Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 250 of 438
Found at i:77509319 original size:19 final size:19
Alignment explanation
Indices: 77509265--77509326 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
77509255 AAGAGTTGAT
77509265 AATGAGAGAAAACTAAA-AGA
1 AATGAGAGAAAA--AAATAGA
*
77509285 ATTTGAGAGAAGAAAAATAGA
1 A-ATGAGAGAA-AAAAATAGA
*
77509306 AATGAGAGAAAAAAATTGA
1 AATGAGAGAAAAAAATAGA
77509325 AA
1 AA
77509327 AAGAAAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
19 10 0.28
20 12 0.33
21 12 0.33
22 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.21, T:0.15
Consensus pattern (19 bp):
AATGAGAGAAAAAAATAGA
Found at i:77509775 original size:14 final size:14
Alignment explanation
Indices: 77509756--77509782 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77509746 TCAGTTAATT
77509756 GTCATTCTTTGATC
1 GTCATTCTTTGATC
77509770 GTCATTCTTTGAT
1 GTCATTCTTTGAT
77509783 TGTTGTTGAT
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:0.15, C:0.19, G:0.15, T:0.52
Consensus pattern (14 bp):
GTCATTCTTTGATC
Found at i:77514823 original size:42 final size:42
Alignment explanation
Indices: 77514776--77514857 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
77514766 CACATTAGAA
*
77514776 CCACAC-GACCAGGAACATAGGCATGTACCCAGGCTATGTGAG
1 CCACACAGACAAGG-ACATAGGCATGTACCCAGGCTATGTGAG
* * **
77514818 CCACACAGGCAAGGACATGGGCATGTGTCCAGGCTATGTG
1 CCACACAGACAAGGACATAGGCATGTACCCAGGCTATGTG
77514858 GCATATGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 29 0.85
43 5 0.15
ACGTcount: A:0.28, C:0.27, G:0.29, T:0.16
Consensus pattern (42 bp):
CCACACAGACAAGGACATAGGCATGTACCCAGGCTATGTGAG
Found at i:77515787 original size:25 final size:25
Alignment explanation
Indices: 77515754--77515807 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
77515744 TAAACATACA
* *
77515754 TGTTCTGTTCTGCTATGCTCCGTTT
1 TGTTATGTTCTGCTATGCTCCGTTC
* *
77515779 TGTTATGTTCTGCTCTGTTCCGTTC
1 TGTTATGTTCTGCTATGCTCCGTTC
77515804 TGTT
1 TGTT
77515808 CAGTATTGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.04, C:0.22, G:0.20, T:0.54
Consensus pattern (25 bp):
TGTTATGTTCTGCTATGCTCCGTTC
Found at i:77515845 original size:20 final size:20
Alignment explanation
Indices: 77515817--77515867 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
77515807 TCAGTATTGC
*
77515817 TCTGCTCTGTTCCATCTTGTT
1 TCTGTTCTGTTCCAT-TTGTT
* *
77515838 T-TGTTCTGCTCTATTTGTT
1 TCTGTTCTGTTCCATTTGTT
77515857 TCTGTTCTGTT
1 TCTGTTCTGTT
77515868 TTTCTTTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 6 0.24
20 18 0.72
21 1 0.04
ACGTcount: A:0.04, C:0.22, G:0.16, T:0.59
Consensus pattern (20 bp):
TCTGTTCTGTTCCATTTGTT
Found at i:77515845 original size:25 final size:25
Alignment explanation
Indices: 77515754--77515849 Score: 66
Period size: 25 Copynumber: 3.6 Consensus size: 25
77515744 TAAACATACA
* * * * *
77515754 TGTTCTGTTCTGCTATGCTCCGTTT
1 TGTTTTGTTCTGCTCTGTTCCATCT
* *
77515779 TGTTATGTTCTGCTCTGTTCCGTTCTGT
1 TGTTTTGTTCTGCTCTGTTCC-ATC--T
* *
77515807 TCAGTATTGCTCTGCTCTGTTCCATCT
1 T--GTTTTGTTCTGCTCTGTTCCATCT
77515834 TGTTTTGTTCTGCTCT
1 TGTTTTGTTCTGCTCT
77515850 ATTTGTTTCT
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
25 31 0.56
26 1 0.02
27 2 0.04
28 2 0.04
29 2 0.04
30 17 0.31
ACGTcount: A:0.05, C:0.24, G:0.19, T:0.52
Consensus pattern (25 bp):
TGTTTTGTTCTGCTCTGTTCCATCT
Found at i:77515848 original size:30 final size:29
Alignment explanation
Indices: 77515775--77515849 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 29
77515765 GCTATGCTCC
* *
77515775 GTTTTGTTATGTTCTGCTCTGTTCCGTTCT
1 GTTTTGTT-TGCTCTGCTCTGTTCCATTCT
**
77515805 GTTCAGTATTGCTCTGCTCTGTTCCA-TCTT
1 GTTTTGT-TTGCTCTGCTCTGTTCCATTC-T
77515835 GTTTTGTTCTGCTCT
1 GTTTTGTT-TGCTCT
77515850 ATTTGTTTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
29 3 0.08
30 32 0.89
31 1 0.03
ACGTcount: A:0.05, C:0.23, G:0.19, T:0.53
Consensus pattern (29 bp):
GTTTTGTTTGCTCTGCTCTGTTCCATTCT
Found at i:77517330 original size:32 final size:32
Alignment explanation
Indices: 77517293--77517357 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
77517283 AGATGTAAGA
77517293 ACAATTATACATTTCAATCAAAATTAAAGCTT
1 ACAATTATACATTTCAATCAAAATTAAAGCTT
*
77517325 ACAATTATACATTTCACTCAAAATTAAAGCTT
1 ACAATTATACATTTCAATCAAAATTAAAGCTT
77517357 A
1 A
77517358 ATCAATCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (32 bp):
ACAATTATACATTTCAATCAAAATTAAAGCTT
Found at i:77531199 original size:25 final size:25
Alignment explanation
Indices: 77531165--77531213 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
77531155 TAAATTGTTC
77531165 GAATTCAAGATTTCAAAGAATAAGA
1 GAATTCAAGATTTCAAAGAATAAGA
*
77531190 GAATTCAAGATTTCAGAGAATAAG
1 GAATTCAAGATTTCAAAGAATAAG
77531214 CTGTTGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.24
Consensus pattern (25 bp):
GAATTCAAGATTTCAAAGAATAAGA
Found at i:77535054 original size:40 final size:40
Alignment explanation
Indices: 77535008--77535147 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
77534998 CGGATATAAC
*
77535008 GACTCGCTCAAATGCCTTCGGGAC-GAAGCCC-GGTTATAGT
1 GACTCGCACAAATGCCTTCGGGACTGAA-CCCGGGTT-TAGT
* *
77535048 GACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* * * * * *
77535088 AACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* *
77535127 AACTCGCACGAATGCCTTCGG
1 GACTCGCACAAATGCCTTCGG
77535148 ATCCTAGTCC
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.38
40 48 0.55
41 6 0.07
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
Found at i:77535117 original size:79 final size:81
Alignment explanation
Indices: 77535016--77535196 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 81
77535006 ACGACTCGCT
** * *
77535016 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
77535079 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
77535096 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
77535160 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
77535176 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
77535197 TGGACATCAT
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 54 0.62
80 30 0.34
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:77537570 original size:27 final size:26
Alignment explanation
Indices: 77537522--77537581 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
77537512 GCGAGGCTGC
*
77537522 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
77537549 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
77537575 CATATAT
1 CAGATAT
77537582 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:77537583 original size:2 final size:2
Alignment explanation
Indices: 77537576--77537611 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
77537566 CCACCAGAAC
77537576 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
77537612 GTGGCGAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77538063 original size:10 final size:10
Alignment explanation
Indices: 77538050--77538084 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
77538040 AGCTCAACTC
*
77538050 AGCTCATTTG
1 AGCTCGTTTG
*
77538060 AGCTCGTTTC
1 AGCTCGTTTG
77538070 AGCTCGTTTG
1 AGCTCGTTTG
77538080 AGCTC
1 AGCTC
77538085 TACCGAGCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.37
Consensus pattern (10 bp):
AGCTCGTTTG
Found at i:77538063 original size:20 final size:20
Alignment explanation
Indices: 77538040--77538084 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
77538030 AGCTCCGTCC
77538040 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
77538060 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
77538080 AGCTC
1 AGCTC
77538085 TACCGAGCTT
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:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:77540042 original size:27 final size:27
Alignment explanation
Indices: 77539954--77540125 Score: 211
Period size: 27 Copynumber: 6.4 Consensus size: 27
77539944 AGGGCAAAAT
* * * *
77539954 GGTAATTTTACCCCACAAGGATATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
77539981 GGTAATTCTACCCTACAGGGGT-TTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
77540007 AATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
77540034 GGTAATTCTATCCTACAAGCGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
77540061 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
77540088 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
77540115 GGTAATTCTAC
1 GGTAATTCTAC
77540126 AACTTATCCA
Statistics
Matches: 123, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
26 21 0.17
27 102 0.83
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:77546756 original size:27 final size:26
Alignment explanation
Indices: 77546708--77546767 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
77546698 GCGAGGCTGC
*
77546708 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
77546735 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
77546761 CAGATAT
1 CAGATAT
77546768 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:77546812 original size:71 final size:67
Alignment explanation
Indices: 77546735--77546876 Score: 203
Period size: 67 Copynumber: 2.1 Consensus size: 67
77546725 TCACCAGATA
* * *
77546735 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
77546800 GGCTGC
62 GGCTGC
* *
77546806 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
77546871 GC
66 GC
77546873 CAGA
1 CAGA
77546877 ACGCTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
67 41 0.62
71 25 0.38
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:77546854 original size:27 final size:26
Alignment explanation
Indices: 77546806--77546857 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
77546796 GCGAGGCTGC
*
77546806 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
