Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 208 of 328
Found at i:62456630 original size:28 final size:27
Alignment explanation
Indices: 62456597--62456649 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
62456587 TTAGAATACT
*
62456597 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
62456625 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
62456650 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:62456636 original size:27 final size:27
Alignment explanation
Indices: 62456606--62456704 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
62456596 TTTAGTTTAC
62456606 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
62456633 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
62456660 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
62456687 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
62456705 CCGGATTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.10
27 56 0.90
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:62456720 original size:27 final size:27
Alignment explanation
Indices: 62456690--62456751 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
62456680 CGACTTGTAA
*
62456690 AATTACCAAAGTACCCCGGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
*** *
62456717 AATTACCATTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
*
62456744 TATTACCA
1 AATTACCA
62456752 TTTTACCCCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:62456752 original size:27 final size:27
Alignment explanation
Indices: 62456701--62456924 Score: 115
Period size: 27 Copynumber: 7.9 Consensus size: 27
62456691 ATTACCAAAG
*
62456701 TACCCCGGATTTACAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
**
62456728 TACCCCCGATTTACATTATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* * *
62456755 TACCCCCGTTTTACCCTCGACTTACAGAATTACCGTTT
1 TACCCCCG-ATT----T--AC--AG--AATTACCATTT
** * *
62456793 TACCCTTGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
** * *
62456820 TACCGTCGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTT
** * *
62456847 TACCCTTGATGTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTT
* * * ***
62456874 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCCCGATTTACAGAATTACCATTT
* *
62456901 TACCCTCGATTTACAAAATTACCA
1 TACCCCCGATTTACAGAATTACCA
62456925 AAATACCCCT
Statistics
Matches: 157, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
27 130 0.83
28 2 0.01
29 1 0.01
31 2 0.01
32 1 0.01
33 1 0.01
34 2 0.01
36 1 0.01
37 2 0.01
38 15 0.10
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:62456767 original size:38 final size:38
Alignment explanation
Indices: 62456725--62456797 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
62456715 AGAATTACCA
* **
62456725 TTTTACCCCCGATTTACATTATTACCATTTTACCCCCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
* *
62456763 TTTTACCCTCGACTTACAGAATTACCGTTTTACCC
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCC
62456798 TTGATTTACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.38
Consensus pattern (38 bp):
TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
Found at i:62456806 original size:38 final size:38
Alignment explanation
Indices: 62456726--62456806 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
62456716 GAATTACCAT
* ** *
62456726 TTTACCCCCGATTTACATTATTACCATTTTACCCCCGT
1 TTTACCCCCGACTTACAGAATTACCATTTTACCCCCGA
* * **
62456764 TTTACCCTCGACTTACAGAATTACCGTTTTACCCTTGA
1 TTTACCCCCGACTTACAGAATTACCATTTTACCCCCGA
62456802 TTTAC
1 TTTAC
62456807 AGAATTATCG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.07, T:0.40
Consensus pattern (38 bp):
TTTACCCCCGACTTACAGAATTACCATTTTACCCCCGA
Found at i:62456896 original size:54 final size:54
Alignment explanation
Indices: 62456763--62456897 Score: 182
Period size: 54 Copynumber: 2.5 Consensus size: 54
62456753 TTTACCCCCG
* ** * *
62456763 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTATCG
1 TTTTACCCTCGATTTACAGAATTACTATTTTACCCTTGATGTACAGAATTATCA
* *
62456817 TTTTACCGTCGATTTATAGAATTACTATTTTACCCTTGATGTACAGAATTA-CTA
1 TTTTACCCTCGATTTACAGAATTACTATTTTACCCTTGATGTACAGAATTATC-A
*
62456871 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
62456898 AAATACCCTC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 69 0.99
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.41
Consensus pattern (54 bp):
TTTTACCCTCGATTTACAGAATTACTATTTTACCCTTGATGTACAGAATTATCA
Found at i:62456905 original size:54 final size:55
Alignment explanation
Indices: 62456793--62456922 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 55
62456783 ATTACCGTTT
* * * * ***
62456793 TACCCTTGATTTACAGAATTA-TCGTTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTACTCATTTTACCCTCGATTTACAAAATTACTAAAA
*
62456847 TACCCTTGATGTACAGAATTACT-ATTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACTCATTTTACCCTCGATTTACAAAATTACTAAAA
* *
62456901 TACCCTCGATTTACAAAATTAC
1 TACCCTTGATTTACAGAATTAC
62456923 CAAAATACCC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 63 0.98
55 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.38
Consensus pattern (55 bp):
TACCCTTGATTTACAGAATTACTCATTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:62456910 original size:81 final size:81
Alignment explanation
Indices: 62456763--62456922 Score: 182
Period size: 81 Copynumber: 2.0 Consensus size: 81
62456753 TTTACCCCCG
* * * ** *
62456763 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTATCGTTTTACCGTCG
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTAATACCCTCG
* *
62456828 ATTTATAGAATTACTA
66 ATTTACAAAATTACTA
* *
62456844 TTTTACCCTTGA-TGTACAGAATTACTATTTTACCCTCGATTTACAAAATTA-C-TAAAATACCC
1 TTTTACCCTCGACT-TACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGT--AATACCC
62456906 TCGATTTACAAAATTAC
63 TCGATTTACAAAATTAC
62456923 CAAAATACCC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
79 1 0.02
80 2 0.03
81 63 0.95
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (81 bp):
TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTAATACCCTCG
ATTTACAAAATTACTA
Found at i:62456927 original size:27 final size:27
Alignment explanation
Indices: 62456874--62457041 Score: 162
Period size: 27 Copynumber: 6.2 Consensus size: 27
62456864 ATTACTATTT
*
62456874 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
62456901 TACCCTCGATTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
62456928 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * *** *
62456955 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
62456982 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
*
62457009 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTACAAAATTACCA-AAA
62457036 TACCCT
1 TACCCT
62457042 TGACCTACTA
Statistics
Matches: 118, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
26 5 0.04
27 113 0.96
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:62457037 original size:81 final size:81
Alignment explanation
Indices: 62456889--62457043 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 81
62456879 TCGATTTACA
* * *
62456889 AAATTACTAAAATACCCTCGATTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAA
62456954 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
* **
62456970 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CA
1 AAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACCA
62457032 GAAATACCCTTG
64 -AAATACCCTTG
62457044 ACCTACTAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 2 0.03
80 8 0.12
81 55 0.85
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAA
ATACCCTTGGTTTGTG
Found at i:62457091 original size:27 final size:27
Alignment explanation
Indices: 62457052--62457103 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
62457042 TGACCTACTA
62457052 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
* *
62457079 AAAATTATTGAAATACCTTTGGTTT
1 AAAATTATAGAAATACCATTGGTTT
62457104 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:62457186 original size:27 final size:27
Alignment explanation
Indices: 62457155--62457222 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
62457145 ATGCCCCTAT
* * *
62457155 TAGGGTAAAGTTACCGTAA-AGCCCTTG
1 TAGGGTAAAATGACCGTAATA-CCCCTG
62457182 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
*
62457209 TATGGTAAAATGAC
1 TAGGGTAAAATGAC
62457223 GAATATGCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCCTG
Found at i:62458489 original size:15 final size:16
Alignment explanation
Indices: 62458469--62458509 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
62458459 TGGTATGTAC
62458469 GATATGCATATG-ACAT
1 GATATG-ATATGCACAT
62458485 G-TATGATATGCACAT
1 GATATGATATGCACAT
62458500 GATATG-TATG
1 GATATGATATG
62458510 ATATGCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.22
15 13 0.57
16 5 0.22
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (16 bp):
GATATGATATGCACAT
Found at i:62458522 original size:20 final size:20
Alignment explanation
Indices: 62458456--62458522 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
62458446 ATTTTGATAA
* *
62458456 ACATGGTATGTACGATATGC
1 ACATGATATGTATGATATGC
* *
62458476 ATATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
62458496 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
62458516 ACATGAT
1 ACATGAT
