Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 137 of 163
Found at i:37072706 original size:27 final size:28
Alignment explanation
Indices: 37072657--37072716 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
37072647 CAAATTATTT
* **
37072657 TTCTCGATTTCTTATTCTCAATTTTCAA
1 TTCTCGATTTCTTATTCTAAATTCCCAA
*
37072685 TTCTCGATTT-TTATTTTAAATTCCCAA
1 TTCTCGATTTCTTATTCTAAATTCCCAA
37072712 TTCTC
1 TTCTC
37072717 AAATTATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.22, C:0.22, G:0.03, T:0.53
Consensus pattern (28 bp):
TTCTCGATTTCTTATTCTAAATTCCCAA
Found at i:37073745 original size:26 final size:26
Alignment explanation
Indices: 37073715--37073773 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
37073705 AATTGCAAAA
*
37073715 AAAAATTAAAATATTTATAAAAATT-T
1 AAAAATTAAAAT-TTTAAAAAAATTAT
* * *
37073741 CAAAATTTAGATTTTAAAAAAATTAT
1 AAAAATTAAAATTTTAAAAAAATTAT
37073767 AAAAATT
1 AAAAATT
37073774 CTAAAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
AAAAATTAAAATTTTAAAAAAATTAT
Found at i:37073819 original size:29 final size:28
Alignment explanation
Indices: 37073768--37073826 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
37073758 AAAAATTATA
*
37073768 AAAATTCTAAAAAAATTATTAAAAAAGTT
1 AAAATTCTAAAAAAATTACTAAAAAA-TT
*
37073797 AAAATTTTAAAAAAAATT-CTAAAAAATT
1 AAAATTCT-AAAAAAATTACTAAAAAATT
37073825 AA
1 AA
37073827 TTTTGGGGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 4 0.15
29 14 0.52
30 9 0.33
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (28 bp):
AAAATTCTAAAAAAATTACTAAAAAATT
Found at i:37073826 original size:20 final size:20
Alignment explanation
Indices: 37073757--37073826 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
37073747 TTAGATTTTA
*
37073757 AAAAAATT-ATAAAAATTCT
1 AAAAAATTAAAAAAAATTCT
* *
37073776 AAAAAAATTATTAAAAAAGT-T
1 -AAAAAATTA-AAAAAAATTCT
**
37073797 AAAATTTTAAAAAAAATTCT
1 AAAAAATTAAAAAAAATTCT
37073817 AAAAAATTAA
1 AAAAAATTAA
37073827 TTTTGGGGAC
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 7 0.18
20 24 0.63
21 1 0.03
22 6 0.16
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (20 bp):
AAAAAATTAAAAAAAATTCT
Found at i:37073921 original size:16 final size:16
Alignment explanation
Indices: 37073902--37073933 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37073892 TCTTTGAAAA
37073902 AATTTCAAATATATAT
1 AATTTCAAATATATAT
*
37073918 AATTTCAAATTTATAT
1 AATTTCAAATATATAT
37073934 GCTCTAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTTCAAATATATAT
Found at i:37075819 original size:16 final size:17
Alignment explanation
Indices: 37075787--37075819 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37075777 ATAAAAACTT
37075787 CAAAATAAATATTTTTA
1 CAAAATAAATATTTTTA
*
37075804 CAAAATACAT-TTTTTA
1 CAAAATAAATATTTTTA
37075820 TTTTAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (17 bp):
CAAAATAAATATTTTTA
Found at i:37079925 original size:12 final size:12
Alignment explanation
Indices: 37079908--37079944 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
37079898 ACAATTCGTA
37079908 TCACTTTCAATT
1 TCACTTTCAATT
*
37079920 TCACTTTCACTT
1 TCACTTTCAATT
37079932 TCACTTTCAATT
1 TCACTTTCAATT
37079944 T
1 T
37079945 TGATCACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (12 bp):
TCACTTTCAATT
Found at i:37079927 original size:6 final size:6
Alignment explanation
Indices: 37079908--37079940 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
37079898 ACAATTCGTA
*
37079908 TCACTT TCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCA
37079941 ATTTTGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.48
Consensus pattern (6 bp):
TCACTT
Found at i:37083766 original size:25 final size:23
Alignment explanation
Indices: 37083738--37083783 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
37083728 GTTGGATCCA
37083738 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
*
37083763 AATTAAATCTAAATAATAATT
1 AATTAAATCTAAAAAATAATT
37083784 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:37083867 original size:13 final size:13
Alignment explanation
Indices: 37083846--37083879 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
37083836 TAAATAATAT
37083846 AATAATAATCCTA
1 AATAATAATCCTA
*
37083859 AATATTAATCCTA
1 AATAATAATCCTA
*
37083872 AAAAATAA
1 AATAATAA
37083880 ATTTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:37084840 original size:15 final size:14
Alignment explanation
Indices: 37084822--37084871 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
37084812 TTTTTCTCAA
37084822 TTTTTTCAATTCTTT
1 TTTTTTC-ATTCTTT
*
37084837 TTTTTTCATTTTTT
1 TTTTTTCATTCTTT
*
37084851 TTCTTTTC-TACTTT
1 TT-TTTTCATTCTTT
37084865 TTTTTTC
1 TTTTTTC
37084872 TAAATAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 5 0.16
14 14 0.45
15 12 0.39
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTTCATTCTTT
Found at i:37084851 original size:14 final size:15
Alignment explanation
Indices: 37084822--37084870 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
37084812 TTTTTCTCAA
*
37084822 TTTTTTCAATTCTTT
1 TTTTTTCAATTTTTT
37084837 TTTTTTC-ATTTTTT
1 TTTTTTCAATTTTTT
*
37084851 TTCTTTTCTACTTTTTT
1 TT-TTTTC-AATTTTTT
37084868 TTT
1 TTT
37084871 CTAAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 8 0.28
15 12 0.41
16 1 0.03
17 8 0.28
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTCAATTTTTT
Found at i:37084859 original size:25 final size:24
Alignment explanation
Indices: 37084796--37084869 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 24
37084786 TCAAACACAC
*
37084796 TTTTGTCTTCTTCTTTTTTTTCTCAA
1 TTTTTTCTT-TTCTTTTTTTT-TCAA
** *
37084822 TTTTTTCAATTCTTTTTTTTTCATT
1 TTTTTTCTTTTCTTTTTTTTTCA-A
37084847 TTTTTTCTTTTCTACTTTTTTTT
1 TTTTTTCTTTTCT--TTTTTTTT
37084870 TCTAAATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 3 0.08
25 22 0.56
26 6 0.15
27 8 0.21
ACGTcount: A:0.08, C:0.15, G:0.01, T:0.76
Consensus pattern (24 bp):
TTTTTTCTTTTCTTTTTTTTTCAA
Found at i:37085816 original size:5 final size:6
Alignment explanation
Indices: 37085802--37085844 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
37085792 GTGCATAATT
* * *
37085802 AAAATA AAAAT- AAAATA AAACTA AAAATG AAAATG AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
37085845 TATATTAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:37089618 original size:25 final size:23
Alignment explanation
Indices: 37089590--37089636 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
37089580 AGTTGGATCC
37089590 AAATTAAATTCTAAAAAGATAATTT
1 AAATTAAA-TCTAAAAA-ATAATTT
*
37089615 AAATTAAATCTAAATAATAATT
1 AAATTAAATCTAAAAAATAATT
37089637 CCCTAATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATTAAATCTAAAAAATAATTT
Found at i:37092082 original size:20 final size:20
Alignment explanation
Indices: 37091974--37092075 Score: 141
Period size: 20 Copynumber: 5.1 Consensus size: 20
37091964 GTGCATTCTA
* *
37091974 TGTATCAAGCTTTATGCCGG
1 TGTATCAGGCTTTGTGCCGG
*
37091994 TGTATCAGGCTTGGTGCCGG
1 TGTATCAGGCTTTGTGCCGG
* **
37092014 TGTATCAAGCTTTGTGCTAG
1 TGTATCAGGCTTTGTGCCGG
*
37092034 TGTATCAGGTTTTGTGCCGG
1 TGTATCAGGCTTTGTGCCGG
37092054 TGTATCAGGCTTTGTGCCGG
1 TGTATCAGGCTTTGTGCCGG
37092074 TG
1 TG
37092076 ATTCAGGAAC
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.14, C:0.18, G:0.32, T:0.36
Consensus pattern (20 bp):
TGTATCAGGCTTTGTGCCGG
Found at i:37093339 original size:15 final size:15
Alignment explanation
Indices: 37093302--37093340 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
37093292 TTATGTGTGC
*
37093302 TTAATTCTTGAGTTA
1 TTAATTCTTGAGATA
*
37093317 GT-ATTCTTGAGATA
1 TTAATTCTTGAGATA
37093331 TTAATTCTTG
1 TTAATTCTTG
37093341 TTTGATGTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.51
Consensus pattern (15 bp):
TTAATTCTTGAGATA
Found at i:37099630 original size:28 final size:27
Alignment explanation
Indices: 37099590--37099642 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
37099580 TTAACCCACC
* *
37099590 AATTTATATCTAAACTATATTTTTTTCA
1 AATTGATACCTAAA-TATATTTTTTTCA
*
37099618 AATTGATACCTAAATATTTTTTTTT
1 AATTGATACCTAAATATATTTTTTT
37099643 TATCATAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (27 bp):
AATTGATACCTAAATATATTTTTTTCA
Found at i:37100096 original size:17 final size:16
Alignment explanation
Indices: 37100074--37100107 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
37100064 TAATTTTCTC
37100074 TATTTTT-TAATATTTT
1 TATTTTTATAA-ATTTT
37100090 TATTTTTATAAATTTT
1 TATTTTTATAAATTTT
37100106 TA
1 TA
37100108 ATAATTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTTTATAAATTTT
Found at i:37104199 original size:22 final size:23
Alignment explanation
Indices: 37104151--37104199 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
37104141 TCTTAAATTT
* *
37104151 TAAATCTTATAAACTTTTAATCA
1 TAAATCTTATAAACTTTAAACCA
* *
37104174 TAAAT-TTTTAAACTTTAAACCC
1 TAAATCTTATAAACTTTAAACCA
37104196 TAAA
1 TAAA
37104200 CCCAACCTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATCTTATAAACTTTAAACCA
Found at i:37105037 original size:18 final size:19
Alignment explanation
Indices: 37105014--37105054 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
37105004 TTTTTCGAAG
*
37105014 TATTTTTG-GATAAAAAAT
1 TATTTTTGAGATAAAAAAA
37105032 TATTTTTGAGATAAAAAAA
1 TATTTTTGAGATAAAAAAA
37105051 TATT
1 TATT
37105055 GTTAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (19 bp):
TATTTTTGAGATAAAAAAA
