Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold256
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: 1244454
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 4 of 8
Found at i:564152 original size:32 final size:33
Alignment explanation
Indices: 564092--564155 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
564082 CACACCCAAA
* *
564092 TGTATCGATACATATTACTTAGTATCGATACAT
1 TGTATCGATACATAGTACATAGTATCGATACAT
*
564125 TGTATCGATACAT-GTCCATAGTATCGATACA
1 TGTATCGATACATAGTACATAGTATCGATACA
564156 CCTTGAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAGTACATAGTATCGATACAT
Found at i:564457 original size:8 final size:8
Alignment explanation
Indices: 564444--564472 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
564434 ATTAAGAAAT
564444 ATCAAGAG
1 ATCAAGAG
564452 ATCAAGAG
1 ATCAAGAG
564460 ATCAAGAG
1 ATCAAGAG
564468 ATCAA
1 ATCAA
564473 AGTATTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.21, T:0.14
Consensus pattern (8 bp):
ATCAAGAG
Found at i:567753 original size:13 final size:13
Alignment explanation
Indices: 567735--567759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
567725 TACTATGAAC
567735 ATGTATCGATACA
1 ATGTATCGATACA
567748 ATGTATCGATAC
1 ATGTATCGATAC
567760 TAAGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:567777 original size:33 final size:32
Alignment explanation
Indices: 567717--567780 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
567707 CATTTCAAGG
*
567717 TGTATCAATACTATGAACATGTATCGATACAA
1 TGTATCAATACTAAGAACATGTATCGATACAA
* *
567749 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCAATACTAAG-AACATGTATCGATACA
567781 TTTGGGTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (32 bp):
TGTATCAATACTAAGAACATGTATCGATACAA
Found at i:568484 original size:25 final size:24
Alignment explanation
Indices: 568422--568489 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
568412 CCCATTTTCA
568422 ATTTAGTACTCCCCCTTAAC-AAAT
1 ATTTA-TACTCCCCCTTAACAAAAT
568446 -TTT-T-CTCCCCCTTAACAAAAT
1 ATTTATACTCCCCCTTAACAAAAT
*
568467 ATTTAATACTCTCCCTTAACAAA
1 ATTT-ATACTCCCCCTTAACAAA
568490 TGATCCTCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
20 12 0.32
21 5 0.13
22 3 0.08
23 3 0.08
24 1 0.03
25 14 0.37
ACGTcount: A:0.34, C:0.29, G:0.01, T:0.35
Consensus pattern (24 bp):
ATTTATACTCCCCCTTAACAAAAT
Found at i:570665 original size:13 final size:13
Alignment explanation
Indices: 570647--570671 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
570637 CATAAAGTGT
570647 TGTATCGATACAA
1 TGTATCGATACAA
570660 TGTATCGATACA
1 TGTATCGATACA
570672 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:570669 original size:33 final size:33
Alignment explanation
Indices: 570627--570693 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
570617 TTTAACGATT
570627 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
570660 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
570693 T
1 T
570694 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:570752 original size:13 final size:13
Alignment explanation
Indices: 570734--570758 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
570724 ATCACTTAAA
570734 TGTATCGATACAT
1 TGTATCGATACAT
570747 TGTATCGATACA
1 TGTATCGATACA
570759 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:570823 original size:52 final size:52
Alignment explanation
Indices: 570767--570895 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
570757 CACTGATCTT
*
570767 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
570819 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
570871 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
570896 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:575046 original size:10 final size:10
Alignment explanation
Indices: 575031--575057 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
575021 TGCTAACTAA
575031 GTTTTTGTTT
1 GTTTTTGTTT
575041 GTTTTTGTTT
1 GTTTTTGTTT
575051 GTTTTTG
1 GTTTTTG
575058 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:584750 original size:1 final size:1
Alignment explanation
Indices: 584744--584821 Score: 66
Period size: 1 Copynumber: 78.0 Consensus size: 1
584734 GGCGTCCTCC
* * ** * * * * *
584744 AAAAAAAAAACAAAACAAAAAAAAACGAAAAAACAAAAAAAAAAAACAAAAACAAAAAAACAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
584809 AAAAACAAAAAAA
1 AAAAAAAAAAAAA
584822 GGGGGTCCGG
Statistics
Matches: 58, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:584767 original size:18 final size:18
Alignment explanation