77546832 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
77546858 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:77547613 original size:27 final size:26
Alignment explanation
Indices: 77547507--77547674 Score: 232
Period size: 26 Copynumber: 6.4 Consensus size: 26
77547497 AGGGCAAAAT
*
77547507 GGTAATT-TACCC-ACAAGGGTATCTC
1 GGTAATTCTACCCTAC-AGGGTATTTC
77547532 GGTAATTCTACCCTACAGGGTATTTC
1 GGTAATTCTACCCTACAGGGTATTTC
* *
77547558 GGTATTTTTACCCTACAGGGTATTTC
1 GGTAATTCTACCCTACAGGGTATTTC
*
77547584 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
*
77547611 GGTAATTCTACCCTATAGGGTATTTC
1 GGTAATTCTACCCTACAGGGTATTTC
**
77547637 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
77547664 GGTAATTCTAC
1 GGTAATTCTAC
77547675 AACTTATCCA
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
25 7 0.06
26 75 0.60
27 44 0.35
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (26 bp):
GGTAATTCTACCCTACAGGGTATTTC
Found at i:77547631 original size:53 final size:53
Alignment explanation
Indices: 77547507--77547674 Score: 243
Period size: 53 Copynumber: 3.2 Consensus size: 53
77547497 AGGGCAAAAT
*
77547507 GGTAATT-TACCC-ACAAGGGTATCTCGGTAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTAC-AGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
77547558 GGTATTTTTACCCTACAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* **
77547611 GGTAATTCTACCCTATAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
77547664 GGTAATTCTAC
1 GGTAATTCTAC
77547675 AACTTATCCA
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
51 6 0.06
52 30 0.29
53 69 0.66
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (53 bp):
GGTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:77550539 original size:40 final size:40
Alignment explanation
Indices: 77550431--77550640 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
77550421 CGGGATTTAA
* * * * *
77550431 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
77550471 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
77550511 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
77550551 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
77550591 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
77550631 CCGGATATAT
1 CCGGATATAT
77550641 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:77558603 original size:40 final size:40
Alignment explanation
Indices: 77558495--77558704 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
77558485 CGGGATTTAA
* * * * *
77558495 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
77558535 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
77558575 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
77558615 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
77558655 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
77558695 CCGGATATAT
1 CCGGATATAT
77558705 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:77563017 original size:34 final size:34
Alignment explanation
Indices: 77562973--77563053 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
77562963 GTATCAGTTA
* * *
77562973 GGCCTTAGCCCATTACAGTAACTGTAGCAGTCTG
1 GGCCTGAGCCCATTACAGTAACAGTAGCAGTCTC
* * *
77563007 GGCTTGAGCCCATTACAGTAACAGTATCAGTTTC
1 GGCCTGAGCCCATTACAGTAACAGTAGCAGTCTC
77563041 GGCCTGAGCCCAT
1 GGCCTGAGCCCAT
77563054 AACAAAATCG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (34 bp):
GGCCTGAGCCCATTACAGTAACAGTAGCAGTCTC
Found at i:77567639 original size:55 final size:55
Alignment explanation
Indices: 77567519--77567646 Score: 143
Period size: 55 Copynumber: 2.3 Consensus size: 55
77567509 CGACATGGCT
*** * *
77567519 ATGGTCGAACCTACCAAAACAACATGGGCGTGCGACACGCCCGTGTGGAAGAACC
1 ATGGTCGAACCTGTTAAAACAACATGGGCATGCGACACGCCCGTGTGCAAGAACC
* * *
77567574 ATGGGT-GAACCTGTTAAAACAGCATGGGCATGCGACACGCCCGTGT-CTAGTACCC
1 AT-GGTCGAACCTGTTAAAACAACATGGGCATGCGACACGCCCGTGTGCAAG-AACC
*
77567629 GTGGTCGAACCTGTTAAA
1 ATGGTCGAACCTGTTAAA
77567647 TTAATACAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
54 5 0.08
55 53 0.87
56 3 0.05
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (55 bp):
ATGGTCGAACCTGTTAAAACAACATGGGCATGCGACACGCCCGTGTGCAAGAACC
Found at i:77570359 original size:26 final size:26
Alignment explanation
Indices: 77570323--77570433 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
77570313 CAGCATGGCT
* *
77570323 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
77570349 ACCAGAACAGATAATTGTGGCAGAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
*
77570376 ACCAGAACAAATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
77570403 ACCAGATCAGATAAATGTGGCATAGCC
1 ACCAGAACAGAT-AATGTGGCAGAGCC
77570430 ACCA
1 ACCA
77570434 AGACACTTCC
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 14 0.18
27 60 0.79
28 2 0.03
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:77571891 original size:24 final size:25
Alignment explanation
Indices: 77571838--77571884 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
77571828 CCTTGATTAG
*
77571838 CTCCTAAATCTTCTCCCCTTATCAA
1 CTCCTAAATCTCCTCCCCTTATCAA
77571863 CTCCTAAATCTCCT-CCCTTATC
1 CTCCTAAATCTCCTCCCCTTATC
77571885 CCCTCCTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (25 bp):
CTCCTAAATCTCCTCCCCTTATCAA
Found at i:77573733 original size:27 final size:27
Alignment explanation
Indices: 77573707--77573930 Score: 210
Period size: 27 Copynumber: 8.3 Consensus size: 27
77573697 ATTGGGTAGC
* * *
77573707 AAAATTACCAAAATTCCCTCGA-TTAGC
1 AAAATTACCAAAATACCC-CGAGTTTGT
77573734 AAAATTACCAAAATACCCCTG-GTTTGT
1 AAAATTACCAAAATACCCC-GAGTTTGT
*
77573761 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCGAGTTTGT
*
77573788 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCGAGTTTGT
77573815 AAAATTACCAAAATACCCCTGA-TTTGT
1 AAAATTACCAAAATACCCC-GAGTTTGT
* ** * * *
77573842 GAAATTACTGAAATACCTCGACCTATG-
1 AAAATTACCAAAATACCCCGA-GTTTGT
**
77573869 -AAATTACTGAAATACCCTCGA-TTTGT
1 AAAATTACCAAAATACCC-CGAGTTTGT
* *
77573895 AAAATTACCAAAGTACCCCCGA-TTTAT
1 AAAATTACCAAAATA-CCCCGAGTTTGT
77573922 AAAATTACC
1 AAAATTACC
77573931 GTTTTACCCT
Statistics
Matches: 171, Mismatches: 16, Indels: 20
0.83 0.08 0.10
Matches are distributed among these distances:
25 3 0.02
26 19 0.11
27 142 0.83
28 7 0.04
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCGAGTTTGT
Found at i:77573792 original size:54 final size:55
Alignment explanation
Indices: 77573707--77573930 Score: 235
Period size: 54 Copynumber: 4.2 Consensus size: 55
77573697 ATTGGGTAGC
* * * * *
77573707 AAAATTACCAAAAT-TCCCTCGATTAGCAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTAT
* *
77573761 AAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTCGATTTGTAAAATTACCAAAATACCCCTGA-TTTAT
* ** * **
77573815 AAAATTACCAAAATACCCCT-GATTTGTGAAATTACTGAAATACCTC-GACCTAT
1 AAAATTACCAAAATACCCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTAT
* ** * *
77573868 GAAATTACTGAAATA-CCCTCGATTTGTAAAATTACCAAAGTACCCCCGATTTAT
1 AAAATTACCAAAATACCCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTAT
77573922 AAAATTACC
1 AAAATTACC
77573931 GTTTTACCCT
Statistics
Matches: 140, Mismatches: 24, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
52 4 0.03
53 36 0.26
54 95 0.68
55 5 0.04
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (55 bp):
AAAATTACCAAAATACCCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTAT
Found at i:77573847 original size:81 final size:81
Alignment explanation
Indices: 77573707--77573930 Score: 256
Period size: 81 Copynumber: 2.8 Consensus size: 81
77573697 ATTGGGTAGC
* * * *
77573707 AAAATTACCAAAATTCCCTCGATTAGCAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
* * *
77573772 AATACCCCTA-GTTTG
66 AATACCCCGACCTATG
* * *
77573787 TAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACT
1 -AAAATTACCAAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACC
* *
77573851 GAAATACCTCGACCTATG
64 AAAATACCCCGACCTATG
** * * *
77573869 -AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACC
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACC
77573931 GTTTTACCCT
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
80 53 0.44
81 64 0.53
82 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
AATACCCCGACCTATG
Found at i:77573938 original size:27 final size:27
Alignment explanation
Indices: 77573707--77573955 Score: 145
Period size: 27 Copynumber: 9.3 Consensus size: 27
77573697 ATTGGGTAGC
* * *
77573707 AAAATTACCAAAATTCCCTCGA-TTAGC
1 AAAATTACCAAAGTACCCTCGATTTA-T
* * *
77573734 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAGTACCCTC-GATTTAT
* * *
77573761 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAGTACCCTCGA-TTTAT
* * *
77573788 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAGTACCCTCGA-TTTAT
* *
77573815 AAAATTACCAAAATACCC-CTGATTTGT
1 AAAATTACCAAAGTACCCTC-GATTTAT
* * **
77573842 GAAATTACTGAAA-TA-CCTCGACCTAT
1 AAAATTAC-CAAAGTACCCTCGATTTAT
* * *
77573868 GAAATTACTGAAA-TACCCTCGATTTGT
1 AAAATTAC-CAAAGTACCCTCGATTTAT
*
77573895 AAAATTACCAAAGTACCCCCGATTTAT
1 AAAATTACCAAAGTACCCTCGATTTAT
****
77573922 AAAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACCAAAGTACCCTCGATTTAT
77573949 AAAATTA
1 AAAATTA
77573956 TTGAAATACC
Statistics
Matches: 190, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
26 25 0.13
27 159 0.84
28 6 0.03
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCTCGATTTAT
Found at i:77573981 original size:27 final size:27
Alignment explanation
Indices: 77573958--77574092 Score: 180
Period size: 27 Copynumber: 5.0 Consensus size: 27
77573948 TAAAATTATT
* *
77573958 GAAATACCCCTGTAGGATAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
77573985 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