Found at i:37105063 original size:18 final size:19
Alignment explanation
Indices: 37105023--37105064 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
37105013 GTATTTTTGG
* * *
37105023 ATAAAAAATTATTTTTGAG
1 ATAAAAAAATATTGTTGAA
37105042 ATAAAAAAATATTGTT-AA
1 ATAAAAAAATATTGTTGAA
37105060 ATAAA
1 ATAAA
37105065 TTTTTTTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
ATAAAAAAATATTGTTGAA
Found at i:37105097 original size:16 final size:17
Alignment explanation
Indices: 37105014--37105123 Score: 75
Period size: 18 Copynumber: 6.3 Consensus size: 17
37105004 TTTTTCGAAG
* *
37105014 TATTTTTGGATAAAAAAT
1 TATTTTT-GAAAAAAAAA
37105032 TATTTTTGAGATAAAAAAA
1 TATTTTTGA-A-AAAAAAA
* *
37105051 TATTGTT---AAATAAA
1 TATTTTTGAAAAAAAAA
*
37105065 TTTTTTTGAACTTAAAAAAA
1 TATTTTTGAA---AAAAAAA
*
37105085 TATTTTT-CAAAAAAAA
1 TATTTTTGAAAAAAAAA
37105101 TATTTTTGAAACAAAAAA
1 TATTTTTGAAA-AAAAAA
37105119 TATTT
1 TATTT
37105124 CGCATTTATA
Statistics
Matches: 72, Mismatches: 10, Indels: 20
0.71 0.10 0.20
Matches are distributed among these distances:
14 11 0.15
16 14 0.19
17 4 0.06
18 18 0.25
19 13 0.18
20 12 0.17
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
TATTTTTGAAAAAAAAA
Found at i:37105116 original size:18 final size:16
Alignment explanation
Indices: 37105078--37105123 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
37105068 TTTTGAACTT
*
37105078 AAAAAAATATTTTTCA
1 AAAAAAATATTTTTAA
37105094 AAAAAAATATTTTTGAA
1 AAAAAAATATTTTT-AA
37105111 ACAAAAAATATTT
1 A-AAAAAATATTT
37105124 CGCATTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 14 0.52
17 2 0.07
18 11 0.41
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (16 bp):
AAAAAAATATTTTTAA
Found at i:37105163 original size:8 final size:8
Alignment explanation
Indices: 37105150--37105176 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
37105140 GATTTGATTG
37105150 ATTAAATA
1 ATTAAATA
37105158 ATTAAATA
1 ATTAAATA
37105166 ATTAAATA
1 ATTAAATA
37105174 ATT
1 ATT
37105177 GTATATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATTAAATA
Found at i:37109625 original size:2 final size:2
Alignment explanation
Indices: 37109618--37109642 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37109608 TTCCGGTCTG
37109618 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
37109643 GAATAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37114414 original size:17 final size:17
Alignment explanation
Indices: 37114408--37114458 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
37114398 TTTTTAAAAA
*
37114408 TTTATAAATTTATAAAT
1 TTTAAAAATTTATAAAT
* *
37114425 TTTCAAAATTTATATATT
1 TTTAAAAATTTATA-AAT
*
37114443 TTTAAAAATATATAAA
1 TTTAAAAATTTATAAA
37114459 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTAAAAATTTATAAAT
Found at i:37114427 original size:25 final size:25
Alignment explanation
Indices: 37114394--37114448 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
37114384 AAGTTTCAAA
*
37114394 ATAATTTTTAAAAATTTATAAATTT
1 ATAAATTTTAAAAATTTATAAATTT
* *
37114419 ATAAATTTTCAAAATTTATATATTT
1 ATAAATTTTAAAAATTTATAAATTT
*
37114444 TTAAA
1 ATAAA
37114449 AATATATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
ATAAATTTTAAAAATTTATAAATTT
Found at i:37115979 original size:6 final size:6
Alignment explanation
Indices: 37115968--37115992 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37115958 TTGAACTATA
37115968 AAAGAG AAAGAG AAAGAG AAAGAG A
1 AAAGAG AAAGAG AAAGAG AAAGAG A
37115993 GTTTTCGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:37119507 original size:21 final size:21
Alignment explanation
Indices: 37119463--37119507 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
37119453 CATAATATGA
*
37119463 AAAATAAAATAAAAATTAAAT
1 AAAATAAAATAAAAAATAAAT
*
37119484 AAAATAAAA-AAACAAATAACT
1 AAAATAAAATAAA-AAATAAAT
37119505 AAA
1 AAA
37119508 CATATGGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAATAAAATAAAAAATAAAT
Found at i:37137557 original size:18 final size:17
Alignment explanation
Indices: 37137530--37137571 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
37137520 TAATTCACCA
37137530 AAAATAATAATAAA-ATT
1 AAAATAATAA-AAATATT
37137547 AAAATATATAAAAATATT
1 AAAATA-ATAAAAATATT
37137565 AAAATAA
1 AAAATAA
37137572 AGTCTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATAATAAAAATATT
Found at i:37148487 original size:11 final size:9
Alignment explanation
Indices: 37148450--37148491 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
37148440 AAATATTCAA
37148450 AAAAATTAT
1 AAAAATTAT
37148459 --AAATTAT
1 AAAAATTAT
37148466 AAAAATTAT
1 AAAAATTAT
37148475 AAACAATTTAT
1 AAA-AA-TTAT
37148486 AAAAAT
1 AAAAAT
37148492 AAAAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
7 7 0.24
9 11 0.38
10 4 0.14
11 7 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:37152608 original size:7 final size:7
Alignment explanation
Indices: 37152596--37152643 Score: 60
Period size: 7 Copynumber: 6.3 Consensus size: 7
37152586 TAACTCTATT
37152596 TTAAATC
1 TTAAATC
37152603 TTAAATC
1 TTAAATC
37152610 TTAAATC
1 TTAAATC
37152617 TTAAATC
1 TTAAATC
37152624 TATACTAGATC
1 T-TA--A-ATC
37152635 TTAAATC
1 TTAAATC
37152642 TT
1 TT
37152644 TTCTTCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
7 27 0.73
8 3 0.08
10 3 0.08
11 4 0.11
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.44
Consensus pattern (7 bp):
TTAAATC
Found at i:37153624 original size:17 final size:17
Alignment explanation
Indices: 37153598--37153679 Score: 103
Period size: 17 Copynumber: 4.8 Consensus size: 17
37153588 TTTAAATTTG
*
37153598 AAAATAAATTTAAGCTT
1 AAAATAAATTTAATCTT
*
37153615 AAATTAAATTTAAAT-TT
1 AAAATAAATTT-AATCTT
* *
37153632 TAAATAAATTTAAATTTT
1 AAAATAAATTT-AATCTT
37153650 AAAATAAATTTAATCTT
1 AAAATAAATTTAATCTT
37153667 AAAATAAATTTAA
1 AAAATAAATTTAA
37153680 AATGGGTTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
17 43 0.75
18 14 0.25
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (17 bp):
AAAATAAATTTAATCTT
Found at i:37153638 original size:52 final size:53
Alignment explanation
Indices: 37153577--37153680 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 53
37153567 TAAGTGTGAA
* *
37153577 TTTATAATAATTTTAAATTTGAAAATAAATTTAAGCTTAAATTAAATTTAAAT
1 TTTATAATAAATTTAAATTTGAAAATAAATTTAAGCTTAAAATAAATTTAAAT
* *
37153630 TTTA-AATAAATTTAAATTTTAAAATAAATTTAATCTTAAAATAAATTTAAA
1 TTTATAATAAATTTAAATTTGAAAATAAATTTAAGCTTAAAATAAATTTAAA
37153681 ATGGGTTTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 43 0.91
53 4 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (53 bp):
TTTATAATAAATTTAAATTTGAAAATAAATTTAAGCTTAAAATAAATTTAAAT
Found at i:37153652 original size:35 final size:35
Alignment explanation
Indices: 37153582--37153680 Score: 121
Period size: 35 Copynumber: 2.8 Consensus size: 35
37153572 GTGAATTTAT
*
37153582 AATAATTTTAAATTTGAAAATAAATTT-AAGCTTAA
1 AATAAATTTAAATTT-AAAATAAATTTAAAGCTTAA
* * **
37153617 ATTAAATTTAAATTTTAAATAAATTTAAATTTTAA
1 AATAAATTTAAATTTAAAATAAATTTAAAGCTTAA
37153652 AATAAATTT-AATCTTAAAATAAATTTAAA
1 AATAAATTTAAAT-TTAAAATAAATTTAAA
37153681 ATGGGTTTGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
34 13 0.24
35 42 0.76
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (35 bp):
AATAAATTTAAATTTAAAATAAATTTAAAGCTTAA
Found at i:37158010 original size:30 final size:30
Alignment explanation
Indices: 37157976--37158035 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
37157966 GGGCTGAGTC
37157976 AACGTTGTTAACAATTAACTATCAAACATA
1 AACGTTGTTAACAATTAACTATCAAACATA
37158006 AACGTTGTTAACAATTAACTATCAAACATA
1 AACGTTGTTAACAATTAACTATCAAACATA
37158036 GATTATGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (30 bp):
AACGTTGTTAACAATTAACTATCAAACATA
Found at i:37158325 original size:22 final size:22
Alignment explanation
Indices: 37158300--37158360 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
37158290 AAAAAATTGA
*
37158300 TGTTTTCCCACTGTTTTGTTGC
1 TGTTTTCTCACTGTTTTGTTGC
* * *
37158322 TGTTTTCTCACTATATTGTTGT
1 TGTTTTCTCACTGTTTTGTTGC
*
37158344 TGTTTTCTCATTGTTTT
1 TGTTTTCTCACTGTTTT
37158361 ACCGTCATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.08, C:0.16, G:0.15, T:0.61
Consensus pattern (22 bp):
TGTTTTCTCACTGTTTTGTTGC
Found at i:37164724 original size:2 final size:2
Alignment explanation
Indices: 37164717--37164754 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
37164707 TATTTCACCA
37164717 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37164755 GAATCTTGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37168900 original size:34 final size:35
Alignment explanation
Indices: 37168831--37168907 Score: 120
Period size: 34 Copynumber: 2.2 Consensus size: 35
37168821 AGTAAACAAC
* *
37168831 ATTTGGGTAAGATAAAAGGTAAAAAAATTAAAAAT
1 ATTTGGGTAAAATAAAAGATAAAAAAATTAAAAAT
*
37168866 ATTTGGGTAAAATAAAAGAT-AAAAGATTAAAAAT
1 ATTTGGGTAAAATAAAAGATAAAAAAATTAAAAAT
37168900 ATTTGGGT
1 ATTTGGGT
37168908 TTATTTTATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 21 0.54
35 18 0.46
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (35 bp):
ATTTGGGTAAAATAAAAGATAAAAAAATTAAAAAT
Found at i:37171628 original size:57 final size:59
Alignment explanation
Indices: 37171566--37171680 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 59
37171556 AAAAGAACTA
*
37171566 AAAACTATTTCATTT-AAAAAAATCTGAG-TATAAAAGGGGAACTTTT-GATTGGTGCAC
1 AAAACTATTTCATTTAAAAAAAATCTGAGCTATAAAAGAGGAA-TTTTCGATTGGTGCAC