Indices: 584744--584821 Score: 97
Period size: 18 Copynumber: 4.3 Consensus size: 18
584734 GGCGTCCTCC
584744 AAAAAAAAAACAAAACAA
1 AAAAAAAAAACAAAACAA
*
584762 AAAAAAACGAA-AAAACAA
1 AAAAAAA-AAACAAAACAA
584780 AAAAAAAAAACAAAA-ACA
1 AAAAAAAAAACAAAACA-A
*
584798 AAAAAACAAACAAAAACAA
1 AAAAAAAAAAC-AAAACAA
584817 AAAAA
1 AAAAA
584822 GGGGGTCCGG
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
17 3 0.06
18 36 0.69
19 12 0.23
20 1 0.02
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAACAAAACAA
Found at i:584790 original size:31 final size:31
Alignment explanation
Indices: 584746--584821 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 31
584736 CGTCCTCCAA
584746 AAAAAAAACAAAACAAAAA-AAAACGAAA-AAAC
1 AAAAAAAA-AAAACAAAAACAAAA--AAACAAAC
584778 AAAAAAAAAAAACAAAAACAAAAAAACAAAC
1 AAAAAAAAAAAACAAAAACAAAAAAACAAAC
584809 AAAAACAAAAAAA
1 AAAAA-AAAAAAA
584822 GGGGGTCCGG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
30 3 0.07
31 19 0.46
32 19 0.46
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (31 bp):
AAAAAAAAAAAACAAAAACAAAAAAACAAAC
Found at i:584796 original size:37 final size:36
Alignment explanation
Indices: 584744--584821 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 36
584734 GGCGTCCTCC
584744 AAAAAAAAAACAAAAC-AAAAAA-AAACGAAAAAACAA
1 AAAAAAAAAACAAAACAAAAAAACAAAC--AAAAACAA
584780 AAAAAAAAAACAAAAACAAAAAAACAAACAAAAACAA
1 AAAAAAAAAAC-AAAACAAAAAAACAAACAAAAACAA
584817 AAAAA
1 AAAAA
584822 GGGGGTCCGG
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
36 11 0.28
37 18 0.46
38 6 0.15
39 4 0.10
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (36 bp):
AAAAAAAAAACAAAACAAAAAAACAAACAAAAACAA
Found at i:586328 original size:27 final size:27
Alignment explanation
Indices: 586258--586370 Score: 100
Period size: 27 Copynumber: 4.0 Consensus size: 27
586248 CATTCATCAC
*
586258 CCTTCAAAAGTCCACAAGTCAGTGGCATA
1 CCTTC-AAAGCCCACAAGTCAGTGGCA-A
** *
586287 TTTTTCAAAGCCCACAAGTCAGTAGCAA
1 -CCTTCAAAGCCCACAAGTCAGTGGCAA
* *
586315 CCTTCAAAGCCCACAAATCAGTGGCAC
1 CCTTCAAAGCCCACAAGTCAGTGGCAA
* *
586342 CCTTTTCCGAAGCCCACAAGTCGGTGGCA
1 CC--TT-CAAAGCCCACAAGTCAGTGGCA
586371 TCTTTTCCAA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
27 24 0.35
28 1 0.01
29 21 0.31
30 22 0.32
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (27 bp):
CCTTCAAAGCCCACAAGTCAGTGGCAA
Found at i:586357 original size:30 final size:30
Alignment explanation
Indices: 586264--586622 Score: 204
Period size: 30 Copynumber: 12.0 Consensus size: 30
586254 TCACCCTTCA
* ** *
586264 AAAGTCCACAAGTCAGTGGCA-TATTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
586293 AAAGCCCACAAGTCAGTAGCAACC--TT-C
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
586320 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * *
586350 GAAGCCCACAAGTCGGTGGCA-TCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * * * * *
586379 AAAGTCCACAACTCCGTGGCATTCTTTTTCTTTTG
1 AAAGCCCACAAGTCAGTGGCA-CCCTTTTC----C
* * * * * *
586414 TAAGCTCACAACTCTA-TAGCACTCTTTTTCTTTT
1 AAAGCCCACAAGTC-AGTGGCAC-CCTTTTC---C
** * *
586448 TCAGCCCACAAGTTAGTGGCACCCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
** *
586478 AAAGCCCACAAGTCAGTGGCA-TATTCTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTT-TTCC
* *
586508 AAAGCCCACAAGTCAGTGGCAACC-TTT-A
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
586536 AAAGCCCACAAGTCAGTGGCAACC--TT-C
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
586563 AAAGCCCACAAATTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
586593 GAAGCCCACAAGTCGGTGGCA-CCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
586622 A
1 A
586623 TCTTTAAGTC
Statistics
Matches: 264, Mismatches: 48, Indels: 36
0.76 0.14 0.10
Matches are distributed among these distances:
27 45 0.17
28 27 0.10
29 59 0.22
30 81 0.31
31 5 0.02
33 7 0.03
34 18 0.07
35 22 0.08
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTCC
Found at i:586598 original size:85 final size:86
Alignment explanation
Indices: 586450--586618 Score: 209
Period size: 85 Copynumber: 2.0 Consensus size: 86
586440 TTTCTTTTTC
* * * *
586450 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTCTTCAAAAGCCC
1 AGCCCACAAGTCAGTGGCAACC-TTTCAAAAGCCCACAAATCAGTGGCACATTCTTCAAAAGCCC
586515 ACAAGTCAGTGGCAACCTTTAAA
65 ACAAGTCAGTGGC-ACCTTTAAA
* * **
586538 AGCCCACAAGTCAGTGGCAACC-TTC-AAAGCCCACAAATTAGTGGCACCCTT-TTCCGAAGCCC
1 AGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACAAATCAGTGGCA-CATTCTTCAAAAGCCC
*
586600 ACAAGTCGGTGGCACCTTT
65 ACAAGTCAGTGGCACCTTT