62458523 GTAATCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62458651 original size:23 final size:23
Alignment explanation
Indices: 62458572--62458714 Score: 198
Period size: 24 Copynumber: 6.0 Consensus size: 23
62458562 GAGGAAGTGA
62458572 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
62458595 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
62458619 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
62458643 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
62458666 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
62458690 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
62458714 A
1 A
62458715 TGATAAAGCA
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
23 41 0.38
24 58 0.53
25 10 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:62458710 original size:71 final size:71
Alignment explanation
Indices: 62458573--62458713 Score: 223
Period size: 71 Copynumber: 2.0 Consensus size: 71
62458563 AGGAAGTGAA
62458573 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCA
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCA
62458638 GTTATT
66 GTTATT
* * *
62458644 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTC
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTACGCC-C
62458707 CAGTTAT
64 CAGTTAT
62458714 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
70 32 0.49
71 33 0.51
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCA
GTTATT
Found at i:62458939 original size:31 final size:30
Alignment explanation
Indices: 62458904--62458966 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 30
62458894 CGTTTACAGT
62458904 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAA-ATGA
**
62458935 AAAGGCTTCGGCCCAGTGTTATGAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAATGA
62458965 AA
1 AA
62458967 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTAATATGAAAATGA
Found at i:62461738 original size:28 final size:27
Alignment explanation
Indices: 62461705--62461757 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
62461695 TTAGAATACT
*
62461705 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
62461733 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
62461758 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:62461744 original size:27 final size:27
Alignment explanation
Indices: 62461714--62461812 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
62461704 TTTAGTTTAC
62461714 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
62461741 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
62461768 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
62461795 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
62461813 CCCGATTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.10
27 56 0.90
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:62461813 original size:54 final size:54
Alignment explanation
Indices: 62461714--62461820 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
62461704 TTTAGTTTAC
* * *
62461714 TAAAATTACCGAAATACGCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
62461768 TAAAATTACTGAAATAC-CTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACGCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
62461821 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:62461828 original size:27 final size:26
Alignment explanation
Indices: 62461798--62461858 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
62461788 CGACTTGTAA
62461798 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTA-CCCCGATTTACAG
*** *
62461825 AATTACCATTTTACCCCGATTTACAT
1 AATTACCAAAGTACCCCGATTTACAG
62461851 AATTACCA
1 AATTACCA
62461859 TTTACCCCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.30
Consensus pattern (26 bp):
AATTACCAAAGTACCCCGATTTACAG
Found at i:62461872 original size:25 final size:26
Alignment explanation
Indices: 62461812--62461873 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
62461802 ACCAAAGTAC
62461812 CCCCGATTTACAGAATTACCATTTTA
1 CCCCGATTTACAGAATTACCATTTTA
*
62461838 CCCCGATTTACATAATTACCA-TTTA
1 CCCCGATTTACAGAATTACCATTTTA
*
62461863 CCCCGTTTTAC
1 CCCCGATTTAC
62461874 CCTCGACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.27, C:0.31, G:0.06, T:0.35
Consensus pattern (26 bp):
CCCCGATTTACAGAATTACCATTTTA
Found at i:62461891 original size:36 final size:36
Alignment explanation
Indices: 62461833--62461910 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
62461823 AGAATTACCA
* *
62461833 TTTTACCCCGATTTACATAATTACCATTTACCC-CG
1 TTTTACCCCGACTTACAGAATTACCATTTACCCTCG
**
62461868 TTTTACCCTCGACTTACAGAATTACGTTTTACCCTCG
1 TTTTACCC-CGACTTACAGAATTACCATTTACCCTCG
*
62461905 ATTTAC
1 TTTTAC
62461911 AGAATTATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
35 8 0.22
36 21 0.58
37 7 0.19
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.38
Consensus pattern (36 bp):
TTTTACCCCGACTTACAGAATTACCATTTACCCTCG
Found at i:62461896 original size:26 final size:26
Alignment explanation
Indices: 62461866--62461997 Score: 158
Period size: 26 Copynumber: 5.0 Consensus size: 26
62461856 CCATTTACCC
*
62461866 CGTTTTACCCTCGACTTACAGAATTA
1 CGTTTTACCCTCGATTTACAGAATTA
62461892 CGTTTTACCCTCGATTTACAGAATTA
1 CGTTTTACCCTCGATTTACAGAATTA
* * * *
62461918 TGTTTTACCGTTGATTTATAGAATTA
1 CGTTTTACCCTCGATTTACAGAATTA
* *
62461944 CTGTTTTA-CCTTGATATACAGAATTA
1 C-GTTTTACCCTCGATTTACAGAATTA
* *
62461970 CTATTTTACCCTCGATTTACAAAATTA
1 C-GTTTTACCCTCGATTTACAGAATTA
62461997 C
1 C
62461998 TAAAATACCC
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 69 0.76
27 22 0.24
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (26 bp):
CGTTTTACCCTCGATTTACAGAATTA
Found at i:62462006 original size:27 final size:27
Alignment explanation
Indices: 62461976--62462116 Score: 126
Period size: 27 Copynumber: 5.2 Consensus size: 27
62461966 ATTACTATTT
*
62461976 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * **
62462003 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
62462030 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* **
62462057 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
*
62462084 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTACAAAATTACCA-AAA
62462111 TACCCT
1 TACCCT
62462117 TGACTTTCTA
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.03
27 91 0.95
28 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:62462034 original size:54 final size:54
Alignment explanation
Indices: 62461976--62462199 Score: 186
Period size: 54 Copynumber: 4.1 Consensus size: 54
62461966 ATTACTATTT
62461976 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
* ** * ***
62462030 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * *
62462084 TACCC-CTGATTTACAAAGTTAC-AGAAATACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAATACCCTTG-GTTTGT-AAAATTACCA-AAA
* * * * * ** *
62462140 TACCATTGGTTTACAAAATTACTGAAATACCTTTGGTTTGTTGATTTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
*
62462194 CACCCT
1 TACCCT
62462200 TGTAGGATGA
Statistics
Matches: 131, Mismatches: 30, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
53 3 0.02
54 80 0.61
55 11 0.08
56 37 0.28
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:62462166 original size:27 final size:27
Alignment explanation
Indices: 62462127--62462178 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
62462117 TGACTTTCTA
62462127 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
62462154 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
62462179 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:62462273 original size:25 final size:25
Alignment explanation
Indices: 62462230--62462294 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 25
62462220 ATGCCCCTAT
62462230 TAGGGTAAAGTGACCGTAA-AGCCCTG
1 TAGGGTAAA-TGACCGTAATA-CCCTG
62462256 TAGGGTAAATGACCGTAATACCCTG
1 TAGGGTAAATGACCGTAATACCCTG
*
62462281 TATGGTAAAATGAC
1 TAGGGT-AAATGAC
62462295 GAATATGCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
25 19 0.53
26 17 0.47
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (25 bp):
TAGGGTAAATGACCGTAATACCCTG
Found at i:62462305 original size:26 final size:26
Alignment explanation
Indices: 62462233--62462309 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 26
62462223 CCCCTATTAG
*
62462233 GGTAAAGTGACCGTAA-AGCCCTGTAG
1 GGTAAA-TGACCGTAATAGCCCTGTAT
62462259 GGTAAATGACCGTAATA-CCCTGTAT
1 GGTAAATGACCGTAATAGCCCTGTAT
62462284 GGTAAAATGA-CG-AATATGCCCT-TAT
1 GGT-AAATGACCGTAATA-GCCCTGTAT
62462309 G
1 G
62462310 TTCCGTATGA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
24 4 0.09
25 25 0.54
26 17 0.37
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (26 bp):
GGTAAATGACCGTAATAGCCCTGTAT
Found at i:62463572 original size:11 final size:11
Alignment explanation
Indices: 62463536--62463591 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
62463526 CATGGTATGT
62463536 ATGATATGCAC
1 ATGATATGCAC
* *
62463547 ATGACATG--T
1 ATGATATGCAC
62463556 ATGATATGCAC
1 ATGATATGCAC
*
62463567 ATGATATG--T
1 ATGATATGCAC
62463576 ATGATATGCAC
1 ATGATATGCAC
62463587 ATGAT
1 ATGAT
62463592 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:62463591 original size:20 final size:20
Alignment explanation
Indices: 62463525--62463591 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