* * *
37171623 AAAACTATTTCATTTAAAAAAAATCTGTGCTATAGAAGATGAATTTTCGATTGGTGCA
1 AAAACTATTTCATTTAAAAAAAATCTGAGCTATAAAAGAGGAATTTTCGATTGGTGCA
37171681 AACGTTGTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
57 15 0.29
58 16 0.31
59 20 0.39
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (59 bp):
AAAACTATTTCATTTAAAAAAAATCTGAGCTATAAAAGAGGAATTTTCGATTGGTGCAC
Found at i:37182485 original size:28 final size:29
Alignment explanation
Indices: 37182427--37182488 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
37182417 TTGAAATTAT
** *
37182427 ATAAATAAGTTTTTTAAATATATATATAA
1 ATAAATAAAATTTTAAAATATATATATAA
* *
37182456 ATAAATAAAATTTTAAAATCTATTTA-AA
1 ATAAATAAAATTTTAAAATATATATATAA
37182484 ATAAA
1 ATAAA
37182489 ATATTAATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (29 bp):
ATAAATAAAATTTTAAAATATATATATAA
Found at i:37183572 original size:28 final size:27
Alignment explanation
Indices: 37183535--37183597 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
37183525 TATAAGATAC
* *
37183535 AATAATTTTTTACTATTGTA-AATTTTT
1 AATATTTTTTTAC-ATTGTATAATTTCT
*
37183562 AAATATTTTTTTACATTTTATAATTTCT
1 -AATATTTTTTTACATTGTATAATTTCT
37183590 AATATTTT
1 AATATTTT
37183598 AAATATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
AATATTTTTTTACATTGTATAATTTCT
Found at i:37183630 original size:39 final size:37
Alignment explanation
Indices: 37183558--37183649 Score: 123
Period size: 36 Copynumber: 2.4 Consensus size: 37
37183548 TATTGTAAAT
*
37183558 TTTTAAATATTTTTTTACATTTTATAATTTCTAAT-A
1 TTTTAAATATTTTTTTACATTTTACAATTTCTAATAA
37183594 TTTTAAATATTTTTTTACAATATTTTACAATTTCTAATAA
1 TTTTAAATATTTTTTTAC---ATTTTACAATTTCTAATAA
*
37183634 TTTTGATATATTTTTT
1 TTTT-AAATATTTTTT
37183650 ATATTTTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
36 18 0.37
39 16 0.33
40 5 0.10
41 10 0.20
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (37 bp):
TTTTAAATATTTTTTTACATTTTACAATTTCTAATAA
Found at i:37184262 original size:22 final size:22
Alignment explanation
Indices: 37184221--37184263 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
37184211 ATAAAAACTA
*
37184221 AAAAAAAAACAAAATGTAAAAG
1 AAAAAAAAACAAAATATAAAAG
**
37184243 AAAAAAAAACTGAATATAAAA
1 AAAAAAAAACAAAATATAAAA
37184264 AAGAAAGGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.12
Consensus pattern (22 bp):
AAAAAAAAACAAAATATAAAAG
Found at i:37184641 original size:60 final size:60
Alignment explanation
Indices: 37184569--37184726 Score: 167
Period size: 59 Copynumber: 2.6 Consensus size: 60
37184559 TTGGTACCTA
* * * *
37184569 AACTTGATATTTTTTTTCTAATTTAGTGCTTAAACTTTTTTTGA-CCTAATTTGATACTTG
1 AACTTGACATTTTTTTTCTAATTTAGTACCTAAACTTTTATTGATCC-AATTTGATACTTG
* * * * *
37184629 AATTTGACATTTTTTCT-TGATTTGGTACCTAAACTTTTATTGATCCAATTTGGTACTTG
1 AACTTGACATTTTTTTTCTAATTTAGTACCTAAACTTTTATTGATCCAATTTGATACTTG
* * * * *
37184688 AACTTAACATTTTTTTCCTAATTTGGCACCTAAATTTTT
1 AACTTGACATTTTTTTTCTAATTTAGTACCTAAACTTTT
37184727 TTCTAGATTC
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
59 46 0.57
60 34 0.43
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (60 bp):
AACTTGACATTTTTTTTCTAATTTAGTACCTAAACTTTTATTGATCCAATTTGATACTTG
Found at i:37184992 original size:32 final size:30
Alignment explanation
Indices: 37184950--37185055 Score: 110
Period size: 32 Copynumber: 3.5 Consensus size: 30
37184940 AGACCCTAAA
* *
37184950 AAGTTGAAGTATCAATTTTAAGAAAAAATGTC
1 AAGTTTAAGTATCAATTTTGA-AAAAAAT-TC
*
37184982 AAGTTTAAGTATCAATTTGGATAAAAAA---
1 AAGTTTAAGTATCAATTTTGA-AAAAAATTC
*
37185010 AAGTTTAAGTATCAAATTTGAAAAAAATATC
1 AAGTTTAAGTATCAATTTTGAAAAAAAT-TC
*
37185041 AAATTTAAGTATCAA
1 AAGTTTAAGTATCAA
37185056 ATATTATATT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
27 6 0.10
28 19 0.30
31 14 0.22
32 24 0.38
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (30 bp):
AAGTTTAAGTATCAATTTTGAAAAAAATTC
Found at i:37185016 original size:28 final size:29
Alignment explanation
Indices: 37184950--37185055 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 29
37184940 AGACCCTAAA
* * *
37184950 AAGTTGAAGTATCAATTTTAAGAAAAAATGTC
1 AAGTTTAAGTATCAA-TTTGA-AAAAAAT-AC
*
37184982 AAGTTTAAGTATCAATTTGGATAAAAA-A-
1 AAGTTTAAGTATCAATTT-GAAAAAAATAC
37185010 AAGTTTAAGTATCAAATTTGAAAAAAATATC
1 AAGTTTAAGTATC-AATTTGAAAAAAATA-C
*
37185041 AAATTTAAGTATCAA
1 AAGTTTAAGTATCAA
37185056 ATATTATATT
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
28 20 0.32
29 6 0.10
30 2 0.03
31 20 0.32
32 15 0.24
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (29 bp):
AAGTTTAAGTATCAATTTGAAAAAAATAC
Found at i:37185479 original size:32 final size:31
Alignment explanation
Indices: 37185433--37185504 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
37185423 TAATAAAAAT
*
37185433 AAAATTATATTTTAACCCTTTTAAAAA-TGATA
1 AAAATTATAATTTAA-CCTTTTAAAAACT-ATA
* *
37185465 AAAATTTTAATTTAATCTTTTAAAAACTATA
1 AAAATTATAATTTAACCTTTTAAAAACTATA
37185496 AAAA-TATAA
1 AAAATTATAA
37185505 AAAAAATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 4 0.11
31 17 0.49
32 14 0.40
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.40
Consensus pattern (31 bp):
AAAATTATAATTTAACCTTTTAAAAACTATA
Found at i:37196543 original size:17 final size:17
Alignment explanation
Indices: 37196510--37196543 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
37196500 ATTTCAGTCA
37196510 ATAAAAAATAAAGTATT
1 ATAAAAAATAAAGTATT
37196527 ATAAACAAATAAA-TATT
1 ATAAA-AAATAAAGTATT
37196544 TAATAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
ATAAAAAATAAAGTATT
Found at i:37197373 original size:12 final size:13
Alignment explanation
Indices: 37197356--37197387 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
37197346 TACATACCCA
37197356 ATATAAAATA-TT
1 ATATAAAATACTT
37197368 ATATAAAATACTT
1 ATATAAAATACTT
37197381 -TATAAAA
1 ATATAAAA
37197388 AAATTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 17 0.89
13 2 0.11
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATAAAATACTT
Found at i:37209844 original size:21 final size:21
Alignment explanation
Indices: 37209820--37209859 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
37209810 TTAAAATCAT
37209820 AAAAAGA-TATTAAAAAATAAG
1 AAAAAGATTA-TAAAAAATAAG
*
37209841 AAAAATATTATAAAAAATA
1 AAAAAGATTATAAAAAATA
37209860 TTTAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAAAGATTATAAAAAATAAG
Found at i:37209873 original size:17 final size:18
Alignment explanation
Indices: 37209844--37209914 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
37209834 AAATAAGAAA
37209844 AATATTATAAAAAATATTT
1 AATATTAT-AAAAATATTT
37209863 AATATTA-AAAAATA-TT
1 AATATTATAAAAATATTT
* * *
37209879 AAAATTGATATAAATTTATT
1 AATATT-ATAAAAATAT-TT
37209899 AATATTATAAAAATAT
1 AATATTATAAAAATAT
37209915 AAAAAACTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
16 7 0.17
17 8 0.19
18 5 0.12
19 15 0.36
20 7 0.17
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (18 bp):
AATATTATAAAAATATTT
Found at i:37209891 original size:38 final size:36
Alignment explanation
Indices: 37209826--37209928 Score: 95
Period size: 38 Copynumber: 2.8 Consensus size: 36
37209816 TCATAAAAAG
37209826 ATATTAAAAAATA-AGAAAAATATTATAAAAAATATTTA
1 ATATTAAAAAATATA-AAAAATATTAT-AAAAATA-TTA
* * **
37209864 ATATTAAAAAATATTAAAATTGA-TATAAATTTATTA
1 ATATTAAAAAATATAAAAAAT-ATTATAAAAATATTA
*
37209900 ATATTATAAAAATATAAAAAA-CTTATAAA
1 ATATTA-AAAAATATAAAAAATATTATAAA
37209929 TATTATAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
36 15 0.28
37 17 0.31
38 21 0.39
39 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (36 bp):
ATATTAAAAAATATAAAAAATATTATAAAAATATTA
Found at i:37213610 original size:25 final size:25
Alignment explanation
Indices: 37213577--37213648 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
37213567 TTTATTTTTA
37213577 AATATTAATATAATTATTTTTATTT
1 AATATTAATATAATTATTTTTATTT
* *
37213602 AATATTAATATAAATA-ATTTATTT
1 AATATTAATATAATTATTTTTATTT
* *
37213626 AATTTTTATAATAATTATTTTTA
1 AATATTAAT-ATAATTATTTTTA
37213649 ATAATTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 14 0.36
25 21 0.54
26 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
AATATTAATATAATTATTTTTATTT
Found at i:37213645 original size:24 final size:24
Alignment explanation
Indices: 37213568--37213645 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
37213558 CGGGAGGTTT
* *
37213568 TTATTT-TTAAATATTAAT-ATAA
1 TTATTTATTTAATATTTATAATAA
*
37213590 TTATTTTTATTTAATATTAAT-ATAAA
1 TTA--TTTATTTAATATTTATAAT-AA
* *
37213616 TAATTTATTTAATTTTTATAATAA
1 TTATTTATTTAATATTTATAATAA
37213640 TTATTT
1 TTATTT
37213646 TTAATAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
22 3 0.07
24 24 0.52
25 15 0.33
26 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTTATTTAATATTTATAATAA
Found at i:37213656 original size:24 final size:25
Alignment explanation
Indices: 37213586--37213657 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 25
37213576 AAATATTAAT
*
37213586 ATAATTATTTTTATTTAATATTAATATAA
1 ATAATTATTTTTA-ATAAT-TT--TATAA
*
37213615 ATAATT-TATTTAAT--TTTTAT-A
1 ATAATTATTTTTAATAATTTTATAA
37213636 ATAATTATTTTTAATAATTTTA
1 ATAATTATTTTTAATAATTTTA
37213658 ATTTATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
21 7 0.19
22 10 0.27
24 7 0.19
25 1 0.03
27 1 0.03
28 5 0.14
29 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATAATTATTTTTAATAATTTTATAA
Found at i:37213661 original size:16 final size:16
Alignment explanation