77574012 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
77574039 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
77574066 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
77574093 ATTTTGCCCC
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:77574658 original size:22 final size:22
Alignment explanation
Indices: 77574606--77574668 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
77574596 GCCAATTATT
*
77574606 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
* *
77574628 CT-ACATATGGCTTTGTGTCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
77574650 CTGATTATGGCTGTGTGCC
1 CTGATTATGGCTTTGTGCC
77574669 GGTATTGTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:77574932 original size:6 final size:6
Alignment explanation
Indices: 77574923--77575020 Score: 85
Period size: 6 Copynumber: 15.8 Consensus size: 6
77574913 TTGCATTCAC
* *
77574923 ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCT- ATCACTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG AT-TC-TG
* *
77574973 ATTTTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
77575021 CATCTTGATT
Statistics
Matches: 75, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
5 4 0.05
6 60 0.80
7 7 0.09
8 4 0.05
ACGTcount: A:0.17, C:0.20, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:77574951 original size:25 final size:25
Alignment explanation
Indices: 77574923--77575015 Score: 159
Period size: 25 Copynumber: 3.7 Consensus size: 25
77574913 TTGCATTCAC
77574923 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
* *
77574948 ATTCTGATTCTGATTCTATCACTTG
1 ATTCTGATTCTGATTCTGTCACCTG
*
77574973 ATTTTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
77574998 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
77575016 ATTCTCATCT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:77575029 original size:18 final size:18
Alignment explanation
Indices: 77574948--77575032 Score: 59
Period size: 19 Copynumber: 4.6 Consensus size: 18
77574938 CTGTCACCTG
77574948 ATTCTGATTCTGATTCT-
1 ATTCTGATTCTGATTCTC
* * *
77574965 ATCACTTGATTTTGATTCTG
1 AT-TC-TGATTCTGATTCTC
* *
77574985 ATTCTG-TCACCTGATTCTG
1 ATTCTGAT--TCTGATTCTC
77575004 ATTCTGATTCTGATTCTC
1 ATTCTGATTCTGATTCTC
77575022 A-TCTTGATTCT
1 ATTC-TGATTCT
77575033 AGTTCTAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
17 5 0.09
18 19 0.35
19 27 0.50
20 3 0.06
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.49
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTC
Found at i:77577238 original size:6 final size:6
Alignment explanation
Indices: 77577229--77577320 Score: 82
Period size: 6 Copynumber: 14.8 Consensus size: 6
77577219 AATCAAGATG
* *
77577229 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGAATC AAGTGAT-
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC -AG-AATC
*
77577279 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
77577321 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
5 4 0.06
6 55 0.77
7 8 0.11
8 4 0.06
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.17
Consensus pattern (6 bp):
AGAATC
Found at i:77577262 original size:25 final size:25
Alignment explanation
Indices: 77577229--77577320 Score: 166
Period size: 25 Copynumber: 3.7 Consensus size: 25
77577219 AATCAAGATG
77577229 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
77577254 AGAATCAGAATCAGAATCAAGTGAT
1 AGAATCAGAATCAGAATCAGGTGAC
77577279 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
77577304 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
77577321 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.17
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:77577291 original size:50 final size:49
Alignment explanation
Indices: 77577217--77577320 Score: 183
Period size: 50 Copynumber: 2.1 Consensus size: 49
77577207 TATTAGAACT
77577217 AGAATCAAGATGAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
1 AGAATCAAGATGAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
77577266 AGAATCAAG-TGATAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
1 AGAATCAAGATG--AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
77577316 AGAAT
1 AGAAT
77577321 GTGAATGCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
48 2 0.04
49 9 0.17
50 42 0.79
ACGTcount: A:0.47, C:0.13, G:0.22, T:0.17
Consensus pattern (49 bp):
AGAATCAAGATGAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
Found at i:77578075 original size:27 final size:27
Alignment explanation
Indices: 77577936--77578068 Score: 185
Period size: 27 Copynumber: 4.9 Consensus size: 27
77577926 GGCAAAATGA
* * *
77577936 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
*
77577963 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* *
77577990 TATTTCTACCCTACAAGGGTGTTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* *
77578017 TAATTCTATCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGG
*
77578044 TAATTCTACCCTACAGGGGTATTTC
1 TAATTCTACCCTACAAGGGTATTTC
77578069 AATAATTTTG
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGG
Found at i:77585053 original size:27 final size:27
Alignment explanation
Indices: 77585023--77585364 Score: 245
Period size: 27 Copynumber: 12.7 Consensus size: 27
77585013 TAATAAAGAT
*
77585023 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTTGATTTGTA
** *
77585050 AAATTA-TCGAAATACCCCCGATTTGTG
1 AAATTACT-GAAATACCCTTGATTTGTA
* *
77585077 AAATTA-TCGAAACACCCTTGATTTCTA
1 AAATTACT-GAAATACCCTTGATTTGTA
*
77585104 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTTGATTTGTA
** * *
77585131 AAATTA-TCGAAATACCCTCAATTTTTG
1 AAATTACT-GAAATACCCTTGATTTGTA
* ** * *
77585158 AAATTACCGAAATACCC-CAATTTATG
1 AAATTACTGAAATACCCTTGATTTGTA
* *
77585184 AAATTA-TCGAAATTCCC-TGATTTTTA
1 AAATTACT-GAAATACCCTTGATTTGTA
* *
77585210 AAATTA-TCGAAACA-CCTTCAATTTGTA
1 AAATTACT-GAAATACCCTT-GATTTGTA
* * **
77585237 AAATAACTAAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTTGATTTGTA
* *
77585264 AAATTACCGAAATA-CCTTCAATTTGTA
1 AAATTACTGAAATACCCTT-GATTTGTA
* * **
77585291 AAATTACCGAAACACCCCCGATTTGTA
1 AAATTACTGAAATACCCTTGATTTGTA
* * *
77585318 AAATTATTGAAATACCATTG-TAGTGTA
1 AAATTACTGAAATACCCTTGAT-TTGTA
77585345 AAATTACTGAAATACCCTTG
1 AAATTACTGAAATACCCTTG
77585365 TAGTGTAAAA
Statistics
Matches: 255, Mismatches: 48, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 46 0.18
27 200 0.78
28 7 0.03
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTGATTTGTA
Found at i:77585106 original size:54 final size:54
Alignment explanation
Indices: 77585032--77585333 Score: 315
Period size: 54 Copynumber: 5.6 Consensus size: 54
77585022 TAAATTACTA
* * * *
77585032 AAATACCCTTGATTTGTAAAATTATCGAAATACCCCCGATTTGTGAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTATCG
* * * *
77585086 AAACACCCTTGATTTCTAAAATTA-CTGAAATACCCTCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATC-GAAATACCCTCAATTTGTAAAATTATCG
* * * * * *
77585140 AAATACCCTCAATTTTTGAAATTACCGAAATACCC-CAATTTATGAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTATCG
* * * * * *
77585193 AAATTCCCT-GATTTTTAAAATTATCGAAACACCTTCAATTTGTAAAA-TAACTA
1 AAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTATC-G
* * * *
77585246 AAATACCCTCAATTTGTAAAATTACCGAAATACCTTCAATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTATCG
* * *
77585300 AAACACCCCCGATTTGTAAAATTATTGAAATACC
1 AAATACCCTCGATTTGTAAAATTATCGAAATACC
77585334 ATTGTAGTGT
Statistics
Matches: 208, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
52 23 0.11
53 42 0.20
54 139 0.67
55 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTATCG
Found at i:77585160 original size:81 final size:81
Alignment explanation
Indices: 77585023--77585389 Score: 332
Period size: 81 Copynumber: 4.6 Consensus size: 81
77585013 TAATAAAGAT
* * *
77585023 AAATTACTAAAATACCCTTGATTTGTAAAATTATCGAAATACCCCCGATTTGTGAAATTATCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCAATTTGTGAAATTATCGAA
* ** *
77585088 ACACCCTTGATTTCTA
66 ATACCCTCAATTTGTA
* * *
77585104 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTTTGAAATTACCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCAATTTGTGAAATTATCGAA
* *
77585169 ATACCC-CAATTTATG
66 ATACCCTCAATTTGTA
* * * ** * * *
77585184 AAATTA-TCGAAATTCCCT-GATTTTTAAAATTATCGAAACACCTTCAATTTGT-AAAATAACTA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCAATTTGTGAAATTATC-G
77585246 AAATACCCTCAATTTGTA
64 AAATACCCTCAATTTGTA
* * * * * * * *
77585264 AAATTACCGAAATACCTTCAATTTGTAAAATTACCGAAACACCCCCGATTTGTAAAATTATTGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCAATTTGTGAAATTATCGAA
* ** *
77585329 ATACCAT-TGTAGTGTA
66 ATACCCTCAAT-TTGTA
* * * *
77585345 AAATTACTGAAATACCCTTG-TAGTGTAAAATGATCGACATACCCC
1 AAATTACTGAAATACCCTCGAT-TTGTAAAATTATCGAAATACCCC
77585390 TGTAGGGTAA
Statistics
Matches: 231, Mismatches: 47, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
78 6 0.03
79 39 0.17
80 43 0.19
81 138 0.60
82 5 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (81 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCAATTTGTGAAATTATCGAA
ATACCCTCAATTTGTA
Found at i:77585263 original size:133 final size:134
Alignment explanation
Indices: 77585050--77585333 Score: 374
Period size: 133 Copynumber: 2.1 Consensus size: 134
77585040 TTGATTTGTA
* * * *
77585050 AAATTATCGAAATACCCCCGATTTGTGAAATTATCGAAACACCCTTGATTTCTAAAATTACTGAA
1 AAATTATCGAAATACCCCCGATTTGTAAAATTATCGAAACACCCTTAATTTCTAAAATAACTAAA
* * * * *
77585115 ATACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTTTGAAATTACCGAAATACCCCAATT
66 ATACCCTCAATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAACACCCCAATT
77585180 TATG
131 TATG
* * * *
77585184 AAATTATCGAAAT-TCCCTGATTTTTAAAATTATCGAAACA-CCTTCAATTTGTAAAATAACTAA