62463515 ATTTTGATAA
*
62463525 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
62463545 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
62463565 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
62463585 ACATGAT
1 ACATGAT
62463592 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62463697 original size:24 final size:24
Alignment explanation
Indices: 62463641--62463806 Score: 223
Period size: 24 Copynumber: 7.0 Consensus size: 24
62463631 GAGGAAGTGA
62463641 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
62463664 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
62463688 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
62463712 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
62463735 TAAAGGGCTTATGCCCCAGTTA-C
1 AAAAGGGCTTATGCCCCAGTTATC
* *
62463758 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATC
*
62463783 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
62463807 ATGATAAAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
23 42 0.33
24 74 0.58
25 11 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:62463710 original size:47 final size:46
Alignment explanation
Indices: 62463641--62463807 Score: 219
Period size: 47 Copynumber: 3.5 Consensus size: 46
62463631 GAGGAAGTGA
*
62463641 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
*
62463687 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT
* * *
62463735 TAAAGGGCTTATGCCCCAGTTACAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTA-T
*
62463783 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
62463808 TGATAAAGCA
Statistics
Matches: 106, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
47 64 0.60
48 32 0.30
49 10 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:62463763 original size:71 final size:71
Alignment explanation
Indices: 62463641--62463806 Score: 255
Period size: 71 Copynumber: 2.3 Consensus size: 71
62463631 GAGGAAGTGA
*
62463641 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
62463706 GTTATC
66 GTTATC
*
62463712 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTA-CAAAAAGGGCTTTTGCCCC
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC-AAAAGGGCTTATGCCCC
*
62463776 AGTTATT
65 AGTTATC
*
62463783 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
62463807 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
70 1 0.01
71 76 0.86
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:62464034 original size:31 final size:30
Alignment explanation
Indices: 62463999--62464061 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 30
62463989 CGTTTACAGT
62463999 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAA-ATGA
**
62464030 AAAGGCTTCGGCCCAGTGTTATGAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAATGA
62464060 AA
1 AA
62464062 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTAATATGAAAATGA
Found at i:62466886 original size:27 final size:27
Alignment explanation
Indices: 62466856--62466954 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 27
62466846 TTTAGTTTAC
62466856 TAAAATTACCAAAATACACTTAG-TTTG
1 TAAAATTACCAAAATAC-CTTAGATTTG
* * * * *
62466883 TAAAAATACTAGAATACCCTCGATTTG
1 TAAAATTACCAAAATACCTTAGATTTG
** * *
62466910 TAAAATTACTGAAATACCTTTGACTTG
1 TAAAATTACCAAAATACCTTAGATTTG
*
62466937 TAAAATTACCAAAGTACC
1 TAAAATTACCAAAATACC
62466955 CCCGATTTAC
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 3 0.05
27 54 0.95
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAATACCTTAGATTTG
Found at i:62466970 original size:27 final size:28
Alignment explanation
Indices: 62466940--62467001 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
62466930 TGACTTGTAA
62466940 AATTACCAAAGT-ACCCCCGATTTACAG
1 AATTACCAAAGTAACCCCCGATTTACAG
** *
62466967 AATTACC-ATTTAACCCCCGATTTACAT
1 AATTACCAAAGTAACCCCCGATTTACAG
62466994 AATTACCA
1 AATTACCA
62467002 TTTTACCCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.27
Consensus pattern (28 bp):
AATTACCAAAGTAACCCCCGATTTACAG
Found at i:62467002 original size:27 final size:27
Alignment explanation
Indices: 62466952--62467018 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
62466942 TTACCAAAGT
62466952 ACCCCCGATTTACAGAATTACCATTTA
1 ACCCCCGATTTACAGAATTACCATTTA
* *
62466979 ACCCCCGATTTACATAATTACCATTTT
1 ACCCCCGATTTACAGAATTACCATTTA
*
62467006 ACCCCCGTTTTAC
1 ACCCCCGATTTAC
62467019 CCTCGACTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.28, C:0.33, G:0.06, T:0.33
Consensus pattern (27 bp):
ACCCCCGATTTACAGAATTACCATTTA
Found at i:62467030 original size:38 final size:38
Alignment explanation
Indices: 62466974--62467056 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
62466964 CAGAATTACC
* *
62466974 ATTTAACCCCCGATTTACATAATTACCATTTTACCCCCG
1 ATTT-ACCCCCGACTTACAGAATTACCATTTTACCCCCG
* * *
62467013 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCG
1 ATTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
62467051 ATTTAC
1 ATTTAC
62467057 AGAATTATCG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
38 35 0.92
39 3 0.08
ACGTcount: A:0.27, C:0.31, G:0.06, T:0.36
Consensus pattern (38 bp):
ATTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
Found at i:62467055 original size:65 final size:65
Alignment explanation
Indices: 62466951--62467073 Score: 183
Period size: 65 Copynumber: 1.9 Consensus size: 65
62466941 ATTACCAAAG
* *
62466951 TACCCCCGATTTACAGAATTACCATTTAACCCCCGATTTACATAATTACCATTTTACCCCCGTTT
1 TACCCCCGACTTACAGAATTACCATTTAACCCCCGATTTACAGAATTACCATTTTACCCCCGTTT
* * * * *
62467016 TACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACC
1 TACCCCCGACTTACAGAATTACCATTTAACCCCCGATTTACAGAATTACCATTTTACC
62467074 GTCGATTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 51 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (65 bp):
TACCCCCGACTTACAGAATTACCATTTAACCCCCGATTTACAGAATTACCATTTTACCCCCGTTT
Found at i:62467146 original size:27 final size:27
Alignment explanation
Indices: 62467013--62467147 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 27
62467003 TTTACCCCCG
* *
62467013 TTTTACCCTCGACTTACAGAATTACCA
1 TTTTACCCTCGATTTACAGAATTACTA
*
62467040 TTTTACCCTCGATTTACAGAATTA-TCG
1 TTTTACCCTCGATTTACAGAATTACT-A
* * * *
62467067 TTTTACCGTCGATTTATAGATTTACTG
1 TTTTACCCTCGATTTACAGAATTACTA
**
62467094 TTTTACCCTTAATTTACAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
* *
62467121 TTTTACCCTCAATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
62467148 AAATACCCTT
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
27 91 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAGAATTACTA
Found at i:62467154 original size:27 final size:27
Alignment explanation
Indices: 62467097--62467291 Score: 110
Period size: 27 Copynumber: 7.2 Consensus size: 27
62467087 TTTACTGTTT
* * * ***
62467097 TACCCTTAATTTACAGAATTACTATTT
1 TACCCTCAATTTACAAAATTACCAAAA
*
62467124 TACCCTCAATTTACAAAATTACTAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
*** **
62467151 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* **
62467178 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
** *** *
62467205 TACCCTTGATTTGTGAAATTACCGAAA
1 TACCCTCAATTTACAAAATTACCAAAA
62467232 TACCCTCAGATTGT--AAAATTACCAAAA
1 TACCCTCA-ATT-TACAAAATTACCAAAA
* * *
62467259 TACCC-CTGATTTACAAAGTTACAAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
62467286 TACCCT
1 TACCCT
62467292 TGACTTTCTA
Statistics
Matches: 135, Mismatches: 25, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.01
26 4 0.03
27 126 0.93
28 3 0.02
29 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:62467198 original size:81 final size:81
Alignment explanation
Indices: 62467124--62467291 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 81
62467114 ATTACTATTT
* ** *
62467124 TACCCTCAATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTT
1 TACCCTCAATTTACAAAATTACCAAAATACCCTCAGATTGTAAAATTACCAAAATACCCCTAGTT
62467189 TGTAAAATTACCAAAA
66 TGTAAAATTACCAAAA
** *** * *
62467205 TACCCTTGATTTGTGAAATTACCGAAATACCCTCAGATTGTAAAATTACCAAAATACCCCT-GAT
1 TACCCTCAATTTACAAAATTACCAAAATACCCTCAGATTGTAAAATTACCAAAATACCCCTAGTT
*
62467269 T-TACAAAGTTACAAAAA
66 TGTA-AAA-TTACCAAAA
62467286 TACCCT
1 TACCCT
62467292 TGACTTTCTA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
79 2 0.03
80 6 0.08
81 65 0.89
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (81 bp):
TACCCTCAATTTACAAAATTACCAAAATACCCTCAGATTGTAAAATTACCAAAATACCCCTAGTT
TGTAAAATTACCAAAA
Found at i:62467291 original size:54 final size:54
Alignment explanation
Indices: 62467138--62467291 Score: 179
Period size: 54 Copynumber: 2.8 Consensus size: 54
62467128 CTCAATTTAC
* * *
62467138 AAAATTACTAAAATACCCTTGGTTTGTA-AAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTT-GATT-TACAAATTACCAAAATACCCTCTAGATTGT
** *
62467192 AAAATTACCAAAATACCCTTGATTTGTGAAATTACCGAAATACCCTC-AGATTGT
1 AAAATTACCAAAATACCCTTGATTT-ACAAATTACCAAAATACCCTCTAGATTGT
* *
62467246 AAAATTACCAAAATACCCCTGATTTACAAAGTTACAAAAATACCCT
1 AAAATTACCAAAATACCCTTGATTTACAAA-TTACCAAAATACCCT
62467292 TGACTTTCTA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
52 1 0.01
53 6 0.07
54 78 0.91
55 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGATTTACAAATTACCAAAATACCCTCTAGATTGT
Found at i:62467335 original size:27 final size:27