Indices: 37213621--37213661 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
37213611 ATAAATAATT
37213621 TATTTAATTTTTATAA
1 TATTTAATTTTTATAA
*
37213637 TAATT-ATTTTTAATAA
1 TATTTAATTTTT-ATAA
37213653 T-TTTAATTT
1 TATTTAATTT
37213662 ATTTTTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTAATTTTTATAA
Found at i:37213676 original size:20 final size:20
Alignment explanation
Indices: 37213640--37213678 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37213630 TTTATAATAA
*
37213640 TTATTTTTAATAATTTTAAT
1 TTATTTTTAAGAATTTTAAT
*
37213660 TTATTTTTAAGATTTTTAA
1 TTATTTTTAAGAATTTTAA
37213679 ATGCTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTATTTTTAAGAATTTTAAT
Found at i:37216034 original size:21 final size:19
Alignment explanation
Indices: 37216010--37216051 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
37216000 TAGTTTTTAA
*
37216010 TGTAACTATGTTAATTTAGTT
1 TGTAACT-TGTTAACTT-GTT
37216031 TGTAACTTGTTAACTTGTT
1 TGTAACTTGTTAACTTGTT
37216050 TG
1 TG
37216052 GTTATGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 8 0.40
21 7 0.35
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.52
Consensus pattern (19 bp):
TGTAACTTGTTAACTTGTT
Found at i:37226947 original size:2 final size:2
Alignment explanation
Indices: 37226940--37226976 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
37226930 AGCACAAACC
37226940 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
37226977 TGTTGATGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37227069 original size:7 final size:7
Alignment explanation
Indices: 37227031--37227068 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
37227021 GAAATGAATT
37227031 GAGACTG
1 GAGACTG
37227038 GAGACTG
1 GAGACTG
37227045 GAGACTG
1 GAGACTG
37227052 GAGACTG
1 GAGACTG
*
37227059 GAGGCTG
1 GAGACTG
37227066 GAG
1 GAG
37227069 GAATCAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.26, C:0.13, G:0.47, T:0.13
Consensus pattern (7 bp):
GAGACTG
Found at i:37228411 original size:49 final size:49
Alignment explanation
Indices: 37228337--37228434 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
37228327 ATGCCTTATT
37228337 TTTAAAATATTTTACTATACCCCTGTAGAACACTTGTTAACTCTTGGTC
1 TTTAAAATATTTTACTATACCCCTGTAGAACACTTGTTAACTCTTGGTC
*
37228386 TTTAAAATATTTTACTATACTCCTGTAGAACACTTGTTAACTCTTGGTC
1 TTTAAAATATTTTACTATACCCCTGTAGAACACTTGTTAACTCTTGGTC
37228435 CTGTTTGTCG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (49 bp):
TTTAAAATATTTTACTATACCCCTGTAGAACACTTGTTAACTCTTGGTC
Found at i:37228839 original size:46 final size:46
Alignment explanation
Indices: 37228772--37228863 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
37228762 TTACTCAGAA
37228772 TTAAAACCCAAACCCCTTAGAAGCATTTCGAATA-TCTGGATACCAC
1 TTAAAACCCAAACCCCTTAGAAGCATTTCGAATACT-TGGATACCAC
37228818 TTAAAACCCAAACCCCTTAGAAGCATTTCGAATACTTGGATACCAC
1 TTAAAACCCAAACCCCTTAGAAGCATTTCGAATACTTGGATACCAC
37228864 CACTATTCCA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 44 0.98
47 1 0.02
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.24
Consensus pattern (46 bp):
TTAAAACCCAAACCCCTTAGAAGCATTTCGAATACTTGGATACCAC
Found at i:37229707 original size:58 final size:56
Alignment explanation
Indices: 37229585--37229803 Score: 284
Period size: 55 Copynumber: 3.9 Consensus size: 56
37229575 GCTACGTAAT
37229585 AATCGATTTAAACATATAAATAATCGATTCAAAAGAA-ATAG-TATTCTAACATAAC
1 AATCGATTTAAACATATAAATAATCGATTCAAAAGAAGA-AGATATTCTAACATAAC
* * * *
37229640 AATTGATTTAAACATATAAAAAATCGATTCAAAAGAAGAAGCATTATTTTATCATAAC
1 AATCGATTTAAACATATAAATAATCGATTCAAAAGAAGAAG-A-TATTCTAACATAAC
* * *
37229698 AATCGATTTAAACATATAAACAATCGATTCAAAAGAAGTA-ATATTCCAACATAAC
1 AATCGATTTAAACATATAAATAATCGATTCAAAAGAAGAAGATATTCTAACATAAC
* * * *
37229753 AATCGATATAAACATATAAATAATCGATTCGAAAGAAGCAG-TATTCCAACA
1 AATCGATTTAAACATATAAATAATCGATTCAAAAGAAGAAGATATTCTAACA
37229804 ATTAAGAAGA
Statistics
Matches: 145, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
55 94 0.65
56 2 0.01
58 49 0.34
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.27
Consensus pattern (56 bp):
AATCGATTTAAACATATAAATAATCGATTCAAAAGAAGAAGATATTCTAACATAAC
Found at i:37229788 original size:113 final size:113
Alignment explanation
Indices: 37229585--37229790 Score: 340
Period size: 113 Copynumber: 1.8 Consensus size: 113
37229575 GCTACGTAAT
* * * * *
37229585 AATCGATTTAAACATATAAATAATCGATTCAAAAGAAATAGTATTCTAACATAACAATTGATTTA
1 AATCGATTTAAACATATAAACAATCGATTCAAAAGAAATAATATTCCAACATAACAATCGATATA
37229650 AACATATAAAAAATCGATTCAAAAGAAGAAGCATTATTTTATCATAAC
66 AACATATAAAAAATCGATTCAAAAGAAGAAGCATTATTTTATCATAAC
*
37229698 AATCGATTTAAACATATAAACAATCGATTCAAAAGAAGTAATATTCCAACATAACAATCGATATA
1 AATCGATTTAAACATATAAACAATCGATTCAAAAGAAATAATATTCCAACATAACAATCGATATA
* *
37229763 AACATATAAATAATCGATTCGAAAGAAG
66 AACATATAAAAAATCGATTCAAAAGAAG
37229791 CAGTATTCCA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
113 85 1.00
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.28
Consensus pattern (113 bp):
AATCGATTTAAACATATAAACAATCGATTCAAAAGAAATAATATTCCAACATAACAATCGATATA
AACATATAAAAAATCGATTCAAAAGAAGAAGCATTATTTTATCATAAC
Found at i:37233571 original size:42 final size:42
Alignment explanation
Indices: 37233491--37233574 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
37233481 CAATTGTACT
*
37233491 CTATCACTGTTCCAAATCCGATTCAAGCACGCAGATGTTACA
1 CTATCACTGTTCCAAATCCGATTCAAGAACGCAGATGTTACA
* * * *
37233533 CTATTACTGTTCCAACTCCGGTTCAATAACGC-GAATGTTACA
1 CTATCACTGTTCCAAATCCGATTCAAGAACGCAG-ATGTTACA
37233575 TTAATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 35 0.97
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (42 bp):
CTATCACTGTTCCAAATCCGATTCAAGAACGCAGATGTTACA
Found at i:37233815 original size:17 final size:18
Alignment explanation
Indices: 37233793--37233831 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37233783 TTAGCATTAT
37233793 TTTTTAT-TCAAAAATAC
1 TTTTTATATCAAAAATAC
* *
37233810 TTTTTATATGAAAAATGC
1 TTTTTATATCAAAAATAC
37233828 TTTT
1 TTTT
37233832 AAAAAATACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTTTATATCAAAAATAC
Found at i:37233997 original size:21 final size:22
Alignment explanation
Indices: 37233949--37233998 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
37233939 TTGTTTTTTC
*
37233949 TATAAAA-TAATAGTTAATCAT
1 TATAAAATTAATAGTTAATAAT
37233970 TATAAAATTAATA-TTAATTAAT
1 TATAAAATTAATAGTTAA-TAAT
37233992 TA-AAAAT
1 TATAAAAT
37233999 AGACATCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
TATAAAATTAATAGTTAATAAT
Found at i:37238130 original size:16 final size:16
Alignment explanation
Indices: 37238109--37238143 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37238099 AGAGTTGTTT
37238109 TTTATTTAATGTATTA
1 TTTATTTAATGTATTA
* *
37238125 TTTATTTATTTTATTA
1 TTTATTTAATGTATTA
37238141 TTT
1 TTT
37238144 TTCACATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTATTTAATGTATTA
Found at i:37245757 original size:61 final size:61
Alignment explanation
Indices: 37245626--37245773 Score: 197
Period size: 61 Copynumber: 2.4 Consensus size: 61
37245616 GTTCTTTCAA
* * * ** *
37245626 TTAGATTCTAAATCTAAAAAATTCAATAAATTTAGCCCTTAATGTTTATAAAACATGTCATT
1 TTAG-TTCTAATTCTAAAAAATTCAATAAATTTAGCCCTAAATGTTTACAAAACATACCAAT
* **
37245688 TTAATTCTAATTCTAAAAAATTCAATAAATTTAGCCCTAAATGTTTACAAAATTTACCAAT
1 TTAGTTCTAATTCTAAAAAATTCAATAAATTTAGCCCTAAATGTTTACAAAACATACCAAT
*
37245749 TTAGTTCTAATTCTAAAAATTTCAA
1 TTAGTTCTAATTCTAAAAAATTCAA
37245774 AATAAAAAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
61 72 0.96
62 3 0.04
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.39
Consensus pattern (61 bp):
TTAGTTCTAATTCTAAAAAATTCAATAAATTTAGCCCTAAATGTTTACAAAACATACCAAT
Found at i:37247154 original size:16 final size:17
Alignment explanation
Indices: 37247133--37247177 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
37247123 AGTTGAGTTT
37247133 AATTTATATTA-TTATA
1 AATTTATATTAGTTATA
*
37247149 AATTTATTTTATGTTATA
1 AATTTATATTA-GTTATA
*
37247167 AATATATATTA
1 AATTTATATTA
37247178 AAAATAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
18 14 0.58
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
AATTTATATTAGTTATA
Found at i:37251100 original size:10 final size:11
Alignment explanation
Indices: 37251085--37251113 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
37251075 ATAACTACAA
37251085 TTTCTTTTC-T
1 TTTCTTTTCTT
37251095 TTTCTTTTCTT
1 TTTCTTTTCTT
37251106 TTTCTTTT
1 TTTCTTTT
37251114 TCCATCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:37252267 original size:12 final size:12
Alignment explanation
Indices: 37252228--37252274 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
37252218 TCACAAACAA
37252228 ACTCGTTTATTG
1 ACTCGTTTATTG
* **
37252240 GCTCGCTTT-TAA
1 ACTCG-TTTATTG
37252252 ACTCGTTTATTG
1 ACTCGTTTATTG
37252264 ACTCGTTTATT
1 ACTCGTTTATT
37252275 TATTAATGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
11 3 0.11
12 21 0.78
13 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (12 bp):
ACTCGTTTATTG
Found at i:37252386 original size:23 final size:23
Alignment explanation
Indices: 37252360--37252415 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
37252350 TCATTAACAC
*
37252360 TGTTCGTGAACATGTTCGTTTAA
1 TGTTCGTGAACATATTCGTTTAA
* * *
37252383 TGTTCATGAACCTATTTGTTTAA
1 TGTTCGTGAACATATTCGTTTAA
37252406 TGTTCGTGAA
1 TGTTCGTGAA
37252416 TATTAAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (23 bp):
