Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 90 of 182
Found at i:28877736 original size:10 final size:10
Alignment explanation
Indices: 28877690--28877754 Score: 71
Period size: 10 Copynumber: 6.7 Consensus size: 10
28877680 TTAAAATGTT
*
28877690 TAAAAAATCA
1 TAAAAAATTA
* *
28877700 TAATAACTTA
1 TAAAAAATTA
*
28877710 TAAAAAATCA
1 TAAAAAATTA
28877720 -AAAAAATTA
1 TAAAAAATTA
*
28877729 TCAAAAATTA
1 TAAAAAATTA
28877739 TAAAAAA-TA
1 TAAAAAATTA
28877748 TAAAAAA
1 TAAAAAA
28877755 ATATTAAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
9 17 0.38
10 28 0.62
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:28877880 original size:20 final size:19
Alignment explanation
Indices: 28877855--28877916 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
28877845 ATAATATTTA
28877855 AAAATTTATAAGAAAA-TATT
1 AAAATTTATAA-AAAATTA-T
* * *
28877875 AAAATTGATATAAACTTAT
1 AAAATTTATAAAAAATTAT
*
28877894 AAAATTTATAAAAAATCAT
1 AAAATTTATAAAAAATTAT
28877913 AAAA
1 AAAA
28877917 AACTTGAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 23 0.68
20 11 0.32
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAATTTATAAAAAATTAT
Found at i:28877904 original size:9 final size:9
Alignment explanation
Indices: 28877841--28877906 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
28877831 AATAAAGCAT
*
28877841 ATTTATAAT
1 ATTTATAAA
28877850 ATTTA-AAA
1 ATTTATAAA
28877858 ATTTATAAGA
1 ATTTATAA-A
**
28877868 AAATATTAAA
1 ATTTA-TAAA
*
28877878 ATTGATATAA
1 ATTTATA-AA
*
28877888 ACTTATAAA
1 ATTTATAAA
28877897 ATTTATAAA
1 ATTTATAAA
28877906 A
1 A
28877907 AATCATAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
8 7 0.16
9 20 0.45
10 14 0.32
11 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (9 bp):
ATTTATAAA
Found at i:28878401 original size:28 final size:29
Alignment explanation
Indices: 28878370--28878447 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 29
28878360 TTTTTACCAT
*
28878370 TTTTATTATTTTTAAGA-ATTCTA-ATAGG
1 TTTTATTATTTTTAA-ATATTCTACATAAG
* *
28878398 TTTT-TTTTATTTTAAATATTTTACATAAG
1 TTTTATTAT-TTTTAAATATTCTACATAAG
*
28878427 TTTTATTAATTTTATAATATT
1 TTTTATTATTTTTA-AATATT
28878448 TTTAATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
27 4 0.10
28 15 0.38
29 13 0.32
30 8 0.20
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTTATTATTTTTAAATATTCTACATAAG
Found at i:28878539 original size:29 final size:29
Alignment explanation
Indices: 28878480--28878560 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
28878470 TTATATTATA
* *
28878480 TTTATTTTATTTTTATAATATTT-ATAGGTT
1 TTTATTATA-TTTTAT-ATTTTTAATAGGTT
*
28878510 TTTATTATATTTTATATTTTTAATATGTT
1 TTTATTATATTTTATATTTTTAATAGGTT
* *
28878539 TGTATCA-ATTTTAATATTTTTA
1 TTTATTATATTTT-ATATTTTTA
28878561 TTTTTTATAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 10 0.23
29 26 0.59
30 8 0.18
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.65
Consensus pattern (29 bp):
TTTATTATATTTTATATTTTTAATAGGTT
Found at i:28879763 original size:79 final size:79
Alignment explanation
Indices: 28879627--28879776 Score: 264
Period size: 79 Copynumber: 1.9 Consensus size: 79
28879617 TCACCGTAAC
28879627 GCAGATAAACTATCACTTAATAATATTGTGAACAACCCACCACTTTTGTAGAGAAACTGCCACTT
1 GCAGATAAACTATCACTTAATAATATTGTGAACAACCCACCACTTTTGTAGAGAAACTGCCACTT
28879692 TGTAATATTATGGA
66 TGTAATATTATGGA
* ** *
28879706 GCAGATAAACTGTCACTTAATAATATTGTGGGCAACCCACCACTTTTGTAGATAAACTGCCACTT
1 GCAGATAAACTATCACTTAATAATATTGTGAACAACCCACCACTTTTGTAGAGAAACTGCCACTT
28879771 TGTAAT
66 TGTAAT
28879777 TATGGACAAG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (79 bp):
GCAGATAAACTATCACTTAATAATATTGTGAACAACCCACCACTTTTGTAGAGAAACTGCCACTT
TGTAATATTATGGA
Found at i:28884404 original size:47 final size:47
Alignment explanation
Indices: 28884339--28884429 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 47
28884329 TACCACTTAA
* *
28884339 AATATTATGGACAAGCCACCACTTTTGTAGATAAA-ATGCCACTTTGT
1 AATATTATGGACAAGCCACCACTTCTGCAGATAAACA-GCCACTTTGT
* *
28884386 AATATTGTGGAGAAGCCACCACTTCTGCAGATAAACAGCCACTT
1 AATATTATGGACAAGCCACCACTTCTGCAGATAAACAGCCACTT
28884430 CTTCCACCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 38 0.97
48 1 0.03
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (47 bp):
AATATTATGGACAAGCCACCACTTCTGCAGATAAACAGCCACTTTGT
Found at i:28890468 original size:15 final size:16
Alignment explanation
Indices: 28890437--28890469 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
28890427 TAGTTTAGGT
*
28890437 TTTTGGGTTTGTGGGC
1 TTTTGGGTATGTGGGC
28890453 TTTTGGGTAT-TGGGC
1 TTTTGGGTATGTGGGC
28890468 TT
1 TT
28890470 GGGCTTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.03, C:0.06, G:0.39, T:0.52
Consensus pattern (16 bp):
TTTTGGGTATGTGGGC
Found at i:28891081 original size:94 final size:95
Alignment explanation
Indices: 28890953--28891417 Score: 408
Period size: 94 Copynumber: 4.8 Consensus size: 95
28890943 TCAATCCGAT
* ** * *
28890953 CCACTACAACTT-TAGGGATATAGGATTTAATGTTGTAACTTCATCTTACTTCACTACAACTCCA
1 CCACTACAACTTCAAGGG-TATAGGATTTGGTGTTGTAACTTCATCTTGCTTCACTACAACTTCA
28891017 GGGAGATAAGATTTGCTTCTGTAGATCTGA-
65 GGGAGATAAGATTTGCTTCTGTAGATCTGAC
* * * *
28891047 CCACTACAACTTCAAGGGTATAGGATTTGGTGTTGTAGCCTCATCTTGCTCCACTAACAACTTTA
1 CCACTACAACTTCAAGGGTATAGGATTTGGTGTTGTAACTTCATCTTGCTTCACT-ACAACTTCA
* * *
28891112 GGGAAATAAGATTTGCTTTTGTAGCTTCAATCCGAC
65 GGGAGATAAGATTTGCTTCTGTAG-----ATCTGAC
** * * * ** *
28891148 CCACTGTAACTTCAGGGGTATAAGATTTGATGTCATAACTTCATCTTGC-T--CTACAACTTCAA
1 CCACTACAACTTCAAGGGTATAGGATTTGGTGTTGTAACTTCATCTTGCTTCACTACAACTTCAG
* *
28891210 AGAGGTAAGATTTGCTTCCATAGCTTCA-ATCTGAC
66 GGAGATAAGATTTGCTT-C-T-G--T-AGATCTGAC
** * *
28891245 CCACTACAACTTCCGGGGTATAGGATTTGGTGTTGTAACTTCATCTTGCTCCACTGCAAC-TCTA
1 CCACTACAACTTCAAGGGTATAGGATTTGGTGTTGTAACTTCATCTTGCTTCACTACAACTTC-A
* *
28891309 GGGAGATAAGATTTGCTTCTATAGATCTTA-
65 GGGAGATAAGATTTGCTTCTGTAGATCTGAC
* * * * * *
28891339 CTACTGCAACTTAAAGGGTATAGGATTTGGTTTTGTAGCTTCATCTTTC-TCTACTACAACTTCA
1 CCACTACAACTTCAAGGGTATAGGATTTGGTGTTGTAACTTCATCTTGCTTC-ACTACAACTTCA
*
28891403 GAGAGATAAAGATTT
65 GGGAGAT-AAGATTT
28891418 TCTACTGTTA
Statistics
Matches: 295, Mismatches: 54, Indels: 43
0.75 0.14 0.11
Matches are distributed among these distances:
93 1 0.00
94 99 0.34
95 48 0.16
97 70 0.24
98 3 0.01
99 4 0.01
100 28 0.09
101 40 0.14
102 1 0.00
103 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (95 bp):
CCACTACAACTTCAAGGGTATAGGATTTGGTGTTGTAACTTCATCTTGCTTCACTACAACTTCAG
GGAGATAAGATTTGCTTCTGTAGATCTGAC
Found at i:28891247 original size:97 final size:97
Alignment explanation
Indices: 28890942--28891295 Score: 263
Period size: 97 Copynumber: 3.6 Consensus size: 97
28890932 CTAATGTTGT
* * * * * ** *
28890942 TTCAATCCGATCCACTACAACTTTAGGGATATAGGATTTAATGTTGTAACTTCATCTTACTTCAC
1 TTCAATCCGACCCACTACAACTTCAGGGGTATAAGATTTGATGTCATAACTTCATCTTGC-T--C
* ** *
28891007 TACAACTCCAGGGAGATAAGATTTGCTT-C-T-G-
63 TACAACTTCAAAGAGGTAAGATTTGCTTCCATAGC
* * * * ** * *
28891038 -T-AGATCTGA-CCACTACAACTTCAAGGGTATAGGATTTGGTGTTGTAGCCTCATCTTGCTCCA
1 TTCA-ATCCGACCCACTACAACTTCAGGGGTATAAGATTTGATGTCATAACTTCATCTTGCT---
* ** ** ***
28891100 CTAACAACTTTAGGGAAATAAGATTTGCTTTTGTAGC
62 CT-ACAACTTCAAAGAGGTAAGATTTGCTTCCATAGC
**
28891137 TTCAATCCGACCCACTGTAACTTCAGGGGTATAAGATTTGATGTCATAACTTCATCTTGCTCTAC
1 TTCAATCCGACCCACTACAACTTCAGGGGTATAAGATTTGATGTCATAACTTCATCTTGCTCTAC
28891202 AACTTCAAAGAGGTAAGATTTGCTTCCATAGC
66 AACTTCAAAGAGGTAAGATTTGCTTCCATAGC
* * * * **
28891234 TTCAATCTGACCCACTACAACTTCCGGGGTATAGGATTTGGTGTTGTAACTTCATCTTGCTC
1 TTCAATCCGACCCACTACAACTTCAGGGGTATAAGATTTGATGTCATAACTTCATCTTGCTC
28891296 CACTGCAACT
Statistics
Matches: 209, Mismatches: 39, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
93 1 0.00
94 46 0.22
95 30 0.14
97 81 0.39
98 3 0.01
100 6 0.03
101 42 0.20
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (97 bp):
TTCAATCCGACCCACTACAACTTCAGGGGTATAAGATTTGATGTCATAACTTCATCTTGCTCTAC
AACTTCAAAGAGGTAAGATTTGCTTCCATAGC
Found at i:28891287 original size:50 final size:50
Alignment explanation
Indices: 28890942--28891325 Score: 173
Period size: 50 Copynumber: 7.8 Consensus size: 50
28890932 CTAATGTTGT
* * * * * ** *
28890942 TTCAATCCGATCCACTACAACTTTAGGGATATAGGATTTAATGTTGTAAC
1 TTCAATCTGACCCACTACAACTTCAGGGGTATAAGATTTGCTGTTGTAGC
* * *
28890992 TTC-ATCTTACTTCACTACAACTCCAGGGAG-ATAAGATTTGCT-TCTGTAG-
1 TTCAATCTGAC-CCACTACAACTTCAGGG-GTATAAGATTTGCTGT-TGTAGC
* * *
28891041 ----ATCTGA-CCACTACAACTTCAAGGGTATAGGATTTGGTGTTGTAGC
1 TTCAATCTGACCCACTACAACTTCAGGGGTATAAGATTTGCTGTTGTAGC
* * ** *
28891086 CTC-ATCTTG-CTCCACTAACAACTTTAGGGAAATAAGATTTGCTTTTGTAGC
1 TTCAATC-TGAC-CCACT-ACAACTTCAGGGGTATAAGATTTGCTGTTGTAGC
* ** * ** *
28891137 TTCAATCCGACCCACTGTAACTTCAGGGGTATAAGATTTGATGTCATAAC
1 TTCAATCTGACCCACTACAACTTCAGGGGTATAAGATTTGCTGTTGTAGC
* * **
28891187 TTC-ATCTTG---CTCTACAACTTCAAAGAGG--TAAGATTTGCT-TCCATAGC
1 TTCAATC-TGACCCACTACAACTTC--AGGGGTATAAGATTTGCTGT-TGTAGC
* * * *
28891234 TTCAATCTGACCCACTACAACTTCCGGGGTATAGGATTTGGTGTTGTAAC
1 TTCAATCTGACCCACTACAACTTCAGGGGTATAAGATTTGCTGTTGTAGC
*
28891284 TTC-ATCTTG-CTCCACTGCAAC-TCTAGGGAG-ATAAGATTTGCT
1 TTCAATC-TGAC-CCACTACAACTTC-AGGG-GTATAAGATTTGCT
28891326 TCTATAGATC
Statistics
Matches: 249, Mismatches: 55, Indels: 60
0.68 0.15 0.16
Matches are distributed among these distances:
43 1 0.00
44 29 0.12
45 1 0.00
46 6 0.02
47 29 0.12
48 9 0.04
49 20 0.08
50 113 0.45
51 37 0.15
52 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (50 bp):
TTCAATCTGACCCACTACAACTTCAGGGGTATAAGATTTGCTGTTGTAGC
Found at i:28891482 original size:292 final size:292
Alignment explanation
Indices: 28890942--28891468 Score: 725
Period size: 292 Copynumber: 1.8 Consensus size: 292
28890932 CTAATGTTGT
* * *
28890942 TTCAATCCGATCCACTACAACTTTAGGGATATAGGATTTAATGTTGTAACTTCATCTTACTTCAC
1 TTCAATCCGACCCACTACAACTTCAGGGATATAGGATTTAATGTTGTAACTTCATCTTACTCCAC
* *
28891007 TACAACTCCAGGGAGATAAGATTTGCTTCTGTAGATCTGACCACTACAACTTCAAGGGTATAGGA
66 TACAACTCCAGGGAGATAAGATTTGCTTCTATAGATCTGACCACTACAACTTAAAGGGTATAGGA
* * **
28891072 TTTGGTGTTGTAGCCTCATCTTGCTCCACTAACAACTTTAGGGAAATAAGATTTGCTTTTGTAGC
131 TTTGGTGTTGTAGCCTCATCTTGCTCCACTAACAACTTCAGAGAAATAAGATTTGCTACTGTAGC
* * * *
28891137 TTCAATCCGACCCACTGTAACTTCAGGGGTATAAGATTTGATGTCATAACTTCATCTTGCTCTAC
196 TTCAATCCAACCCACTGCAACTTCAAGGATATAAGATTTGATGTCATAACTTCATCTTGCTCTAC
28891202 AACTTCAAAGAGGTAAGATTTGCTTCCATAGC
261 AACTTCAAAGAGGTAAGATTTGCTTCCATAGC
* * * ** *
28891234 TTCAATCTGACCCACTACAACTTCCGGGGTATAGGATTTGGTGTTGTAACTTCATCTTGCTCCAC
1 TTCAATCCGACCCACTACAACTTCAGGGATATAGGATTTAATGTTGTAACTTCATCTTACTCCAC
* * * * *
