.03
15 5 0.17
16 1 0.03
18 15 0.52
ACGTcount: A:0.27, C:0.46, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACAATTG
Found at i:13485911 original size:30 final size:30
Alignment explanation
Indices: 13485875--13485973 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
13485865 CTAGCCTTTG
*
13485875 CCACCACCAACTCCACTAGCCACAATTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
13485905 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
13485935 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
13485965 CCACCACCA
1 CCACCACCA
13485974 CTTGTACCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.27, C:0.49, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:13485968 original size:18 final size:18
Alignment explanation
Indices: 13485915--13485968 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
13485905 CCACCACCAA
13485915 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
13485933 CTCCACT----AC-C-TA
1 CTCCACTAGCCACACTTG
13485945 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
13485963 CTCCAC
1 CTCCAC
13485969 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 8 0.29
13 1 0.04
14 2 0.07
16 2 0.07
17 1 0.04
18 14 0.50
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:13494031 original size:11 final size:11
Alignment explanation
Indices: 13493988--13494039 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
13493978 TTAATTAAAT
13493988 TTTATATTTTAA
1 TTTA-ATTTTAA
13494000 TATTACATTTTAA
1 T-TTA-ATTTTAA
*
13494013 -TTATTTTTAA
1 TTTAATTTTAA
*
13494023 TTTAATTTTTA
1 TTTAATTTTAA
13494034 TTTAAT
1 TTTAAT
13494040 GTTCAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
10 6 0.18
11 17 0.50
12 1 0.03
13 10 0.29
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:13494033 original size:22 final size:24
Alignment explanation
Indices: 13493989--13494031 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
13493979 TAATTAAATT
13493989 TTATATTTTAATATTACATTTTAA
1 TTATATTTTAATATTACATTTTAA
13494013 TTAT-TTTTAAT-TTA-ATTTT
1 TTATATTTTAATATTACATTTT
13494032 TATTTAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 7 0.37
24 4 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TTATATTTTAATATTACATTTTAA
Done.