TGTTCGTGAACATATTCGTTTAA
Found at i:37260833 original size:29 final size:29
Alignment explanation
Indices: 37260778--37260834 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
37260768 GATTTTTTTT
*
37260778 AATTTGATACTTAAACTTTTTTTATGTTC
1 AATTTGATACTTAAACTTTTTTAATGTTC
37260807 AATTTGATA-TTAAA-TTTATTTAAATGTT
1 AATTTGATACTTAAACTTT-TTT-AATGTT
37260835 ATACATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 8 0.32
29 14 0.56
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.54
Consensus pattern (29 bp):
AATTTGATACTTAAACTTTTTTAATGTTC
Found at i:37261310 original size:32 final size:31
Alignment explanation
Indices: 37261242--37261322 Score: 81
Period size: 32 Copynumber: 2.6 Consensus size: 31
37261232 AATTGAACCA
* * * *
37261242 AAAAATTAAGTACCAACTTAAGAAAAATTGT
1 AAAATTTAAGTACCAAATTAAAAAAAAGTGT
* *
37261273 CAAATTTAAGTACTAAATTAAAAAAAAAGTGT
1 AAAATTTAAGTACCAAATT-AAAAAAAAGTGT
* *
37261305 AAAATTCAAATACCAAAT
1 AAAATTTAAGTACCAAAT
37261323 ATCATATTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 15 0.38
32 24 0.62
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (31 bp):
AAAATTTAAGTACCAAATTAAAAAAAAGTGT
Found at i:37273678 original size:6 final size:6
Alignment explanation
Indices: 37273667--37273724 Score: 77
Period size: 6 Copynumber: 10.2 Consensus size: 6
37273657 AATTAAATTT
*
37273667 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A-TTTA A-TTTA AATTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
*
37273713 ATATT- ATTTTA A
1 ATTTTA ATTTTA A
37273725 ATTCAAAAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
5 14 0.30
6 33 0.70
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATTTTA
Found at i:37273678 original size:11 final size:11
Alignment explanation
Indices: 37273667--37273724 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
37273657 AATTAAATTT
37273667 ATTTTAATTTTA
1 ATTTT-ATTTTA
37273679 ATTTTAATTTTA
1 ATTTT-ATTTTA
*
37273691 ATTTTAATTTA
1 ATTTTATTTTA
* *
37273702 ATTTAAATTTA
1 ATTTTATTTTA
*
37273713 ATATTATTTTA
1 ATTTTATTTTA
37273724 A
1 A
37273725 ATTCAAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 24 0.59
12 17 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTTATTTTA
Found at i:37273725 original size:17 final size:16
Alignment explanation
Indices: 37273656--37273727 Score: 81
Period size: 16 Copynumber: 4.3 Consensus size: 16
37273646 AACCATTTGA
*
37273656 AAATTAAATTTATTTT
1 AAATTTAATTTATTTT
*
37273672 AATTTTAATTTTAATTTT
1 AAATTTAA-TTT-ATTTT
* *
37273690 AATTTTAATTTAATTT
1 AAATTTAATTTATTTT
37273706 AAATTTAATATTATTTT
1 AAATTTAAT-TTATTTT
37273723 AAATT
1 AAATT
37273728 CAAAAAGAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
16 18 0.38
17 17 0.35
18 13 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AAATTTAATTTATTTT
Found at i:37273727 original size:23 final size:23
Alignment explanation
Indices: 37273650--37273727 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
37273640 GGCCCAAACC
* *
37273650 ATTTGAAAATTAAATTT-ATTTT
1 ATTTTAAATTTAAATTTAATTTT
* *
37273672 AATTTTAATTTTAATTTTAATTTT
1 -ATTTTAAATTTAAATTTAATTTT
* *
37273696 AATTT-AATTTAAATTTAATATT
1 ATTTTAAATTTAAATTTAATTTT
37273718 ATTTTAAATT
1 ATTTTAAATT
37273728 CAAAAAGAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
22 18 0.41
23 21 0.48
24 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (23 bp):
ATTTTAAATTTAAATTTAATTTT
Found at i:37274553 original size:12 final size:12
Alignment explanation
Indices: 37274538--37274562 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37274528 ACATTAATAG
37274538 TAATAATAATTT
1 TAATAATAATTT
37274550 TAATAATAATTT
1 TAATAATAATTT
37274562 T
1 T
37274563 TATTAAATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:37274558 original size:30 final size:30
Alignment explanation
Indices: 37274497--37274555 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
37274487 AACTATTTTC
* * **
37274497 AACATTAATATTATTAATATTTTTTTAAAT
1 AACATTAATAGTAATAATATTTTAATAAAT
37274527 AACATTAATAGTAATAATAATTTTAATAA
1 AACATTAATAGTAATAAT-ATTTTAATAA
37274556 TAATTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (30 bp):
AACATTAATAGTAATAATATTTTAATAAAT
Found at i:37275654 original size:61 final size:59
Alignment explanation
Indices: 37275570--37275800 Score: 259
Period size: 61 Copynumber: 3.8 Consensus size: 59
37275560 AAATTATCCA
* * *
37275570 AAAATTATATTTT-AGCCCCAAAACTTTTTGAAAATTACATTTTTGA-CCTCAAAACTTTTCT
1 AAAATTACATTTTGA-CCCTAAAACTTTTT-AAAATTACA-TTTTAACCCT-AAAACTTTTCT
* *
37275631 AAAATTTCATTTTGACCTTAAAACTTTTCTAAAATTACATTTTAACCCTAAAACTTTTCT
1 AAAATTACATTTTGACCCTAAAACTTTT-TAAAATTACATTTTAACCCTAAAACTTTTCT
* * * *
37275691 AAAATTACATTTTAACCCCAAAACTTTTTTCAATATTATATTTTAACCCTAAAACTTTTCT
1 AAAATTACATTTTGACCCTAAAAC-TTTTT-AAAATTACATTTTAACCCTAAAACTTTTCT
* * * *
37275752 AATATTACATTTTGACCCTAAAACTTTTCTAATATTATATTTTGACCCT
1 AAAATTACATTTTGACCCTAAAACTTTT-TAAAATTACATTTTAACCCT
37275801 CGAACCTTCT
Statistics
Matches: 149, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
60 59 0.40
61 88 0.59
62 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.43
Consensus pattern (59 bp):
AAAATTACATTTTGACCCTAAAACTTTTTAAAATTACATTTTAACCCTAAAACTTTTCT
Found at i:37275734 original size:91 final size:90
Alignment explanation
Indices: 37275570--37275828 Score: 301
Period size: 91 Copynumber: 2.9 Consensus size: 90
37275560 AAATTATCCA
* * * *
37275570 AAAATTATATTTTAGCCCCAAAACTTTT-TGAAAATTACATTTTTGACCTCAAAACTTTTCTAAA
1 AAAATTACATTTTAACCCTAAAACTTTTCT-AAAATTACA-TTTTGACCCCAAAACTTTTCTAAA
* *
37275634 ATTTCATTTTGACCTTAAAACTTTTCT
64 ATTTCATTTTAACCCTAAAACTTTTCT
* * *
37275661 AAAATTACATTTTAACCCTAAAACTTTTCTAAAATTACATTTTAACCCCAAAACTTTTTTCAATA
1 AAAATTACATTTTAACCCTAAAACTTTTCTAAAATTACATTTTGACCCCAAAACTTTTCT-AAAA
37275726 TTAT-ATTTTAACCCTAAAACTTTTCT
65 TT-TCATTTTAACCCTAAAACTTTTCT
* * * * * *
37275752 AATATTACATTTTGACCCTAAAACTTTTCTAATATTATATTTTGACCCTC-GAAC-CTTCTAAAA
1 AAAATTACATTTTAACCCTAAAACTTTTCTAAAATTACATTTTGACCC-CAAAACTTTTCTAAAA
*
37275815 TTTCGTTTTAACCC
65 TTTCATTTTAACCC
37275829 CAATTTTATC
Statistics
Matches: 144, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
88 1 0.01
89 14 0.10
90 21 0.15
91 105 0.73
92 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.42
Consensus pattern (90 bp):
AAAATTACATTTTAACCCTAAAACTTTTCTAAAATTACATTTTGACCCCAAAACTTTTCTAAAAT
TTCATTTTAACCCTAAAACTTTTCT
Found at i:37275795 original size:30 final size:30
Alignment explanation
Indices: 37275570--37275800 Score: 270
Period size: 30 Copynumber: 7.6 Consensus size: 30
37275560 AAATTATCCA
* *
37275570 AAAATTATATTTT-AGCCCCAAAACTTTT-T
1 AAAATTACATTTTGA-CCCTAAAACTTTTCT
37275599 GAAAATTACATTTTTGA-CCTCAAAACTTTTCT
1 -AAAATTACA-TTTTGACCCT-AAAACTTTTCT
* *
37275631 AAAATTTCATTTTGACCTTAAAACTTTTCT
1 AAAATTACATTTTGACCCTAAAACTTTTCT
*
37275661 AAAATTACATTTTAACCCTAAAACTTTTCT
1 AAAATTACATTTTGACCCTAAAACTTTTCT
* * *
37275691 AAAATTACATTTTAACCCCAAAACTTTTTT
1 AAAATTACATTTTGACCCTAAAACTTTTCT
* * *
37275721 CAATATTATATTTTAACCCTAAAACTTTTCT
1 -AAAATTACATTTTGACCCTAAAACTTTTCT
*
37275752 AATATTACATTTTGACCCTAAAACTTTTCT
1 AAAATTACATTTTGACCCTAAAACTTTTCT
* *
37275782 AATATTATATTTTGACCCT
1 AAAATTACATTTTGACCCT
37275801 CGAACCTTCT
Statistics
Matches: 179, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
30 128 0.72
31 49 0.27
32 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.43
Consensus pattern (30 bp):
AAAATTACATTTTGACCCTAAAACTTTTCT
Found at i:37276198 original size:13 final size:13
Alignment explanation
Indices: 37276180--37276204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37276170 TAAACTTCAA
37276180 GAAATACGGGGAT
1 GAAATACGGGGAT
37276193 GAAATACGGGGA
1 GAAATACGGGGA
37276205 CGAATTTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.40, T:0.12
Consensus pattern (13 bp):
GAAATACGGGGAT
Found at i:37287718 original size:183 final size:182
Alignment explanation
Indices: 37287395--37288164 Score: 1175
Period size: 183 Copynumber: 4.2 Consensus size: 182
37287385 GATCAGATCA
* *
37287395 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTTGTCCCACT
1 ACCAACATC-TTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCT
* * * * *
37287460 GAAATTGAAGTAAGAGTAAGATGAAGCACCAACATTATTTTCCTATCGTTTTGAAATTGAAGTAA
65 GAAATTGAAGTAAGAGTAAGAAGAAGGACCAACA-TCTTTTCCTATCCTCTTGAAATTGAAGTAA
*
37287525 AGCTGGATATCAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGC
129 AGCTGGATATCAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGAAGAAGC
* * *
37287579 ACCGACATCTTTTTCTATCCTCTTGAAATTGAAGTAAAGCTGGATTAACAAGCCTTCGTCTCTCT
1 ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGA-TAACAAGCCTTCGTCCCTCT
**
37287644 GGGATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAA
65 GAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAA
* * *
37287709 GTTGGATATCAAGCCTTCGTCCCTCTAAAATTGAAGTAAGAGCAAGATGAAGC
130 GCTGGATATCAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGAAGAAGC
* *
37287762 ACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCTCTCTG
1 ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
* *
37287827 GAATTGAAGTAAGAGTAAGAAAAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAG
66 AAATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAG
** * * *
37287892 CTGGATAAT-AAGTTTTCGTCCCTCCGAAATTGAAGTAAGAGTAAGAAGAAGG
131 CTGGAT-ATCAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGAAGAAGC
* * *
37287944 ACCAACATTATTTTCCTATCCTCTTTAAATTGAAGTAAAGCTAGATAACAAGCCTTCGTCCCTCT