28891299 TGCAACTCTAGGGAGATAAGATTTGCTTCTATAGATCTTACTACTGCAACTTAAAGGGTATAGGA
66 TACAACTCCAGGGAGATAAGATTTGCTTCTATAGATCTGACCACTACAACTTAAAGGGTATAGGA
* * * * * *
28891364 TTTGGTTTTGTAGCTTCATCTTTCTCTACT-ACAACTTCAGAGAGATAAAGATTTTCTACTGTTA
131 TTTGGTGTTGTAGCCTCATCTTGCTCCACTAACAACTTCAGAGAAAT-AAGATTTGCTACTG-TA
* * *
28891428 GTTTCAATCCAATCC-CTGCAACTTCAAGGATATAGGATTTG
194 GCTTCAATCCAACCCACTGCAACTTCAAGGATATAAGATTTG
28891469 GTGCTGTAAC
Statistics
Matches: 200, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
291 13 0.06
292 173 0.87
293 14 0.07
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (292 bp):
TTCAATCCGACCCACTACAACTTCAGGGATATAGGATTTAATGTTGTAACTTCATCTTACTCCAC
TACAACTCCAGGGAGATAAGATTTGCTTCTATAGATCTGACCACTACAACTTAAAGGGTATAGGA
TTTGGTGTTGTAGCCTCATCTTGCTCCACTAACAACTTCAGAGAAATAAGATTTGCTACTGTAGC
TTCAATCCAACCCACTGCAACTTCAAGGATATAAGATTTGATGTCATAACTTCATCTTGCTCTAC
AACTTCAAAGAGGTAAGATTTGCTTCCATAGC
Found at i:28892034 original size:25 final size:25
Alignment explanation
Indices: 28892001--28892048 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
28891991 AAACAACTTC
28892001 TAAAAAAAAACTC-AAGAGCAATTCT
1 TAAAAAAAAACTCAAAGAG-AATTCT
*
28892026 TAAAGAAAAACTCAAAGAGAATT
1 TAAAAAAAAACTCAAAGAGAATT
28892049 AATATTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.58, C:0.12, G:0.10, T:0.19
Consensus pattern (25 bp):
TAAAAAAAAACTCAAAGAGAATTCT
Found at i:28892405 original size:17 final size:17
Alignment explanation
Indices: 28892383--28892447 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
28892373 TGAATTTAAA
*
28892383 TTTAAACTTAAACTTGT
1 TTTAAATTTAAACTTGT
*
28892400 TTTAAATTTAAATTTAG-
1 TTTAAATTTAAACTT-GT
* * *
28892417 TTTATATTTAAAGTGGT
1 TTTAAATTTAAACTTGT
28892434 TTTAAATTTAAACT
1 TTTAAATTTAAACT
28892448 AAATTTGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 1 0.03
17 37 0.95
18 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.51
Consensus pattern (17 bp):
TTTAAATTTAAACTTGT
Found at i:28893701 original size:30 final size:28
Alignment explanation
Indices: 28893665--28893839 Score: 154
Period size: 29 Copynumber: 6.0 Consensus size: 28
28893655 CCCTAAAGGT
*
28893665 CCCTAAACTATCCATAAATTACATTTTTA
1 CCCTAAACTTTCCA-AAATTACATTTTTA
28893694 CCCCTAAACTTTCCAAAATT-CTATTTTTGA
1 -CCCTAAACTTTCCAAAATTAC-ATTTTT-A
*** * *
28893724 CCCTGATTTTTTCAAAAAATACATTTTTA
1 CCCT-AAACTTTCCAAAATTACATTTTTA
*
28893753 CCCTCAAACTTTCCAAAATTCCATTTTTGA
1 CCCT-AAACTTTCCAAAATTACATTTTT-A
* **
28893783 CCCTGATTTTTCCAAAAATTACATTTTTA
1 CCCTAAACTTTCC-AAAATTACATTTTTA
* *
28893812 CCCTCGAACTTTCCAAAATTCCATTTTT
1 CCCT-AAACTTTCCAAAATTACATTTTT
28893840 GACCTCGATT
Statistics
Matches: 118, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
28 1 0.01
29 61 0.52
30 55 0.47
31 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (28 bp):
CCCTAAACTTTCCAAAATTACATTTTTA
Found at i:28893845 original size:29 final size:29
Alignment explanation
Indices: 28893700--28893902 Score: 132
Period size: 29 Copynumber: 6.9 Consensus size: 29
28893690 TTTACCCCTA
*
28893700 AACTTTCCAAAATTCTATTTTTGACC-CTG
1 AACTTTCCAAAATTCCATTTTTGACCTC-G
** * * * *
28893729 ATTTTTTCAAAAAATACATTTTT-ACCCTCA
1 A-ACTTTCCAAAATTCCATTTTTGA-CCTCG
28893759 AACTTTCCAAAATTCCATTTTTGACC-CTG
1 AACTTTCCAAAATTCCATTTTTGACCTC-G
** *
28893788 ATTTTTCCAAAAATTACATTTTT-ACCCTCG
1 AACTTTCC-AAAATTCCATTTTTGA-CCTCG
28893818 AACTTTCCAAAATTCCATTTTTGACCTCG
1 AACTTTCCAAAATTCCATTTTTGACCTCG
** * *
28893847 ATTTTTCCAAAAATGACCA-TTTT-ACCCTCT
1 AACTTTCC-AAAAT-TCCATTTTTGA-CCTCG
*
28893877 AAC-TTCCAAAAATTCTATTTTTGACC
1 AACTTTCC-AAAATTCCATTTTTGACC
28893903 ATGATCCTTC
Statistics
Matches: 133, Mismatches: 27, Indels: 28
0.71 0.14 0.15
Matches are distributed among these distances:
28 3 0.02
29 68 0.51
30 57 0.43
31 5 0.04
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (29 bp):
AACTTTCCAAAATTCCATTTTTGACCTCG
Found at i:28893930 original size:59 final size:58
Alignment explanation
Indices: 28893675--28893928 Score: 309
Period size: 59 Copynumber: 4.3 Consensus size: 58
28893665 CCCTAAACTA
* *
28893675 TCCATAAATTACATTTTTACCC-CTAAACTTTCCAAAATTCTATTTTTGACCCTGATTTTT
1 TCCA-AAAATACATTTTTACCCTCT-AACTTTCCAAAATTCCATTTTTGACCCTGA-TTTT
* *
28893735 TCAAAAAATACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCCTGATTTT
1 TCCAAAAATACATTTTTACCCTCTAACTTTCCAAAATTCCATTTTTGACCCTGATTTT
*
28893793 TCCAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGA-CCTCGATTTT
1 TCCAAAAA-TACATTTTTACCCTCTAACTTTCCAAAATTCCATTTTTGACCCT-GATTTT
* * **
28893852 TCCAAAAATGACCA-TTTTACCCTCTAAC-TTCCAAAAATTCTATTTTTGACCATGATCCT
1 TCCAAAAAT-A-CATTTTTACCCTCTAACTTTCC-AAAATTCCATTTTTGACCCTGATTTT
28893911 TCCAAAAAGTACCATTTT
1 TCCAAAAA-TA-CATTTT
28893929 ACTTCTAAAT
Statistics
Matches: 174, Mismatches: 11, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
58 19 0.11
59 143 0.82
60 12 0.07
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (58 bp):
TCCAAAAATACATTTTTACCCTCTAACTTTCCAAAATTCCATTTTTGACCCTGATTTT
Found at i:28893947 original size:59 final size:59
Alignment explanation
Indices: 28893767--28893987 Score: 170
Period size: 59 Copynumber: 3.7 Consensus size: 59
28893757 CAAACTTTCC
** * * *
28893767 AAAATTCCATTTTTGACC-CTGATTTTTCCAAAAATTA-CATTTTTACCCTCGAACTTTCC--
1 AAAATT-CATTTTTGACCTC-GATCCTTCCAAAAATGACCA-TTTTACCCTCTAA-ATTCCAA
** *
28893826 AAAATTCCATTTTTGACCTCGATTTTTCCAAAAATGACCATTTTACCCTCTAACTTCC-A
1 AAAATT-CATTTTTGACCTCGATCCTTCCAAAAATGACCATTTTACCCTCTAAATTCCAA
* *
28893885 AAAATTCTATTTTTGACCAT-GATCCTTCCAAAAA-GTACCATTTTA-CTTCTAAATGTCTAA
1 AAAATTC-ATTTTTGACC-TCGATCCTTCCAAAAATG-ACCATTTTACCCTCTAAAT-TCCAA
* * * * *
28893945 AAAATTCATTTTTGACCCCCAGCCTTCCCAAAATTACCATTTT
1 AAAATTCATTTTTGACCTCGATCCTTCCAAAAATGACCATTTT
28893988 GCCCCCGGGT
Statistics
Matches: 139, Mismatches: 13, Indels: 20
0.81 0.08 0.12
Matches are distributed among these distances:
58 13 0.09
59 114 0.82
60 12 0.09
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.38
Consensus pattern (59 bp):
AAAATTCATTTTTGACCTCGATCCTTCCAAAAATGACCATTTTACCCTCTAAATTCCAA
Found at i:28893955 original size:118 final size:117
Alignment explanation
Indices: 28893675--28893962 Score: 284
Period size: 118 Copynumber: 2.4 Consensus size: 117
28893665 CCCTAAACTA
* * * **
28893675 TCCATAAATTACATTTTTACCC-CTAAACTTTCCAAAATTCTATTTTTGACCCTGATTTTTTCAA
1 TCCAAAAAGTACATTTTTACCCTCGAAA-TTTAAAAAATTC-ATTTTTGACCCTGATTTTTTCAA
* **
28893739 AAAATACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCCTGATTTT
64 AAAATACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCATGATCCT
* * ** *
28893793 TCCAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGA-CCTCGA-TTTTTCCA
1 TCCAAAAAGTACATTTTTACCCTCGAAATTTAAAAAATT-CATTTTTGACCCT-GATTTTTTCAA
* *
28893856 AAAATGACCA-TTTTACCCTCTAAC-TTCCAAAAATTCTATTTTTGACCATGATCCT
64 AAAAT-A-CATTTTTACCCTCAAACTTTCC-AAAATTCCATTTTTGACCATGATCCT
* *
28893911 TCCAAAAAGTACCA-TTTTA-CTTCTAAATGTCTAAAAAATTCATTTTTGACCC
1 TCCAAAAAGTA-CATTTTTACCCTCGAAAT-T-TAAAAAATTCATTTTTGACCC
28893963 CCAGCCTTCC
Statistics
Matches: 145, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
117 25 0.17
118 103 0.71
119 17 0.12
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.40
Consensus pattern (117 bp):
TCCAAAAAGTACATTTTTACCCTCGAAATTTAAAAAATTCATTTTTGACCCTGATTTTTTCAAAA
AATACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCATGATCCT
Found at i:28898314 original size:24 final size:24
Alignment explanation
Indices: 28898287--28898342 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
28898277 TCGACGTGTT
28898287 AAAAAAAACAAAAACAAAAAAAGG
1 AAAAAAAACAAAAACAAAAAAAGG
* * ** *
28898311 AAAAGAAAGAAAAGGAAGAAAAGG
1 AAAAAAAACAAAAACAAAAAAAGG
*
28898335 AAGAAAAA
1 AAAAAAAA
28898343 GTCAAGATGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.79, C:0.04, G:0.18, T:0.00
Consensus pattern (24 bp):
AAAAAAAACAAAAACAAAAAAAGG
Found at i:28905042 original size:26 final size:26
Alignment explanation
Indices: 28905013--28905062 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
28905003 ATGAAATAAC
28905013 AAGTAATAAATAA-AATGATAGTAAAA
1 AAGTAAT-AATAACAATGATAGTAAAA
28905039 AAGTAATAATAACAATGATAGTAA
1 AAGTAATAATAACAATGATAGTAA
28905063 TGGCAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (26 bp):
AAGTAATAATAACAATGATAGTAAAA
Found at i:28905231 original size:12 final size:12
Alignment explanation
Indices: 28905214--28905247 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
28905204 TAAAACAAAC
28905214 AAATAAATAATA
1 AAATAAATAATA
28905226 AAAT-AATAAATA
1 AAATAAAT-AATA
28905238 AAATAAATAA
1 AAATAAATAA
28905248 AAGTTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.15
12 14 0.70
13 3 0.15
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:28908343 original size:18 final size:17
Alignment explanation
Indices: 28908320--28908357 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
28908310 GGATTTTTAA
28908320 ATAATTATTAATATTTTT
1 ATAATTATTAA-ATTTTT
*
28908338 ATAATTTTTAAATTTTT
1 ATAATTATTAAATTTTT
28908355 ATA
1 ATA
28908358 GTTTTTAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAATTATTAAATTTTT
Found at i:28908346 original size:9 final size:9
Alignment explanation
Indices: 28908332--28908364 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
28908322 AATTATTAAT
28908332 ATTTTTATA
1 ATTTTTATA
28908341 ATTTTTA-A
1 ATTTTTATA
28908349 ATTTTTATA
1 ATTTTTATA
*
28908358 GTTTTTA
1 ATTTTTA
28908365 ACTTATCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:28908363 original size:18 final size:17
Alignment explanation
Indices: 28908285--28908365 Score: 72
Period size: 17 Copynumber: 4.5 Consensus size: 17
28908275 TTTTTTCAAT
*
28908285 ATTTTTAAATTTTCATA
1 ATTTTTAAATTTTTATA
* *
28908302 GTCTTTTAGGATTTTTAAATA
1 AT-TTTTA-AATTTTT--ATA
*
28908323 ATTATTAATATTTTTATA
1 ATTTTTAA-ATTTTTATA
28908341 ATTTTTAAATTTTTATA
1 ATTTTTAAATTTTTATA
*
28908358 GTTTTTAA
1 ATTTTTAA
28908366 CTTATCTAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 17 0.33
18 15 0.29
19 5 0.10
20 10 0.20
21 4 0.08
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.59
Consensus pattern (17 bp):
ATTTTTAAATTTTTATA
Found at i:28910699 original size:19 final size:21
Alignment explanation
Indices: 28910677--28910717 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
28910667 TCATATTAAC
*
28910677 TTAT-AAAAA-ATCAAAAAAA
1 TTATCAAAAATATAAAAAAAA
28910696 TTATCAAAAATATAAAAAAAA
1 TTATCAAAAATATAAAAAAAA
28910717 T
1 T
28910718 ATTAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 10 0.53
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
TTATCAAAAATATAAAAAAAA
Found at i:28910731 original size:20 final size:20
Alignment explanation