586619 TCCATCTTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
84 6 0.08
85 40 0.56
86 5 0.07
88 20 0.28
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (86 bp):
AGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACAAATCAGTGGCACATTCTTCAAAAGCCCA
CAAGTCAGTGGCACCTTTAAA
Found at i:586666 original size:52 final size:52
Alignment explanation
Indices: 586609--586767 Score: 185
Period size: 52 Copynumber: 3.2 Consensus size: 52
586599 CACAAGTCGG
*
586609 TGGCACCTTTTCCATCTTTAAGTCTAATGTAGCTGACCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACAT
* * *
586661 TGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTTTCCATCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACAT
586704 TGGCACCTTTTCCATCTTTAAGT-TCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCT-AATGTAGCTGGCCTTGAATCAGCACAT
*
586756 TGACATCCTTTT
1 TGGCA-CCTTTT
586768 TCTCAGCTTT
Statistics
Matches: 88, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
43 38 0.43
45 1 0.01
50 1 0.01
52 42 0.48
53 6 0.07
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (52 bp):
TGGCACCTTTTCCATCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACAT
Found at i:586685 original size:43 final size:43
Alignment explanation
Indices: 586624--586713 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
586614 CCTTTTCCAT
* *
586624 CTTTAAGTCTAATGTAGCTGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
* *
586667 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
586710 CTTT
1 CTTT
586714 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
Found at i:587599 original size:13 final size:13
Alignment explanation
Indices: 587581--587605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
587571 CATAAAGTGT
587581 TGTATCGATACAA
1 TGTATCGATACAA
587594 TGTATCGATACA
1 TGTATCGATACA
587606 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:587603 original size:33 final size:33
Alignment explanation
Indices: 587561--587627 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
587551 TTCAATGATT
587561 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
587594 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
587627 T
1 T
587628 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:587686 original size:13 final size:13
Alignment explanation
Indices: 587668--587692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
587658 ATCACTTAAA
587668 TGTATCGATACAT
1 TGTATCGATACAT
587681 TGTATCGATACA
1 TGTATCGATACA
587693 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:587757 original size:52 final size:52
Alignment explanation
Indices: 587701--587829 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
587691 CACTGATCTT
*
587701 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
587753 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
587805 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
587830 TCATATTTCA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:590938 original size:13 final size:14
Alignment explanation
Indices: 590920--590956 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
590910 ATAGTACCCA
*
590920 TGTATCGATA-ATC
1 TGTATCGATACAAC
590933 TGTATCGATACAAC
1 TGTATCGATACAAC
590947 -GTATCGATAC
1 TGTATCGATAC
590957 TAAGAACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 20 0.91
14 2 0.09
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (14 bp):
TGTATCGATACAAC
Found at i:591923 original size:12 final size:12
Alignment explanation
Indices: 591906--591930 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
591896 ATACTTAAAA
591906 ATTCTTTTTACG
1 ATTCTTTTTACG
591918 ATTCTTTTTACG
1 ATTCTTTTTACG
591930 A
1 A
591931 CAAGTAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (12 bp):
ATTCTTTTTACG
Found at i:594017 original size:780 final size:780
Alignment explanation
Indices: 592517--594074 Score: 3098
Period size: 780 Copynumber: 2.0 Consensus size: 780
592507 GGGATTTTCA
592517 AAACCGGGAGGTTGTTCAACATAGACCTCCTCATTTATAAAGCCATTAGGAAAAGAACTTTTGAC
1 AAACCGGGAGGTTGTTCAACATAGACCTCCTCATTTATAAAGCCATTAGGAAAAGAACTTTTGAC
592582 ATCCATTTGAAATAACTTGAAGTTATAAAAGCATGCAAAGGCTAGCAATATTCTAATAGCTTCTA
66 ATCCATTTGAAATAACTTGAAGTTATAAAAGCATGCAAAGGCTAGCAATATTCTAATAGCTTCTA
592647 ACCTAGCTACGGGTGCATAGGTTTTGTCATAGTCTATACCTTTCTCTTGACTATAACCTTTTGCT
131 ACCTAGCTACGGGTGCATAGGTTTTGTCATAGTCTATACCTTTCTCTTGACTATAACCTTTTGCT
592712 ACTAGCCTAGCTTTGTTTCTAACAATGGTTCCATCTTCATCTAAATTATTCCTAAACACCCATTT
196 ACTAGCCTAGCTTTGTTTCTAACAATGGTTCCATCTTCATCTAAATTATTCCTAAACACCCATTT
592777 TGTTCCTATAATCGAGAGATCACTCGGTTTCTTTACTAAAGTCCATACCTTATTTATCTCAAATT