Alignment explanation
Indices: 62467302--62467353 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
62467292 TGACTTTCTA
62467302 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
*
62467329 AAAATTACTGAAATACCTTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
62467354 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:62467445 original size:27 final size:27
Alignment explanation
Indices: 62467405--62467472 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
62467395 ATGCCCCTAT
*
62467405 TAGGGTAAAGTGACCGTAA-AGCCCCTG
1 TAGGGTAAAATGACCGTAATA-CCCCTG
62467432 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
*
62467459 TATGGTAAAATGAC
1 TAGGGTAAAATGAC
62467473 GAATATGCCC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCCTG
Found at i:62468745 original size:15 final size:16
Alignment explanation
Indices: 62468723--62468765 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
62468713 CATGGTATGT
62468723 ATGATATGCATATG-AC
1 ATGATATG-ATATGCAC
62468739 ATG-TATGATATGCAC
1 ATGATATGATATGCAC
62468754 ATGATATG-TATG
1 ATGATATGATATG
62468766 ATATGCACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.20
15 13 0.52
16 7 0.28
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGATATGATATGCAC
Found at i:62468768 original size:9 final size:9
Alignment explanation
Indices: 62468718--62468770 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
62468708 ATAAACATGG
62468718 TATGTATGA
1 TATGTATGA
62468727 TATGCATATGA
1 TATG--TATGA
*
62468738 CATGTATGA
1 TATGTATGA
*
62468747 TATGCACATGA
1 TATG--TATGA
62468758 TATGTATGA
1 TATGTATGA
62468767 TATG
1 TATG
62468771 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:62468778 original size:20 final size:20
Alignment explanation
Indices: 62468712--62468778 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
62468702 ATTTTGATAA
*
62468712 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
62468732 ATATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
62468752 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
62468772 ACATGAT
1 ACATGAT
62468779 GTAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62468890 original size:23 final size:24
Alignment explanation
Indices: 62468828--62468955 Score: 179
Period size: 24 Copynumber: 5.4 Consensus size: 24
62468818 GAGGAAGTGA
62468828 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
62468852 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
62468876 AAAAGGG-TTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
62468898 TAAAGGGCTTATGCCCCAATTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
62468922 AAAAGGACTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
62468946 AAAAGAGGCT
1 AAAAG-GGCT
62468956 AGGCCTCTAG
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
22 6 0.06
23 29 0.31
24 55 0.59
25 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:62469198 original size:31 final size:31
Alignment explanation
Indices: 62469163--62469226 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
62469153 CGTTTACAGT
*
62469163 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAAATTGA
**
62469194 AAAGGCTTCGGCCCAGTGTTATGAAAATTGA
1 AAAGGCTTCGGCCCAGTAATATGAAAATTGA
62469225 AA
1 AA
62469227 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAAATTGA
Found at i:62475600 original size:30 final size:30
Alignment explanation
Indices: 62475564--62475624 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
62475554 CATTTAATAC
* *
62475564 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTACCCCT
* *
62475594 AAACTTTTGCATAATTACACTTTTACCCCT
1 AAACTTTGGCAAAATTACACTTTTACCCCT
62475624 A
1 A
62475625 CGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTACCCCT
Found at i:62484228 original size:13 final size:13
Alignment explanation
Indices: 62484210--62484234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62484200 ACAAACAATA
62484210 AAATTTTCACACG
1 AAATTTTCACACG
62484223 AAATTTTCACAC
1 AAATTTTCACAC
62484235 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:62488039 original size:23 final size:24
Alignment explanation
Indices: 62488013--62488078 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
62488003 AGCTCCTTTG
*
62488013 AGCTGAAACGGTAAGCTCTAT-CA
1 AGCTGAAACAGTAAGCTCTATACA
* *
62488036 AGCTGAAACAGTATGCTC-ATACG
1 AGCTGAAACAGTAAGCTCTATACA
*
62488059 AGCTAAAACAGTAAGCTCTA
1 AGCTGAAACAGTAAGCTCTA
62488079 ATAAGCTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 2 0.06
23 33 0.92
24 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (24 bp):
AGCTGAAACAGTAAGCTCTATACA
Found at i:62488073 original size:46 final size:47
Alignment explanation
Indices: 62488012--62488109 Score: 128
Period size: 46 Copynumber: 2.1 Consensus size: 47
62488002 AAGCTCCTTT
* * *
62488012 GAGCTGAAACGGTAAGCTCT-ATCAAGCT-GAAACAGTATGCTCATAC
1 GAGCTAAAACAGTAAGCTCTAAT-AAGCTAAAAACAGTATGCTCATAC
* *
62488058 GAGCTAAAACAGTAAGCTCTAATAAGCTAAAAATAGTATGCTCTTAC
1 GAGCTAAAACAGTAAGCTCTAATAAGCTAAAAACAGTATGCTCATAC
62488105 GAGCT
1 GAGCT
62488110 GATATATCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 23 0.51
47 22 0.49
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (47 bp):
GAGCTAAAACAGTAAGCTCTAATAAGCTAAAAACAGTATGCTCATAC
Found at i:62488085 original size:23 final size:22
Alignment explanation
Indices: 62487999--62488089 Score: 76
Period size: 23 Copynumber: 4.0 Consensus size: 22
62487989 GTTGATGAAT
* * *
62487999 AGTAAGCTCCTTTGAGCTGAAAC
1 AGTAAGCT-CTATAAGCTAAAAC
* *
62488022 GGTAAGCTCTATCAAGCTGAAAC
1 AGTAAGCTCTAT-AAGCTAAAAC
*
62488045 AGTATGCTC-ATACGAGCTAAAAC
1 AGTAAGCTCTATA--AGCTAAAAC
62488068 AGTAAGCTCTAATAAGCTAAAA
1 AGTAAGCTCT-ATAAGCTAAAA
62488090 ATAGTATGCT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
21 1 0.02
22 5 0.09
23 47 0.84
25 3 0.05
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (22 bp):
AGTAAGCTCTATAAGCTAAAAC
Found at i:62488109 original size:24 final size:23
Alignment explanation
Indices: 62488036--62488109 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
62488026 AGCTCTATCA
* *
62488036 AGCTGAAACAGTATGCTCATACG
1 AGCTAAAACAGTATGCTCTTACG
* * **
62488059 AGCTAAAACAGTAAGCTCTAATA
1 AGCTAAAACAGTATGCTCTTACG
*
62488082 AGCTAAAAATAGTATGCTCTTACG
1 AGCT-AAAACAGTATGCTCTTACG
62488106 AGCT
1 AGCT
62488110 GATATATCAA
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 21 0.54
24 18 0.46
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (23 bp):
AGCTAAAACAGTATGCTCTTACG
Found at i:62491727 original size:14 final size:14
Alignment explanation
Indices: 62491706--62491753 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
62491696 ACAAAAATCC
*
62491706 AGAAAAAATCAA-A
1 AGAAAAAAACAAGA
62491719 AGAAAAAAACAAGA
1 AGAAAAAAACAAGA
62491733 AG-AAAAAACATAGA
1 AGAAAAAAACA-AGA
62491747 ATGAAAA
1 A-GAAAA
62491754 CAAAAGCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 19 0.63
14 7 0.23
15 1 0.03
16 3 0.10
ACGTcount: A:0.75, C:0.06, G:0.12, T:0.06
Consensus pattern (14 bp):
AGAAAAAAACAAGA
Found at i:62493906 original size:30 final size:30
Alignment explanation
Indices: 62493872--62493928 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
62493862 TTTTCGGGCA
* *
62493872 TAGGGGTAAAATGGTAATTTTTCCAAAGTC
1 TAGGGGCAAAATGGTAATTTTACCAAAGTC
*
62493902 TAGGGGCAAAATGGTTATTTTACCAAA
1 TAGGGGCAAAATGGTAATTTTACCAAA
62493929 AATGTGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTTTACCAAAGTC
Found at i:62502126 original size:46 final size:46
Alignment explanation
Indices: 62501951--62502264 Score: 166
Period size: 46 Copynumber: 6.6 Consensus size: 46
62501941 TGTGAGCTAA
* *
62501951 TGTAAGACATGTCTGGGACATGCATCGGCCACATTATG--AGAA-CCAG
1 TGTAAGACATGTCTGGGACATGCATCGG-C-TATGA-GACAGAATCCAG
* *
62501997 TGTAAGAACATGTCTGGGACATGGCATCGGC-ATTGAGAC-GAGTGCTAG
1 TGTAAG-ACATGTCTGGGACAT-GCATCGGCTA-TGAGACAGAAT-CCAG
* * * *
62502045 TGTAAGACATGTTTGGGACATGTATCAGCCT-TGAGACATAATCCAG
1 TGTAAGACATGTCTGGGACATGCATC-GGCTATGAGACAGAATCCAG
* * ** *
62502091 TATAAGACATGTCTGGGACATGCATCGGCTATGAGA-TGTGT-TAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTATGAGACAGAATCCAG
* * * * * *
62502135 CGTAAGACCATGTCTAGGACATGACATCGGC-ACGGTTATGTCAG-AGCTAG
1 TGTAAGA-CATGTCTGGGACATG-CATCGGCTA---TGA-GACAGAATCCAG
* *
62502185 TGTAAGATCATGTCTGGGACATGGCATCAGCCT-TGA-ACATGATAGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATC-GGCTATGAGACA-GA-ATCCAG
62502234 TGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC
62502265 ACTTTACCCA
Statistics
Matches: 208, Mismatches: 35, Indels: 48
0.71 0.12 0.16
Matches are distributed among these distances:
44 7 0.03
45 21 0.10
46 60 0.29
47 35 0.17
48 22 0.11
49 33 0.16
50 27 0.13
51 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTATGAGACAGAATCCAG
Found at i:62506925 original size:27 final size:27
Alignment explanation
Indices: 62506887--62506939 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
62506877 ATTGCATGAC
62506887 TATGAATGTGATT-GGGCCTGATGGGCA
1 TATGAATGTGATTGGGGCC-GATGGGCA
62506914 TATGAATGTGATTGGGGCCGATGGGC
1 TATGAATGTGATTGGGGCCGATGGGC
62506940 CANTTCAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.21, C:0.11, G:0.40, T:0.28
Consensus pattern (27 bp):
TATGAATGTGATTGGGGCCGATGGGCA
Found at i:62509459 original size:40 final size:39
Alignment explanation