Indices: 28910689--28910733 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
28910679 ATAAAAAATC
*
28910689 AAAAAAATTATCAAAAATAT
1 AAAAAAAATATCAAAAATAT
* * *
28910709 AAAAAAAATATTAAATATTT
1 AAAAAAAATATCAAAAATAT
28910729 AAAAA
1 AAAAA
28910734 TATAAAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAAAAATATCAAAAATAT
Found at i:28910835 original size:9 final size:9
Alignment explanation
Indices: 28910809--28910911 Score: 64
Period size: 9 Copynumber: 11.1 Consensus size: 9
28910799 AATAAAGCAT
*
28910809 ATTTATAAT
1 ATTTATAAA
28910818 ATTTA-AAA
1 ATTTATAAA
28910826 ATTTATAAA
1 ATTTATAAA
**
28910835 AAATATTAAA
1 ATTTA-TAAA
28910845 ATTCTATAAA
1 ATT-TATAAA
* *
28910855 AATCATAAA
1 ATTTATAAA
**
28910864 AAGTATAAA
1 ATTTATAAA
**
28910873 AAGTATTAAA
1 ATTTA-TAAA
*
28910883 ATTGATATAA
1 ATTTATA-AA
*
28910893 ACTTATAAA
1 ATTTATAAA
28910902 ATTTATAAA
1 ATTTATAAA
28910911 A
1 A
28910912 AATCATAAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
8 7 0.09
9 41 0.55
10 24 0.32
11 2 0.03
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (9 bp):
ATTTATAAA
Found at i:28910919 original size:19 final size:18
Alignment explanation
Indices: 28910823--28910921 Score: 83
Period size: 19 Copynumber: 5.2 Consensus size: 18
28910813 ATAATATTTA
28910823 AAAATTTATAAAAAATATT
1 AAAATTTATAAAAAATA-T
28910842 AAAATTCTAT-AAAAATCAT
1 AAAATT-TATAAAAAAT-AT
** *
28910861 AAAAAGTATAAAAAGTATT
1 AAAATTTATAAAAAATA-T
* **
28910880 AAAATTGATATAAACTTAT
1 AAAATTTATA-AAAAATAT
28910899 AAAATTTATAAAAAATCAT
1 AAAATTTATAAAAAAT-AT
28910918 AAAA
1 AAAA
28910922 ACTTGAATTG
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
18 8 0.13
19 46 0.73
20 9 0.14
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAATTTATAAAAAATAT
Found at i:28910921 original size:38 final size:38
Alignment explanation
Indices: 28910823--28910914 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
28910813 ATAATATTTA
*
28910823 AAAATTTATAAAAAATATTAAAATTCTATAAAAATCAT
1 AAAATTTATAAAAAATATTAAAATTATATAAAAATCAT
** * * *
28910861 AAAAAGTATAAAAAGTATTAAAATTGATAT-AAACTTAT
1 AAAATTTATAAAAAATATTAAAATT-ATATAAAAATCAT
28910899 AAAATTTATAAAAAAT
1 AAAATTTATAAAAAAT
28910915 CATAAAAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 41 0.93
39 3 0.07
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (38 bp):
AAAATTTATAAAAAATATTAAAATTATATAAAAATCAT
Found at i:28911332 original size:9 final size:9
Alignment explanation
Indices: 28911320--28911569 Score: 71
Period size: 10 Copynumber: 25.8 Consensus size: 9
28911310 TCAATTATTT
28911320 TTTTTATAA
1 TTTTTATAA
28911329 TTTTTA-AA
1 TTTTTATAA
*
28911337 GTTTATATCAA
1 -TTTTTAT-AA
* *
28911348 TTTTAATAT
1 TTTTTATAA
28911357 TTTTTATAA
1 TTTTTATAA
*
28911366 TTTTTTTTACCA
1 -TTTTTATA--A
*
28911378 TTTTTATTA
1 TTTTTATAA
*
28911387 TTTTTAAGAA
1 TTTTT-ATAA
* *
28911397 TTTTAATAGG
1 TTTTTATA-A
*
28911407 TTTTT-TTA
1 TTTTTATAA
28911415 -TTTTA-AA
1 TTTTTATAA
28911422 TATTTTACATAA
1 T-TTTT--ATAA
*
28911434 GTTTTATTAA
1 TTTTTA-TAA
* *
28911444 TTCTATAAAA
1 TT-TTTATAA
28911454 TTTTTAATAA
1 TTTTT-ATAA
*
28911464 TTTATTAGAA
1 TTT-TTATAA
28911474 TTTATTATATTA
1 TTT-TTATA--A
* *
28911486 TATTTATTTTA
1 T-TTT-TATAA
28911497 TTTTTATAA
1 TTTTTATAA
*
28911506 TATTTATAA
1 TTTTTATAA
*
28911515 GTTTTTATTA
1 -TTTTTATAA
28911525 TATTTTAT-A
1 T-TTTTATAA
28911534 TTTTTAATAA
1 TTTTT-ATAA
*
28911544 GTTTGTATCAA
1 -TTTTTAT-AA
*
28911555 TTTTAAT-A
1 TTTTTATAA
28911563 TTTTTAT
1 TTTTTAT
28911570 TTTTTATGGA
Statistics
Matches: 176, Mismatches: 37, Indels: 57
0.65 0.14 0.21
Matches are distributed among these distances:
7 5 0.03
8 13 0.07
9 51 0.29
10 71 0.40
11 26 0.15
12 6 0.03
13 4 0.02
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:28911367 original size:18 final size:17
Alignment explanation
Indices: 28911319--28911369 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
28911309 TTCAATTATT
28911319 TTTTTTATAATTTTTAAA
1 TTTTTTATAA-TTTTAAA
* *
28911337 GTTTATATCAATTTTAATA
1 TTTTTTAT-AATTTTAA-A
28911356 TTTTTTATAATTTT
1 TTTTTTATAATTTT
28911370 TTTTACCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTTTATAATTTTAAA
Found at i:28911410 original size:28 final size:28
Alignment explanation
Indices: 28911379--28911442 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
28911369 TTTTTACCAT
*
28911379 TTTTATTATTTTTAAGA-ATTTTA-ATAGG
1 TTTTATTA-TTTTAA-ATATTTTACATAAG
*
28911407 TTTTTTTATTTTAAATATTTTACATAAG
1 TTTTATTATTTTAAATATTTTACATAAG
28911435 TTTTATTA
1 TTTTATTA
28911443 ATTCTATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 1 0.03
27 12 0.39
28 18 0.58
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (28 bp):
TTTTATTATTTTAAATATTTTACATAAG
Found at i:28911418 original size:27 final size:30
Alignment explanation
Indices: 28911378--28911442 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 30
28911368 TTTTTTACCA
*
28911378 TTTTTATTATTTTTAAGA-ATTTTA-ATAGG
1 TTTTTATTATTTTTAA-ATATTTTACATAAG
28911407 TTTTT-TTA-TTTTAAATATTTTACATAAG
1 TTTTTATTATTTTTAAATATTTTACATAAG
28911435 -TTTTATTA
1 TTTTTATTA
28911443 ATTCTATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 10 0.31
29 5 0.16
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.62
Consensus pattern (30 bp):
TTTTTATTATTTTTAAATATTTTACATAAG
Found at i:28911543 original size:29 final size:29
Alignment explanation
Indices: 28911488--28911568 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
28911478 TTATATTATA
* *
28911488 TTTATTTTATTTTTATAATATTT-ATAAGTT
1 TTTATTATA-TTTTAT-ATTTTTAATAAGTT
28911518 TTTATTATATTTTATATTTTTAATAAGTT
1 TTTATTATATTTTATATTTTTAATAAGTT
* *
28911547 TGTATCA-ATTTTAATATTTTTA
1 TTTATTATATTTT-ATATTTTTA
28911569 TTTTTTATGG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 10 0.22
29 27 0.60
30 8 0.18
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (29 bp):
TTTATTATATTTTATATTTTTAATAAGTT
Found at i:28917781 original size:17 final size:17
Alignment explanation
Indices: 28917759--28917797 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
28917749 CTCCACCTTG
* *
28917759 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
28917776 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
28917793 ACAAG
1 ACAAG
28917798 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:28921806 original size:51 final size:51
Alignment explanation
Indices: 28921723--28921856 Score: 157
Period size: 51 Copynumber: 2.6 Consensus size: 51
28921713 AAATGAAAGG
* * *
28921723 GGTCCGTTGACTAATTAGTGTCATCGTGAGTAAATGAAT-CATTTACGGATTAAA
1 GGTCCGATGA-TAA-TA-TGTCATCGTGAGTAAATGAATCCA-TGACGAATTAAA
*
28921777 GGTCCGATGACTAAGT-T-TCATCGTGAGTAAGTGAATCCATGACGAATTAAA
1 GGTCCGATGA-TAA-TATGTCATCGTGAGTAAATGAATCCATGACGAATTAAA
28921828 GGTCCGATGATAATATGTCATCGTGAGTA
1 GGTCCGATGATAATATGTCATCGTGAGTA
28921857 TTAAATGAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
49 1 0.01
50 4 0.06
51 50 0.69
52 3 0.04
54 14 0.19
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (51 bp):
GGTCCGATGATAATATGTCATCGTGAGTAAATGAATCCATGACGAATTAAA
Found at i:28928973 original size:51 final size:51
Alignment explanation
Indices: 28928905--28929188 Score: 355
Period size: 51 Copynumber: 5.6 Consensus size: 51
28928895 AAAAGGGTTC
* **
28928905 GATGACTAAGTGTCATCGTGAGTAAATGAATCATTTACATTTTAAAGGCCT
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGCCT
*
28928956 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATAGATTAAAGGTCC-
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGG-CCT
* * * *
28929007 GATGAGTAAGTGTCATCGCGAGTAAATGAATCCTTTACGGGTTAAAGGTCC-
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGG-CCT
* * * * *
28929058 GGTGACTAAGTATCATCGTGAGTAAATGAATCTTTTACGGATTAAAGGTCT
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGCCT
* * *
28929109 TATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACAGATTAAAGGTCT
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGCCT
*
28929160 GATGAC----TGCCATCGTGAGTAAATGAATCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCC
28929189 ATGATGAATT
Statistics
Matches: 206, Mismatches: 25, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
47 21 0.10
50 1 0.00
51 182 0.88
52 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (51 bp):
GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGCCT
Found at i:28939303 original size:24 final size:24
Alignment explanation
Indices: 28939275--28939321 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
28939265 CAATTTATTT
*
28939275 TATTACATTTGCACTAACATTTTG
1 TATTACATTTACACTAACATTTTG
*
28939299 TATTACATTTACACTGACATTTT
1 TATTACATTTACACTAACATTTT
28939322 TTACTCTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (24 bp):
TATTACATTTACACTAACATTTTG
Found at i:28952518 original size:20 final size:20
Alignment explanation
Indices: 28952481--28952518 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
28952471 ATCATTAAGC
*
28952481 CTTAATTAATCATTTTTAAT
1 CTTAATTAATCATATTTAAT
28952501 CTTAATTAAATC-TATTTA
1 CTTAATT-AATCATATTTA
28952519 CACTTACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
CTTAATTAATCATATTTAAT
Found at i:28958467 original size:29 final size:30
Alignment explanation
Indices: 28958127--28958468 Score: 263
Period size: 29 Copynumber: 11.6 Consensus size: 30
28958117 GAGAATTCAC
* * *
28958127 GGTTAAAATGCAATTTTGGAAAAAG-TTTAG
1 GGTTAAAATGTAATTTTAG-AGAAGTTTTAG
* * *
28958157 GGTCAAAATGTAACTTT-GGGAAAG--TTAG
1 GGTTAAAATGTAATTTTAGAG-AAGTTTTAG
* *
28958185 GGTTAAAAATGCAATTTTAGA-AAATTTTAG
1 GGTT-AAAATGTAATTTTAGAGAAGTTTTAG
** *
28958215 GGTTAAAATGTGCTTTTAGAGAAGTTTGA-
1 GGTTAAAATGTAATTTTAGAGAAGTTTTAG
28958244 GGTTAAAATGTAATTTTAGAGAAG-TTTAGG
1 GGTTAAAATGTAATTTTAGAGAAGTTTTA-G
* * *
28958274 GGTAAAAATGTAATTTTAGAGATGTTTAAG
1 GGTTAAAATGTAATTTTAGAGAAGTTTTAG
* * * **
28958304 GATCAAAATGTAATTTTGGAGAAGTTCGAG
1 GGTTAAAATGTAATTTTAGAGAAGTTTTAG
* * * *
28958334 GTTTAAAATGTAATTTTTGATAA-TTTTGG
1 GGTTAAAATGTAATTTTAGAGAAGTTTTAG
* *
28958363 GGTCAAAATGTAATTTTAGAGAAG-TTTAC
1 GGTTAAAATGTAATTTTAGAGAAGTTTTAG
* * * *
28958392 GATCAAAATGTAATTTTGGAGAAG-TTCAG
1 GGTTAAAATGTAATTTTAGAGAAGTTTTAG
* * * * *
28958421 GTTTAATATGTGATTTTTGAAAAGTTTTAG
1 GGTTAAAATGTAATTTTAGAGAAGTTTTAG
*
28958451 GGTTAAAATGTGATTTTA
1 GGTTAAAATGTAATTTTA
28958469 AAACAAAGCA
Statistics
Matches: 247, Mismatches: 54, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
28 12 0.05
29 118 0.48
30 114 0.46
31 3 0.01
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.37
Consensus pattern (30 bp):
GGTTAAAATGTAATTTTAGAGAAGTTTTAG
Found at i:28960782 original size:39 final size:39
Alignment explanation
Indices: 28960728--28961068 Score: 160