1 ACCAACA-TCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCT
* *
37288009 GAAATTGAAGTAAGAGTAAGACGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTTAAGTAA
65 GAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATC-TTTTCCTATCCTCTTGAAATTGAAGTAA
* *
37288074 AGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGTAAGAAGAAAG-
129 AGCTGGATATCAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGAAG-AAGC
37288128 ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAA
1 ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAA
37288165 GAGTAAGAAG
Statistics
Matches: 540, Mismatches: 40, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
182 131 0.24
183 273 0.51
184 133 0.25
185 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (182 bp):
ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
AAATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAG
CTGGATATCAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGAAGAAGC
Found at i:37287770 original size:91 final size:91
Alignment explanation
Indices: 37287395--37288164 Score: 1171
Period size: 92 Copynumber: 8.4 Consensus size: 91
37287385 GATCAGATCA
* *
37287395 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTTGTCCCACT
1 ACCAACATC-TTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCT
* *
37287460 GAAATTGAAGTAAGAGTAAGATGAAGC
65 GAAATTGAAGTAAGAGTAAGAAGAAGG
* * * *
37287487 ACCAACATTATTTTCCTATCGTTTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTCGTCCCTCT
1 ACCAACA-TCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCT
* * *
37287552 GAAATTGAAGTAAGAGCAAGATGAAGC
65 GAAATTGAAGTAAGAGTAAGAAGAAGG
* * *
37287579 ACCGACATCTTTTTCTATCCTCTTGAAATTGAAGTAAAGCTGGATTAACAAGCCTTCGTCTCTCT
1 ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGA-TAACAAGCCTTCGTCCCTCT
**
37287644 GGGATTGAAGTAAGAGTAAGAAGAAGG
65 GAAATTGAAGTAAGAGTAAGAAGAAGG
* * *
37287671 ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGCCTTCGTCCCTCTA
1 ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
* * *
37287736 AAATTGAAGTAAGAGCAAGATGAAGC
66 AAATTGAAGTAAGAGTAAGAAGAAGG
* *
37287762 ACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCTCTCTG
1 ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
* *
37287827 GAATTGAAGTAAGAGTAAGAAAAAGG
66 AAATTGAAGTAAGAGTAAGAAGAAGG
* ** *
37287853 ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAATAAGTTTTCGTCCCTCCG
1 ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
37287918 AAATTGAAGTAAGAGTAAGAAGAAGG
66 AAATTGAAGTAAGAGTAAGAAGAAGG
* * *
37287944 ACCAACATTATTTTCCTATCCTCTTTAAATTGAAGTAAAGCTAGATAACAAGCCTTCGTCCCTCT
1 ACCAACA-TCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCT
*
37288009 GAAATTGAAGTAAGAGTAAGACGAAGG
65 GAAATTGAAGTAAGAGTAAGAAGAAGG
*
37288036 ACCAACATCATTTTCCTATCCTCTTGAAATTTAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCT
1 ACCAACATC-TTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCT
*
37288101 GAAATTGAAGTAAGAGTAAGAAGAAAG
65 GAAATTGAAGTAAGAGTAAGAAGAAGG
37288128 ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAA
1 ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAA
37288165 GAGTAAGAAG
Statistics
Matches: 611, Mismatches: 63, Indels: 9
0.89 0.09 0.01
Matches are distributed among these distances:
91 271 0.44
92 339 0.55
93 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (91 bp):
ACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
AAATTGAAGTAAGAGTAAGAAGAAGG
Found at i:37288164 original size:45 final size:49
Alignment explanation
Indices: 37288004--37288215 Score: 194
Period size: 51 Copynumber: 4.4 Consensus size: 49
37287994 AGCCTTCGTC
*
37288004 CCTC-TGAAATTGAAGTAAGAGTAAGACGAAGGACCAACATCATTTTCCTAT
1 CCTCTTGAAATTGAAGT-A-AGTAAGAAGAAGGACCAACATC-TTTTCCTAT
** * * * * *
37288055 CCTCTTGAAATT----TAAGT-A-AAGCTGGA-TAACAAGC-CTTCGT-C
1 CCTCTTGAAATTGAAGTAAGTAAGAAGAAGGACCAAC-ATCTTTTCCTAT
*
37288096 CCTC-TGAAATTGAAGTAAGAGTAAGAAGAAAGACCAACATCTTTTCCTAT
1 CCTCTTGAAATTGAAGT-A-AGTAAGAAGAAGGACCAACATCTTTTCCTAT
37288146 CCTCTTGAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTAT
1 CCTCTTGAAATTGAAGT-A-AGTAAGAAGAAGGACCAACATCTTTTCCTAT
37288197 CCTCTTGAAATTGAAGTAA
1 CCTCTTGAAATTGAAGTAA
37288216 AGCTGGATAT
Statistics
Matches: 130, Mismatches: 17, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
40 7 0.05
41 4 0.03
42 4 0.03
43 3 0.02
44 8 0.06
45 2 0.02
46 6 0.05
47 2 0.02
48 8 0.06
49 8 0.06
50 5 0.04
51 66 0.51
52 7 0.05
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (49 bp):
CCTCTTGAAATTGAAGTAAGTAAGAAGAAGGACCAACATCTTTTCCTAT
Found at i:37288189 original size:326 final size:325
Alignment explanation
Indices: 37287828--37288446 Score: 945
Period size: 326 Copynumber: 1.9 Consensus size: 325
37287818 GTCTCTCTGG
37287828 AATTGAAGTAAGAGTAAGAAAAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGC
1 AATTGAAGTAAGAGTAAGAAAAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGC
* ** *
37287893 TGGATAAT-AAG-TTTTCGTCCCTCCGAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATTATT
66 TGGAT-ATCAAGCTTTT-ATCCCTCCGAAATTGAAGTAAGAGTAAGAAGAAACACCAACATCATT
*
37287956 TTCCTATCCTCTTTAAATTGAAGTAAAGCTAGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTA
129 TTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTA
* * * *
37288021 AGAGTAAGACGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTTAAGTAAAGCTGGATAACA
194 AGAGCAAGACGAAGCACCAACATC-TTTCCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACA
* *
37288086 AGCCTTCGTCCCTCTGAAATTGAAGTAAGAGTAAGAAGAAAGACCAACATCTTTTCCTATCCTCT
258 AGCCTTCATCCCTCTGAAATTGAAGTAAGAGCAAGAAGAAAGACCAACATCTTTTCCTATCCTCT
37288151 TGA
323 TGA
*
37288154 AATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGC
1 AATTGAAGTAAGAGTAAGAAAAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGC
* * * * * *
37288219 TGGATATCAAGCTTTTATCTCTCTGTAATTGAAGTAGGAGTAAGATGAAACACCAATATCATTTT
66 TGGATATCAAGCTTTTATCCCTCCGAAATTGAAGTAAGAGTAAGAAGAAACACCAACATCATTTT
* * *
37288284 CCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGCCTTCGTCCCTTTGAAATTGAAGTAAG
131 CCTATCCTCTTGAAATTGAAGTAAAGCTAGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAG
* * * *
37288349 AGCAAGATGAAGCACCGACATCTTTCCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGC
196 AGCAAGACGAAGCACCAACATCTTTCCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGC
* * *
37288414 CTTTATCTCTTTGAAATTGAAGTAAGAGCAAGA
261 CTTCATCCCTCTGAAATTGAAGTAAGAGCAAGA
37288447 TAAAACCCCG
Statistics
Matches: 263, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
325 69 0.26
326 190 0.72
327 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (325 bp):
AATTGAAGTAAGAGTAAGAAAAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGC
TGGATATCAAGCTTTTATCCCTCCGAAATTGAAGTAAGAGTAAGAAGAAACACCAACATCATTTT
CCTATCCTCTTGAAATTGAAGTAAAGCTAGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAG
AGCAAGACGAAGCACCAACATCTTTCCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGC
CTTCATCCCTCTGAAATTGAAGTAAGAGCAAGAAGAAAGACCAACATCTTTTCCTATCCTCTTGA
Found at i:37288211 original size:57 final size:51
Alignment explanation
Indices: 37288096--37288215 Score: 224
Period size: 51 Copynumber: 2.4 Consensus size: 51
37288086 AGCCTTCGTC
37288096 CCTC-TGAAATTGAAGTAAGAGTAAGAAGAAAGACCAACATCTTTTCCTAT
1 CCTCTTGAAATTGAAGTAAGAGTAAGAAGAAAGACCAACATCTTTTCCTAT
*
37288146 CCTCTTGAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTAT
1 CCTCTTGAAATTGAAGTAAGAGTAAGAAGAAAGACCAACATCTTTTCCTAT
37288197 CCTCTTGAAATTGAAGTAA
1 CCTCTTGAAATTGAAGTAA
37288216 AGCTGGATAT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
50 4 0.06
51 64 0.94
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (51 bp):
CCTCTTGAAATTGAAGTAAGAGTAAGAAGAAAGACCAACATCTTTTCCTAT
Found at i:37288211 original size:234 final size:235
Alignment explanation
Indices: 37287917--37288397 Score: 750
Period size: 234 Copynumber: 2.1 Consensus size: 235
37287907 TCGTCCCTCC
*
37287917 GAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATTATTTTCCTATCCTCTTTAAATTGAAGTAA
1 GAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATTATTTTCCTATCCTCTTGAAATTGAAGTAA
* **
37287982 AGCTAGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGTAAGACGAAGGACCAACATCAT
66 AGCTAGATAACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAGTAAGACGAAACACCAACATCAT
*
37288047 TTTCCTATCCTCTTGAAATTTAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGT
131 TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGT
* *
37288112 AAGAGTAAGAAGAAAG-ACCAACATCTTTTCCTATCCTCTT
196 AAGAGCAAGAAG-AAGCACCAACATCTTTCCCTATCCTCTT
*
37288152 GAAATTGAAGTAAGAGTAAGAAGAAGGACCAACA-TCTTTTCCTATCCTCTTGAAATTGAAGTAA
1 GAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATTATTTTCCTATCCTCTTGAAATTGAAGTAA
* * * * * * * * *
37288216 AGCTGGATATCAAGCTTTTATCTCTCTGTAATTGAAGTAGGAGTAAGATGAAACACCAATATCAT
66 AGCTAGATAACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAGTAAGACGAAACACCAACATCAT
* *
37288281 TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGCCTTCGTCCCTTTGAAATTGAAGT
131 TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGT
* *
37288346 AAGAGCAAGATGAAGCACCGACATCTTTCCCTATCCTCTT
196 AAGAGCAAGAAGAAGCACCAACATCTTTCCCTATCCTCTT
37288386 GAAATTGAAGTA
1 GAAATTGAAGTA
37288398 GAGCTGGATA
Statistics
Matches: 224, Mismatches: 21, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
233 3 0.01
234 187 0.83
235 34 0.15
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (235 bp):
GAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATTATTTTCCTATCCTCTTGAAATTGAAGTAA
AGCTAGATAACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAGTAAGACGAAACACCAACATCAT
TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGT
AAGAGCAAGAAGAAGCACCAACATCTTTCCCTATCCTCTT
Found at i:37288249 original size:91 final size:91
Alignment explanation
Indices: 37288150--37288447 Score: 425
Period size: 91 Copynumber: 3.3 Consensus size: 91
37288140 TCCTATCCTC
* * *
37288150 TTGAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTA
1 TTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTA
*
37288215 AAGCTGGATATCAAGCTTTTATCTCT
66 AAGCTGGATATCAAGCCTTTATCTCT
* * * * * *
37288241 CTGTAATTGAAGTAGGAGTAAGATGAAACACCAATATCATTTTCCTATCCTCTTGAAATTGAAGT
1 TTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATC-TTTTCCTATCCTCTTGAAATTGAAGT
* * ** *
37288306 AAAGTTGGATAACAAGCCTTCGTCCCT
65 AAAGCTGGATATCAAGCCTTTATCTCT
* *
37288333 TTGAAATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTCCCTATCCTCTTGAAATTGAAGTA
1 TTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTA
*
37288398 GAGCTGGATATCAAGCCTTTATCTCT
66 AAGCTGGATATCAAGCCTTTATCTCT
37288424 TTGAAATTGAAGTAAGAGCAAGAT
1 TTGAAATTGAAGTAAGAGCAAGAT
37288448 AAAACCCCGA
Statistics
Matches: 179, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
91 101 0.56
92 78 0.44
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (91 bp):
TTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTA
AAGCTGGATATCAAGCCTTTATCTCT
Found at i:37288260 original size:142 final size:144
Alignment explanation
Indices: 37288004--37288307 Score: 479
Period size: 142 Copynumber: 2.1 Consensus size: 144
37287994 AGCCTTCGTC
* *
37288004 CCTC-TGAAATTGAAGTAAGAGTAAGACGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTT
1 CCTCTTGAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTG
* *
37288068 AAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGTAAGAAGAAAGACCAA
66 AAGTAAAGCTGGATAACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAGTAAGAAGAAACACCAA
37288133 CATC-TTTTCCTAT
131 CATCATTTTCCTAT
37288146 CCTCTTGAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATC-TTTTCCTATCCTCTTGAAATTG
1 CCTCTTGAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTG
* * * * * * *
37288210 AAGTAAAGCTGGATATCAAGCTTTTATCTCTCTGTAATTGAAGTAGGAGTAAGATGAAACACCAA
66 AAGTAAAGCTGGATAACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAGTAAGAAGAAACACCAA
*
37288275 TATCATTTTCCTAT
131 CATCATTTTCCTAT
37288289 CCTCTTGAAATTGAAGTAA
1 CCTCTTGAAATTGAAGTAA
37288308 AGTTGGATAA
Statistics
Matches: 148, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
142 84 0.57
143 64 0.43
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (144 bp):
CCTCTTGAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTG
AAGTAAAGCTGGATAACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAGTAAGAAGAAACACCAA
CATCATTTTCCTAT
Found at i:37288753 original size:17 final size:16
Alignment explanation
Indices: 37288731--37288777 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
37288721 TTTTAACAAT
37288731 TTTAATTTAAATTTGAA
1 TTTAATTTAAATTT-AA
37288748 TTTAATTTAAATTTAA
1 TTTAATTTAAATTTAA
*
37288764 TATTATTTTAAATT
1 T-TTAATTTAAATT
37288778 CAAAAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 3 0.11
17 25 0.89
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTAATTTAAATTTAA
Found at i:37289607 original size:12 final size:12
Alignment explanation
Indices: 37289592--37289616 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37289582 ACATTAATAG
37289592 TAATAATAATTT
1 TAATAATAATTT
37289604 TAATAATAATTT
1 TAATAATAATTT
37289616 T
1 T
37289617 TATTAAATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:37290669 original size:30 final size:30
Alignment explanation
Indices: 37290633--37290831 Score: 244
Period size: 30 Copynumber: 6.6 Consensus size: 30
37290623 AAATTATCCA
* *
37290633 AAAATTATATTTTAA-CCTCAAAACTTTTTG
1 AAAATTACATTTTAACCCT-AAAACTTTTTC
*
37290663 AAAATTACATTTTTAACCCTAAAACTTTTTT
1 AAAATTACA-TTTTAACCCTAAAACTTTTTC
* *
37290694 AAAATTACA-TTTAACCCCCAAAACTTTTCC
1 AAAATTACATTTTAA-CCCTAAAACTTTTTC
*
37290724 AAAATTACATTTTAACCCCAAAAC-TTTTC
1 AAAATTACATTTTAACCCTAAAACTTTTTC
* *
37290753 AATATTACATTTTGACCCTAAAAC-TTTTC
1 AAAATTACATTTTAACCCTAAAACTTTTTC
* *
37290782 TAATATTACATTTTAACCCTAAAACTTTTCC
1 -AAAATTACATTTTAACCCTAAAACTTTTTC
37290813 AAAATTACATTTTAACCCT
1 AAAATTACATTTTAACCCT
37290832 CGAACCTTCC
Statistics
Matches: 151, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
29 35 0.23
30 79 0.52
31 34 0.23
32 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTAAAACTTTTTC
Found at i:37290806 original size:89 final size:91
Alignment explanation
Indices: 37290633--37290830 Score: 294
Period size: 89 Copynumber: 2.2 Consensus size: 91
37290623 AAATTATCCA
* * * *
37290633 AAAATTATATTTTAACCTCAAAACTTTTTGAAAATTACATTTTTAACCCTAAAACTTTTTTAAAA
1 AAAATTACATTTTAACCCCAAAACTTTTTCAAAATTACATTTTTAACCCTAAAACTTTTCTAAAA
37290698 TTACATTTAACCCCCAAAACTTTTCC
66 TTACATTTAACCCCCAAAACTTTTCC
* * *
37290724 AAAATTACATTTTAACCCCAAAAC-TTTTCAATATTACA-TTTTGACCCTAAAACTTTTCTAATA
1 AAAATTACATTTTAACCCCAAAACTTTTTCAAAATTACATTTTTAACCCTAAAACTTTTCTAAAA
*
37290787 TTACATTTTAA-CCCTAAAACTTTTCC
66 TTACA-TTTAACCCCCAAAACTTTTCC
37290813 AAAATTACATTTTAACCC
1 AAAATTACATTTTAACCC
37290831 TCGAACCTTC
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
89 59 0.60
90 17 0.17
91 22 0.22
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.39
Consensus pattern (91 bp):
AAAATTACATTTTAACCCCAAAACTTTTTCAAAATTACATTTTTAACCCTAAAACTTTTCTAAAA
TTACATTTAACCCCCAAAACTTTTCC
Found at i:37290852 original size:29 final size:30
Alignment explanation
Indices: 37290633--37290854 Score: 209
Period size: 30 Copynumber: 7.4 Consensus size: 30
37290623 AAATTATCCA
* * **
37290633 AAAATTATATTTTAA-CCTCAAAACTTTTTG
1 AAAATTACATTTTAACCCT-AAAACTCTTCC
* **
37290663 AAAATTACATTTTTAACCCTAAAACTTTTTT
1 AAAATTACA-TTTTAACCCTAAAACTCTTCC
* *
37290694 AAAATTACA-TTTAACCCCCAAAACTTTTCC
1 AAAATTACATTTTAA-CCCTAAAACTCTTCC
* *
37290724 AAAATTACATTTTAACCCCAAAACT-TTTC
1 AAAATTACATTTTAACCCTAAAACTCTTCC
* * * *
37290753 AATATTACATTTTGACCCTAAAACTTTTCT
1 AAAATTACATTTTAACCCTAAAACTCTTCC
* *
37290783 AATATTACATTTTAACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCTAAAACTCTTCC
**
37290813 AAAATTACATTTTAACCCTCGAAC-CTTCC
1 AAAATTACATTTTAACCCTAAAACTCTTCC
*
37290842 AAAATTTCATTTT
1 AAAATTACATTTT
37290855 TGACCCCGAT
Statistics
Matches: 169, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
29 46 0.27
30 90 0.53
31 30 0.18
32 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTAAAACTCTTCC
Found at i:37290853 original size:59 final size:59
Alignment explanation
Indices: 37290633--37290854 Score: 252
Period size: 59 Copynumber: 3.7 Consensus size: 59
37290623 AAATTATCCA
* ** *
37290633 AAAATTATATTTTAA-CCTCAAAACTTTTTGAAAATTACATTTTTAACCCTAAAACTTTTTT
1 AAAATTACATTTTAACCCTC-AAACTTTTCCAAAATTACA-TTTTAACCCTAAAAC-TTTTC
* *
37290694 AAAATTACA-TTTAACCCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTTC
1 AAAATTACATTTTAACCCTC-AAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTC
* * * * *
37290753 AATATTACATTTTGACCCTAAAACTTTTCTAATATTACATTTTAACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCTCAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTT-C
* * *
37290813 AAAATTACATTTTAACCCTCGAAC-CTTCCAAAATTTCATTTT
1 AAAATTACATTTTAACCCTCAAACTTTTCCAAAATTACATTTT
37290855 TGACCCCGAT
Statistics
Matches: 137, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
59 61 0.45
60 47 0.34
61 29 0.21
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.39
Consensus pattern (59 bp):
AAAATTACATTTTAACCCTCAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTC
Found at i:37290853 original size:89 final size:90
Alignment explanation
Indices: 37290633--37290860 Score: 282
Period size: 89 Copynumber: 2.5 Consensus size: 90
37290623 AAATTATCCA
* * * ** * *
37290633 AAAATTATATTTTAACCTCAAAACTTTTTGAAAATTACATTTTTAACCCTAAAACTTTTTTAAAA
1 AAAATTACATTTTAACCCCAAAAC-CTTCCAAAATTACATTTTTGACCCTAAAACTTTTCTAAAA
37290698 TTACATTTAACCCCCAAAACTTTTCC
65 TTACATTTAACCCCCAAAACTTTTCC
* * * *
37290724 AAAATTACATTTTAACCCCAAAACTTTTCAATATTACA-TTTTGACCCTAAAACTTTTCTAATAT
1 AAAATTACATTTTAACCCCAAAACCTTCCAAAATTACATTTTTGACCCTAAAACTTTTCTAAAAT
*
37290788 TACATTTTAA-CCCTAAAACTTTTCC
66 TACA-TTTAACCCCCAAAACTTTTCC
* *
37290813 AAAATTACATTTTAACCCTC-GAACCTTCCAAAATTTCATTTTTGACCC
1 AAAATTACATTTTAACCC-CAAAACCTTCCAAAATTACATTTTTGACCC
37290861 CGATTTTACC
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
89 72 0.60
90 27 0.22
91 22 0.18
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (90 bp):
AAAATTACATTTTAACCCCAAAACCTTCCAAAATTACATTTTTGACCCTAAAACTTTTCTAAAAT
TACATTTAACCCCCAAAACTTTTCC
Found at i:37290936 original size:60 final size:58
Alignment explanation
Indices: 37290807--37290944 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 58
37290797 ACCCTAAAAC
* *
37290807 TTTTCCAAAATTA-CATTTTAACCCTCGAACCTTCCAAAATTTCATTTTTGACCCCGA
1 TTTTCCAAAATTACCATTTTAACCCCCGAACCTTCCAAAATTCCATTTTTGACCCCGA
* * ** *
37290864 TTTTACCGAAATTCACCATTTTACCCCCCGAATTTTCCAAAGTTCCATTTTT-AGCCCCGA
1 TTTT-CCAAAATT-ACCATTTTAACCCCCGAACCTTCCAAAATTCCATTTTTGA-CCCCGA
*
37290924 TTTCTCCAAAATTACAATTTT
1 TTT-TCCAAAATTACCATTTT
37290945 GCCCTCGAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
57 4 0.06
58 7 0.10
59 9 0.13
60 46 0.69
61 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.38