Indices: 62509294--62509477 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
62509284 AAATTGAATG
* * *
62509294 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
62509334 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
62509374 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
62509414 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
62509453 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
62509478 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:62509502 original size:80 final size:81
Alignment explanation
Indices: 62509334--62509522 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
62509324 GCTGGAAATT
* * * *
62509334 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
62509399 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
62509415 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
62509478 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
62509494 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
62509523 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:62511374 original size:48 final size:46
Alignment explanation
Indices: 62511300--62511476 Score: 171
Period size: 48 Copynumber: 3.7 Consensus size: 46
62511290 CACATTTCAA
* *
62511300 GCCGATGGCATGTCCCAAATAGGTCTTACACTAGCT-TGCATATCACGAG
1 GCCGAT-GCATGTCCCAAACATGTCTTACACTAGCTCT-CATAT-A-GAG
* * * * * *
62511349 GCCAATGCATGTCCCAGACATGTCTTACACTATCTCTCGTCTTA-AT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCAT-ATAGAG
*
62511395 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA-ATGTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCATATA-GAG
*
62511443 GCCGATCCATGTCCCAAACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGC
62511477 ACACATCCAC
Statistics
Matches: 106, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
46 21 0.20
47 27 0.25
48 51 0.48
49 7 0.07
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATATAGAG
Found at i:62511468 original size:94 final size:94
Alignment explanation
Indices: 62511300--62511474 Score: 246
Period size: 94 Copynumber: 1.9 Consensus size: 94
62511290 CACATTTCAA
* * *
62511300 GCCGATGGCATGTCCCAAATAGGTCTTACACTAGCTTGCATATCACGAGGCCAATGCATGTCCCA
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTAGCTTGCATA-CACGAGGCCAATCCATGTCCCA
*
62511365 GACATGTCTTACACTATCTCTCGTCTTAAT
65 AACATGTCTTACACTATCTCTCGTCTTAAT
* * *
62511395 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCT-CATA-ATGTGGCCGATCCATGTCCC
1 GCCGATGCCATGTCCCAAACA-GGTCTTACACTAGCT-TGCATACACGAGGCCAATCCATGTCCC
62511458 AAACATGTCTTACACTA
64 AAACATGTCTTACACTA
62511475 GCACACATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
94 32 0.45
95 19 0.27
96 19 0.27
97 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAAACAGGTCTTACACTAGCTTGCATACACGAGGCCAATCCATGTCCCAA
ACATGTCTTACACTATCTCTCGTCTTAAT
Found at i:62514389 original size:33 final size:33
Alignment explanation
Indices: 62514335--62514398 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
62514325 TTGAGATTGC
*
62514335 ATGTAAGACCATGTCTAGGACATTGGCATCATT
1 ATGTAAGACCATGTCTAGGACAGTGGCATCATT
* *
62514368 ATGTAAGACCTTG-CTTGGGACAGTGGCATCA
1 ATGTAAGACCATGTC-TAGGACAGTGGCATCA
62514399 ATCTGTGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (33 bp):
ATGTAAGACCATGTCTAGGACAGTGGCATCATT
Found at i:62516715 original size:17 final size:17
Alignment explanation
Indices: 62516693--62516726 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
62516683 TTGCAAATTA
62516693 GTCCCTATAAGGGTTTC
1 GTCCCTATAAGGGTTTC
62516710 GTCCCTATAAGGGTTTC
1 GTCCCTATAAGGGTTTC
62516727 TCATAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (17 bp):
GTCCCTATAAGGGTTTC
Found at i:62520761 original size:27 final size:28
Alignment explanation
Indices: 62520723--62520832 Score: 145
Period size: 28 Copynumber: 4.0 Consensus size: 28
62520713 AAGCGTTCTA
62520723 GTGGCTCTGCCACAAATATCTG-ATCTG
1 GTGGCTCTGCCACAAATATCTGTATCTG
* *
62520750 GTGGCTCTGCCACAAATATCTGTTTCTA
1 GTGGCTCTGCCACAAATATCTGTATCTG
* *
62520778 GTGGCCCTGCCACAATTATCTGTATCTG
1 GTGGCTCTGCCACAAATATCTGTATCTG
* *
62520806 GTGACTCTGTCAC-AATATCTGT-TCTG
1 GTGGCTCTGCCACAAATATCTGTATCTG
62520832 G
1 G
62520833 CAGCCATGTT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.07
27 30 0.42
28 37 0.51
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (28 bp):
GTGGCTCTGCCACAAATATCTGTATCTG
Found at i:62520823 original size:55 final size:55
Alignment explanation
Indices: 62520718--62520828 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 55
62520708 GGAGGAAGCG
* *
62520718 TTCTAGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTAGTGGCCCTGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCTGT
* *
62520773 TTCTAGTGGCCCTGCCACAATTATCTGTATCTGGTGACTCTGTCAC-AATATCTGT
1 TTCTAGTGGCCCTGCCACAAATATCTG-ATCTGGTGACTCTGCCACAAATATCTGT
62520828 T
1 T
62520829 CTGGCAGCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
55 35 0.69
56 16 0.31
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (55 bp):
TTCTAGTGGCCCTGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCTGT
Found at i:62524370 original size:13 final size:13
Alignment explanation
Indices: 62524354--62524386 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
62524344 TTTAATTAAA
*
62524354 TTAGTTAATTAGT
1 TTAGATAATTAGT
62524367 TTAGATAATTAGT
1 TTAGATAATTAGT
62524380 TTA-ATAA
1 TTAGATAA
62524387 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:62526968 original size:30 final size:30
Alignment explanation
Indices: 62526929--62526992 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
62526919 TGGGAGGAAA
* *
62526929 CCGTGTGTCATACACGGCCTAGACACACAC
1 CCGTATGTCACACACGGCCTAGACACACAC
62526959 CCGTATGTCACACACGGCCTAGACACACAC
1 CCGTATGTCACACACGGCCTAGACACACAC
62526989 CCGT
1 CCGT
62526993 GTGTTTATCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.39, G:0.19, T:0.16
Consensus pattern (30 bp):
CCGTATGTCACACACGGCCTAGACACACAC
Found at i:62526985 original size:15 final size:15
Alignment explanation
Indices: 62526940--62526988 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
62526930 CGTGTGTCAT
62526940 ACACGGCCTAGACAC
1 ACACGGCCTAGACAC
*
62526955 ACAC--CCGTATGTCAC
1 ACACGGCC-TA-GACAC
62526970 ACACGGCCTAGACAC
1 ACACGGCCTAGACAC
62526985 ACAC
1 ACAC
62526989 CCGTGTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 20 0.71
16 2 0.07
17 2 0.07
ACGTcount: A:0.33, C:0.41, G:0.16, T:0.10
Consensus pattern (15 bp):
ACACGGCCTAGACAC
Found at i:62531886 original size:26 final size:26
Alignment explanation
Indices: 62531838--62531887 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
62531828 GGGCAAAATA
* * *
62531838 GTCATTTTACCCTATAAGGGTATTCG
1 GTCATTTTACACTACAAGAGTATTCG
*
62531864 GTCATTTTATACTACAAGAGTATT
1 GTCATTTTACACTACAAGAGTATT
62531888 TTAGTAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (26 bp):
GTCATTTTACACTACAAGAGTATTCG
Found at i:62531910 original size:27 final size:27
Alignment explanation
Indices: 62531883--62532164 Score: 258
Period size: 27 Copynumber: 10.6 Consensus size: 27
62531873 TACTACAAGA
*
62531883 GTATTTTAGTAATTTTACAAATCGAGAG
1 GTATTTCAGTAATTTTACAAATCGAG-G
* *
62531911 GTGTTTCAATAA-TTT---AATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
*
62531934 GTATTTC-GATAATTTTTACAAATCGAAG
1 GTATTTCAG-TAA-TTTTACAAATCGAGG
*
62531962 GTATTTCGGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* * * * *
62531989 GTGTTTCAATAATTTTGCAAACCAAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
62532016 GTATTTCAGTAATTTTA-AAAACTAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
*
62532042 GTATTTC-GATAATTTTACAAATCGAGC
1 GTATTTCAG-TAATTTTACAAATCGAGG
*
62532069 GTATTT-TGATAATTTTACAAATCGAGG
1 GTATTTCAG-TAATTTTACAAATCGAGG
* * *
62532096 GTGTTTCAGTAATTTTACAAACCAAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
** *
62532123 GTATTTTGGTAATTTTACAAA-CTGGGG
1 GTATTTCAGTAATTTTACAAATC-GAGG
*
62532150 GTATTTCGGTAATTT
1 GTATTTCAGTAATTT
62532165 CTCTTTATTA
Statistics
Matches: 210, Mismatches: 32, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
23 10 0.05
24 7 0.03
25 4 0.02
26 23 0.11
27 138 0.66
28 27 0.13
29 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAGG
Found at i:62531945 original size:23 final size:24
Alignment explanation
Indices: 62531902--62531948 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
62531892 TAATTTTACA
*
62531902 AATCGAGAGGTGTTTCAATAATTT
1 AATCGAGAGGTATTTCAATAATTT
*
62531926 AATCGAG-GGTATTTCGATAATTT
1 AATCGAGAGGTATTTCAATAATTT
62531949 TTACAAATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (24 bp):
AATCGAGAGGTATTTCAATAATTT
Found at i:62532082 original size:107 final size:108
Alignment explanation
Indices: 62531930--62532164 Score: 357
Period size: 107 Copynumber: 2.2 Consensus size: 108
62531920 TAATTTAATC
*
62531930 GAGGGTATTTCGATAATTTTTACAAATCGAAGGTATTTCGGTAATTTTACAAATCGAGGGTGTTT
1 GAGGGTATTTCGATAA-TTTTACAAATCGAAGGTATTTCGATAATTTTACAAATCGAGGGTGTTT
*
62531995 CAATAATTTTGCAAACCAAGGGTATTTCAGTAATTTTAAAAACT
65 CAATAATTTTACAAACCAAGGGTATTTCAGTAATTTTAAAAACT
*
62532039 -AGGGTATTTCGATAATTTTACAAATCG-AGCGTATTTTGATAATTTTACAAATCGAGGGTGTTT
1 GAGGGTATTTCGATAATTTTACAAATCGAAG-GTATTTCGATAATTTTACAAATCGAGGGTGTTT
* ** *
62532102 CAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACT
65 CAATAATTTTACAAACCAAGGGTATTTCAGTAATTTTAAAAACT
* *
62532146 GGGGGTATTTCGGTAATTT
1 GAGGGTATTTCGATAATTT
62532165 CTCTTTATTA
Statistics
Matches: 115, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
106 2 0.02
107 82 0.71
108 31 0.27
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (108 bp):
GAGGGTATTTCGATAATTTTACAAATCGAAGGTATTTCGATAATTTTACAAATCGAGGGTGTTTC
AATAATTTTACAAACCAAGGGTATTTCAGTAATTTTAAAAACT
Found at i:62532524 original size:28 final size:28
Alignment explanation
Indices: 62532484--62532567 Score: 78
Period size: 28 Copynumber: 3.0 Consensus size: 28
62532474 CCCTTAGGGA
* * *
62532484 CCAATCTCGTTCACATGACCCATCATGC
1 CCAATCACATTCACATGACCCATCAGGC
* * *
62532512 CTAATCACATTCATATGGCCCATCAGGC
1 CCAATCACATTCACATGACCCATCAGGC
* * * *
62532540 CCAATCATATTCATATGGCCAATCAGGC
1 CCAATCACATTCACATGACCCATCAGGC
62532568 TCAACTACTT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.25
Consensus pattern (28 bp):
CCAATCACATTCACATGACCCATCAGGC
Found at i:62535545 original size:24 final size:23
Alignment explanation
Indices: 62535518--62535653 Score: 182
Period size: 24 Copynumber: 5.7 Consensus size: 23
62535508 CGGATTTGAG
*
62535518 TGGCACTATGTGCGCGTATTGGTA
1 TGGCACTATGTGTGCGTATT-GTA
62535542 TGGCACTATGTGTGCGTATTTGTA
1 TGGCACTATGTGTGCGTA-TTGTA
*
62535566 TGGCACTATGTGTTCGTATTTGTA
1 TGGCACTATGTGTGCGTA-TTGTA
62535590 TGGCACTATGTGTGCGTATATGTA
1 TGGCACTATGTGTGCGTAT-TGTA
* * *
62535614 TGGCACTACGTGTGCGTAATTATT
1 TGGCACTATGTGTGCGT-ATTGTA
62535638 TGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
62535654 GAGTTGAATC
Statistics
Matches: 102, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
23 1 0.01
24 97 0.95
25 4 0.04
ACGTcount: A:0.18, C:0.15, G:0.29, T:0.38
Consensus pattern (23 bp):
TGGCACTATGTGTGCGTATTGTA
Found at i:62540755 original size:42 final size:42
Alignment explanation
Indices: 62540666--62540820 Score: 129
Period size: 43 Copynumber: 3.6 Consensus size: 42
62540656 TGTCAGACTG
* * *
62540666 TGTCTGGGACA-CAGGCCTTG-ATTGAGATTTACGTATAAGACCA
1 TGTCTGGGACATC-GGCATTGTATTGA-ATTT-CGTGTAAGACCC
62540709 TGTCTGGGACATCGGCATTGTATCT-AATTTCGTGTAAGACCC
1 TGTCTGGGACATCGGCATTGTAT-TGAATTTCGTGTAAGACCC
* ** * * *
62540751 TGTCTTGGACAGAGGCATCGATATTGAATTACATGTAAGACCAC
1 TGTCTGGGACATCGGCATTG-TATTGAATTTCGTGTAAGACC-C
*
62540795 -GTCTGGGACGTCGGCATTGTACTTGA
1 TGTCTGGGACATCGGCATTGTA-TTGA
62540821 TTATCAGCAT
Statistics
Matches: 91, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
42 29 0.32
43 56 0.62
44 5 0.05
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTCTGGGACATCGGCATTGTATTGAATTTCGTGTAAGACCC
Found at i:62542938 original size:40 final size:40
Alignment explanation
Indices: 62542834--62543053 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
62542824 AAACCAAGTA
* * * *
62542834 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
62542873 TCTTCGGGAC-TAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
62542912 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
62542952 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * *
62542992 CCTTTGGG-CTTAGCCCGG-AATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
62543031 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
62543054 CATCCAATAT
Statistics
Matches: 162, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
38 4 0.02
39 71 0.44
40 86 0.53
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:62543004 original size:79 final size:80
Alignment explanation
Indices: 62542860--62543049 Score: 287
Period size: 79 Copynumber: 2.4 Consensus size: 80
62542850 GGATATAGCT
* * *
62542860 ACTCGCTCAAATGTCTTCGGGAC-TAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
*
62542924 AGCCCGG-TTATAGTA
66 AGCCCGGAAT-TAGTA
*
62542939 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTGGG-CTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
*
62543003 AGCCCGGAATTAGTC
66 AGCCCGGAATTAGTA
*
62543018 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
62543050 TTATCATCCA
Statistics
Matches: 102, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
79 66 0.65
80 36 0.35
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGAATTAGTA
Found at i:62547552 original size:40 final size:40
Alignment explanation
Indices: 62547508--62547637 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
62547498 TCGAATACAA
62547508 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
62547548 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
62547588 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
62547628 CCGGATATAA
1 CCGGATATAA
62547638 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:62547652 original size:40 final size:40
Alignment explanation
Indices: 62547508--62547671 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
62547498 TCGAATACAA
* **
62547508 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
62547548 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
62547588 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
62547628 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
62547668 CCGG
1 CCGG
62547672 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:62553885 original size:40 final size:40
Alignment explanation
Indices: 62553808--62553984 Score: 263
Period size: 40 Copynumber: 4.5 Consensus size: 40
62553798 AAACCAAGTA
* *
62553808 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
62553847 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
62553887 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
62553927 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
62553966 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
62553985 TTATCATCCG
Statistics
Matches: 128, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 49 0.38
40 78 0.61
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:62553961 original size:79 final size:80
Alignment explanation
Indices: 62553808--62553984 Score: 263
Period size: 79 Copynumber: 2.2 Consensus size: 80
62553798 AAACCAAGTA
* * *
62553808 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
62553872 TAACTCGCACAAATG
66 TAACTAGCACAAATG
62553887 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
62553949 AGTCACTAGCACAAATG
64 AGTAACTAGCACAAATG
62553966 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
62553985 TTATCATCCG
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:62557269 original size:27 final size:26
Alignment explanation
Indices: 62557211--62557271 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
62557201 CAAAACAGTC
* * * * *
62557211 ATTTTACCCTATAAGGGTATTCGATC
1 ATTTTACACTACAAGAGTATTCAATA
62557237 ATTTTACACTACAAGAGTATTTCAATA
1 ATTTTACACTACAAGAGTA-TTCAATA
62557264 ATTTTACA
1 ATTTTACA
62557272 AATTGGGGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.39
Consensus pattern (26 bp):
ATTTTACACTACAAGAGTATTCAATA
Found at i:62557449 original size:26 final size:27
Alignment explanation
Indices: 62557253--62557544 Score: 217
Period size: 27 Copynumber: 10.8 Consensus size: 27
62557243 CACTACAAGA
** *
62557253 GTATTTCAATAATTTTACAAATTGGGGG
1 GTATTTCGGTAATTTTACAAATT-GAGG
** * *
62557281 GTGCTTCGGTAATTTTAAAAATCGAGG
1 GTATTTCGGTAATTTTACAAATTGAGG
* ** * *
62557308 ATATTTTAGTAATTTTACAAATCGTGG
1 GTATTTCGGTAATTTTACAAATTGAGG
* *** *
62557335 GTATTTTGGTAATTTTACAAAACAAAG
1 GTATTTCGGTAATTTTACAAATTGAGG
* * *
62557362 GTATTTCGATAAATTTACAAATCGAGG
1 GTATTTCGGTAATTTTACAAATTGAGG
* * ** * * **
62557389 GTGTTTCAGTAATTTTGTAAACTAAAA
1 GTATTTCGGTAATTTTACAAATTGAGG
*
62557416 GTATTTCGGTAATTTTACAATTTG-GG
1 GTATTTCGGTAATTTTACAAATTGAGG
62557442 GTATTTCGGTAATTTTACAAATTGAGG
1 GTATTTCGGTAATTTTACAAATTGAGG
* *
62557469 GTATTTCGATAATTTTACAAATCGAGG
1 GTATTTCGGTAATTTTACAAATTGAGG
* ** * **
62557496 GTGTTTTAGTAATTTTTTCAAACCGAGG
1 GTATTTCGGTAA-TTTTACAAATTGAGG
*
62557524 GTATTTCAGTAATTTTACAAA
1 GTATTTCGGTAATTTTACAAA
62557545 CCGGGGGTAT
Statistics
Matches: 204, Mismatches: 58, Indels: 5
0.76 0.22 0.02
Matches are distributed among these distances:
26 23 0.11
27 141 0.69
28 40 0.20
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GTATTTCGGTAATTTTACAAATTGAGG
Found at i:62557475 original size:107 final size:109
Alignment explanation
Indices: 62557309--62557556 Score: 320
Period size: 107 Copynumber: 2.3 Consensus size: 109
62557299 AAATCGAGGA
* *
62557309 TATTTTAGTAATTTTACAAATCGTGGGTATTTTGGTAATTTTACAAAACAAAGGTATTTCGATAA
1 TATTTCAGTAATTTTACAAATCGTGGGTATTTCGGTAATTTTACAAAACAAAGGTATTTCGATAA
*
62557374 ATTTACAAATCGAGGGTGTTTCAGTAATTTTGT-AAACTAAAAG
66 ATTTACAAATCGAGGGTGTTTCAGTAATTTTGTCAAACCAAAAG
* * * *** *
62557417 TATTTCGGTAATTTTACAATTTG-GGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCGATAA
1 TATTTCAGTAATTTTACAAATCGTGGGTATTTCGGTAATTTTACAAAACAAAGGTATTTCGATAA
* * * * **
62557481 TTTTACAAATCGAGGGTGTTTTAGTAATTTTTTCAAACCGAGGG
66 ATTTACAAATCGAGGGTGTTTCAGTAATTTTGTCAAACCAAAAG
* *
62557525 TATTTCAGTAATTTTACAAACCGGGGGTATTT
1 TATTTCAGTAATTTTACAAATCGTGGGTATTT
62557557 AAATAATTTC
Statistics
Matches: 118, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
107 66 0.56
108 44 0.37
109 8 0.07
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (109 bp):
TATTTCAGTAATTTTACAAATCGTGGGTATTTCGGTAATTTTACAAAACAAAGGTATTTCGATAA
ATTTACAAATCGAGGGTGTTTCAGTAATTTTGTCAAACCAAAAG