Period size: 39 Copynumber: 8.8 Consensus size: 39
28960718 GGATACTACA
*
28960728 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTAATGGTG
* * * *
28960767 ATCTGCCCTAAGCTCGAGGTAAAAGA-T--C-AGACGGCTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTA-ATGG-TG
* * * * * *
28960804 CAGCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGGG
1 -ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTAATGGTG
* * * * * *
28960844 ATCTACCCCAGGCTCGGGGTAAAAGATCGGATGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTAATGGTG
* * *
28960883 ATCTGCCCCAAGCTCGGGATAAAAGATCGG---ATGGCTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTAATGG-TG
* * * * *
28960920 CAATCTACCCCAAGTTTGAGGTAAGAGATTGGCTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTAATGGTG
** * * ** * **
28960961 ATCTATCCC-AGACTCGAGGTAAAAGATCAGATAGAT-GCA
1 ATCTGCCCCAAG-CTCGGGGTAAGAGATTGGCTA-ATGGTG
* * *
28961000 ATCTACCTCAAGCTCAGGGTAAGAGATTGGCTAATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTAATGGTG
* ** * * *
28961039 ATGTGCCATAGGCTTGAGGTAAGAGATTGG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGG
28961069 AATCTTCAAT
Statistics
Matches: 227, Mismatches: 58, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
35 1 0.00
36 8 0.04
37 4 0.02
38 27 0.12
39 173 0.76
40 5 0.02
41 5 0.02
42 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTAATGGTG
Found at i:28960788 original size:77 final size:76
Alignment explanation
Indices: 28960707--28960875 Score: 203
Period size: 77 Copynumber: 2.2 Consensus size: 76
28960697 CCAGGCTTAG
* * *
28960707 GGTAAAAGATCGGATACTACAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAATGGTGATCTG
1 GGTAAAAGATCGGATACTAC-AGCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAATGGGGATCTA
*
28960772 CCCTAAGCTCGA
65 CCCCAAGCTCGA
* ** * * * *
28960784 GGTAAAAGATCAGACGGCTGCAGCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGGGATCTA
1 GGTAAAAGATCGGA-TACTACAGCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAATGGGGATCTA
* *
28960849 CCCCAGGCTCGG
65 CCCCAAGCTCGA
28960861 GGTAAAAGATCGGAT
1 GGTAAAAGATCGGAT
28960876 GATGGTGATC
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
77 73 0.96
78 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.21
Consensus pattern (76 bp):
GGTAAAAGATCGGATACTACAGCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAATGGGGATCTAC
CCCAAGCTCGA
Found at i:28960853 original size:116 final size:117
Alignment explanation
Indices: 28960728--28960993 Score: 320
Period size: 116 Copynumber: 2.3 Consensus size: 117
28960718 GGATACTACA
* * * * *
28960728 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCTAAGCTCGAGG-TAAAAG
1 ATCTACCCCAGGCTCGGGGTAAAAGATCGGATAATGGTGATCTGCCCCAAGCTCG-GGATAAAAG
* * * * *
28960792 ATCAGACGGCTGC-AGCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGGG
65 ATCAGACGGCTGCAAGCTACCCCAAGCTCGAGGTAAGAGATTGGCTGATGGGG
*
28960844 ATCTACCCCAGGCTCGGGGTAAAAGATCGGATGATGGTGATCTGCCCCAAGCTCGGGATAAAAGA
1 ATCTACCCCAGGCTCGGGGTAAAAGATCGGATAATGGTGATCTGCCCCAAGCTCGGGATAAAAGA
* * * * * *
28960909 TCGGATGGCTGCAATCTACCCCAAGTTTGAGGTAAGAGATTGGCTGATGGTG
66 TCAGACGGCTGCAAGCTACCCCAAGCTCGAGGTAAGAGATTGGCTGATGGGG
* * * *
28960961 ATCTATCCCAGACTCGAGGTAAAAGATCAGATA
1 ATCTACCCCAGGCTCGGGGTAAAAGATCGGATA
28960994 GATGCAATCT
Statistics
Matches: 126, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
115 2 0.02
116 66 0.52
117 58 0.46
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (117 bp):
ATCTACCCCAGGCTCGGGGTAAAAGATCGGATAATGGTGATCTGCCCCAAGCTCGGGATAAAAGA
TCAGACGGCTGCAAGCTACCCCAAGCTCGAGGTAAGAGATTGGCTGATGGGG
Found at i:28960926 original size:78 final size:78
Alignment explanation
Indices: 28960844--28961045 Score: 228
Period size: 78 Copynumber: 2.6 Consensus size: 78
28960834 GTTGATGGGG
* * * *
28960844 ATCTACCCCAGGCTCGGGGTAAAAGATCGGATGATGGTGATCTGCCCCA-AGCTCG-GGATAAAA
1 ATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGA-CTCGAGG-TAAAA
* * *
28960907 GATCGGATGGCTGCA
64 GATCAGATAGATGCA
* * * **
28960922 ATCTACCCCAAGTTTGAGGTAAGAGATTGGCTGATGGTGATCTATCCCAGACTCGAGGTAAAAGA
1 ATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGACTCGAGGTAAAAGA
28960987 TCAGATAGATGCA
66 TCAGATAGATGCA
* * * *
28961000 ATCTACCTCAAGCTCAGGGTAAGAGATTGGCTAATGGTGATGTGCC
1 ATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCC
28961046 ATAGGCTTGA
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
78 98 0.97
79 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (78 bp):
ATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGACTCGAGGTAAAAGA
TCAGATAGATGCA
Found at i:28990133 original size:21 final size:20
Alignment explanation
Indices: 28990107--28990176 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 20
28990097 TTACGATCAT
28990107 GTGAGCACCCTAACTCAGCAA
1 GTGAGCACCC-AACTCAGCAA
* *
28990128 GTGAGCAGCACATCTCAGCAA
1 GTGAGCA-CCCAACTCAGCAA
*
28990149 GTGAGAACCCCAACTCAGCAA
1 GTGAGCA-CCCAACTCAGCAA
28990170 GTGAGCA
1 GTGAGCA
28990177 GCACAACCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 39 0.95
22 2 0.05
ACGTcount: A:0.34, C:0.30, G:0.23, T:0.13
Consensus pattern (20 bp):
GTGAGCACCCAACTCAGCAA
Found at i:28990183 original size:21 final size:21
Alignment explanation
Indices: 28990118--28990183 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
28990108 TGAGCACCCT
28990118 AACTCAGCAAGTGAGCAGCAC
1 AACTCAGCAAGTGAGCAGCAC
* * * *
28990139 ATCTCAGCAAGTGAGAACCCC
1 AACTCAGCAAGTGAGCAGCAC
28990160 AACTCAGCAAGTGAGCAGCAC
1 AACTCAGCAAGTGAGCAGCAC
28990181 AAC
1 AAC
28990184 CCAGTTGCAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.38, C:0.30, G:0.21, T:0.11
Consensus pattern (21 bp):
AACTCAGCAAGTGAGCAGCAC
Found at i:28991347 original size:13 final size:13
Alignment explanation
Indices: 28991329--28991362 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
28991319 TTTCTTCTTC
*
28991329 TTCTTCTTTTATT
1 TTCTTCTTTTACT
*
28991342 TTCTTCTTTTCCT
1 TTCTTCTTTTACT
28991355 TTCTTCTT
1 TTCTTCTT
28991363 AAACCCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (13 bp):
TTCTTCTTTTACT
Found at i:28992581 original size:26 final size:26
Alignment explanation
Indices: 28992527--28992599 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
28992517 TTAATTAACC
* *
28992527 TAATTATTAATGAAATAA-TTCATG-TT
1 TAATTATTAA--ATATAATTTCATGCCT
28992553 TAATTATTAAATATAATTTCATGCCT
1 TAATTATTAAATATAATTTCATGCCT
*
28992579 TAA-TATTTAAT-TAATTT-ATGC
1 TAATTATTAAATATAATTTCATGC
28992600 ATAACCCACT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 4 0.10
24 11 0.26
25 13 0.31
26 14 0.33
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (26 bp):
TAATTATTAAATATAATTTCATGCCT
Found at i:28997014 original size:6 final size:6
Alignment explanation
Indices: 28997003--28997029 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
28996993 CAAAAATAAC
28997003 TAAAAT TAAAAT TAAAAT TAAAAT TAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAA
28997030 TGACAACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAAAT
Found at i:28998927 original size:21 final size:21
Alignment explanation
Indices: 28998879--28998936 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
28998869 AATAGTGCAG
*
28998879 ACTTCTATCGATACAAGTGGC
1 ACTTCTATCGATACAAGTGAC
**
28998900 AAGTCTATCGATACAAGTGAC
1 ACTTCTATCGATACAAGTGAC
* *
28998921 TCTTCTATCGAAACAA
1 ACTTCTATCGATACAA
28998937 ATATTACTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (21 bp):
ACTTCTATCGATACAAGTGAC
Found at i:28999895 original size:52 final size:52
Alignment explanation
Indices: 28999656--28999895 Score: 266
Period size: 52 Copynumber: 4.6 Consensus size: 52
28999646 ATTTCCTTTA
* * ** * * *
28999656 ATACTCACGATGACACATAGTCATTGAACCTCATGTTCCTTAAAGGAATCAC
1 ATACTCACGATGACACATAGTCATCGAACCTTATAATCCGTAAAGGATTCAT
* * * * * ** **
28999708 ACACTCACGATGACACATAGTCATTGGACCCTATGATTTGTAAAGGATTTGT
1 ATACTCACGATGACACATAGTCATCGAACCTTATAATCCGTAAAGGATTCAT
* * *
28999760 ATACTCACGATGACACATAGTCATC-AGACCTCATAATCCGTAAATGATTTAT
1 ATACTCACGATGACACATAGTCATCGA-ACCTTATAATCCGTAAAGGATTCAT
*
28999812 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTTATAATCCGTAAAGGATTCAT
* *
28999864 ATACTCACGATGACACAGAGTTATCGAACCTT
1 ATACTCACGATGACACATAGTCATCGAACCTT
28999896 TTTCATTTAC
Statistics
Matches: 157, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
52 157 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGAACCTTATAATCCGTAAAGGATTCAT
Found at i:29004944 original size:52 final size:52
Alignment explanation
Indices: 29004824--29005050 Score: 260
Period size: 52 Copynumber: 4.4 Consensus size: 52
29004814 TTTATGCATG
* * * ** * *
29004824 TTTA-ATACTCACGATGACACTTAGTCATCGAACCTCTTGTTCCTTAAAGGA
1 TTTATATACTCACGATGACACATAGTCATCAAACCTCATAATCCGTAAAAGA
* * ** *
29004875 ATCATACGCTCATGATGACACATAGTCATCAAACCTCATAATCCGTAAAAGA
1 TTTATATACTCACGATGACACATAGTCATCAAACCTCATAATCCGTAAAAGA
*
29004927 TTTATATACTCACGATGACACATAGTCAT-AGGACCTCATAATCCGTAAAAGA
1 TTTATATACTCACGATGACACATAGTCATCA-AACCTCATAATCCGTAAAAGA
** * *
29004979 TTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCTGTAAAGGA
1 TTTATATACTCACGATGACACATAGTCATCAAACCTCATAATCCGTAAAAGA
* *
29005031 TTCATATACTCACAATGACA
1 TTTATATACTCACGATGACA
29005051 TAGATCATCG
Statistics
Matches: 150, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
51 3 0.02
52 147 0.98
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (52 bp):
TTTATATACTCACGATGACACATAGTCATCAAACCTCATAATCCGTAAAAGA
Found at i:29013001 original size:19 final size:19
Alignment explanation
Indices: 29012961--29013002 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
29012951 TTGTTTGATG
*
29012961 TTTATTTTTGTTTTTAAAC
1 TTTATTTTTGTTTCTAAAC
*
29012980 TTTATTTTT-TTATCTAATC
1 TTTATTTTTGTT-TCTAAAC
29012999 TTTA
1 TTTA
29013003 GTTGTTACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTATTTTTGTTTCTAAAC
Found at i:29018907 original size:14 final size:14
Alignment explanation
Indices: 29018872--29018923 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
29018862 TCGGTATGAA
29018872 AAAGTAAATGC-AG
1 AAAGTAAATGCAAG
*
29018885 AAATTTAAATGCAAG
1 AAA-GTAAATGCAAG
*
29018900 AAAGTAAACTCCAAG
1 AAAGTAAA-TGCAAG
*
29018915 AAAATAAAT
1 AAAGTAAAT
29018924 TGGTAAACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 3 0.09
14 12 0.38
15 17 0.53
ACGTcount: A:0.58, C:0.10, G:0.13, T:0.19
Consensus pattern (14 bp):
AAAGTAAATGCAAG
Found at i:29027546 original size:14 final size:15
Alignment explanation
Indices: 29027516--29027546 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
29027506 TCCTCACAGT
29027516 AAGGGAGTTACAGAC
1 AAGGGAGTTACAGAC
29027531 AAGGGAGTTACA-AC
1 AAGGGAGTTACAGAC
29027545 AA
1 AA