261 TGTTCCTATAATCGAGAGATCACTCGGTTTCTTTACTAAAGTCCATACCTTATTTATCTCAAATT
592842 GAATTAGTTCCTCTTGCAAGGCCATGATCCAATTTTCATCTTGTATGGCCTCATCTATACTTTAA
326 GAATTAGTTCCTCTTGCAAGGCCATGATCCAATTTTCATCTTGTATGGCCTCATCTATACTTTAA
592907 GGTTCTATTTGAGAGAGAAATGCTACATAGTCACAAGTATTTCTAAGGGATGATCTAGTTCTTAC
391 GGTTCTATTTGAGAGAGAAATGCTACATAGTCACAAGTATTTCTAAGGGATGATCTAGTTCTTAC
592972 CCCATGGTTTGGATTGCGAATAATCTCACCTTCTTTAACATAAGTCAACTCCCTTGGATGTTTTC
456 CCCATGGTTTGGATTGCGAATAATCTCACCTTCTTTAACATAAGTCAACTCCCTTGGATGTTTTC
*
593037 TTTCAGTTTGAGTTGGCTCATGTTCATCGACTTCCTTTGGAGCTTTTTCGATTTGGATGTTTTCC
521 TTTCAGTTTGAGTTGGCTCATGTTCATCGACTTCCTTTGGAGCTTCTTCGATTTGGATGTTTTCC
593102 TCTTGCTCCTTGTGTGACGCTTAGTCTAAATTTTCTTCATAAATTTCTACATCAATGTCATCAAA
586 TCTTGCTCCTTGTGTGACGCTTAGTCTAAATTTTCTTCATAAATTTCTACATCAATGTCATCAAA
593167 TGATACCTTCCGCACGGAAGAGTTAGATTCATCAAAAACAACATGGATTAATTCTTCAACAACCA
651 TGATACCTTCCGCACGGAAGAGTTAGATTCATCAAAAACAACATGGATTAATTCTTCAACAACCA
593232 AAGTTTTTTTATTAAACACATGATAAGCTTTGAAATTTGTTGAATAACCAAGAAAAATTCTTTTG
716 AAGTTTTTTTATTAAACACATGATAAGCTTTGAAATTTGTTGAATAACCAAGAAAAATTCTTTTG
593297 AAACCGGGAGGTTGTTCAACATAGACCTCCTCATTTATAAAGCCATTAGGAAAAGAACTTTTGAC
1 AAACCGGGAGGTTGTTCAACATAGACCTCCTCATTTATAAAGCCATTAGGAAAAGAACTTTTGAC
593362 ATCCATTTGAAATAACTTGAAGTTATAAAAGCATGCAAAGGCTAGCAATATTCTAATAGCTTCTA
66 ATCCATTTGAAATAACTTGAAGTTATAAAAGCATGCAAAGGCTAGCAATATTCTAATAGCTTCTA
593427 ACCTAGCTACGGGTGCATAGGTTTTGTCATAGTCTATACCTTTCTCTTGACTATAACCTTTTGCT
131 ACCTAGCTACGGGTGCATAGGTTTTGTCATAGTCTATACCTTTCTCTTGACTATAACCTTTTGCT
593492 ACTAGCCTAGCTTTGTTTCTAACAATGGTTCCATCTTCATCTAAATTATTCCTAAACACCCATTT
196 ACTAGCCTAGCTTTGTTTCTAACAATGGTTCCATCTTCATCTAAATTATTCCTAAACACCCATTT
593557 TGTTCCTATAATCGAGAGATCACTCGGTTTCTTTACTAAAGTCCATACCTTATTTATCTCAAATT
261 TGTTCCTATAATCGAGAGATCACTCGGTTTCTTTACTAAAGTCCATACCTTATTTATCTCAAATT
*
593622 GAATTAGTTCCTCTTGCATGGCCATGATCCAATTTTCATCTTGTATGGCCTCATCTATACTTTAA
326 GAATTAGTTCCTCTTGCAAGGCCATGATCCAATTTTCATCTTGTATGGCCTCATCTATACTTTAA
593687 GGTTCTATTTGAGAGAGAAATGCTACATAGTCACAAGTATTTCTAAGGGATGATCTAGTTCTTAC
391 GGTTCTATTTGAGAGAGAAATGCTACATAGTCACAAGTATTTCTAAGGGATGATCTAGTTCTTAC
593752 CCCATGGTTTGGATTGCGAATAATCTCACCTTCTTTAACATAAGTCAACTCCCTTGGATGTTTTC
456 CCCATGGTTTGGATTGCGAATAATCTCACCTTCTTTAACATAAGTCAACTCCCTTGGATGTTTTC
593817 TTTCAGTTTGAGTTGGCTCATGTTCATCGACTTCCTTTGGAGCTTCTTCGATTTGGATGTTTTCC
521 TTTCAGTTTGAGTTGGCTCATGTTCATCGACTTCCTTTGGAGCTTCTTCGATTTGGATGTTTTCC
593882 TCTTGCTCCTTGTGTGACGCTTAGTCTAAATTTTCTTCATAAATTTCTACATCAATGTCATCAAA
586 TCTTGCTCCTTGTGTGACGCTTAGTCTAAATTTTCTTCATAAATTTCTACATCAATGTCATCAAA
593947 TGATACCTTCCGCACGGAAGAGTTAGATTCATCAAAAACAACATGGATTAATTCTTCAACAACCA
651 TGATACCTTCCGCACGGAAGAGTTAGATTCATCAAAAACAACATGGATTAATTCTTCAACAACCA
594012 AAGTTTTTTTATTAAACACATGATAAGCTTTGAAATTTGTTGAATAACCAAGAAAAATTCTTT
716 AAGTTTTTTTATTAAACACATGATAAGCTTTGAAATTTGTTGAATAACCAAGAAAAATTCTTT
594075 CATCACTTTT
Statistics
Matches: 776, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
780 776 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (780 bp):
AAACCGGGAGGTTGTTCAACATAGACCTCCTCATTTATAAAGCCATTAGGAAAAGAACTTTTGAC
ATCCATTTGAAATAACTTGAAGTTATAAAAGCATGCAAAGGCTAGCAATATTCTAATAGCTTCTA
ACCTAGCTACGGGTGCATAGGTTTTGTCATAGTCTATACCTTTCTCTTGACTATAACCTTTTGCT
ACTAGCCTAGCTTTGTTTCTAACAATGGTTCCATCTTCATCTAAATTATTCCTAAACACCCATTT
TGTTCCTATAATCGAGAGATCACTCGGTTTCTTTACTAAAGTCCATACCTTATTTATCTCAAATT
GAATTAGTTCCTCTTGCAAGGCCATGATCCAATTTTCATCTTGTATGGCCTCATCTATACTTTAA
GGTTCTATTTGAGAGAGAAATGCTACATAGTCACAAGTATTTCTAAGGGATGATCTAGTTCTTAC
CCCATGGTTTGGATTGCGAATAATCTCACCTTCTTTAACATAAGTCAACTCCCTTGGATGTTTTC
TTTCAGTTTGAGTTGGCTCATGTTCATCGACTTCCTTTGGAGCTTCTTCGATTTGGATGTTTTCC
TCTTGCTCCTTGTGTGACGCTTAGTCTAAATTTTCTTCATAAATTTCTACATCAATGTCATCAAA
TGATACCTTCCGCACGGAAGAGTTAGATTCATCAAAAACAACATGGATTAATTCTTCAACAACCA
AAGTTTTTTTATTAAACACATGATAAGCTTTGAAATTTGTTGAATAACCAAGAAAAATTCTTTTG
Found at i:596238 original size:3 final size:3
Alignment explanation
Indices: 596230--596269 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
596220 CGAGTCAACT
*
596230 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
596270 TGATGGCTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:598647 original size:155 final size:154
Alignment explanation
Indices: 598276--598660 Score: 427
Period size: 154 Copynumber: 2.5 Consensus size: 154
598266 TTCTAACATT
** ** * * * *
598276 AGTCCTAGGTCATCACTGGGTTGCTTGTATGCCAAAGGTAAGCTTTTAGGATAGGTTCATCCTTT
1 AGTCCTAGGTCATCACCAGGTCACTTTTATGCCAATGGTATGCTTTTAGGATAGTTTCATCCTTT
** * ** *
598341 TATATCATTTTTGTGTCTTTTAGGGTTATCGAAATATTTTCACGTTAATAGTATACCAAGAGGCA