Found at i:62559651 original size:20 final size:20
Alignment explanation
Indices: 62559610--62559652 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
62559600 AGCACATGTA
* *
62559610 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
62559630 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
62559650 TTC
1 TTC
62559653 GTTTTAGTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:62562738 original size:22 final size:22
Alignment explanation
Indices: 62562710--62562753 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
62562700 ACTTATAATG
*
62562710 TCCATACCTAGTTGTAAAAGCT
1 TCCATACCTAGTTCTAAAAGCT
62562732 TCCATACCTAGTTCTAAAAGCT
1 TCCATACCTAGTTCTAAAAGCT
62562754 ATCTTTGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (22 bp):
TCCATACCTAGTTCTAAAAGCT
Found at i:62579863 original size:40 final size:40
Alignment explanation
Indices: 62579818--62579985 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
62579808 CGGAATACAA
62579818 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
62579858 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
62579898 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
62579938 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
62579978 CCGGATAT
1 CCGGATAT
62579986 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:62579958 original size:80 final size:80
Alignment explanation
Indices: 62579818--62579985 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
62579808 CGGAATACAA
* *
62579818 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
62579883 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
62579898 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
62579961 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
62579978 CCGGATAT
1 CCGGATAT
62579986 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:62581422 original size:17 final size:17
Alignment explanation
Indices: 62581400--62581432 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62581390 CATCCATGAG
*
62581400 TTTTTTT-CTTTTCTTT
1 TTTTTTTCCATTTCTTT
62581416 TTTTTTTCCATTTCTTT
1 TTTTTTTCCATTTCTTT
62581433 ATTACCCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTCCATTTCTTT
Found at i:62583087 original size:42 final size:42
Alignment explanation
Indices: 62583040--62583161 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
62583030 CAGTACCGTA
*
62583040 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
* * * * *
62583082 ATGCCAATAACCCGGCTATGGTCTTTC-TCGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACAT-GTAATCTCATATCG
* *
62583125 ATGCCATATCCCAGGTATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
62583162 GTAACCCTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:62589085 original size:42 final size:42
Alignment explanation
Indices: 62589037--62589119 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
62589027 TGTTCAAAGC
*
62589037 TCATATCTTCCCATAATCATTTTAAAAGGTAATTATGCCAAT
1 TCATATCTTCCCATAATCATTTTAAAAGGCAATTATGCCAAT
* *
62589079 TCATATCTTCCCATAATCATTTTAATAGGCAATTATTCCAA
1 TCATATCTTCCCATAATCATTTTAAAAGGCAATTATGCCAA
62589120 GCTTTTCTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (42 bp):
TCATATCTTCCCATAATCATTTTAAAAGGCAATTATGCCAAT
Found at i:62593208 original size:14 final size:14
Alignment explanation
Indices: 62593189--62593231 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
62593179 ATGGAGAGAT
62593189 CAAAAGAAAAAGAG
1 CAAAAGAAAAAGAG
62593203 CAAAAGAAAAAGAATG
1 CAAAAGAAAAAG-A-G
62593219 -AAAAGAAAAAGAG
1 CAAAAGAAAAAGAG
62593232 TGGAAAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 1 0.04
14 13 0.48
15 12 0.44
16 1 0.04
ACGTcount: A:0.72, C:0.05, G:0.21, T:0.02
Consensus pattern (14 bp):
CAAAAGAAAAAGAG
Found at i:62593222 original size:15 final size:15
Alignment explanation
Indices: 62593189--62593230 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
62593179 ATGGAGAGAT
62593189 CAAAAGAAAAAG-AG
1 CAAAAGAAAAAGAAG
62593203 CAAAAGAAAAAGAATG
1 CAAAAGAAAAAGAA-G
62593219 -AAAAGAAAAAGA
1 CAAAAGAAAAAGA
62593231 GTGGAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.46
15 13 0.50
16 1 0.04
ACGTcount: A:0.74, C:0.05, G:0.19, T:0.02
Consensus pattern (15 bp):
CAAAAGAAAAAGAAG
Found at i:62598229 original size:40 final size:40
Alignment explanation
Indices: 62598185--62598370 Score: 146
Period size: 40 Copynumber: 4.7 Consensus size: 40
62598175 GCTACTCGTT
* * * *
62598185 CAAATACCTTCGGGACATAGCTC-GATTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
62598225 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * **
62598265 CAAATGCCTT-TGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* * ** * * *
62598305 GAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
62598346 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
62598371 CATCATTCGA
Statistics
Matches: 127, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.02
40 110 0.87
41 14 0.11
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:62598370 original size:80 final size:81
Alignment explanation
Indices: 62598185--62598370 Score: 202
Period size: 80 Copynumber: 2.3 Consensus size: 81
62598175 GCTACTCGTT
* * * *
62598185 CAAATACCTTCGGGACATAGCTC-GATTATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
62598249 GATTTAGTAACTCGCA
66 GATATAGTAACTAGCA
* * * **
62598265 CAAATGCCTT-TGGATCTTAGTCCGGATT-TAGTAACTCGCAGAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
*
62598327 CGGATATAGTCACTTAGCA
64 CGGATATAGTAAC-TAGCA
62598346 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62598371 CATCATTCGA
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
79 6 0.07
80 66 0.76
81 15 0.17
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTAACTAGCA
Found at i:62601547 original size:29 final size:29
Alignment explanation
Indices: 62601480--62601590 Score: 118
Period size: 29 Copynumber: 3.9 Consensus size: 29
62601470 AAATTCACAT
* * *
62601480 ACATGTATCTAGCCCATTAAGCCC-AATC
1 ACATGTATATGGCCCATTAGGCCCAAATC
**
62601508 GTAT-TCATATGGCCCATTAGGCCCAAATC
1 ACATGT-ATATGGCCCATTAGGCCCAAATC
*
62601537 ACCTGTATATGGCCCATTAGGCCCAAATC
1 ACATGTATATGGCCCATTAGGCCCAAATC
* * *
62601566 ACATTTATATGGCCCGTTCGGCCCA
1 ACATGTATATGGCCCATTAGGCCCA
62601591 GTCACATTCA
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
27 1 0.01
28 17 0.25
29 49 0.72
30 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
ACATGTATATGGCCCATTAGGCCCAAATC
Found at i:62603169 original size:21 final size:21
Alignment explanation
Indices: 62603143--62603192 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
62603133 AAAACAGGTT
*
62603143 TTTAGCGGCCTCTTTTTGGCC
1 TTTAGCAGCCTCTTTTTGGCC
*
62603164 TTTAGCAGCCTTTTTTTGGCC
1 TTTAGCAGCCTCTTTTTGGCC
62603185 TTTAGCAG
1 TTTAGCAG
62603193 TTTTATAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (21 bp):
TTTAGCAGCCTCTTTTTGGCC
Found at i:62603373 original size:43 final size:43
Alignment explanation
Indices: 62603325--62603492 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 43
62603315 AAAAGCGTCA
*
62603325 CTAAAGAATGTGA-CTTGTAGCGGCACTTTTCATACAAACACCG
1 CTAAAGAATATGACCTT-TAGCGGCACTTTTCATACAAACACCG
* * * * *
62603368 CTAAAGAATGTGACCTTTAGTGGCTCTTTTCATACAAACGCCA
1 CTAAAGAATATGACCTTTAGCGGCACTTTTCATACAAACACCG
* ** * *
62603411 CTAAAGAACATGACCTTTAGCGGTGCTTTTCATACCAATACCG
1 CTAAAGAATATGACCTTTAGCGGCACTTTTCATACAAACACCG
* ** *
62603454 CTAAAGAATATGACCTTCAGCGGTGCTTTTCACACAAAC
1 CTAAAGAATATGACCTTTAGCGGCACTTTTCATACAAAC
62603493 GCCTCTTTTC
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 103 0.97
44 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
CTAAAGAATATGACCTTTAGCGGCACTTTTCATACAAACACCG
Found at i:62603432 original size:86 final size:86
Alignment explanation
Indices: 62603323--62603495 Score: 224
Period size: 86 Copynumber: 2.0 Consensus size: 86
62603313 TAAAAAGCGT
** * *
62603323 CACTAAAGAATGTGACTTGTAGCGGCACTTTTCATACAAACACCGCTAAAGAATGTGACCTTTAG
1 CACTAAAGAACATGACTTGTAGCGGCACTTTTCATACAAACACCGCTAAAGAATATGACCTTCAG
* *
62603388 TGGCT-CTTTTCATACAAACGC
66 CGG-TGCTTTTCACACAAACGC
** * *
62603409 CACTAAAGAACATGACCTT-TAGCGGTGCTTTTCATACCAATACCGCTAAAGAATATGACCTTCA
1 CACTAAAGAACATGA-CTTGTAGCGGCACTTTTCATACAAACACCGCTAAAGAATATGACCTTCA
62603473 GCGGTGCTTTTCACACAAACGC
65 GCGGTGCTTTTCACACAAACGC
62603495 C
1 C
62603496 TCTTTTCTCA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
85 1 0.01
86 71 0.95
87 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (86 bp):
CACTAAAGAACATGACTTGTAGCGGCACTTTTCATACAAACACCGCTAAAGAATATGACCTTCAG
CGGTGCTTTTCACACAAACGC
Found at i:62603560 original size:43 final size:43
Alignment explanation
Indices: 62603497--62603731 Score: 187
Period size: 43 Copynumber: 5.5 Consensus size: 43
62603487 ACAAACGCCT
* * * *
62603497 CTTTTCTCAAAAATGTCACTAAAGAACGTGACCTTTAGCGGTG
1 CTTTTCTCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCG
* * * * * *
62603540 CTTTTCTCAAAAGCGCCACTACAGAACTTAACCTATAGTGGC-
1 CTTTTCTCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCG
* * * *
62603582 ATTTT-TCATACAAAAGCCGCTAAAGAACATGACCTTTA-CGGTG
1 CTTTTCTCA-A-AAACGCCACTAAAGAACATGACCTTTAGCGGCG
** * *
62603625 CTTTTCTCAAAAACG-CAGCTAAAGAATGTCACATTTAGCGGCG
1 CTTTTCTCAAAAACGCCA-CTAAAGAACATGACCTTTAGCGGCG
* * *
62603668 CTTTTCAT-ACAAAC-ACAGCTAAATAACATGACCTTTAGCGGCG