29027547 TAATCAGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.45, C:0.13, G:0.29, T:0.13
Consensus pattern (15 bp):
AAGGGAGTTACAGAC
Found at i:29034730 original size:18 final size:17
Alignment explanation
Indices: 29034707--29034742 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
29034697 GGCATTAATT
29034707 TACAATGACAAGTGCAAA
1 TACAATGACAA-TGCAAA
*
29034725 TACAATGATAATGCAAA
1 TACAATGACAATGCAAA
29034742 T
1 T
29034743 GTAGTGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (17 bp):
TACAATGACAATGCAAA
Found at i:29038190 original size:11 final size:11
Alignment explanation
Indices: 29038174--29038204 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
29038164 CAAGTTCATC
29038174 TAGCTCATTCG
1 TAGCTCATTCG
29038185 TAGCTCATTCG
1 TAGCTCATTCG
*
29038196 TATCTCATT
1 TAGCTCATT
29038205 GAACTCAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (11 bp):
TAGCTCATTCG
Found at i:29038387 original size:39 final size:39
Alignment explanation
Indices: 29038339--29038437 Score: 171
Period size: 39 Copynumber: 2.5 Consensus size: 39
29038329 TTAAATAGGG
29038339 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
*
29038378 TTTTAATGTGTCTTATTTTGATACATATTTAATAGTTGT
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
* *
29038417 TTTTAAGGTGTCTAAGTTTGA
1 TTTTAATGTGTCTTAGTTTGA
29038438 GACAAATTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.54
Consensus pattern (39 bp):
TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
Found at i:29042691 original size:20 final size:20
Alignment explanation
Indices: 29042666--29042707 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
29042656 TCATTCTATG
29042666 AGCGCAATCGTCTCAATATT
1 AGCGCAATCGTCTCAATATT
*
29042686 AGCGCAATCGTCTCAATTTT
1 AGCGCAATCGTCTCAATATT
29042706 AG
1 AG
29042708 TCAGCTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCGCAATCGTCTCAATATT
Found at i:29043693 original size:20 final size:20
Alignment explanation
Indices: 29043665--29043706 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
29043655 AAGAAGCTGA
29043665 CTAAAATTGAGACGATTGCG
1 CTAAAATTGAGACGATTGCG
*
29043685 CTAATATTGAGACGATTGCG
1 CTAAAATTGAGACGATTGCG
29043705 CT
1 CT
29043707 CATAGAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (20 bp):
CTAAAATTGAGACGATTGCG
Found at i:29047810 original size:18 final size:18
Alignment explanation
Indices: 29047787--29047832 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
29047777 AACTAAACTA
29047787 ACAAAAAAAAATGCAATG
1 ACAAAAAAAAATGCAATG
* *
29047805 ACAAAATAAAATGCGATG
1 ACAAAAAAAAATGCAATG
29047823 ACAATAAAAA
1 ACAA-AAAAA
29047833 TGTATGCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.65, C:0.11, G:0.11, T:0.13
Consensus pattern (18 bp):
ACAAAAAAAAATGCAATG
Found at i:29071321 original size:52 final size:52
Alignment explanation
Indices: 29071242--29071421 Score: 236
Period size: 52 Copynumber: 3.5 Consensus size: 52
29071232 AATGTAAAAG
*
29071242 GGTCCGATGACTATGTGTAATCGTGAGTATATGAATCCTTTACGGATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * * *
29071294 GGTCCAATGACTATGTGTCATCTTGAGTATATAAATCCTTTTCGGATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * * * * *
29071346 GGTCTGATTACTACGTGTCATCGTGAGTATGTGAATCCTTTATGGATTGTGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* *
29071398 GGTTCGATGACTATG-ATCATCGTG
1 GGTCCGATGACTATGTGTCATCGTG
29071422 TGTGCTAAAT
Statistics
Matches: 108, Mismatches: 20, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
51 8 0.07
52 100 0.93
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.37
Consensus pattern (52 bp):
GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
Found at i:29072349 original size:14 final size:14
Alignment explanation
Indices: 29072330--29072356 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29072320 ACATGATGTT
29072330 ATAAATGAATAGTG
1 ATAAATGAATAGTG
29072344 ATAAATGAATAGT
1 ATAAATGAATAGT
29072357 AAAGCATGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (14 bp):
ATAAATGAATAGTG
Found at i:29080022 original size:52 final size:52
Alignment explanation
Indices: 29079954--29080125 Score: 220
Period size: 52 Copynumber: 3.3 Consensus size: 52
29079944 TGTCTGATGA
* * * *
29079954 ATGTGTCTTCATGAGTATATGAATCCTTTACAGATTATGAGTTCTGATGACT
1 ATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCCGATGACT
* * *
29080006 ATGTGTCATCGCGAGTATATGAATCCTTTACTGATTATGAGGTCCGATTG-CA
1 ATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCCGA-TGACT
* ** * *
29080058 ATGTGTCATCGTGAGTATGTGAATCCTTTATGGATTGTGAGGTCGGATGACT
1 ATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCCGATGACT
29080110 ATGTGTCATCGTGAGT
1 ATGTGTCATCGTGAGT
29080126 GCTAAATGAC
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
51 2 0.02
52 100 0.96
53 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (52 bp):
ATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCCGATGACT
Found at i:29086561 original size:11 final size:11
Alignment explanation
Indices: 29086530--29086617 Score: 84
Period size: 11 Copynumber: 8.6 Consensus size: 11
29086520 CCACGTCAGC
*
29086530 AAATGATTTTA
1 AAATTATTTTA
29086541 AAATTA--TTA
1 AAATTATTTTA
29086550 AAATTATTTTA
1 AAATTATTTTA
*
29086561 AAATTAATTTA
1 AAATTATTTTA
29086572 AAATTATTTTTA
1 AAATTA-TTTTA
29086584 AAA-TA---TA
1 AAATTATTTTA
*
29086591 AAATTA--TGA
1 AAATTATTTTA
29086600 AAATTATTTTA
1 AAATTATTTTA
29086611 AAATTAT
1 AAATTAT
29086618 AATCATCATC
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
7 5 0.08
8 2 0.03
9 16 0.25
11 35 0.54
12 7 0.11
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:29087239 original size:23 final size:24
Alignment explanation
Indices: 29087213--29087263 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
29087203 ACTCTTACCC
*
29087213 AAAATCCCCAAATTCAACAACC-T
1 AAAATACCCAAATTCAACAACCAT
**
29087236 AAAATATTCAAATTCAACAACCAT
1 AAAATACCCAAATTCAACAACCAT
29087260 AAAA
1 AAAA
29087264 AATTCATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (24 bp):
AAAATACCCAAATTCAACAACCAT
Found at i:29087268 original size:24 final size:23
Alignment explanation
Indices: 29087221--29087269 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
29087211 CCAAAATCCC
*
29087221 CAAATTCAACAACCTAAAATATT
1 CAAATTCAACAACCTAAAAAATT
29087244 CAAATTCAACAACCATAAAAAATT
1 CAAATTCAACAACC-TAAAAAATT
29087268 CA
1 CA
29087270 TGGTGTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.22
Consensus pattern (23 bp):
CAAATTCAACAACCTAAAAAATT
Found at i:29092958 original size:45 final size:45
Alignment explanation
Indices: 29092907--29092998 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
29092897 TTAAATAAAC
29092907 AATAGCATTCATAATAAAATTCATCATAATAACAATCAAGAATCT
1 AATAGCATTCATAATAAAATTCATCATAATAACAATCAAGAATCT
**
29092952 AATAGCATTCATAATAGCATTCATCATAATAACAATCAAGAATCT
1 AATAGCATTCATAATAAAATTCATCATAATAACAATCAAGAATCT
29092997 AA
1 AA
29092999 AAGGGAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.28
Consensus pattern (45 bp):
AATAGCATTCATAATAAAATTCATCATAATAACAATCAAGAATCT
Found at i:29092968 original size:12 final size:12
Alignment explanation
Indices: 29092951--29092975 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29092941 ATCAAGAATC
29092951 TAATAGCATTCA
1 TAATAGCATTCA
29092963 TAATAGCATTCA
1 TAATAGCATTCA
29092975 T
1 T
29092976 CATAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGCATTCA
Found at i:29107018 original size:15 final size:17
Alignment explanation
Indices: 29106998--29107039 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
29106988 TAAGGTAGAG
29106998 GAAGAAGAAA-GAA-AA
1 GAAGAAGAAAGGAAGAA
29107013 GAAGAAGAGAAGGAAGAA
1 GAAGAAGA-AAGGAAGAA
*
29107031 AAAGAAGAA
1 GAAGAAGAA
29107040 GATATGCCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 8 0.35
16 2 0.09
17 4 0.17
18 9 0.39
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
GAAGAAGAAAGGAAGAA
Found at i:29107035 original size:21 final size:20
Alignment explanation
Indices: 29107000--29107041 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
29106990 AGGTAGAGGA
29107000 AGAAGAAAGAAAAGAAGAAG
1 AGAAGAAAGAAAAGAAGAAG
*
29107020 AGAAGGAAGAAAAAGAAGAAG
1 AGAAGAAAG-AAAAGAAGAAG
29107041 A
1 A
29107042 TATGCCCCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AGAAGAAAGAAAAGAAGAAG
Found at i:29122589 original size:197 final size:198
Alignment explanation
Indices: 29122269--29122652 Score: 578
Period size: 197 Copynumber: 1.9 Consensus size: 198
29122259 TTTCGATTGG
* * *
29122269 TTATAGGGATATAAGGATCATTTCCTATTTTATCTTTTGCAATTTTTGGTATTTTTTCAAAGTCA
1 TTATAGGGATATAAGGATCATTTCCTATTCTATCTTGTGCAATTTTTAGTATTTTTTCAAAGTCA
* * *
29122334 CTGCTAAATCTGTTTTGTAAGAATTCTGCTACTAGAGTTTTATGACCTTTCAACACTCAAAACTT
66 CTGCTAAATCTGTTTTATAAGAATTCTGCTACAAGAGTTTTATGACCTTTCAACACTCAAAAATT
* * *
29122399 CATATCTATTAAAA-TACAAATCA-AAATCAATCTTCGTTTA-TTCTAGACGAAACTAGAGTTTC
131 CATATAT-TTAAAACTACAAAT-AGAAATCAATCTTC-ATTAGTTCTAAACGAAACTAGAGTTTC
29122461 GTACGA
193 GTACGA
* * *
29122467 TTATAGGGATATAATGCTCATTTCCTATTCTATCTTGTGTAATTTTTAGTA-TTTTTCAAAGTCA
1 TTATAGGGATATAAGGATCATTTCCTATTCTATCTTGTGCAATTTTTAGTATTTTTTCAAAGTCA
* * *
29122531 CTGCTAAATTTGTTTTATAAGAATTCTGCTGCAAGATTTTTATGACCTTTCAACACTCAAAAATT
66 CTGCTAAATCTGTTTTATAAGAATTCTGCTACAAGAGTTTTATGACCTTTCAACACTCAAAAATT
29122596 CATATATTTAAAACTACAAATAGAAATCAATCTTCATTAGTTCTAAACGAAACTAGA
131 CATATATTTAAAACTACAAATAGAAATCAATCTTCATTAGTTCTAAACGAAACTAGA
29122653 CTGACTCACA
Statistics
Matches: 168, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
196 10 0.06
197 113 0.67
198 45 0.27
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (198 bp):
TTATAGGGATATAAGGATCATTTCCTATTCTATCTTGTGCAATTTTTAGTATTTTTTCAAAGTCA
CTGCTAAATCTGTTTTATAAGAATTCTGCTACAAGAGTTTTATGACCTTTCAACACTCAAAAATT
CATATATTTAAAACTACAAATAGAAATCAATCTTCATTAGTTCTAAACGAAACTAGAGTTTCGTA
CGA
Found at i:29132991 original size:7 final size:7
Alignment explanation
Indices: 29132979--29133007 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
29132969 AGCTCAAACA
29132979 AAAGAAG
1 AAAGAAG
29132986 AAAGAAG
1 AAAGAAG
29132993 AAAGAAG
1 AAAGAAG
29133000 AAAGAAG
1 AAAGAAG
29133007 A
1 A
29133008 GAAGGACCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:29133476 original size:17 final size:17
Alignment explanation
Indices: 29133431--29133496 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
29133421 CTGTGGTATA
* *
29133431 ATTGTCCCTACATTTTT
1 ATTGTCACTGCATTTTT
*
29133448 ATTGTCATTGCATTTTT
1 ATTGTCACTGCATTTTT
* * **
29133465 ATTGTCGCTGCATCTAC
1 ATTGTCACTGCATTTTT
*
29133482 ATTGTCATTGCATTT
1 ATTGTCACTGCATTT
29133497 CCATATGTAT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.50