1 AAATTATCGAAATACCCCCGATTTGTAAAATTATCGAAACACCCTT-AATTTCTAAAATAACTAA
* *
77585247 AATACCCTCAATTTGTAAAATTACCGAAATACCTTCAATTTGTAAAATTACCGAAACACCCCCGA
65 AATACCCTCAATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAACA-CCCCAA
* *
77585312 TTTGTA
129 TTTATG
*
77585318 AAATTATTGAAATACC
1 AAATTATCGAAATACC
77585334 ATTGTAGTGT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
132 4 0.03
133 89 0.70
134 34 0.27
135 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (134 bp):
AAATTATCGAAATACCCCCGATTTGTAAAATTATCGAAACACCCTTAATTTCTAAAATAACTAAA
ATACCCTCAATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAACACCCCAATT
TATG
Found at i:77585365 original size:27 final size:27
Alignment explanation
Indices: 77585314--77585407 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
77585304 ACCCCCGATT
* * *
77585314 TGTAAAATTATTGAAATACCATTGTAG
1 TGTAAAATGACTGAAATACCCTTGTAG
*
77585341 TGTAAAATTACTGAAATACCCTTGTAG
1 TGTAAAATGACTGAAATACCCTTGTAG
* *
77585368 TGTAAAATGA-TCGACATACCCCTGTAG
1 TGTAAAATGACT-GAAATACCCTTGTAG
*
77585395 GGTAAAATGACTG
1 TGTAAAATGACTG
77585408 TTTTACCCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
26 1 0.02
27 57 0.97
28 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (27 bp):
TGTAAAATGACTGAAATACCCTTGTAG
Found at i:77587752 original size:202 final size:202
Alignment explanation
Indices: 77587400--77587790 Score: 577
Period size: 202 Copynumber: 1.9 Consensus size: 202
77587390 ACCCTGACTG
* * * * * *
77587400 TCAATAATTCCTTAGAAAAATCGTTTCTACTTTACTGTATAGAAGAGTTCTAAAATGGTCTACAT
1 TCAATAATGCCTTAGAAAAATCATTTCTACTTTACTGCACAAAACAGTTCTAAAATGGTCTACAT
*
77587465 CTCACGAGGACAAAACCTCAAGTTACCTTGCCCGTATCTATAGGCTTTTTAAATATCTTGCATGG
66 CTCACGAGGACAAAAACTCAAGTTACCTTGCCCGTATCTATAGGCTTTTTAAATATCTTGCATGG
** * * *
77587530 GTTCCTTCTATATGATCATGACTCTATGTCTAGATTTGACTACAAGTGTCAATCAAATACTTGCT
131 GTTCCAACTATATAATCATGACCCTATGTCTAGATTCGACTACAAGTGTCAATCAAATACTTGCT
77587595 CAAACTA
196 CAAACTA
* * *
77587602 TCAATAATGCCTTGGAAAAATCATTTCTACTTTCCTGCACAAAACAGTTCTAAAATGGTCTACCT
1 TCAATAATGCCTTAGAAAAATCATTTCTACTTTACTGCACAAAACAGTTCTAAAATGGTCTACAT
* * * *
77587667 CTCGCGAGGACAAAAACTCAAGTTACCTTGCCCGT-GCTTATAGGCTTTTTAGATATTTTGCATG
66 CTCACGAGGACAAAAACTCAAGTTACCTTGCCCGTATC-TATAGGCTTTTTAAATATCTTGCATG
* *
77587731 GGTTCCAACTGTATAATCATGACCCTATGTCTAGATTCGACTACAAGTTTCAATCAAATA
130 GGTTCCAACTATATAATCATGACCCTATGTCTAGATTCGACTACAAGTGTCAATCAAATA
77587791 ATTGTTCATT
Statistics
Matches: 167, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
201 1 0.01
202 166 0.99
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (202 bp):
TCAATAATGCCTTAGAAAAATCATTTCTACTTTACTGCACAAAACAGTTCTAAAATGGTCTACAT
CTCACGAGGACAAAAACTCAAGTTACCTTGCCCGTATCTATAGGCTTTTTAAATATCTTGCATGG
GTTCCAACTATATAATCATGACCCTATGTCTAGATTCGACTACAAGTGTCAATCAAATACTTGCT
CAAACTA
Found at i:77590768 original size:48 final size:48
Alignment explanation
Indices: 77590694--77591016 Score: 495
Period size: 48 Copynumber: 6.7 Consensus size: 48
77590684 GTCATTAGGG
* *
77590694 GATACATTGATTTGGCTTCGGACCATGATATTAGCACTTTGGGTGCGA
1 GATACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGA
* * * *
77590742 CATACACTGATGTGGCTTCGGGCCATGATATTAGCACTTCGGGTGTGA
1 GATACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGA
* * * *
77590790 AATACATTGATTTGGCTTCAGACCATGATATTAGCACTTCAGGTGCGA
1 GATACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGA
77590838 GATACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGA
1 GATACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGA
77590886 GATACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGA
1 GATACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGA
**
77590934 GATACATTGATTTGGCTTCGGGCCATGATATTAGCACTTTAGGTG-GAA
1 GATACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCG-A
* * *
77590982 AATACATTAAGTTGGCTTCGGGCCATGATATTAGC
1 GATACATTGATTTGGCTTCGGGCCATGATATTAGC
77591017 GCTTAGTGTG
Statistics
Matches: 252, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 1 0.00
48 251 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (48 bp):
GATACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGA
Found at i:77592696 original size:16 final size:17
Alignment explanation
Indices: 77592677--77592709 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
77592667 ATTTATGGCC
*
77592677 TATATTGAA-TGAGTTA
1 TATATTAAATTGAGTTA
77592693 TATATTAAATTGAGTTA
1 TATATTAAATTGAGTTA
77592710 AATTTATCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (17 bp):
TATATTAAATTGAGTTA
Found at i:77593046 original size:30 final size:29
Alignment explanation
Indices: 77592980--77593170 Score: 136
Period size: 30 Copynumber: 6.4 Consensus size: 29
77592970 AACTATCGAT
77592980 TATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * *
77593009 AATGAAAAGGGTTGGTGATGACCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATC-AAC
* * * * *
77593039 TATGAAAAAGGATGGCT-TCGGCCAACGATC
1 TATGAAAAGGGATGG-TGACGACCATC-AAC
* * * * * *
77593069 TATGAAAAGGAAAGCT-TC-AGCTATCAAAT
1 TATGAAAAGGGATGGTGACGA-CCATC-AAC
77593098 TATGAAAAGGGATGGTGACGACCATCAAAC
1 TATGAAAAGGGATGGTGACGACCATC-AAC
* * * *
77593128 AATGAAAACGGATGGTGACGACCATTAAAT
1 TATGAAAAGGGATGGTGACGACCA-TCAAC
77593158 TATGAAAAGGGAT
1 TATGAAAAGGGAT
77593171 AACTTCAGCT
Statistics
Matches: 123, Mismatches: 33, Indels: 11
0.74 0.20 0.07
Matches are distributed among these distances:
29 43 0.35
30 77 0.63
31 3 0.02
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.20
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:77593103 original size:89 final size:89
Alignment explanation
Indices: 77593010--77593200 Score: 228
Period size: 89 Copynumber: 2.1 Consensus size: 89
77593000 ACCATCAACA
* * * * * * *
77593010 ATGAAAAGGGTTGGTGATGACCATCGAACTATGAAAAAGGATGGCT-TCGGCCA-ACGATCTATG
1 ATGAAAAGGGATGGTGACGACCATCAAACAATGAAAAAGGATGG-TGACGACCATA-AAT-TATG
77593073 AAAA-GGA-AAGCTTCAGCTATCAAATT
63 AAAAGGGATAA-CTTCAGCTATCAAATT
*
77593099 ATGAAAAGGGATGGTGACGACCATCAAACAATGAAAACGGATGGTGACGACCATTAAATTATGAA
1 ATGAAAAGGGATGGTGACGACCATCAAACAATGAAAAAGGATGGTGACGACCA-TAAATTATGAA
*
77593164 AAGGGATAACTTCAGCTATCGAATT
65 AAGGGATAACTTCAGCTATCAAATT
77593189 ATGAAAAGGGAT
1 ATGAAAAGGGAT
77593201 AACTTCGATT
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
88 1 0.01
89 52 0.59
90 32 0.36
91 3 0.03
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (89 bp):
ATGAAAAGGGATGGTGACGACCATCAAACAATGAAAAAGGATGGTGACGACCATAAATTATGAAA
AGGGATAACTTCAGCTATCAAATT
Found at i:77593133 original size:59 final size:59
Alignment explanation
Indices: 77592978--77593170 Score: 151
Period size: 59 Copynumber: 3.3 Consensus size: 59
77592968 CCAACTATCG
*** * *
77592978 ATTATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGTTGGTGATGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGAAAGGTCATGACCATCAA
* * * * * * * * *
77593037 ACTATGAAAAAGGATGGCT-TCGGCCAACGATCTATGAAAAGGAAAGCTTCA-G-CTATCAA
1 ATTATGAAAAGGGATGG-TGACGACCATC-AACAATGAAAAGGAAAG-GTCATGACCATCAA
* * * *
77593096 ATTATGAAAAGGGATGGTGACGACCATCAAACAATGAAAACGG-ATGGTGACGACCATTAA
1 ATTATGAAAAGGGATGGTGACGACCATC-AACAATGAAAA-GGAAAGGTCATGACCATCAA
77593156 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
77593171 AACTTCAGCT
Statistics
Matches: 100, Mismatches: 27, Indels: 13
0.71 0.19 0.09
Matches are distributed among these distances:
58 3 0.03
59 59 0.59
60 36 0.36
61 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (59 bp):
ATTATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGAAAGGTCATGACCATCAA
Found at i:77596047 original size:15 final size:15
Alignment explanation
Indices: 77596027--77596058 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
77596017 AACATGGTAC
77596027 TTAACTTACCATTTA
1 TTAACTTACCATTTA
77596042 TTAACTTACCATTTA
1 TTAACTTACCATTTA
77596057 TT
1 TT
77596059 CTATTTTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAACTTACCATTTA
Found at i:77596821 original size:19 final size:19
Alignment explanation
Indices: 77596793--77596829 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
77596783 TGAGAGAAAC
*
77596793 AAAAACAAAGAAAGAAAAA
1 AAAAAAAAAGAAAGAAAAA
*
77596812 AAAAAAAAAGGAAGAAAA
1 AAAAAAAAAGAAAGAAAA
77596830 GTGTTCATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAGAAAGAAAAA
Found at i:77598119 original size:40 final size:40
Alignment explanation
Indices: 77598060--77598166 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
77598050 CAATTGAATG
* * * *
77598060 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
77598100 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
77598140 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
77598167 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:77598186 original size:40 final size:39
Alignment explanation
Indices: 77598101--77598227 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
77598091 CTGGAAATTA
* * *
77598101 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
77598139 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
77598181 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
77598221 TATCCGG
1 TATCCGG
77598228 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:77604939 original size:17 final size:18
Alignment explanation
Indices: 77604907--77604943 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
77604897 CGTACATGAG
*
77604907 AGAAACAAAAACAAAGAA
1 AGAAACAAAAAAAAAGAA
77604925 AGAAA-AAAAAAAAAGAA
1 AGAAACAAAAAAAAAGAA
77604942 AG
1 AG
77604944 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (18 bp):
AGAAACAAAAAAAAAGAA
Found at i:77604951 original size:17 final size:18
Alignment explanation
Indices: 77604907--77604943 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
77604897 CGTACATGAG
*
77604907 AGAAACAAAAACAAAGAA
1 AGAAAAAAAAACAAAGAA
77604925 AGAAAAAAAAA-AAAGAA