Consensus pattern (58 bp):
TTTTCCAAAATTACCATTTTAACCCCCGAACCTTCCAAAATTCCATTTTTGACCCCGA
Found at i:37290944 original size:29 final size:28
Alignment explanation
Indices: 37290807--37290977 Score: 98
Period size: 29 Copynumber: 5.9 Consensus size: 28
37290797 ACCCTAAAAC
*
37290807 TTTTCCAAAATTAC-ATTTTAACCCTCGAA
1 TTTTCCAAAATTACAATTTTAGCCC-CG-A
** * *
37290836 CCTTCCAAAATTTC-ATTTTTGACCCCGA
1 TTTTCCAAAATTACAATTTTAG-CCCCGA
* * *
37290864 TTTTACCGAAATTCACCATTTTACCCCCCGAA
1 TTTT-CCAAAATT-ACAATTTTA-GCCCCG-A
* * *
37290896 TTTTCCAAAGTTCCATTTTTAGCCCCGA
1 TTTTCCAAAATTACAATTTTAGCCCCGA
37290924 TTTCTCCAAAATTACAATTTT-GCCCTCGA
1 TTT-TCCAAAATTACAATTTTAGCCC-CGA
*** *
37290953 AAGTCCAAAATTACCATTTT-GCCCC
1 TTTTCCAAAATTACAATTTTAGCCCC
37290978 CGGATATCCA
Statistics
Matches: 110, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
27 1 0.01
28 31 0.28
29 47 0.43
30 10 0.09
31 16 0.15
32 5 0.05
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (28 bp):
TTTTCCAAAATTACAATTTTAGCCCCGA
Found at i:37292244 original size:16 final size:15
Alignment explanation
Indices: 37292219--37292248 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37292209 CTCGCCCCTT
37292219 TAAACCTAATTTTAC
1 TAAACCTAATTTTAC
37292234 TAAAGCCTAATTTTA
1 TAAA-CCTAATTTTA
37292249 ATAACAGCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (15 bp):
TAAACCTAATTTTAC
Found at i:37292923 original size:17 final size:18
Alignment explanation
Indices: 37292901--37292934 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37292891 TTGTTTATAA
37292901 TTTAAA-AAATTAATTAT
1 TTTAAACAAATTAATTAT
*
37292918 TTTAAACAATTTAATTA
1 TTTAAACAAATTAATTA
37292935 AAATTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAAACAAATTAATTAT
Found at i:37297305 original size:22 final size:22
Alignment explanation
Indices: 37297269--37297322 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
37297259 TTGGTGCTCA
*
37297269 ATAAGTGTCATTGGCAGCATTTT
1 ATAAGT-TAATTGGCAGCATTTT
37297292 ATAAGTTAATTGGCAGCATTTT
1 ATAAGTTAATTGGCAGCATTTT
37297314 ATAAGTTAA
1 ATAAGTTAA
37297323 AGAGTCTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (22 bp):
ATAAGTTAATTGGCAGCATTTT
Found at i:37307599 original size:17 final size:18
Alignment explanation
Indices: 37307577--37307610 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37307567 TTGTTTAATT
37307577 TTTCTT-TATTTTTCACA
1 TTTCTTGTATTTTTCACA
*
37307594 TTTCTTGTTTTTTTCAC
1 TTTCTTGTATTTTTCAC
37307611 TTTTTCAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.18, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTCTTGTATTTTTCACA
Found at i:37308910 original size:16 final size:16
Alignment explanation
Indices: 37308888--37308928 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
37308878 TTTAATTATT
37308888 ATAAAAATATATTTAAA
1 ATAAAAA-ATATTTAAA
*
37308905 ATAAAAAATATTTATA
1 ATAAAAAATATTTAAA
37308921 ATAGAAAA
1 ATA-AAAA
37308929 GGTAAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
ATAAAAAATATTTAAA
Found at i:37311456 original size:17 final size:17
Alignment explanation
Indices: 37311423--37311456 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
37311413 AGATGACTAT
*
37311423 ATAAAAAATTTAAAAAA
1 ATAAAAAATGTAAAAAA
37311440 ATAAAAAATGTATAAAA
1 ATAAAAAATGTA-AAAA
37311457 TTATTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
ATAAAAAATGTAAAAAA
Found at i:37318021 original size:15 final size:16
Alignment explanation
Indices: 37318001--37318074 Score: 68
Period size: 15 Copynumber: 4.8 Consensus size: 16
37317991 AAAAAAACCC
37318001 TTTCTCT-TCTCTTCT
1 TTTCTCTCTCTCTTCT
*
37318016 TTTCTCTCCCT-TTCT
1 TTTCTCTCTCTCTTCT
37318031 CTTT-TCTCTCT-TTCT
1 -TTTCTCTCTCTCTTCT
*
37318046 TCTCTCTCTCTC-TCT
1 TTTCTCTCTCTCTTCT
*
37318061 CTCTCTCTCTCTCT
1 -TTTCTCTCTCTCT
37318075 GTGTGTTTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
14 2 0.04
15 31 0.62
16 17 0.34
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTCTCTCTCTCTTCT
Found at i:37318032 original size:25 final size:28
Alignment explanation
Indices: 37317998--37318070 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 28
37317988 AGGAAAAAAA
37317998 CCCTTTCTCTTCTCT-TC-TT-TTCTCT
1 CCCTTTCTCTTCTCTCTCTTTCTTCTCT
*
37318023 CCCTTTCTCTTTTCTCTCTTTCTTCTCT
1 CCCTTTCTCTTCTCTCTCTTTCTTCTCT
* *
37318051 CTCTCTCTCTCTCTCTCTCT
1 CCCTTTCTCT-TCTCTCTCT
37318071 CTCTGTGTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.35
26 2 0.05
27 2 0.05
28 14 0.35
29 8 0.20
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (28 bp):
CCCTTTCTCTTCTCTCTCTTTCTTCTCT
Found at i:37318040 original size:2 final size:2
Alignment explanation
Indices: 37318035--37318074 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
37318025 CTTTCTCTTT
*
37318035 TC TC TC TT TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
37318075 GTGTGTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:37325998 original size:17 final size:16
Alignment explanation
Indices: 37325976--37326009 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
37325966 TTATAGTACT
*
37325976 ATTATATATTATTATAA
1 ATTATATAATA-TATAA
37325993 ATTATATAATATATAA
1 ATTATATAATATATAA
37326009 A
1 A
37326010 AATAACAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTATATAATATATAA
Found at i:37328037 original size:97 final size:97
Alignment explanation
Indices: 37327865--37328058 Score: 264
Period size: 97 Copynumber: 2.0 Consensus size: 97
37327855 AACCTTAAAA
*
37327865 AAGGGTATTCGATTATCCCGATTTGAAGAAAAGTCGCGCCTAATAAGTTAAGGCACAAAATTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAATAAGTTAAGGCACAAAATTTCA
*
37327930 AAACTAGAGATAAAGAAACATTGCCTCAATTT
66 AAACCAGAGATAAAGAAACATTGCCTCAATTT
* * * *
37327962 AAGGGTATTCGATTATCCC-AGTTTGAAGAAAAATCGTGCCTAGTAAGTTAAGGCATAAATTTTC
1 AAGGGTATTCGATTATCCCGA-TTTGAAGAAAAATCGCGCCTAATAAGTTAAGGCACAAAATTTC
* * * * * *
37328026 AGAACCCGAGATAGAGGAATATTGCCTCGATTT
65 AAAACCAGAGATAAAGAAACATTGCCTCAATTT
37328059 TAAATATTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 1 0.01
97 83 0.99
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAATAAGTTAAGGCACAAAATTTCA
AAACCAGAGATAAAGAAACATTGCCTCAATTT
Found at i:37328502 original size:28 final size:29
Alignment explanation
Indices: 37328460--37328600 Score: 164
Period size: 29 Copynumber: 4.9 Consensus size: 29
37328450 AATTTTGGAT
* *
37328460 GTTTGGGGGTAAAAATGTAATTTTTGAAA
1 GTTTAGGGGCAAAAATGTAATTTTTGAAA
*
37328489 GTTT-GAGGGCAAAAATGTAATTTTTGGAA
1 GTTTAG-GGGCAAAAATGTAATTTTTGAAA
37328518 GTTT-GAGGGC-AAAATGTAATTTTTGAGAA
1 GTTTAG-GGGCAAAAATGTAATTTTTGA-AA
* *
37328547 GTTTAGGGGC-AAAATATAACTTTTGGAAA
1 GTTTAGGGGCAAAAATGTAA-TTTTTGAAA
*
37328576 GTTTAGGGGCAAAAATGTAAATTTT
1 GTTTAGGGGCAAAAATGTAATTTTT
37328601 AAGAAGTTAA
Statistics
Matches: 99, Mismatches: 8, Indels: 10
0.85 0.07 0.09
Matches are distributed among these distances:
28 16 0.16
29 68 0.69
30 15 0.15
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (29 bp):
GTTTAGGGGCAAAAATGTAATTTTTGAAA
Found at i:37328522 original size:58 final size:56
Alignment explanation
Indices: 37328448--37328632 Score: 194
Period size: 58 Copynumber: 3.2 Consensus size: 56
37328438 GGGTAAAACG
*
37328448 GTAATTTTGGATGTTTGGGGGTAAAAATGTAATTTTTGA-AAGTTT-GAGGGCAAAAAT
1 GTAATTTTGGAAGTTTGGGGG-AAAAATGTAATTTTTGAGAAGTTTAG-GGGC-AAAAT
* *
37328505 GTAATTTTTGGAAGTTTGAGGGCAAAATGTAATTTTTGAGAAGTTTAGGGGCAAAAT
1 GTAA-TTTTGGAAGTTTGGGGGAAAAATGTAATTTTTGAGAAGTTTAGGGGCAAAAT
* * * * * **
37328562 ATAACTTTTGGAAAGTTTAGGGGCAAAAATGTAAATTTTAAGAAGTTAAGGGTTAAAAT
1 GTAA-TTTTGG-AAGTTT-GGGGGAAAAATGTAATTTTTGAGAAGTTTAGGGGCAAAAT
*
37328621 GTGATTTTGGAA
1 GTAATTTTGGAA
37328633 AAGTTTAAGG
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
57 36 0.33
58 37 0.34
59 35 0.32
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (56 bp):
GTAATTTTGGAAGTTTGGGGGAAAAATGTAATTTTTGAGAAGTTTAGGGGCAAAAT
Found at i:37328656 original size:30 final size:30
Alignment explanation
Indices: 37328617--37328673 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37328607 TTAAGGGTTA
*
37328617 AAATGTGATTT-TGGAAAAGTTTAAGGATCC
1 AAATATGATTTCTGG-AAAGTTTAAGGATCC
*
37328647 AAATATGATTTCTGGACAGTTTAAGGA
1 AAATATGATTTCTGGAAAGTTTAAGGA
37328674 CCTTTTAGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (30 bp):
AAATATGATTTCTGGAAAGTTTAAGGATCC
Found at i:37329063 original size:27 final size:27
Alignment explanation
Indices: 37329025--37329086 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
37329015 AATTATTGAT
* *
37329025 GCGGATTTTGAGTTTGGAATGGGTTGG
1 GCGGATCTTGAGTTTGGAATGGGTCGG
37329052 GCGGATCTTGAGTTTGGAATGGGTCGG
1 GCGGATCTTGAGTTTGGAATGGGTCGG
37329079 GCCGGATC
1 G-CGGATC
37329087 AGATCTTGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 26 0.81
28 6 0.19
ACGTcount: A:0.15, C:0.11, G:0.44, T:0.31
Consensus pattern (27 bp):
GCGGATCTTGAGTTTGGAATGGGTCGG
Found at i:37330526 original size:17 final size:17
Alignment explanation
Indices: 37330504--37330582 Score: 63
Period size: 17 Copynumber: 4.7 Consensus size: 17
37330494 ATTTTTTAAT
* *
37330504 TAAATTCAAATTCAAAA
1 TAAATTTAAATTAAAAA
*
37330521 TAAATTTAAAGTAAAAA
1 TAAATTTAAATTAAAAA
* ***
37330538 TTAATTTAAATT-TTGA
1 TAAATTTAAATTAAAAA
37330554 TAAATTTAAACTT-AAAA
1 TAAATTTAAA-TTAAAAA
*
37330571 TAAATTAAAATT
1 TAAATTTAAATT
37330583 TTAAAATTGG
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
16 12 0.25
17 36 0.75
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAATTTAAATTAAAAA
Done.