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:29134071 original size:18 final size:16
Alignment explanation
Indices: 29134043--29134085 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
29134033 TAGTCACCTA
29134043 AAAAAAG-AAAGAAAAG
1 AAAAAAGAAAAG-AAAG
*
29134059 AAAAAGAGAAAAGAATG
1 AAAAA-AGAAAAGAAAG
29134076 AAAAAAGAAA
1 AAAAAAGAAA
29134086 TAATTTGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 10 0.42
17 10 0.42
18 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (16 bp):
AAAAAAGAAAAGAAAG
Found at i:29134081 original size:11 final size:11
Alignment explanation
Indices: 29134043--29134085 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
29134033 TAGTCACCTA
29134043 AAAAAAGAAAG
1 AAAAAAGAAAG
29134054 AAAAGAA-AAAG
1 AAAA-AAGAAAG
* *
29134065 AGAAAAGAATG
1 AAAAAAGAAAG
29134076 AAAAAAGAAA
1 AAAAAAGAAA
29134086 TAATTTGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 2 0.08
11 22 0.85
12 2 0.08
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:29136152 original size:52 final size:51
Alignment explanation
Indices: 29136070--29136213 Score: 164
Period size: 52 Copynumber: 2.8 Consensus size: 51
29136060 CTATAACCGA
* * * * *
29136070 AAAGGTCCAATGACT-AAGTGTCATCATGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATAACTCAA-TGTCATCGTGAGTAAATGAATCCATGACGGATT
* *
29136121 AAAGGTCCGATTAACTTAATGTCATCGTGAGTAAATGAATCCATGATGGATT
1 AAAGGTCCGA-TAACTCAATGTCATCGTGAGTAAATGAATCCATGACGGATT
* * * *
29136173 AAAGGTCTGATGACTCAGTGTCATCGTGAGTATATGAATCC
1 AAAGGTCCGATAACTCAATGTCATCGTGAGTAAATGAATCC
29136214 CTATATTGAA
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 36 0.45
52 42 0.52
53 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (51 bp):
AAAGGTCCGATAACTCAATGTCATCGTGAGTAAATGAATCCATGACGGATT
Found at i:29143403 original size:51 final size:51
Alignment explanation
Indices: 29143318--29143504 Score: 250
Period size: 51 Copynumber: 3.6 Consensus size: 51
29143308 CTATAAACGA
*
29143318 AAAGGTCCGATGACTAAGTGTCATCGTGATTAAATGAATCCTTTATGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
* * *
29143369 AAAGGTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCATGATGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
* * * * **
29143420 AAAGGTCCGATGACTTAGTGTTATCGTGAGTATATGAATTCTTATATGGAAC
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTT-TATGGATT
29143472 AAGAGGTCCGATGACTATA-TGTCATCGTGAGTA
1 AA-AGGTCCGATGACTA-AGTGTCATCGTGAGTA
29143505 TTAAATGAAA
Statistics
Matches: 118, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
51 84 0.71
52 7 0.06
53 26 0.22
54 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
Found at i:29147793 original size:198 final size:198
Alignment explanation
Indices: 29147454--29148017 Score: 846
Period size: 198 Copynumber: 2.8 Consensus size: 198
29147444 TTATCTTTGC
* * *
29147454 TCCTATTTTATCTTTTTCAATTTTTGGTGATTTTTTCAAAGTCACCGCTAAATTTGTTTTATAAG
1 TCCTATTTTATCTTTTGCAATTTTTGGTGA-TTTTTCAAAGTCACTGCTAAATCTGTTTTATAAG
* * *
29147519 AATTCTGCTGCCAAATTTTTATAACCTTTCAACACTCAAAAATTCATATTTGTTAAACTAAAAAT
65 AATTCTGCTGCCAGATTTTTATGACCTTTCAACACTCAAAAATTCATATCTGTTAAACTAAAAAT
** *
29147584 AAAAATCAATCT-TCATTTGTTCTAAA-AGAAACTAGACTTTCGTACAGTTATAAAGATATAAGG
130 CTAAATCAATCTCT-ATTTGTTCTAAACA-AAACTAGACTTTCGTACAGTTATAAAGATATAAGA
*
29147647 CTCATT
193 CTCAAT
* * *
29147653 TCCTATTTTATCTTGTGCAATTTTTGGTGATTTTTCAAAGTCACTACTAAATCTGTTTTATTAGA
1 TCCTATTTTATCTTTTGCAATTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTGTTTTATAAGA
* *
29147718 ATTCTACTGCCAGATTTTTATGACCTTTCAACACTCAAAAATTCATATCTGTTAAATTAAAAATC
66 ATTCTGCTGCCAGATTTTTATGACCTTTCAACACTCAAAAATTCATATCTGTTAAACTAAAAATC
* * **
29147783 TAAATCAATCTCTATTTGTTCTAAACAAAACTAGACTTTTGTACATTTATAGGGATATAAGACTC
131 TAAATCAATCTCTATTTGTTCTAAACAAAACTAGACTTTCGTACAGTTATAAAGATATAAGACTC
29147848 AAT
196 AAT
* *
29147851 TCTTATTTTATCTTTTGCAA-TTTTGGTGATTTTTCAAAGTCACTGTTAAATCTGTGTTTATAAG
1 TCCTATTTTATCTTTTGCAATTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTGT-TTTATAAG
* *
29147915 AATTCTGCTGCCAGATTTTTATGACCTTTCAACACTCAAAAATTCATGTCTTTTAAACTAAAAAT
65 AATTCTGCTGCCAGATTTTTATGACCTTTCAACACTCAAAAATTCATATCTGTTAAACTAAAAAT
* *
29147980 CTAAATCAATCTCTGTTTATTCTAAACAAAACTAGACT
130 CTAAATCAATCTCTATTTGTTCTAAACAAAACTAGACT
29148018 AACTCACGGT
Statistics
Matches: 332, Mismatches: 30, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
197 33 0.10
198 269 0.81
199 30 0.09
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.41
Consensus pattern (198 bp):
TCCTATTTTATCTTTTGCAATTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTGTTTTATAAGA
ATTCTGCTGCCAGATTTTTATGACCTTTCAACACTCAAAAATTCATATCTGTTAAACTAAAAATC
TAAATCAATCTCTATTTGTTCTAAACAAAACTAGACTTTCGTACAGTTATAAAGATATAAGACTC
AAT
Found at i:29160447 original size:21 final size:21
Alignment explanation
Indices: 29160409--29160449 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
29160399 GCTTTTAGTA
*
29160409 TCGATAAAAGCATGACTTGTT
1 TCGATAAAAGCATCACTTGTT
29160430 TCGATAAAAGTCA-CACTTGT
1 TCGATAAAAG-CATCACTTGT
29160450 ATCGGTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (21 bp):
TCGATAAAAGCATCACTTGTT
Found at i:29162913 original size:26 final size:26
Alignment explanation
Indices: 29162884--29162939 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
29162874 CAAAAATTTA
29162884 GCTCAAACGAGCCCAAACAGATTATC
1 GCTCAAACGAGCCCAAACAGATTATC
** *
29162910 GCTCTTACGAGCCCAGACAGATTATC
1 GCTCAAACGAGCCCAAACAGATTATC
29162936 GCTC
1 GCTC
29162940 TTATGAGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (26 bp):
GCTCAAACGAGCCCAAACAGATTATC
Found at i:29162940 original size:26 final size:26
Alignment explanation
Indices: 29162890--29162953 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
29162880 TTTAGCTCAA
29162890 ACGAGCCCAAACAGATTATCGCTCTT
1 ACGAGCCCAAACAGATTATCGCTCTT
*
29162916 ACGAGCCCAGACAGATTATCGCTCTT
1 ACGAGCCCAAACAGATTATCGCTCTT
*
29162942 ATGAG-CCAAACA
1 ACGAGCCCAAACA
29162954 AAATAACGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 6 0.17
26 29 0.83
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (26 bp):
ACGAGCCCAAACAGATTATCGCTCTT
Found at i:29162990 original size:25 final size:25
Alignment explanation
Indices: 29162937--29162993 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
29162927 CAGATTATCG
*
29162937 CTCTTATGAGCCAAACAAAATAACG
1 CTCTTATGAGCCAAACAAAATAACA
* *
29162962 CTCTTGTGAGCCAATCAAAA-AATCA
1 CTCTTATGAGCCAAACAAAATAA-CA
29162987 CTCTTAT
1 CTCTTAT
29162994 AAGCTAGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.26
Consensus pattern (25 bp):
CTCTTATGAGCCAAACAAAATAACA
Found at i:29163041 original size:25 final size:25
Alignment explanation
Indices: 29163012--29163060 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
29163002 ATCCAAAATA
29163012 TCGCTCTTTCGAGCCAGACAGAATG
1 TCGCTCTTTCGAGCCAGACAGAATG
29163037 TCGCTCTTTCGAGCCAGACAGAAT
1 TCGCTCTTTCGAGCCAGACAGAAT
29163061 ATTCTTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (25 bp):
TCGCTCTTTCGAGCCAGACAGAATG
Found at i:29163044 original size:53 final size:50
Alignment explanation
Indices: 29162896--29163044 Score: 131
Period size: 53 Copynumber: 2.9 Consensus size: 50
29162886 TCAAACGAGC
* * * * *
29162896 CCAAACAGATTATCGCTCTTACGAGCCCAGACAGATTATCGCTCTTATGAG
1 CCAAACAAAATATCGCTCTTTCGAG-CCAGACAGAATATCGCTCTTATAAG
* * * *
29162947 CCAAACAAAATAACGCTCTTGT-GAGCCA-ATCAAAAAATCACTCTTATAAG
1 CCAAACAAAATATCGCTCTT-TCGAGCCAGA-CAGAATATCGCTCTTATAAG
* *
29162997 CTAGAATCCAAAATATCGCTCTTTCGAGCCAGACAGAATGTCGCTCTT
1 CCA-AA--CAAAATATCGCTCTTTCGAGCCAGACAGAATATCGCTCTT
29163045 TCGAGCCAGA
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
49 1 0.01
50 20 0.26
51 22 0.29
52 1 0.01
53 31 0.41
54 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (50 bp):
CCAAACAAAATATCGCTCTTTCGAGCCAGACAGAATATCGCTCTTATAAG
Found at i:29169464 original size:43 final size:42
Alignment explanation
Indices: 29169406--29169500 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 42
29169396 AGATGAAGAA
*
29169406 TGGAGGGTTTTATTTAAGG-ATTTTGGAAGAAGAATGAATGAATT
1 TGGA-GGTTTAATTT-AGGAATTTTGGAAGAAGAA-GAATGAATT
* *
29169450 TGGAGGTTTAATTTAGGAATTTTTGAAGAAGAAGCATGAATT
1 TGGAGGTTTAATTTAGGAATTTTGGAAGAAGAAGAATGAATT
*
29169492 TGGGGGTTT
1 TGGAGGTTT
29169501 GAATGGATAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 19 0.41
43 23 0.50
44 4 0.09
ACGTcount: A:0.32, C:0.01, G:0.31, T:0.37
Consensus pattern (42 bp):
TGGAGGTTTAATTTAGGAATTTTGGAAGAAGAAGAATGAATT
Found at i:29169586 original size:1 final size:1
Alignment explanation
Indices: 29169582--29169606 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
29169572 TTTTTTTTTT
29169582 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
29169607 TAAAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:29177163 original size:39 final size:40
Alignment explanation
Indices: 29177057--29177537 Score: 500
Period size: 40 Copynumber: 12.2 Consensus size: 40
29177047 ATCTGGATTA
* **
29177057 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCTGAATCAT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGAT-TGGATGGT
* * * *
29177098 -TTCAATCAG-CCTCATGGTTGGGGTAAGAGATCGGATGGT
1 CTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATGGT
* * ** * *
29177137 TTTTAAT-TGCCCTCTGGTCGGGGTAAGAGATAGGATGGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * *
29177176 CTTCAATCTGCCC-CATGGTCT-GGATAAGAGATTAGATGG-
1 CTTCAATCTGCCCTC-TGGT-TAGGGTAAAAGATTGGATGGT
* * * *
29177215 CTTCAATCTGCCCTTTAGTTAGGGTAAAAGATTTGATAGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
*
29177255 CTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
*
29177295 CTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * *
29177335 CTTTAATCTGCCCTCTGGTTAGGATAAAAGATTGGATTG-
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * *
29177374 CTTCAATCTG-CCTCATGGTTGGGGTAAGAGATTGGATGAT
1 CTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATGGT
*
29177414 -TTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGACT-G-
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGA-TGGT
* ** *
29177452 CTTCAATTTGCCC-CATGGTCGGGGTAAGAGATTGGATGGT
1 CTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATGGT
* *
29177492 CTTCAATTTGCCCTCTAGTTAGGGTAAAAGATTGGATGGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
29177532 CTTCAA
1 CTTCAA
29177538 AAAGATCTGA
Statistics
Matches: 373, Mismatches: 49, Indels: 37
0.81 0.11 0.08
Matches are distributed among these distances:
38 7 0.02
39 152 0.41
40 213 0.57
41 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (40 bp):
CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