1 AGAAAAAAAAACAAAGAA
77604942 AG
1 AG
77604944 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAACAAAGAA
Found at i:77606272 original size:40 final size:40
Alignment explanation
Indices: 77606213--77606319 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
77606203 CAATTGAATG
* * * *
77606213 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
77606253 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
77606293 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
77606320 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:77606339 original size:40 final size:39
Alignment explanation
Indices: 77606254--77606380 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
77606244 CTGGAAATTA
* * *
77606254 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
77606292 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
77606334 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
77606374 TATCCGG
1 TATCCGG
77606381 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:77607929 original size:40 final size:40
Alignment explanation
Indices: 77607883--77607993 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
77607873 ATATAAACGT
*
77607883 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAA-GCACTA
*
77607923 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTA
*
77607963 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
77607994 TAATTTCCAG
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 59 0.92
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
Found at i:77615900 original size:40 final size:40
Alignment explanation
Indices: 77615855--77616022 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
77615845 CGGAATACAA
77615855 CCGGATATAATTACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATTAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
77615895 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATTACTAGCACGAATGCCTTCGGGTCTTAGC
* *** *
77615935 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAATTACTAGCACGAA-TGCCTTCGGGTCTTAGC
* * ** * * *
77615975 CCGGATATAATTTCCAGCATTAACGTCTTCGGGGCTTAGC
1 CCGGATATAATTACTAGCACGAATGCCTTCGGGTCTTAGC
77616015 CCGGATAT
1 CCGGATAT
77616023 CATTCAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATTACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:77619236 original size:6 final size:6
Alignment explanation
Indices: 77619206--77619342 Score: 102
Period size: 6 Copynumber: 22.3 Consensus size: 6
77619196 AAGAAACATT
* * * *
77619206 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAAA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
77619255 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
77619304 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
77619343 GTGAATGCAA
Statistics
Matches: 102, Mismatches: 18, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
5 5 0.05
6 85 0.83
7 9 0.09
8 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:77619262 original size:43 final size:43
Alignment explanation
Indices: 77619215--77619320 Score: 149
Period size: 43 Copynumber: 2.5 Consensus size: 43
77619205 TATCAGAACT
*
77619215 AGAATCAAAATGAGAATCAGAATCAAAATCAGGTGACAGAATC
1 AGAATCAAAATCAGAATCAGAATCAAAATCAGGTGACAGAATC
* * * *
77619258 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAAAATCAGAATCAGAATCAAAATCAGGTGACAGAATC
* *
77619301 AGAATCAGAATCAGTATCAG
1 AGAATCAAAATCAGAATCAG
77619321 GTAACAGAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (43 bp):
AGAATCAAAATCAGAATCAGAATCAAAATCAGGTGACAGAATC
Found at i:77619298 original size:31 final size:31
Alignment explanation
Indices: 77619251--77619342 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
77619241 AATCAGGTGA
77619251 CAGAATCA-G-AATCAGAATCAGAATCAGAAT
1 CAGAATCAGGTAA-CAGAATCAGAATCAGAAT
* * *
77619281 CAGAATTAGGTGACAGAATTAGAATCAGAAT
1 CAGAATCAGGTAACAGAATCAGAATCAGAAT
* *
77619312 CAGTATCAGGTAACAGAATCAAAATCAGAAT
1 CAGAATCAGGTAACAGAATCAGAATCAGAAT
77619343 GTGAATGCAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
30 7 0.13
31 44 0.85
32 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGAATCAGGTAACAGAATCAGAATCAGAAT
Found at i:77619500 original size:27 final size:26
Alignment explanation
Indices: 77619460--77619567 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
77619450 AGCATGGCTG
* *
77619460 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
77619486 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
77619513 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * * *
77619540 ACAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGACAGAGCCA
77619567 C
1 C
77619568 TTAACAGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 12 0.17
27 51 0.72
28 8 0.11
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:77619558 original size:54 final size:53
Alignment explanation
Indices: 77619460--77619567 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
77619450 AGCATGGCTG
* * * * *
77619460 CCAGAACAAATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAACAAATATTGTGACAGAGCCAACAGAAACAGATAATGTGGCAAAGCCA
* * *
77619513 CCAGAACAGATATTTGTGGCATAGCCAACAGAAACAGATAATGTGGCAAAGCCA
1 CCAGAACAAATA-TTGTGACAGAGCCAACAGAAACAGATAATGTGGCAAAGCCA
77619567 C
1 C
77619568 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
53 11 0.24
54 35 0.76
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (53 bp):
CCAGAACAAATATTGTGACAGAGCCAACAGAAACAGATAATGTGGCAAAGCCA
Found at i:77627065 original size:40 final size:39
Alignment explanation
Indices: 77627017--77627224 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 39
77627007 TCTTCGAAAT
* *
77627017 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
77627056 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
77627096 TTAGCCCGGATATAACAACTTGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
77627136 TTAGCCCGGATATAACAACTAGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* * *
77627176 TTAGCCCGGATATAATC-ATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
77627216 TTAGCCCGG
1 TTAGCCCGG
77627225 GTATCATTCA
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
39 3 0.02
40 141 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:77632899 original size:46 final size:48
Alignment explanation
Indices: 77632801--77632964 Score: 173
Period size: 47 Copynumber: 3.5 Consensus size: 48
77632791 GACGAGGGCT
* * *
77632801 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGGGAAG-TAAGAT-
1 AGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGATAAG-TC
* *
77632847 AATGTAAGA-CATGTCTGGAACATGCATC-ACCTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGACCT-CGAGATGATAAGTC
* * *
77632893 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGAGATGATAAGTC
77632940 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
77632965 GCATTGGCAC
Statistics
Matches: 102, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
45 4 0.04
46 44 0.43
47 46 0.45
48 7 0.07
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGATAAGTC
Found at i:77636784 original size:39 final size:40
Alignment explanation
Indices: 77636684--77636865 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
77636674 TCGAATGATG
* * *
77636684 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
77636724 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
77636764 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
77636802 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
77636843 T-CGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
77636866 TGAGCGAGTC
Statistics
Matches: 116, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 62 0.53
41 9 0.08
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:77636829 original size:78 final size:80
Alignment explanation
Indices: 77636684--77636865 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
77636674 TCGAATGATG
* * * *
77636684 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
77636749 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
77636764 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
77636826 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
77636843 T-CGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
77636866 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 45 0.52
79 30 0.34
80 11 0.13
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:77643211 original size:29 final size:30
Alignment explanation
Indices: 77643178--77643235 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
77643168 AAATCAATTT
*
77643178 TCAA-GTATAGGGGCAAAATGGTCATTTTG
1 TCAAGGTATAGGGGCAAAATAGTCATTTTG
*
77643207 TCAAGGTCTAGGGGCAAAATAGTCATTTT
1 TCAAGGTATAGGGGCAAAATAGTCATTTT
77643236 AGCTAATACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (30 bp):
TCAAGGTATAGGGGCAAAATAGTCATTTTG
Found at i:77643746 original size:94 final size:93
Alignment explanation
Indices: 77643582--77643799 Score: 291
Period size: 94 Copynumber: 2.3 Consensus size: 93
77643572 GTCACTTGTG
*
77643582 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCAT
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCAT
77643647 GTCTGGGACATGGCATC-AGCATTAAGATGA
66 GTCTGGGACATGGCATCGA-C-TTAAGAT-A
* * * *
77643677 -GGGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTATGA-GATGATAG-TCAGTGTAAGACC
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATGATGAGAGCT-AGTGTAAGACC
*
77643739 ATGTCTGGGACATGGCATCGACTTGAGATA
64 ATGTCTGGGACATGGCATCGACTTAAGATA
*
77643769 TGAGCCAGTGTAAGACCATGTCTGGGACATG
1 TGAGCTAGTGTAAGA-CATGTCTGGGACATG
77643800 GCATTGGCAA
Statistics
Matches: 110, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
92 1 0.01
93 19 0.17
94 88 0.80
95 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (93 bp):
TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCAT
GTCTGGGACATGGCATCGACTTAAGATA
Found at i:77643800 original size:47 final size:48
Alignment explanation
Indices: 77643582--77643803 Score: 248
Period size: 47 Copynumber: 4.7 Consensus size: 48
77643572 GTCACTTGTG
* *** *
77643582 TGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-GATGA
*
77643629 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTAAGATGA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-C-TTGAGATGA
* *
77643677 -GGGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGATGA
77643723 T-AG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAT-A
1 TGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGA
*
77643769 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
77643804 TGGCAACTTA
Statistics
Matches: 152, Mismatches: 11, Indels: 24
0.81 0.06 0.13
Matches are distributed among these distances:
45 2 0.01
46 39 0.26
47 79 0.52
48 31 0.20
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGA
Found at i:77644624 original size:13 final size:13
Alignment explanation
Indices: 77644606--77644638 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
77644596 CAGAGACATG
77644606 GCCGTGTGTCTTA
1 GCCGTGTGTCTTA
77644619 GCCGTGTGTCTTA
1 GCCGTGTGTCTTA
77644632 GCCGTGT
1 GCCGTGT
77644639 AGAGGACACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.24, G:0.33, T:0.36
Consensus pattern (13 bp):
GCCGTGTGTCTTA
Found at i:77645598 original size:24 final size:24
Alignment explanation
Indices: 77645570--77645667 Score: 151
Period size: 24 Copynumber: 4.0 Consensus size: 24
77645560 AAAGCTGTCA
77645570 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
77645594 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
77645618 GGAGAGGATTTAGGAGTTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
77645642 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
77645667 G
1 G
77645668 AGCAAGAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 64 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.04, G:0.39, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:77647093 original size:27 final size:27
Alignment explanation
Indices: 77647055--77647142 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
77647045 AGGAAGCGTC
77647055 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
77647082 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* * *
77647109 CTGGTGGCTCTGCGAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
77647136 CTGGTGG
1 CTGGTGG
77647143 ACCCTAAACC
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
26 2 0.04
27 55 0.96
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:77647155 original size:7 final size:7
Alignment explanation
Indices: 77647143--77647176 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
77647133 GTTCTGGTGG
77647143 ACCCTAA
1 ACCCTAA
77647150 ACCCTAA
1 ACCCTAA
77647157 ACCCTAA
1 ACCCTAA
77647164 ACCCTAA
1 ACCCTAA
77647171 ACCCTA
1 ACCCTA
77647177 TAATTACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (7 bp):
ACCCTAA
Found at i:77653611 original size:24 final size:24
Alignment explanation
Indices: 77653578--77653674 Score: 133
Period size: 24 Copynumber: 4.0 Consensus size: 24
77653568 AAGGCTTTCA
* *
77653578 GGAGAAGATTTAGAAGCTAATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
77653602 GGAGAGGA-TTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
77653625 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
77653649 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
77653674 G
1 G
77653675 AGCAAGAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
23 21 0.32
24 41 0.63
25 3 0.05
ACGTcount: A:0.38, C:0.05, G:0.37, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:77653653 original size:47 final size:49
Alignment explanation
Indices: 77653578--77653674 Score: 135
Period size: 47 Copynumber: 2.0 Consensus size: 49
77653568 AAGGCTTTCA
* *
77653578 GGAGAAGATTTAGAAGCTAATAAGGGAGAGGA-TTAGGAGCTGAT-AAG
1 GGAGAAGATTTAGAAGCTAATAAAGGAGAAGATTTAGGAGCTGATCAAG
* * *
77653625 GGAGAGGATTTAGGAGCTGATAAAGGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGAAGCTAATAAAGGAGAAGATTTAGGAGCTGATCAAG
77653674 G
1 G
77653675 AGCAAGAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
47 27 0.63
48 12 0.28
49 4 0.09
ACGTcount: A:0.38, C:0.05, G:0.37, T:0.20
Consensus pattern (49 bp):
GGAGAAGATTTAGAAGCTAATAAAGGAGAAGATTTAGGAGCTGATCAAG
Found at i:77655101 original size:27 final size:27
Alignment explanation
Indices: 77655061--77655171 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
77655051 AGGAAGCGTC
* *
77655061 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
77655088 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
77655115 CTAGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* * * * *
77655142 CCGCTGCCTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
77655168 CTGG
1 CTGG
77655172 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
26 14 0.20
27 55 0.77
28 2 0.03
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:77655153 original size:54 final size:53
Alignment explanation
Indices: 77655064--77655169 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 53
77655054 AAGCGTCCTG
* * * *
77655064 GTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTATGCCACAATTATCTGATCCGCTGCCTCTGCCACAT-TATCTGTTCTA
* * *
77655118 GTGGCTCTGCCACAATTATCTGTTCCGCTGCCTCTGTCACATTATCTGTTCT
1 GTGGCTATGCCACAATTATCTGATCCGCTGCCTCTGCCACATTATCTGTTCT
77655170 GGCAGCCATG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 10 0.22
54 35 0.78
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (53 bp):
GTGGCTATGCCACAATTATCTGATCCGCTGCCTCTGCCACATTATCTGTTCTA
Found at i:77656985 original size:46 final size:45
Alignment explanation
Indices: 77656918--77657092 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
77656908 TGTAACCCGC
77656918 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTAT
* * * * *
77656964 CCATAAGTGAACTCAGACTCAACTCAACGAGCTAGGATGCCTAGT-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGTAT
* * * * *
77657010 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTAT
* *
77657057 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
77657093 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
45 3 0.03
46 66 0.63
47 31 0.30
48 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGTAT
Found at i:77657037 original size:93 final size:93
Alignment explanation
Indices: 77656925--77657096 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
77656915 CGCCCATAAG
* * *
77656925 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
77656990 ACGAGCTAGGATGCCTAGTTACATTTCA
66 ACGAGCTAGGATGCCTAGTTACATTTCA
* *
77657018 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
* *
77657083 ACGAGTTCGGATGC
66 ACGAGCTAGGATGC
77657097 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTAGGATGCCTAGTTACATTTCA
Found at i:77659808 original size:28 final size:28
Alignment explanation
Indices: 77659743--77659843 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
77659733 ATAGTGAATC
*
77659743 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
77659772 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
77659800 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
77659830 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77659844 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:77666909 original size:40 final size:40
Alignment explanation
Indices: 77666864--77667031 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
77666854 CGGAATATAA
77666864 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
77666904 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
77666944 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
77666984 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
77667024 CCGGATAT
1 CCGGATAT
77667032 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:77667014 original size:80 final size:80
Alignment explanation
Indices: 77666880--77667029 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
77666870 ATAATCACGT
*
77666880 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
77666944 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
77666960 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
77667023 CCCGGAT
64 CCCGGAT
77667030 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:77674906 original size:40 final size:40
Alignment explanation
Indices: 77674861--77675027 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
77674851 CGGAATATAA
77674861 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
** * *
77674901 CCGGATA-AATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
77674940 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
77674980 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
77675020 CCGGATAT
1 CCGGATAT
77675028 CATTCAATTT
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.33
40 66 0.65
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:77677480 original size:48 final size:48
Alignment explanation
Indices: 77677424--77677522 Score: 146
Period size: 48 Copynumber: 2.1 Consensus size: 48
77677414 CGTTATGTGA
* *
77677424 GATCCCATGTAGGACCATGTCT-GTGACATGGCATTGGCATCGATAAGT
1 GATCCCATGTAAGACCATATCTAG-GACATGGCATTGGCATCGATAAGT
* *
77677472 GATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGATAAGT
77677520 GAT
1 GAT
77677523 TTCGTGTAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 45 0.98
49 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGATAAGT
Found at i:77677505 original size:42 final size:42
Alignment explanation
Indices: 77677458--77677638 Score: 121
Period size: 42 Copynumber: 4.1 Consensus size: 42
77677448 GACATGGCAT
*