66 TATATCATTTTTGTGTCCCTTAGAGTTATCGAAATACGTTCACGTGAATAGTATACCAAGAGGCA
*
598406 TTTTGGTAATTTTTCTTAGAATCG
131 TTTTGGTAATTTTTCTTAGAATAG
* *
598430 AGTCCTAGGTCATTACCGGGTCACTTTTATGCCAAAT-GTATGCTTTTAGGATAGGTTT-ATCCT
1 AGTCCTAGGTCATCACCAGGTCACTTTTATGCC-AATGGTATGCTTTTAGGATA-GTTTCATCCT
* * * *
598493 TTTATATCATTTTTGTGTCCCTTAGAGTTATTGAGATACGTTCATGTCGAAGGTA-TATCCCAA-
64 TTTATATCATTTTTGTGTCCCTTAGAGTTATCGAAATACGTTCACGT-GAA--TAGTATACCAAG
*
598556 AGGCATTTTGGTAATTTTTTTTAGAATAG
126 AGGCATTTTGGTAATTTTTCTTAGAATAG
* * * * * * *
598585 AGTTCTAGTTGATCACCATGTTACTTTTATGCCAATGGTATGCTTTGAGGGTAGTTTCATCCTTT
1 AGTCCTAGGTCATCACCAGGTCACTTTTATGCCAATGGTATGCTTTTAGGATAGTTTCATCCTTT
*
598650 TACATCATTTT
66 TATATCATTTT
598661 CATATCTTTT
Statistics
Matches: 194, Mismatches: 30, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
154 94 0.48
155 91 0.47
156 7 0.04
157 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (154 bp):
AGTCCTAGGTCATCACCAGGTCACTTTTATGCCAATGGTATGCTTTTAGGATAGTTTCATCCTTT
TATATCATTTTTGTGTCCCTTAGAGTTATCGAAATACGTTCACGTGAATAGTATACCAAGAGGCA
TTTTGGTAATTTTTCTTAGAATAG
Found at i:598684 original size:155 final size:154
Alignment explanation
Indices: 598276--598733 Score: 471
Period size: 155 Copynumber: 3.0 Consensus size: 154
598266 TTCTAACATT
** ** * * * *
598276 AGTCCTAGGTCATCACTGGGTTGCTTGTATGCCAAAGGTAAGCTTTTAGGATAGGTTCATCCTTT
1 AGTCCTAGGTCATCACCAGGTCACTTTTATGCCAATGGTATGCTTTTAGGATAGTTTCATCCTTT
* * * *
598341 TATATCATTTTTGTGTCTTTTAGGGTTATCGAAATATTTTCACGTTAA--TAGTATACCAAGAGG
66 TATATCATTTTTGTGTCTTTTAGGGTTATCGAGATACTTTCACGTGAAGGTA-TATCCCAA-AGG
*
598404 CATTTTGGTAATTTTTCTTAGAATCG
129 CATTTTGGTAATTTTTCTTAGAATAG
* *
598430 AGTCCTAGGTCATTACCGGGTCACTTTTATGCCAAAT-GTATGCTTTTAGGATAGGTTT-ATCCT
1 AGTCCTAGGTCATCACCAGGTCACTTTTATGCC-AATGGTATGCTTTTAGGATA-GTTTCATCCT
** * * * *
598493 TTTATATCATTTTTGTGTCCCTTAGAGTTATTGAGATACGTTCATGTCGAAGGTATATCCCAAAG
64 TTTATATCATTTTTGTGTCTTTTAGGGTTATCGAGATACTTTCACGT-GAAGGTATATCCCAAAG
*
598558 GCATTTTGGTAATTTTTTTTAGAATAG
128 GCATTTTGGTAATTTTTCTTAGAATAG
* * * * * * *
598585 AGTTCTAGTTGATCACCATGTTACTTTTATGCCAATGGTATGCTTTGAGGGTAGTTTCATCCTTT
1 AGTCCTAGGTCATCACCAGGTCACTTTTATGCCAATGGTATGCTTTTAGGATAGTTTCATCCTTT
* ** * * * *
598650 TACATCATTTTCATATCTTTTTGGGTTATCGAGATACTTTCACATTGAAGGTATA-CCC-ATGTG
66 TATATCATTTTTGTGTCTTTTAGGGTTATCGAGATACTTTCAC-GTGAAGGTATATCCCAAAG-G
*
598713 CATTTTGATAA-TTTTCTTAGA
129 CATTTTGGTAATTTTTCTTAGA
598734 GCCAAGTCCG
Statistics
Matches: 251, Mismatches: 44, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
153 11 0.04
154 108 0.43
155 122 0.49
156 8 0.03
157 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (154 bp):
AGTCCTAGGTCATCACCAGGTCACTTTTATGCCAATGGTATGCTTTTAGGATAGTTTCATCCTTT
TATATCATTTTTGTGTCTTTTAGGGTTATCGAGATACTTTCACGTGAAGGTATATCCCAAAGGCA
TTTTGGTAATTTTTCTTAGAATAG
Found at i:600236 original size:20 final size:19
Alignment explanation
Indices: 600190--600245 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
600180 TTGTATCGAT
* *
600190 ACATTGTATCGATATATGT
1 ACATTGTATCGATACATGG
*
600209 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
600228 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
600246 TAAACTTGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:600309 original size:13 final size:13
Alignment explanation
Indices: 600291--600321 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
600281 TGATACATGG
600291 TACATTGTATCAA
1 TACATTGTATCAA
*
600304 TACATTGTATCGA
1 TACATTGTATCAA
600317 TACAT
1 TACAT
600322 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (13 bp):
TACATTGTATCAA
Found at i:600319 original size:33 final size:33
Alignment explanation
Indices: 600275--600343 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
600265 CTACTATTAT
* *
600275 TTGTATTGATACATGGT-ACATTGTATCAATACA
1 TTGTATCGATACATGATGA-ATTGTATCAATACA
*
600308 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCAATACA
600341 TTG
1 TTG
600344 CTTCTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCAATACA
Found at i:602480 original size:19 final size:19
Alignment explanation
Indices: 602456--602506 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
602446 TTTCAACGTT
602456 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
602475 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
602494 TTGTATCGATACA
1 TTGTATCGATACA
602507 ATGTATCACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:602577 original size:13 final size:13
Alignment explanation
Indices: 602559--602583 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