Found at i:29177181 original size:79 final size:79
Alignment explanation
Indices: 29177012--29177537 Score: 498
Period size: 79 Copynumber: 6.6 Consensus size: 79
29177002 TTTTCAATCT
* ** * **
29177012 GATGG-CTTCAATCTGCCC-CATGGTCAGAATAAGAGATCTGGATTACTTCAATCTGCCCTCTGG
1 GATGGTCTTCAATCTGCCCTC-TGGTTAGGGTAAAAGAT-TGGATGGCTTCAATCTGCCCTCTGG
* *
29177075 TTAGGGTAAAAGATCTG
64 TTGGGGTAAGAGAT-TG
* ** * * * * * *
29177092 AATCAT-TTCAATCAG-CCTCATGGTTGGGGTAAGAGATCGGATGGTTTTTAAT-TGCCCTCTGG
1 GATGGTCTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATGG-CTTCAATCTGCCCTCTGG
* *
29177154 TCGGGGTAAGAGATAG
64 TTGGGGTAAGAGATTG
* * * * *
29177170 GATGGTCTTCAATCTGCCC-CATGGTCT-GGATAAGAGATTAGATGGCTTCAATCTGCCCTTTAG
1 GATGGTCTTCAATCTGCCCTC-TGGT-TAGGGTAAAAGATTGGATGGCTTCAATCTGCCCTCTGG
* * *
29177233 TTAGGGTAAAAGATTT
64 TTGGGGTAAGAGATTG
* * *
29177249 GATAGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGT
1 GATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGG-CTTCAATCTGCCCTCTGGT
* *
29177314 TAGGGTAAAAGATTG
65 TGGGGTAAGAGATTG
* * *
29177329 GATGGTCTTTAATCTGCCCTCTGGTTAGGATAAAAGATTGGATTGCTTCAATCTG-CCTCATGGT
1 GATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCTC-TGGT
29177393 TGGGGTAAGAGATTG
65 TGGGGTAAGAGATTG
* * *
29177408 GATGAT-TTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGACT-GCTTCAATTTGCCC-CATGG
1 GATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGA-TGGCTTCAATCTGCCCTC-TGG
*
29177470 TCGGGGTAAGAGATTG
64 TTGGGGTAAGAGATTG
* *
29177486 GATGGTCTTCAATTTGCCCTCTAGTTAGGGTAAAAGATTGGATGGTCTTCAA
1 GATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGG-CTTCAA
29177538 AAAGATCTGA
Statistics
Matches: 374, Mismatches: 56, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
78 82 0.22
79 180 0.48
80 112 0.30
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (79 bp):
GATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCTCTGGTT
GGGGTAAGAGATTG
Found at i:29177542 original size:20 final size:20
Alignment explanation
Indices: 29177517--29177557 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
29177507 TAGTTAGGGT
29177517 AAAAGAT-TGGATGGTCTTCA
1 AAAAGATCT-GATGGTCTTCA
29177537 AAAAGATCTGATGGTCTTCA
1 AAAAGATCTGATGGTCTTCA
29177557 A
1 A
29177558 TCTACTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (20 bp):
AAAAGATCTGATGGTCTTCA
Found at i:29177592 original size:40 final size:40
Alignment explanation
Indices: 29177537--29177664 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
29177527 ATGGTCTTCA
29177537 AAAAGATCTG-ATGGTCTTCAATCTACTCTCTGATTAGGGT
1 AAAAGAT-TGAATGGTCTTCAATCTACTCTCTGATTAGGGT
* ** *
29177577 AAAAGATTGAATGGTCTTTAAT-TTGTCCTCTAATTAGGGT
1 AAAAGATTGAATGGTCTTCAATCTACT-CTCTGATTAGGGT
* * * *
29177617 AAAAGATT-AGATGAT-TTCAATCTGCCCTCTGGTTAGGGT
1 AAAAGATTGA-ATGGTCTTCAATCTACTCTCTGATTAGGGT
29177656 AAAAGATTG
1 AAAAGATTG
29177665 GTTTGCTTCA
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
39 29 0.40
40 43 0.60
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.35
Consensus pattern (40 bp):
AAAAGATTGAATGGTCTTCAATCTACTCTCTGATTAGGGT
Found at i:29177720 original size:78 final size:78
Alignment explanation
Indices: 29177614--29177823 Score: 276
Period size: 78 Copynumber: 2.7 Consensus size: 78
29177604 CTCTAATTAG
* * * ** *
29177614 GGTAAAAGATTAGATGATTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGTTTGCTTCAATCT
1 GGTAAGAGATTGGATGACTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGACTACTTCAATCT
* *
29177679 GCCCCATGGTCGG
66 GCACCATGGTCGA
* * * *
29177692 GGTGAGAGATTGGATGACTTCAATCTGCCCTCTAGTTAGGATAAAAGATTGGACTACTTCAATTT
1 GGTAAGAGATTGGATGACTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGACTACTTCAATCT
*
29177757 GCACTATGGTCGA
66 GCACCATGGTCGA
* *
29177770 GGTAAGAGATTGGATGGTCTTCAATCTGTCCTCTGGTTAGGGTAAAAGATTGGA
1 GGTAAGAGATTGGAT-GACTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGA
29177824 TGGTCTTCAA
Statistics
Matches: 113, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
78 79 0.70
79 34 0.30
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (78 bp):
GGTAAGAGATTGGATGACTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGACTACTTCAATCT
GCACCATGGTCGA
Found at i:29177725 original size:296 final size:296
Alignment explanation
Indices: 29177240--29177928 Score: 1092
Period size: 296 Copynumber: 2.3 Consensus size: 296
29177230 TAGTTAGGGT
* * *
29177240 AAAAGATTTGATAGTCTTCAATCTGCCCTCT-AGTTAGGGTAAAAGATTGGATGGTCTTCAATCT
1 AAAAGATCTGATGGTCTTCAATCTGCCCTCTGA-TTAGGGTAAAAGATTGAATGGTCTTCAATCT
* * * *
29177304 GCCCTCTAGTTAGGGTAAAAGATTGGATGGTCTTTAATCTGCCCTCTGGTTAGGATAAAAGATTG
65 GTCCTCTAATTAGGGTAAAAGATTGGATGAT-TTCAATCTGCCCTCTGGTTAGGATAAAAGATTG
* * *
29177369 GATTGCTTCAATCTGCCTCATGGTTGGGGTAAGAGATTGGATGATTTCAATCTGCCCTCTAGTTA
129 GATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGACTTCAATCTGCCCTCTAGTTA
* * * *
29177434 GGGTAAAAGATTGGACTGCTTCAATTTGCCCCATGGTCGGGGTAAGAGATTGGATGGTCTTCAAT
194 GGATAAAAGATTGGACTACTTCAATTTGCACCATGGTCGAGGTAAGAGATTGGATGGTCTTCAAT
*
29177499 TTGCCCTCTAGTTAGGGTAAAAGATTGGATGGTCTTCA
259 CTGCCCTCTAGTTAGGGTAAAAGATTGGATGGTCTTCA
* * * *
29177537 AAAAGATCTGATGGTCTTCAATCTACTCTCTGATTAGGGTAAAAGATTGAATGGTCTTTAATTTG
1 AAAAGATCTGATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGGTCTTCAATCTG
* * *
29177602 TCCTCTAATTAGGGTAAAAGATTAGATGATTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGT
66 TCCTCTAATTAGGGTAAAAGATTGGATGATTTCAATCTGCCCTCTGGTTAGGATAAAAGATTGGA
*
29177667 TTGCTTCAATCTGCCCCATGGTCGGGGTGAGAGATTGGATGACTTCAATCTGCCCTCTAGTTAGG
131 TTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGACTTCAATCTGCCCTCTAGTTAGG
*
29177732 ATAAAAGATTGGACTACTTCAATTTGCACTATGGTCGAGGTAAGAGATTGGATGGTCTTCAATCT
196 ATAAAAGATTGGACTACTTCAATTTGCACCATGGTCGAGGTAAGAGATTGGATGGTCTTCAATCT
* *
29177797 GTCCTCTGGTTAGGGTAAAAGATTGGATGGTCTTCA
261 GCCCTCTAGTTAGGGTAAAAGATTGGATGGTCTTCA
*
29177833 AAAAGATCTGATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGGTCTTCAATCTA
1 AAAAGATCTGATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGGTCTTCAATCTG
* *
29177898 TCCTCTGATTAGGGTAAAATATTGGATGATT
66 TCCTCTAATTAGGGTAAAAGATTGGATGATT
29177929 GTAACTTGCT
Statistics
Matches: 357, Mismatches: 34, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
296 274 0.77
297 82 0.23
298 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (296 bp):
AAAAGATCTGATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGGTCTTCAATCTG
TCCTCTAATTAGGGTAAAAGATTGGATGATTTCAATCTGCCCTCTGGTTAGGATAAAAGATTGGA
TTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGACTTCAATCTGCCCTCTAGTTAGG
ATAAAAGATTGGACTACTTCAATTTGCACCATGGTCGAGGTAAGAGATTGGATGGTCTTCAATCT
GCCCTCTAGTTAGGGTAAAAGATTGGATGGTCTTCA
Found at i:29177814 original size:40 final size:39
Alignment explanation
Indices: 29177537--29177833 Score: 239
Period size: 39 Copynumber: 7.5 Consensus size: 39
29177527 ATGGTCTTCA
* *
29177537 AAAAGATCT-GATGGTCTTCAATCTACTCTCTGATTAGGGT
1 AAAAGAT-TGGATGGTCTTCAATCTGC-CTCTGGTTAGGGT
* * * **
29177577 AAAAGATTGAATGGTCTTTAATTTGTCCTCTAATTAGGGT
1 AAAAGATTGGATGGTCTTCAATCTG-CCTCTGGTTAGGGT
* *
29177617 AAAAGATTAGATGAT-TTCAATCTGCCCTCTGGTTAGGGT
1 AAAAGATTGGATGGTCTTCAATCTG-CCTCTGGTTAGGGT
* * * **
29177656 AAAAGATTGGTTTG-CTTCAATCTGCCCCATGGTCGGGGT
1 AAAAGATTGGATGGTCTTCAATCTGCCTC-TGGTTAGGGT
* * * * *
29177695 GAGAGATTGGAT-GACTTCAATCTGCCCTCTAGTTAGGAT
1 AAAAGATTGGATGGTCTTCAATCTG-CCTCTGGTTAGGGT
* * * *
29177734 AAAAGATTGGACT--ACTTCAATTTGCACTATGG-TCGAGGT
1 AAAAGATTGGA-TGGTCTTCAATCTGC-CTCTGGTTAG-GGT
*
29177773 AAGAGATTGGATGGTCTTCAATCTGTCCTCTGGTTAGGGT
1 AAAAGATTGGATGGTCTTCAATCTG-CCTCTGGTTAGGGT
29177813 AAAAGATTGGATGGTCTTCAA
1 AAAAGATTGGATGGTCTTCAA
29177834 AAAGATCTGA
Statistics
Matches: 203, Mismatches: 41, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
38 8 0.04
39 107 0.53
40 84 0.41
41 4 0.02
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (39 bp):
AAAAGATTGGATGGTCTTCAATCTGCCTCTGGTTAGGGT
Found at i:29177838 original size:20 final size:20
Alignment explanation
Indices: 29177813--29177853 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
29177803 TGGTTAGGGT
29177813 AAAAGAT-TGGATGGTCTTCA
1 AAAAGATCT-GATGGTCTTCA
29177833 AAAAGATCTGATGGTCTTCA
1 AAAAGATCTGATGGTCTTCA
29177853 A
1 A
29177854 TCTGCCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (20 bp):
AAAAGATCTGATGGTCTTCA
Found at i:29177888 original size:40 final size:39
Alignment explanation
Indices: 29177833--29177921 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 39
29177823 ATGGTCTTCA
*
29177833 AAAAGATCTGATGGTCTTCAATCTGCCCTCTGATTAGGGT
1 AAAAGAT-TGATGGTCTTCAATCTACCCTCTGATTAGGGT
*
29177873 AAAAGATTGAATGGTCTTCAATCTATCCTCTGATTAGGGT
1 AAAAGATTG-ATGGTCTTCAATCTACCCTCTGATTAGGGT
*
29177913 AAAATATTG
1 AAAAGATTG
29177922 GATGATTGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.04
40 43 0.96
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (39 bp):
AAAAGATTGATGGTCTTCAATCTACCCTCTGATTAGGGT
Found at i:29178349 original size:98 final size:98
Alignment explanation
Indices: 29178242--29178424 Score: 242
Period size: 98 Copynumber: 1.9 Consensus size: 98
29178232 ACATCTATAG
*
29178242 GGTACAAGGTTCG-TCGTTGCGGCTTCAACCTTTCCCTCCATAGCTCTAGGGTACAAGATTCACC
1 GGTACAAGGTTCGCT-GTTGCGGCTTCAACCTTTCCCTCCATAGCTCTAAGGTACAAGATTCACC
* *
29178306 GTCGTGGCTTCAATCTTTCCCATCACGTCCCTAA
65 ATCGCGGCTTCAATCTTTCCCATCACGTCCCTAA
* * * * ** **
29178340 GGTATAAGGTTCGCTGTTGCGGCTTCAACCTTTCTCTTCATATCTCTAAGGTATTAGATTTGCCA
1 GGTACAAGGTTCGCTGTTGCGGCTTCAACCTTTCCCTCCATAGCTCTAAGGTACAAGATTCACCA
*
29178405 TTGCGGCTTCAATCTTTCCC
66 TCGCGGCTTCAATCTTTCCC
29178425 TTCAAACCTG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
98 71 0.99
99 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (98 bp):
GGTACAAGGTTCGCTGTTGCGGCTTCAACCTTTCCCTCCATAGCTCTAAGGTACAAGATTCACCA
TCGCGGCTTCAATCTTTCCCATCACGTCCCTAA
Found at i:29178428 original size:49 final size:49
Alignment explanation
Indices: 29178222--29178428 Score: 180
Period size: 49 Copynumber: 4.2 Consensus size: 49
29178212 CGGCCCTAAT
* * * * * * *
29178222 CTTTTCCTTCACATCTATAGGGTACAAGGTTCGTCGTTGCGGCTTCAAC
1 CTTTCCCTTCATATCTCTAAGGTATAAGATTCGCCGTTGCGGCTTCAAC
* * * * * * * *
29178271 CTTTCCCTCCATAGCTCTAGGGTACAAGATTCACCGTCGTGGCTTCAAT
1 CTTTCCCTTCATATCTCTAAGGTATAAGATTCGCCGTTGCGGCTTCAAC
* ** * * *
29178320 CTTTCCCATCACGTCCCTAAGGTATAAGGTTCGCTGTTGCGGCTTCAAC
1 CTTTCCCTTCATATCTCTAAGGTATAAGATTCGCCGTTGCGGCTTCAAC
* * * * *
29178369 CTTTCTCTTCATATCTCTAAGGTATTAGATTTGCCATTGCGGCTTCAAT
1 CTTTCCCTTCATATCTCTAAGGTATAAGATTCGCCGTTGCGGCTTCAAC
29178418 CTTTCCCTTCA
1 CTTTCCCTTCA
29178429 AACCTGTATA
Statistics
Matches: 121, Mismatches: 37, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