77677458 TGGCATCGATAAGTGATCCCATGTAAGACCATATCTAGGATATGGCA
1 TGGCATCGATATGTGATCCCATGTAAGACCATATCTAGG--AT---A
** * *** * *
77677505 TTGGCATCGATATGTGATTTCGTGTAAGACCCCGTCTGGGACA
1 -TGGCATCGATATGTGATCCCATGTAAGACCATATCTAGGATA
* * * * * * * *
77677548 TGACATCGATACGAGA-CATCGTGTAAGACCATAACTGGGCTA
1 TGGCATCGATATGTGATC-CCATGTAAGACCATATCTAGGATA
*
77677590 TCGGCATCGATATGTGATCCCATGTAAGACCATATCTACGATA
1 T-GGCATCGATATGTGATCCCATGTAAGACCATATCTAGGATA
77677633 TGGCAT
1 TGGCAT
77677639 TATCCTATAG
Statistics
Matches: 102, Mismatches: 28, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
42 37 0.36
43 32 0.31
44 1 0.01
46 1 0.01
48 31 0.30
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (42 bp):
TGGCATCGATATGTGATCCCATGTAAGACCATATCTAGGATA
Found at i:77678890 original size:20 final size:20
Alignment explanation
Indices: 77678865--77678908 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
77678855 TTACATGGGT
77678865 GTGTCCCAAGCCAAACGGGC
1 GTGTCCCAAGCCAAACGGGC
*
77678885 GTGTCCCAAGCCACACGGGC
1 GTGTCCCAAGCCAAACGGGC
77678905 GTGT
1 GTGT
77678909 GTGACCACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.34, G:0.32, T:0.14
Consensus pattern (20 bp):
GTGTCCCAAGCCAAACGGGC
Found at i:77688405 original size:27 final size:27
Alignment explanation
Indices: 77688371--77688429 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
77688361 CCAAATTGAT
77688371 AAATGACTATTTCACCCTTATGAGGTA
1 AAATGACTATTTCACCCTTATGAGGTA
* ** *
77688398 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGACTATTTCACCCTTATGAGGTA
77688425 AAATG
1 AAATG
77688430 GCTAAAATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (27 bp):
AAATGACTATTTCACCCTTATGAGGTA
Found at i:77688770 original size:38 final size:38
Alignment explanation
Indices: 77688719--77688810 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
77688709 AGTGCTATTT
*
77688719 TGGAGTGTAGGGATGGGTGGGTTGATTTTATCCCTACA
1 TGGAGTGTAGGGATGGGTGGGTTGATTTTATCCCCACA
*
77688757 TGGAGTGTAGGGATAGGTGGGTTGATTTTATCCCCACA
1 TGGAGTGTAGGGATGGGTGGGTTGATTTTATCCCCACA
77688795 TGGAGTGTAGGGATGG
1 TGGAGTGTAGGGATGG
77688811 ATGGAATGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.20, C:0.10, G:0.39, T:0.32
Consensus pattern (38 bp):
TGGAGTGTAGGGATGGGTGGGTTGATTTTATCCCCACA
Found at i:77688887 original size:18 final size:18
Alignment explanation
Indices: 77688864--77688925 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
77688854 ATTTAAACTG
*
77688864 TTACTGCACTGATTGCTA
1 TTACTGCACTGATTACTA
*
77688882 TTACTGCATTGATTACTA
1 TTACTGCACTGATTACTA
** * *
77688900 TTACTGCTTTGTTTACTG
1 TTACTGCACTGATTACTA
77688918 TTACTGCA
1 TTACTGCA
77688926 ATGGGCCAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (18 bp):
TTACTGCACTGATTACTA
Found at i:77691217 original size:22 final size:23
Alignment explanation
Indices: 77691191--77691236 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
77691181 CGAATTTTTG
77691191 ATTTCA-G-TGAATATTTTGTGTT
1 ATTTCATGATGAATA-TTTGTGTT
77691213 ATTTCATTGATGAATATTTGTGTT
1 ATTTCA-TGATGAATATTTGTGTT
77691237 TTCTGATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
24 9 0.43
25 6 0.29
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.54
Consensus pattern (23 bp):
ATTTCATGATGAATATTTGTGTT
Found at i:77699761 original size:35 final size:35
Alignment explanation
Indices: 77699649--77699785 Score: 111
Period size: 35 Copynumber: 3.9 Consensus size: 35
77699639 CATAGGTAAG
* *
77699649 TACATGT-AAGCTTATATTGAACTTGTATATTCGGC
1 TACATGTGAA-CTTATATTGAAATTGTATATTCGGA
* ** *
77699684 TGCATGTGAGGTTATATTG-AATTTTAGTATTC-GA
1 TACATGTGAACTTATATTGAAATTGTA-TATTCGGA
*
77699718 TTACATGTGAACTTATATTGAAATTGTATACTCGGA
1 -TACATGTGAACTTATATTGAAATTGTATATTCGGA
* * * *
77699754 TATATGTGAAGTTATCTT-AAATATGCATATTC
1 TACATGTGAACTTATATTGAAAT-TGTATATTC
77699786 AGCCATATGT
Statistics
Matches: 80, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
34 10 0.12
35 61 0.76
36 9 0.11
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.42
Consensus pattern (35 bp):
TACATGTGAACTTATATTGAAATTGTATATTCGGA
Found at i:77699785 original size:70 final size:70
Alignment explanation
Indices: 77699649--77699785 Score: 152
Period size: 70 Copynumber: 2.0 Consensus size: 70
77699639 CATAGGTAAG
* * * * * * **
77699649 TACATGTAAGCTTATATTGAACTTGTATATTCGGCTGCATGTGAGGTTATATTGAATTTTAGTAT
1 TACATGTAAGCTTATATTGAAATTGTATACTCGGATACATGTGAAGTTATATTAAATTGCAGTAT
77699714 TCGAT
66 TCGAT
* *
77699719 TACATGTGAA-CTTATATTGAAATTGTATACTCGGATATATGTGAAGTTATCTTAAATATGCA-T
1 TACATGT-AAGCTTATATTGAAATTGTATACTCGGATACATGTGAAGTTATATTAAAT-TGCAGT
77699782 ATTC
64 ATTC
77699786 AGCCATATGT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
70 51 0.93
71 4 0.07
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.42
Consensus pattern (70 bp):
TACATGTAAGCTTATATTGAAATTGTATACTCGGATACATGTGAAGTTATATTAAATTGCAGTAT
TCGAT
Found at i:77701267 original size:28 final size:28
Alignment explanation
Indices: 77701227--77701309 Score: 114
Period size: 28 Copynumber: 2.9 Consensus size: 28
77701217 AAGGTTTTTA
77701227 GACACGGGCGTGTCATGGCCGTGTGAGG
1 GACACGGGCGTGTCATGGCCGTGTGAGG
*
77701255 GACACGGGCGTGTCATGTCCGTGTGAGG
1 GACACGGGCGTGTCATGGCCGTGTGAGG
* *
77701283 GACACAGGCATGTGTCA-GGCCCTGTGA
1 GACACGGGC--GTGTCATGGCCGTGTGA
77701310 AAACCCCTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
28 35 0.71
29 8 0.16
30 6 0.12
ACGTcount: A:0.17, C:0.23, G:0.41, T:0.19
Consensus pattern (28 bp):
GACACGGGCGTGTCATGGCCGTGTGAGG
Found at i:77701467 original size:20 final size:21
Alignment explanation
Indices: 77701428--77701467 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
77701418 GTTATAATGA
77701428 CCACACAGGCGTGTTGCCCTT
1 CCACACAGGCGTGTTGCCCTT
*
77701449 CCACACGGGCGTG-TGCCCT
1 CCACACAGGCGTGTTGCCCT
77701468 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACAGGCGTGTTGCCCTT
Found at i:77702995 original size:5 final size:5
Alignment explanation
Indices: 77702985--77703011 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
77702975 GATGCCAACC
77702985 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
77703012 TTATTTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:77709223 original size:38 final size:38
Alignment explanation
Indices: 77709172--77709377 Score: 178
Period size: 38 Copynumber: 4.9 Consensus size: 38
77709162 ACAAAAAAAT
*
77709172 GTGGTGCTAAGTGGATATACCACGGTTATACGTGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
**
77709210 GTGGTGCTAAGTGGATATATCATGATTACACATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATA-C-------CAC-GGTT-ATACATGTAAC
* *
77709258 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------TAAC
*
77709305 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
*
77709343 GTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGT
77709378 TAATTTGAAA
Statistics
Matches: 137, Mismatches: 13, Indels: 36
0.74 0.07 0.19
Matches are distributed among these distances:
38 56 0.41
39 3 0.02
40 7 0.05
41 2 0.01
44 2 0.01
45 3 0.02
46 3 0.02
47 33 0.24
48 28 0.20
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
Found at i:77709328 original size:47 final size:48
Alignment explanation
Indices: 77709199--77709337 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
77709189 TACCACGGTT
* * * *
77709199 ATACGTGTAACGTGGTGCTAAGTGGATATATCATGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* *
77709247 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* *
77709295 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
77709338 GTAACGTGGT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 34 0.42
48 47 0.58
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
Found at i:77712439 original size:29 final size:29
Alignment explanation
Indices: 77712407--77712541 Score: 146
Period size: 29 Copynumber: 4.7 Consensus size: 29
77712397 ATACCCTCCG
** * *
77712407 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
77712436 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* *
77712465 AGCAT-GCACAGTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
77712494 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
77712523 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
77712542 GATCTCGTCA
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
29 90 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:77712474 original size:58 final size:58
Alignment explanation
Indices: 77712411--77712542 Score: 165
Period size: 58 Copynumber: 2.3 Consensus size: 58
77712401 CCTCCGAGCT
** * ** * *
77712411 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * * *
77712469 TGCACAGTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
77712527 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
77712543 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:77722704 original size:29 final size:29
Alignment explanation
Indices: 77722672--77722806 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
77722662 ATACCCTCCG
** * *
77722672 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
77722701 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
77722730 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
77722759 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
77722788 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
77722807 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:77722739 original size:58 final size:58
Alignment explanation
Indices: 77722618--77722807 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
77722608 TACTCGATTT
* * * *** *
77722618 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
77722676 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
77722734 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
77722792 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