602549 ATTACTCAAA
602559 TGTATCGATACAT
1 TGTATCGATACAT
602572 TGTATCGATACA
1 TGTATCGATACA
602584 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:616527 original size:18 final size:17
Alignment explanation
Indices: 616506--616613 Score: 110
Period size: 18 Copynumber: 6.1 Consensus size: 17
616496 GGCATCCTCC
*
616506 ACAAAAAAAACCAAATAA
1 ACAAAAAAAA-CAAAAAA
616524 ACAAAAAAAACAAACAAA
1 ACAAAAAAAACAAA-AAA
*
616542 ACAAAAAAAAAGAAAAAA
1 AC-AAAAAAAACAAAAAA
*
616560 ACAAAAAAAAGAAAAAA
1 ACAAAAAAAACAAAAAA
*
616577 A-AAACACAAACAAACAAA
1 ACAAA-AAAAACAAA-AAA
*
616595 AAAAAAAAAACAACAAAA
1 ACAAAAAAAACAA-AAAA
616613 A
1 A
616614 GGGTCCGGAT
Statistics
Matches: 79, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
16 3 0.04
17 27 0.34
18 34 0.43
19 15 0.19
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.01
Consensus pattern (17 bp):
ACAAAAAAAACAAAAAA
Found at i:616558 original size:44 final size:45
Alignment explanation
Indices: 616508--616614 Score: 134
Period size: 44 Copynumber: 2.4 Consensus size: 45
616498 CATCCTCCAC
*
616508 AAAAAAAACCAAATAAACAA-AAAAAACAAACA-AAACAAA-AAAAA
1 AAAAAAAACCAAA-AAA-AAGAAAAAAAAAACACAAACAAACAAAAA
616552 AGAAAAAAA-CAAAAAAAAGAAAAAAAAAACACAAACAAACAAAAA
1 A-AAAAAAACCAAAAAAAAGAAAAAAAAAACACAAACAAACAAAAA
*
616597 AAAAAAAA-CAACAAAAAG
1 AAAAAAAACCAAAAAAAAG
616615 GGTCCGGATG
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
42 2 0.04
43 14 0.25
44 28 0.49
45 13 0.23
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (45 bp):
AAAAAAAACCAAAAAAAAGAAAAAAAAAACACAAACAAACAAAAA
Found at i:616574 original size:27 final size:25
Alignment explanation
Indices: 616526--616613 Score: 106
Period size: 26 Copynumber: 3.3 Consensus size: 25
616516 CCAAATAAAC
616526 AAAAAAAACAAACAAAACAAAAAAAA
1 AAAAAAAACAAACAAAA-AAAAAAAA
616552 AGAAAAAAACAAA-AAAAAGAAAAAAA
1 A-AAAAAAACAAACAAAAA-AAAAAAA
*
616578 AAACACAAACAAACAAAAAAAAAAAA
1 AAA-AAAAACAAACAAAAAAAAAAAA
616604 ACAACAAAAA
1 A-AA-AAAAA
616614 GGGTCCGGAT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.05
26 29 0.53
27 23 0.42
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.00
Consensus pattern (25 bp):
AAAAAAAACAAACAAAAAAAAAAAA
Found at i:616613 original size:1 final size:1
Alignment explanation
Indices: 616526--616604 Score: 68
Period size: 1 Copynumber: 79.0 Consensus size: 1
616516 CCAAATAAAC
* * * * * * * * *
616526 AAAAAAAACAAACAAAACAAAAAAAAAGAAAAAAACAAAAAAAAGAAAAAAAAAACACAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
616591 CAAAAAAAAAAAAA
1 AAAAAAAAAAAAAA
616605 CAACAAAAAG
Statistics
Matches: 58, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:616613 original size:17 final size:16
Alignment explanation
Indices: 616506--616613 Score: 94
Period size: 17 Copynumber: 6.4 Consensus size: 16
616496 GGCATCCTCC
*
616506 ACAAAAAAAACCAAATAA
1 ACAAAAAAAA--AAAAAA
616524 ACAAAAAAAACAAACAAA
1 ACAAAAAAAA-AAA-AAA
616542 ACAAAAAAAAAGAAAAA
1 ACAAAAAAAAA-AAAAA
*
616559 A-ACAAAAAAAAGAAAA
1 ACA-AAAAAAAAAAAAA
* * *
616575 A-AAAAACACAAACAA
1 ACAAAAAAAAAAAAAA
616590 ACAAAAAAAAAAAAACA
1 ACAAAAAAAAAAAAA-A
616607 ACAAAAA
1 ACAAAAA
616614 GGGTCCGGAT
Statistics
Matches: 76, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
15 10 0.13
16 17 0.22
17 25 0.33
18 24 0.32
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.01
Consensus pattern (16 bp):
ACAAAAAAAAAAAAAA
Found at i:618060 original size:30 final size:28
Alignment explanation
Indices: 618022--618255 Score: 255
Period size: 30 Copynumber: 8.1 Consensus size: 28
618012 CATTCCTCAC
*
618022 CCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 CCTTTTC-AAAGCCCACAAATCAGTGGCA
618051 CCATTTTCAAAGCCCACAAATCAGTGGCAA
1 CC-TTTTCAAAGCCCACAAATCAGTGGC-A
618081 CC--TTCAAAGCCCACAAATCAGTGGCA
1 CCTTTTCAAAGCCCACAAATCAGTGGCA
* * *
618107 CCCTTTTCCGAAGCCCATAAATCAGTGACAA
1 -CCTTTT-CAAAGCCCACAAATCAGTGGC-A
*
618138 CC--TTCAAAGCCCACAAATGAGTGGCA
1 CCTTTTCAAAGCCCACAAATCAGTGGCA
618164 CCTTTTTCCAAAGCCCACAAATCAGTGGCA
1 CC-TTTT-CAAAGCCCACAAATCAGTGGCA
618194 GCC--TTCAAAGCCCACAAATCAGTGGCA
1 -CCTTTTCAAAGCCCACAAATCAGTGGCA
* *
618221 CCATTTTTCAAAGCCCACAAGTTAGTGGCAA
1 CC--TTTTCAAAGCCCACAAATCAGTGGC-A
618252 CCTT
1 CCTT
618256 CAAAAGCACA
Statistics
Matches: 177, Mismatches: 11, Indels: 34
0.80 0.05 0.15
Matches are distributed among these distances:
26 6 0.03
27 64 0.36
28 4 0.02
29 27 0.15
30 70 0.40
31 6 0.03
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (28 bp):
CCTTTTCAAAGCCCACAAATCAGTGGCA
Found at i:618094 original size:27 final size:28
Alignment explanation