1 CTTTTC-TCAAAAACGCCA-CTAAAGAACATGACCTTTAGCGGCG
62603711 CTTTTCTCAAAAAC-CCACTAA
1 CTTTTCTCAAAAACGCCACTAA
62603732 TTTTAGCAGA
Statistics
Matches: 148, Mismatches: 35, Indels: 19
0.73 0.17 0.09
Matches are distributed among these distances:
41 4 0.03
42 31 0.21
43 109 0.74
44 4 0.03
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
CTTTTCTCAAAAACGCCACTAAAGAACATGACCTTTAGCGGCG
Found at i:62603617 original size:147 final size:146
Alignment explanation
Indices: 62603368--62603640 Score: 338
Period size: 147 Copynumber: 1.9 Consensus size: 146
62603358 ACAAACACCG
* * * *
62603368 CTAAAGAATGTGACCTTTAGTGGCTCTTTTCATACAAACGCCACTAAAGAACATGACCTTTAGCG
1 CTAAAGAACGTGACCTTTAGCGGCTCTTTTCATACAAACGCCACTAAAGAACATAACCTATAGCG
** * * *
62603433 GTGCTTTTCATACCAATACCGCTAAAGAATATGACCTTCAGCGGTGCTTTTCACACAAACGCCTC
66 GCACTTTTCATACCAAAACCGCTAAAGAACATGACCTTCA-CGGTGCTTTTCACAAAAACGCCTC
62603498 TTTTCTCAAAAATGTCA
130 TTTTCTCAAAAATGTCA
* *
62603515 CTAAAGAACGTGACCTTTAGCGG-TGCTTTTC-T-CAAAAGCGCCACTACAGAACTTAACCTATA
1 CTAAAGAACGTGACCTTTAGCGGCT-CTTTTCATAC-AAA-CGCCACTAAAGAACATAACCTATA
* * * *
62603577 GTGGCATTTTTCATA-CAAAAGCCGCTAAAGAACATGACCTTTACGGTGCTTTTCTCAAAAACGC
63 GCGGCACTTTTCATACCAAAA-CCGCTAAAGAACATGACCTTCACGGTGCTTTTCACAAAAACGC
62603641 AGCTAAAGAA
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
145 1 0.01
146 28 0.26
147 78 0.73
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (146 bp):
CTAAAGAACGTGACCTTTAGCGGCTCTTTTCATACAAACGCCACTAAAGAACATAACCTATAGCG
GCACTTTTCATACCAAAACCGCTAAAGAACATGACCTTCACGGTGCTTTTCACAAAAACGCCTCT
TTTCTCAAAAATGTCA
Found at i:62603674 original size:85 final size:86
Alignment explanation
Indices: 62603515--62603731 Score: 264
Period size: 85 Copynumber: 2.5 Consensus size: 86
62603505 AAAAATGTCA
* * * * *
62603515 CTAAAGAACGTGACCTTTAGCGGTGCTTTTCTCAAAAGCGCCACTACAGAACTTAACCTATAGTG
1 CTAAAGAACATGACCTTTAGCGGTGCTTTTCTCAAAAACGCCACTAAAGAACTTAACATATAGCG
* *
62603580 GCATTTTTCATACAAA-AGCCG
66 GCACTTTTCATACAAACA-CAG
* *
62603601 CTAAAGAACATGACCTTTA-CGGTGCTTTTCTCAAAAACG-CAGCTAAAGAA-TGTCACATTTAG
1 CTAAAGAACATGACCTTTAGCGGTGCTTTTCTCAAAAACGCCA-CTAAAGAACT-TAACATATAG
*
62603663 CGGCGCTTTTCATACAAACACAG
64 CGGCACTTTTCATACAAACACAG
* *
62603686 CTAAATAACATGACCTTTAGCGGCGCTTTTCTCAAAAAC-CCACTAA
1 CTAAAGAACATGACCTTTAGCGGTGCTTTTCTCAAAAACGCCACTAA
62603732 TTTTAGCAGA
Statistics
Matches: 114, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
84 3 0.03
85 72 0.63
86 39 0.34
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (86 bp):
CTAAAGAACATGACCTTTAGCGGTGCTTTTCTCAAAAACGCCACTAAAGAACTTAACATATAGCG
GCACTTTTCATACAAACACAG
Found at i:62604465 original size:13 final size:14
Alignment explanation
Indices: 62604431--62604467 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
62604421 CGATGAATAT
62604431 ACCATTATAATTAA
1 ACCATTATAATTAA
*
62604445 ACCATTATGATTAA
1 ACCATTATAATTAA
62604459 A-CATTATAA
1 ACCATTATAA
62604468 ATATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.35
Consensus pattern (14 bp):
ACCATTATAATTAA
Found at i:62609576 original size:9 final size:9
Alignment explanation
Indices: 62609562--62609658 Score: 92
Period size: 9 Copynumber: 11.0 Consensus size: 9
62609552 TATGTATTAC
*
62609562 GTAAGTTAA
1 GTAAGTTAT
*
62609571 GTAAGTTTT
1 GTAAGTTAT
62609580 GTAAGTTAT
1 GTAAGTTAT
62609589 GTAAGTTAT
1 GTAAGTTAT
62609598 GTAAGTTAT
1 GTAAGTTAT
* *
62609607 GATATGATAT
1 G-TAAGTTAT
* *
62609617 AT-ATTTAT
1 GTAAGTTAT
*
62609625 GT-A-TTAC
1 GTAAGTTAT
*
62609632 GTAAGTTTT
1 GTAAGTTAT
62609641 GTAAGTTAT
1 GTAAGTTAT
62609650 GTAAGTTAT
1 GTAAGTTAT
62609659 TAAAAATTTG
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
7 5 0.07
8 6 0.08
9 54 0.76
10 6 0.08
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:62609811 original size:29 final size:29
Alignment explanation
Indices: 62609776--62609836 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
62609766 GGAAAAAAAT
62609776 TTATTTTAATTAAATAATATATAAATAAA
1 TTATTTTAATTAAATAATATATAAATAAA
* * *
62609805 TTATTTTAGTTAAATAATATTTAAGTAAA
1 TTATTTTAATTAAATAATATATAAATAAA
62609834 TTA
1 TTA
62609837 ATCCAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (29 bp):
TTATTTTAATTAAATAATATATAAATAAA
Found at i:62609984 original size:29 final size:29
Alignment explanation
Indices: 62609952--62610015 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
62609942 ATTATGTGGA
*
62609952 AAATCACATGGAAA-AAATTTATTTTAATT
1 AAATAACATGGAAATAAA-TTATTTTAATT
* **
62609981 AAATAATATTTAAATAAATTATTTTAATT
1 AAATAACATGGAAATAAATTATTTTAATT
62610010 AAATAA
1 AAATAA
62610016 TATTTAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 27 0.90
30 3 0.10
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (29 bp):
AAATAACATGGAAATAAATTATTTTAATT
Found at i:62609992 original size:15 final size:15
Alignment explanation
Indices: 62609974--62610022 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
62609964 AAAAATTTAT
62609974 TTTAATTAAATAATA
1 TTTAATTAAATAATA
* *
62609989 TTTAAATAAATTAT-
1 TTTAATTAAATAATA
62610003 TTTAATTAAATAATA
1 TTTAATTAAATAATA
62610018 TTTAA
1 TTTAA
62610023 ATACATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:62610016 original size:29 final size:29
Alignment explanation
Indices: 62609970--62610030 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
62609960 TGGAAAAAAT
62609970 TTATTTTAATTAAATAATATTTAAATAAA
1 TTATTTTAATTAAATAATATTTAAATAAA
*
62609999 TTATTTTAATTAAATAATATTTAAATACA
1 TTATTTTAATTAAATAATATTTAAATAAA
62610028 TTA
1 TTA
62610031 ATCCAAACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
TTATTTTAATTAAATAATATTTAAATAAA
Found at i:62611107 original size:5 final size:5
Alignment explanation
Indices: 62611097--62611121 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
62611087 TTAAAAAATG
62611097 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
62611122 GATTAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:62614055 original size:22 final size:22
Alignment explanation
Indices: 62614027--62614073 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
62614017 TATCCCCACA
*
62614027 TAGAGTGTAG-GGCTGGATGGAG
1 TAGAGTGTAGAGGATGGATGG-G
62614049 TAGAGTGTAGAGGATGGATGGG
1 TAGAGTGTAGAGGATGGATGGG
62614071 TAG
1 TAG
62614074 GATTTCTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.26, C:0.02, G:0.49, T:0.23
Consensus pattern (22 bp):
TAGAGTGTAGAGGATGGATGGG
Found at i:62615749 original size:29 final size:29
Alignment explanation
Indices: 62615716--62615771 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
62615706 GCACACCAAC
*
62615716 ATCGCAGCAAACCTGCCAGTAATAATAAT
1 ATCGCAGCAAACCTGCCAGTAACAATAAT
* *
62615745 ATCGCAGCATAGCTGCCAGTAACAATA
1 ATCGCAGCAAACCTGCCAGTAACAATA
62615772 TGTGTGGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (29 bp):
ATCGCAGCAAACCTGCCAGTAACAATAAT
Found at i:62617041 original size:18 final size:18
Alignment explanation
Indices: 62617018--62617054 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
62617008 CAGAGAAGAA
*
62617018 AGCAAGAGTAGTTTGGCT
1 AGCAAGAGTAGTTCGGCT
*
62617036 AGCAAGAGTGGTTCGGCT
1 AGCAAGAGTAGTTCGGCT
62617054 A
1 A
62617055 TAGAAAATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (18 bp):
AGCAAGAGTAGTTCGGCT
Found at i:62628325 original size:46 final size:46
Alignment explanation
Indices: 62628272--62628441 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
62628262 GGCATCTGAA
62628272 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
* * * *
62628318 CTCGTTGAGTTGAGTCCAAGTTC-GTGA--GA--CGTAACTAGGCATCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AA-T--G--TCCGAG
* *
62628365 CTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC-CGAG
*
62628411 CTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62628442 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 12, Indels: 24
0.74 0.09 0.18
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 3 0.03
45 4 0.04
46 54 0.54
47 26 0.26
48 3 0.03
50 2 0.02
51 2 0.02
52 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
Found at i:62628421 original size:93 final size:93
Alignment explanation
Indices: 62628262--62628433 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
62628252 AGGATATTTG
* * *
62628262 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCATTGAG
62628327 TTGAGTCCAAGTTCGTGAGACGTAACTA
66 TTGAGTCCAAGTTCGTGAGACGTAACTA
*
62628355 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCATTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAGCTCATTGA
*
62628419 GTTGAGTCCGAGTTC
65 GTTGAGTCCAAGTTC
62628434 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCATTGAG
TTGAGTCCAAGTTCGTGAGACGTAACTA
Found at i:62633945 original size:78 final size:81
Alignment explanation
Indices: 62633810--62633993 Score: 252
Period size: 78 Copynumber: 2.3 Consensus size: 81
62633800 TCGAATGATG
*
62633810 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
62633874 TGTGCGAGTTACTA-A
66 TATGCGAGTTACTATA
* * **
62633889 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
62633951 TTATGCGAGTTACTATA
65 TTATGCGAGTTACTATA
* *
62633968 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62633994 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
77 1 0.01
78 50 0.54
79 28 0.30
80 14 0.15
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TATGCGAGTTACTATA
Done.