77722808 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:77729613 original size:27 final size:26
Alignment explanation
Indices: 77729544--77729643 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 26
77729534 AGCATGGCTG
* *
77729544 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGGTAGAGCCA
*
77729570 CCAGATATAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGGTAGAGCCA
*
77729597 CCAGAACAGATATTTGTGG-CGTAGCCA
1 CCAGAACAGATA-TTGTGGTAG-AGCCA
*
77729624 CCAGAAATAGATATTTGTGG
1 CCAG-AACAGATA-TTGTGG
77729644 CATAGCCCAG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
26 12 0.19
27 38 0.59
28 14 0.22
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGTAGAGCCA
Found at i:77734192 original size:28 final size:28
Alignment explanation
Indices: 77734099--77734205 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 28
77734089 CTGCCAGAAC
* * * * *
77734099 AGATA-TTGTGACAGAGTCACCAAATAC
1 AGATATTTGTGGCATAGCCACCAAAAAT
* *
77734126 AGATA-TTGTGGCAAAGCCACC-AGAAT
1 AGATATTTGTGGCATAGCCACCAAAAAT
* * *
77734152 AGATATCTATGGCGTAGCCACCAAAAAT
1 AGATATTTGTGGCATAGCCACCAAAAAT
77734180 AGATATTTGTGGCATAGCCACCAAAA
1 AGATATTTGTGGCATAGCCACCAAAA
77734206 CGCTTCCTCT
Statistics
Matches: 64, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
26 7 0.11
27 30 0.47
28 27 0.42
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (28 bp):
AGATATTTGTGGCATAGCCACCAAAAAT
Found at i:77738249 original size:43 final size:43
Alignment explanation
Indices: 77738201--77738364 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 43
77738191 ATCGAGTTGT
*
77738201 GATTACATGTAAGACCATGTATGGGACATTGGCATTATATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTATATTGA
* *
77738244 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATT-A
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTATATTGA
*** * * * * *
77738286 TGATTTTGTGTAAGACCTTGTCTGGGATAGTGGCATCGATA-TGT
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCAT-TATATTGA
* * *
77738330 GATAACATGTAAGACCATATCTGGGATA-TGGCATT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATT
77738365 GTACGAGCTT
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
42 7 0.07
43 91 0.91
44 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTATATTGA
Found at i:77747218 original size:40 final size:40
Alignment explanation
Indices: 77747099--77747325 Score: 311
Period size: 40 Copynumber: 5.7 Consensus size: 40
77747089 GCCACTAGCT
* * *
77747099 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
*
77747138 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
77747177 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
* *
77747217 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
* *
77747257 CGAATGCCTTCGGGACTTAGCCCGGA-AT--TAGCCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAG---CTCGCA
*
77747297 CAAATGCTTTCGGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
77747326 CATCCGAATA
Statistics
Matches: 173, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
37 3 0.02
39 51 0.29
40 117 0.68
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
Found at i:77749268 original size:27 final size:28
Alignment explanation
Indices: 77749211--77749280 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
77749201 AAACTTGTAC
*
77749211 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
77749239 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
77749266 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
77749281 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:77749291 original size:27 final size:27
Alignment explanation
Indices: 77749211--77749292 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
77749201 AAACTTGTAC
* * *
77749211 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
77749239 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
77749266 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
77749293 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:77753343 original size:24 final size:24
Alignment explanation
Indices: 77753312--77753358 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
77753302 TGCATCGGGT
77753312 TTTGCTTGTCACCTATTTTAGGTG
1 TTTGCTTGTCACCTATTTTAGGTG
77753336 TTTGCTTGTCACCTATTTTAGGT
1 TTTGCTTGTCACCTATTTTAGGT
77753359 TTCTTGGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.13, C:0.17, G:0.19, T:0.51
Consensus pattern (24 bp):
TTTGCTTGTCACCTATTTTAGGTG
Found at i:77762183 original size:40 final size:39
Alignment explanation
Indices: 77762139--77762363 Score: 297
Period size: 40 Copynumber: 5.7 Consensus size: 39
77762129 GCCACTAGCT
77762139 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
77762179 CAAATGCCTTCGGGGCTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* * *
77762218 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
77762258 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** *
77762298 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
*
77762338 CAAATGCTTTCGGGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGT
77762364 TATCATCCGA
Statistics
Matches: 165, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 38 0.23
40 127 0.77
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:77771941 original size:43 final size:42
Alignment explanation
Indices: 77771828--77771942 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 42
77771818 TCAGGGATGT
* * *
77771828 TGGCATCG-ACTTATGATTTACATGCAAGACCATGTTTGGGACAT
1 TGGCATCGTA-TT-TGA-TTACATGTAAGACCATGTCTGGGACAG
*** * *
77771872 TGGCATCGTATTTGATTTTGTATAAGACCCTGTCTGGGACAG
1 TGGCATCGTATTTGATTACATGTAAGACCATGTCTGGGACAG
*
77771914 TGGCATCGATATTTGGTTACATGTAAGAC
1 TGGCATCG-TATTTGATTACATGTAAGAC
77771943 TACGTCTCGG
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
42 27 0.48
43 18 0.32
44 10 0.18
45 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
TGGCATCGTATTTGATTACATGTAAGACCATGTCTGGGACAG
Found at i:77779444 original size:44 final size:43
Alignment explanation
Indices: 77779394--77779553 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
77779384 TATGTGTTAT
77779394 CATGTAAGACCATGTCTGGGACATTGGCATCA-ACTTATGATTTA
1 CATGTAAGACCATGTCTGGGACATTGGCATCATA-TT-TGATTTA
* ** *
77779438 CATGTAAGACCATGTCTGGGACATCGATATCATATTTGATTTT
1 CATGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTTA
* * * * * *
77779481 CATATAAGACCCTGTCCGGGACAGTGGCATTGATATTTG-GTTA
1 CATGTAAGACCATGTCTGGGACATTGGCA-TCATATTTGATTTA
*
77779524 CATGTAAGACCACGTCTGGGACGA-TGGCAT
1 CATGTAAGACCATGTCTGGGAC-ATTGGCAT
77779554 TGTATGAGCG
Statistics
Matches: 95, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
42 1 0.01
43 53 0.56
44 40 0.42
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTTA
Found at i:77784560 original size:46 final size:46
Alignment explanation
Indices: 77784493--77784667 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
77784483 TGTAACCCGC
* *
77784493 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCAT
* *
77784539 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G--T-GTTCGCAT
* * * **
77784589 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCAT
77784632 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
77784668 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 3 0.03
46 60 0.57
47 26 0.25
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCAT
Found at i:77784609 original size:93 final size:93
Alignment explanation
Indices: 77784501--77784672 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
77784491 GCCCATAAGT
**
77784501 GAACTCGAACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
77784566 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
77784594 GAACTCGGACTCAACTCAACGAGTTTGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
77784659 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
77784673 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:77790951 original size:46 final size:46
Alignment explanation
Indices: 77790898--77791073 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
77790888 TATTTGGGCA
77790898 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
77790944 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
77790991 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
77791037 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
77791074 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:77791053 original size:93 final size:93
Alignment explanation
Indices: 77790894--77791065 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
77790884 GGGATATTTG
* *
77790894 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
77790959 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
77790987 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
77791052 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
77791066 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:77810082 original size:40 final size:40
Alignment explanation
Indices: 77810034--77810260 Score: 350
Period size: 40 Copynumber: 5.7 Consensus size: 40
77810024 GCTACTTGCT
77810034 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
77810074 CAATTGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
77810114 CAATTACCTTCGGGACTTGGCCCGGTTATAGTAACTGGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
77810154 CAAATGCCTTCGGGACTTGGCCCGGTTATAGTAACT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
77810193 CAAATGCCTTCGGGAATTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
77810233 CAAATACCTTC-GGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
77810261 CAATCCGAAT
Statistics
Matches: 172, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 51 0.30
40 121 0.70
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Done.