Indices: 618025--618259 Score: 241
Period size: 27 Copynumber: 8.2 Consensus size: 28
618015 TCCTCACCCT
*
618025 TTTCAAAAGCCCACAAGTCAGTGGC-ACC
1 TTTC-AAAGCCCACAAATCAGTGGCAACC
618053 ATTTTCAAAGCCCACAAATCAGTGGCAACC
1 --TTTCAAAGCCCACAAATCAGTGGCAACC
*
618083 -TTCAAAGCCCACAAATCAGTGGCACCC
1 TTTCAAAGCCCACAAATCAGTGGCAACC
* * *
618110 TTTTCCGAAGCCCATAAATCAGTGACAACC
1 -TTT-CAAAGCCCACAAATCAGTGGCAACC
*
618140 -TTCAAAGCCCACAAATGAGTGGC-ACC
1 TTTCAAAGCCCACAAATCAGTGGCAACC
*
618166 TTTTTCCAAAGCCCACAAATCAGTGGCAGCC
1 --TTT-CAAAGCCCACAAATCAGTGGCAACC
618197 -TTCAAAGCCCACAAATCAGTGGC-ACC
1 TTTCAAAGCCCACAAATCAGTGGCAACC
* *
618223 ATTTTTCAAAGCCCACAAGTTAGTGGCAACC
1 ---TTTCAAAGCCCACAAATCAGTGGCAACC
618254 -TTCAAA
1 TTTCAAA
618260 AGCACAAAAG
Statistics
Matches: 176, Mismatches: 15, Indels: 31
0.79 0.07 0.14
Matches are distributed among these distances:
26 5 0.03
27 70 0.40
28 4 0.02
29 23 0.13
30 69 0.39
31 5 0.03
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (28 bp):
TTTCAAAGCCCACAAATCAGTGGCAACC
Found at i:618129 original size:57 final size:57
Alignment explanation
Indices: 618030--618259 Score: 354
Period size: 57 Copynumber: 4.1 Consensus size: 57
618020 ACCCTTTTCA
*
618030 AAAGCCCACAAGTCAGTGGCACCATTTT-CAAAGCCCACAAATCAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGCACCATTTTCCAAAGCCCACAAATCAGTGGCAACCTTC
* * * *
618086 AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCATAAATCAGTGACAACCTTC
1 AAAGCCCACAAATCAGTGGCACCATTTTCCAAAGCCCACAAATCAGTGGCAACCTTC
* * *
618143 AAAGCCCACAAATGAGTGGCACCTTTTTCCAAAGCCCACAAATCAGTGGCAGCCTTC
1 AAAGCCCACAAATCAGTGGCACCATTTTCCAAAGCCCACAAATCAGTGGCAACCTTC
* * *
618200 AAAGCCCACAAATCAGTGGCACCATTTTTCAAAGCCCACAAGTTAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGCACCATTTTCCAAAGCCCACAAATCAGTGGCAACCTTC
618257 AAA
1 AAA
618260 AGCACAAAAG
Statistics
Matches: 156, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
56 26 0.17
57 130 0.83
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.19
Consensus pattern (57 bp):
AAAGCCCACAAATCAGTGGCACCATTTTCCAAAGCCCACAAATCAGTGGCAACCTTC
Found at i:618283 original size:28 final size:28
Alignment explanation
Indices: 618226--618306 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 28
618216 TGGCACCATT
* *
618226 TTTC-AAAGCCCACAAGTTAGTGGCAACC
1 TTTCAAAAGCACACAAGTTGGT-GCAACC
*
618254 -TTCAAAAGCACAAAAGTTGGTGCAACCC
1 TTTCAAAAGCACACAAGTTGGTGCAA-CC
*
618282 TTTTAAAAGCCCACACAAGTTGGTG
1 TTTCAAAAG--CACACAAGTTGGTG
618307 GCATCTTCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 7 0.16
28 16 0.37
29 7 0.16
31 13 0.30
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (28 bp):
TTTCAAAAGCACACAAGTTGGTGCAACC
Found at i:618291 original size:114 final size:113
Alignment explanation
Indices: 618030--618296 Score: 333
Period size: 114 Copynumber: 2.3 Consensus size: 113
618020 ACCCTTTTCA
* * * *
618030 AAAGCCCACAAGTCAGTGGCACCATTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAGCCCAC
1 AAAGCACACAAATGAGTGGCACCCTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAGCCCAC
* * *
618095 AAATCAGTGGCACCCTTTTCCGAAGCCCATAAATCAGTGACAACCTTC
66 AAATCAGTGGCACCATTTTCCAAAGCCCACAAATCAGTGACAACCTTC
* * *
618143 AAAGCCCACAAATGAGTGGCACCTTTTTCCAAAGCCCACAAATCAGTGGCAGCCTTCAAAGCCCA
1 AAAGCACACAAATGAGTGGCACCCTTTT-CAAAGCCCACAAATCAGTGGCAACCTTCAAAGCCCA
* * * *
618208 CAAATCAGTGGCACCATTTTTCAAAGCCCACAAGTTAGTGGCAACCTTC
65 CAAATCAGTGGCACCATTTTCCAAAGCCCACAAATCAGTGACAACCTTC
*
618257 AAAAGCACA-AAAGTTG-GT-GCAACCCTTTTAAAAGCCCACA
1 -AAAGCACACAAA--TGAGTGGC-ACCCTTTTCAAAGCCCACA
618297 CAAGTTGGTG
Statistics
Matches: 135, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
113 25 0.19
114 92 0.68
115 16 0.12
116 2 0.01
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.19
Consensus pattern (113 bp):
AAAGCACACAAATGAGTGGCACCCTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAGCCCAC
AAATCAGTGGCACCATTTTCCAAAGCCCACAAATCAGTGACAACCTTC
Found at i:618437 original size:49 final size:49
Alignment explanation
Indices: 618313--618721 Score: 514
Period size: 49 Copynumber: 8.1 Consensus size: 49
618303 GGTGGCATCT
* * **
618313 TCTTCTAAGTCCAATATCACTGGCCTTGAATTAGCATATTGGTGCCTTTTTCA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC---TTCA
*
618366 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACT-TTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA-TATTGGCACCTTCA
** * **
618415 TCTTTAAGTCCAATATTACTGGCCTTGAATCAACATATTGGCACCTTTG
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
618464 TCTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TC-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* **