49 121 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (49 bp):
CTTTCCCTTCATATCTCTAAGGTATAAGATTCGCCGTTGCGGCTTCAAC
Found at i:29179320 original size:6 final size:6
Alignment explanation
Indices: 29179311--29179356 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
29179301 CTCGACCTCC
*
29179311 TCTTTT TCTTTT TCGTTTCT TCTTTT TCCTTT TCTTTT TCTCTTT T
1 TCTTTT TCTTTT TC-TTT-T TCTTTT TCTTTT TCTTTT TCT-TTT T
29179357 TCTCTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 22 0.63
7 10 0.29
8 3 0.09
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (6 bp):
TCTTTT
Found at i:29179334 original size:20 final size:20
Alignment explanation
Indices: 29179310--29179364 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
29179300 CCTCGACCTC
29179310 CTCTTTTTCTTTTTCGTTTCT
1 CTCTTTTTCTTTTTC-TTTCT
* *
29179331 -TCTTTTTCCTTTTCTTTTT
1 CTCTTTTTCTTTTTCTTTCT
29179350 CTCTTTTTCTCTTTT
1 CTCTTTTTCT-TTTT
29179365 TTCCTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.14
20 21 0.72
21 4 0.14
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.75
Consensus pattern (20 bp):
CTCTTTTTCTTTTTCTTTCT
Found at i:29179359 original size:26 final size:27
Alignment explanation
Indices: 29179314--29179364 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
29179304 GACCTCCTCT
29179314 TTTTCTTTTTCGTTTCTTCT-TTTTCC
1 TTTTCTTTTTCGTTTCTTCTCTTTTCC
*
29179340 TTTTCTTTTTC-TCTTTTTCTCTTTT
1 TTTTCTTTTTCGT-TTCTTCTCTTTT
29179365 TTCCTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 1 0.05
26 17 0.77
27 4 0.18
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (27 bp):
TTTTCTTTTTCGTTTCTTCTCTTTTCC
Found at i:29180293 original size:15 final size:16
Alignment explanation
Indices: 29180270--29180299 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29180260 CATCTTGACT
29180270 TTTTCTTTCTTTTTTC
1 TTTTCTTTCTTTTTTC
29180286 TTTT-TTTCTTTTTT
1 TTTTCTTTCTTTTTT
29180300 TAGGTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTCTTTCTTTTTTC
Found at i:29188903 original size:27 final size:27
Alignment explanation
Indices: 29188873--29188994 Score: 138
Period size: 27 Copynumber: 4.5 Consensus size: 27
29188863 AATCCGATTA
*
29188873 TGGCTCAAAAGAGAGTTATTCTAATTC
1 TGGCTCGAAAGAGAGTTATTCTAATTC
* * *
29188900 TGGCTCGAAAGAGCGTTATTTTGATTC
1 TGGCTCGAAAGAGAGTTATTCTAATTC
* * *
29188927 TGGCTCGAAAGAGCGTTATTCTGATTT
1 TGGCTCGAAAGAGAGTTATTCTAATTC
*
29188954 TAGCTCGAAAGAGCA-TTATTCTAATTC
1 TGGCTCGAAAGAG-AGTTATTCTAATTC
*
29188981 TGGACTCGTAAGAG
1 TGG-CTCGAAAGAG
29188995 CTAACCATTC
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
27 72 0.89
28 9 0.11
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (27 bp):
TGGCTCGAAAGAGAGTTATTCTAATTC
Found at i:29188960 original size:54 final size:54
Alignment explanation
Indices: 29188868--29188995 Score: 157
Period size: 54 Copynumber: 2.4 Consensus size: 54
29188858 GGAGTAATCC
* * * * * *
29188868 GATTATGGCTCAAAAGAGAGTTATTCTAATTCTGGCTCGAAAGAGCGTTATTTT
1 GATTCTGGCTCGAAAGAGCGTTATTCTAATTCTAGCTCGAAAGAGCATTATTCT
* *
29188922 GATTCTGGCTCGAAAGAGCGTTATTCTGATTTTAGCTCGAAAGAGCATTATTCT
1 GATTCTGGCTCGAAAGAGCGTTATTCTAATTCTAGCTCGAAAGAGCATTATTCT
* *
29188976 AATTCTGGACTCGTAAGAGC
1 GATTCTGG-CTCGAAAGAGC
29188996 TAACCATTCT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 53 0.84
55 10 0.16
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (54 bp):
GATTCTGGCTCGAAAGAGCGTTATTCTAATTCTAGCTCGAAAGAGCATTATTCT
Found at i:29193595 original size:54 final size:54
Alignment explanation
Indices: 29193513--29193639 Score: 200
Period size: 54 Copynumber: 2.4 Consensus size: 54
29193503 GGAGTAATCC
* * *
29193513 GATTCTGGCTCGAAAGAGAGTTATTCTGATTCTGGCTCGAAAGAACGTTATTTT
1 GATTCTGGCTCGAAAGAGCGTTATTCTGATTCTAGCTCGAAAGAACATTATTTT
*
29193567 GATTCTGGCTCGAAAGAGCGTTATTCTGATTCTAGCTCGAAAGAGCATTATTTT
1 GATTCTGGCTCGAAAGAGCGTTATTCTGATTCTAGCTCGAAAGAACATTATTTT
* *
29193621 GATTCTGGTTCGTAAGAGC
1 GATTCTGGCTCGAAAGAGC
29193640 TAACCATTCT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (54 bp):
GATTCTGGCTCGAAAGAGCGTTATTCTGATTCTAGCTCGAAAGAACATTATTTT
Found at i:29193639 original size:27 final size:27
Alignment explanation
Indices: 29193513--29193639 Score: 166
Period size: 27 Copynumber: 4.7 Consensus size: 27
29193503 GGAGTAATCC
29193513 GATTCTGGCTCGAAAGAG-AGTTATTCT
1 GATTCTGGCTCGAAAGAGCA-TTATTCT
* * *
29193540 GATTCTGGCTCGAAAGAACGTTATTTT
1 GATTCTGGCTCGAAAGAGCATTATTCT
*
29193567 GATTCTGGCTCGAAAGAGCGTTATTCT
1 GATTCTGGCTCGAAAGAGCATTATTCT
* *
29193594 GATTCTAGCTCGAAAGAGCATTATTTT
1 GATTCTGGCTCGAAAGAGCATTATTCT
* *
29193621 GATTCTGGTTCGTAAGAGC
1 GATTCTGGCTCGAAAGAGC
29193640 TAACCATTCT
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (27 bp):
GATTCTGGCTCGAAAGAGCATTATTCT
Found at i:29196545 original size:16 final size:16
Alignment explanation
Indices: 29196524--29196556 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
29196514 TATCCAGTTA
29196524 TTTTTTACTATCATGT
1 TTTTTTACTATCATGT
29196540 TTTTTTACTATCATGT
1 TTTTTTACTATCATGT
29196556 T
1 T
29196557 ATTCTAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (16 bp):
TTTTTTACTATCATGT
Found at i:29205344 original size:45 final size:45
Alignment explanation
Indices: 29205280--29205406 Score: 209
Period size: 45 Copynumber: 2.8 Consensus size: 45
29205270 CTAGTTACAA
* *
29205280 ACAAGCTGCCATGTAGGTTGTGGATGAAGCCACCAATATTCGTAG
1 ACAAGCTGCCATGTAGGTTGTGGACGAAGCCACCAATATTCGCAG
*
29205325 ACAAGTTGCCATGTAGGTTGTGGACGAAGCCACCAATATTCGCAG
1 ACAAGCTGCCATGTAGGTTGTGGACGAAGCCACCAATATTCGCAG
* *
29205370 ACATGCTGCCATGTAGGTTGTGAACGAAGCCACCAAT
1 ACAAGCTGCCATGTAGGTTGTGGACGAAGCCACCAAT
29205407 TCTTCCTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (45 bp):
ACAAGCTGCCATGTAGGTTGTGGACGAAGCCACCAATATTCGCAG
Found at i:29207532 original size:16 final size:16
Alignment explanation
Indices: 29207511--29207544 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
29207501 AGTAATTTTT
29207511 ATGTTAAAG-GACTAAA
1 ATGTTAAAGTG-CTAAA
29207527 ATGTTAAAGTGCTAAA
1 ATGTTAAAGTGCTAAA
29207543 AT
1 AT
29207545 TGCAAGGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (16 bp):
ATGTTAAAGTGCTAAA
Found at i:29209022 original size:19 final size:20
Alignment explanation
Indices: 29208998--29209036 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
29208988 AGCTCTCTAG
29208998 AGTTT-GTTGTATCGGTAGA
1 AGTTTGGTTGTATCGGTAGA
*
29209017 AGTTTGGGTTGTATTGGTAG
1 AGTTT-GGTTGTATCGGTAG
29209037 TACTCGAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.18, C:0.03, G:0.36, T:0.44
Consensus pattern (20 bp):
AGTTTGGTTGTATCGGTAGA
Found at i:29213579 original size:2 final size:2
Alignment explanation
Indices: 29213572--29213612 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
29213562 TTAGTTGCAT
* *
29213572 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29213613 GCGATTCAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:29215954 original size:21 final size:22
Alignment explanation
Indices: 29215910--29215959 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
29215900 TCAGCATCTG
* **
29215910 GTATCGATACTTCTTTTGAAAA
1 GTATCGATACTTCATTCAAAAA
29215932 GTATCGATAC-TCATTCAAAAA
1 GTATCGATACTTCATTCAAAAA
29215953 GTATCGA
1 GTATCGA
29215960 AAATTATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (22 bp):
GTATCGATACTTCATTCAAAAA
Found at i:29217891 original size:15 final size:15
Alignment explanation
Indices: 29217867--29217900 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
29217857 GCATGAAAAA
*
29217867 CACGCTACCCCCATG
1 CACGCCACCCCCATG
29217882 CACGCCACCCCCATG
1 CACGCCACCCCCATG
29217897 CACG
1 CACG
29217901 AAACCCTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.56, G:0.15, T:0.09
Consensus pattern (15 bp):
CACGCCACCCCCATG
Found at i:29217906 original size:15 final size:15
Alignment explanation
Indices: 29217873--29217906 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
29217863 AAAACACGCT
**
29217873 ACCCCCATGCACGCC
1 ACCCCCATGCACGAA
29217888 ACCCCCATGCACGAA
1 ACCCCCATGCACGAA
29217903 ACCC
1 ACCC
29217907 TCAGTGTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.56, G:0.12, T:0.06
Consensus pattern (15 bp):
ACCCCCATGCACGAA
Found at i:29225131 original size:26 final size:26
Alignment explanation
Indices: 29225102--29225156 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
29225092 ACAAATATCA
* *
29225102 ATTTCATATATTTATTTCATATAAAC
1 ATTTCATATAATAATTTCATATAAAC
* * *
29225128 ATTTCGTATAATAATTTTATCTAAAC
1 ATTTCATATAATAATTTCATATAAAC
29225154 ATT
1 ATT
29225157 ACATTTTACC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTTCATATAATAATTTCATATAAAC
Found at i:29225733 original size:45 final size:46
Alignment explanation
Indices: 29225669--29225790 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 46
29225659 ATGGTTGAAG
* * *
29225669 GATGCCATGGTGTCTTTCAACCATGATCTTA-TTTATTCTTGACT-T
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTTTATT-TTGACTAT
* *
29225714 GATGCCATAGTGTCTTTCAACTATGGTCTTATTTTATTTTTAGTAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTTTATTTTGACTAT
*
29225760 -AGTGCCAGAGTGTCTTTCAACTATGGTCTTA
1 GA-TGCCATAGTGTCTTTCAACTATGGTCTTA
29225791 ATCATTAACT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
45 33 0.49
46 35 0.51
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.44
Consensus pattern (46 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTATTTTATTTTGACTAT
Found at i:29227877 original size:22 final size:21
Alignment explanation
Indices: 29227830--29227877 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
29227820 GTTGGATGTT
* *
29227830 GCGACTTTAGCTTCTAATGTC
1 GCGACTTTAGCTTCCAATATC
* *
29227851 ACGACTTCTTGCTTCCAATATC
1 GCGACTT-TAGCTTCCAATATC
29227873 GCGAC
1 GCGAC
29227878 CTTGGCCACA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (21 bp):
GCGACTTTAGCTTCCAATATC
Found at i:29229279 original size:21 final size:19
Alignment explanation
Indices: 29229250--29229288 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
29229240 TTCATGAGCA
29229250 ATTCCTTTATCCTTATATTTT
1 ATTCCTTTAT--TTATATTTT
*
29229271 ATTCTTTTATTTATATTT
1 ATTCCTTTATTTATATTT
29229289 CGTTAACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTCCTTTATTTATATTTT
Found at i:29229777 original size:9 final size:9
Alignment explanation
Indices: 29229759--29229788 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
29229749 CATTAGGTTA
29229759 AATTAGTTT
1 AATTAGTTT
*
29229768 AATTAATTT
1 AATTAGTTT
29229777 AATTAGTTT
1 AATTAGTTT
29229786 AAT
1 AAT
29229789 AAATACTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (9 bp):
AATTAGTTT
Done.