618514 TCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTG
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
618563 TCTTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TC-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
618613 TCTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCA
* *
618665 TCTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTCA
1 TC-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
618715 TCTTTAA
1 TCTTTAA
618722 CATTCCTAAA
Statistics
Matches: 310, Mismatches: 38, Indels: 20
0.84 0.10 0.05
Matches are distributed among these distances:
48 1 0.00
49 134 0.43
50 90 0.29
51 2 0.01
52 39 0.13
53 44 0.14
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
Found at i:618499 original size:99 final size:99
Alignment explanation
Indices: 618313--618721 Score: 629
Period size: 99 Copynumber: 4.1 Consensus size: 99
618303 GGTGGCATCT
* ** *
618313 TCTTCTAAGTCCAATATCACTGGCCTTGAATTAGCATATTGGTGCCTTTTTCATCTTTAAGTCCA
1 TCTT-TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTC-T-TTTAAGTCCA
*
618378 ATGTCGCTGGCCTTGAATCAGCACTTTGGCACCTTCA
63 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
618415 TCTTTAAGTCCAATATTACTGGCCTTGAATCAACATATTGGCACCTTTGTCTTTTAAGTCCAATG
1 TCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTTAAGTCCAATG
618480 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
66 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
618514 TCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTGTCTTTTAAGTCCAATG
1 TCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTTAAGTCCAATG
*
618579 TCGTTGGCCTTGAATCAGCACATTGGCACCTTCA
66 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
618613 TCTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCA
1 TCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTG---TCTTTTAAGTCCA
* *
618678 ATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTCA
63 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
618715 TCTTTAA
1 TCTTTAA
618722 CATTCCTAAA
Statistics
Matches: 286, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
99 186 0.65
100 1 0.00
101 41 0.14
102 58 0.20
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (99 bp):
TCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTTAAGTCCAATG
TCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:619665 original size:52 final size:52
Alignment explanation
Indices: 619606--619731 Score: 209
Period size: 52 Copynumber: 2.4 Consensus size: 52
619596 CACTGATCTT
619606 TGTATCGATACAAGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACAAGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
619658 TGTATCGATACATA-TAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACA-AGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
619710 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACAAGCAGGCAAA
619732 ATTTCATATT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
52 67 0.99
53 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (52 bp):
TGTATCGATACAAGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:629660 original size:13 final size:13
Alignment explanation
Indices: 629642--629668 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
629632 ACATTATGCT
629642 TTGTATCGATACA
1 TTGTATCGATACA
629655 TTGTATCGATACA
1 TTGTATCGATACA
629668 T
1 T
629669 GAAACTGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:629723 original size:20 final size:20
Alignment explanation
Indices: 629698--629751 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
629688 CTACCACTGT
*
629698 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
629718 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
*
629738 TTATATCGATACAT
1 TTGTATCGATACAT
629752 TACTTCTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:631147 original size:77 final size:77
Alignment explanation
Indices: 631015--631234 Score: 343
Period size: 77 Copynumber: 2.8 Consensus size: 77
631005 AGGCTTGTTA
* *
631015 AGCCTCAAACAAAAGATAAACTTCTTACTTTTATTAATCAAAGACCAAAAGTAGATCAAGAAAAA
1 AGCCTCAAACAAAAGGTAAACTTCTTACTTTTATCAATCAAAGACCAAAAGTAGATCAAGAAAAA
631080 AGATTGTCCAAT
66 AGATTGTCCAAT
* *
631092 AGCCTCAAACAAAAGGTAAACTTCTTACTTTTATCAATCAAAGACCGAAAA-TAGATCAAGGAAG
1 AGCCTCAAACAAAAGGTAAACTTCTTACTTTTATCAATCAAAGACC-AAAAGTAGATCAAGAAAA
*
631156 AAGATTGTGCAAT
65 AAGATTGTCCAAT
* * *
631169 AACCTCAAACAAAAGGTAAACTTCTTACTTTTATCAATCAAAGACCACAAGTAGATTAAAGAAAA
1 AGCCTCAAACAAAAGGTAAACTTCTTACTTTTATCAATCAAAGACCAAAAGTAGA-TCAAGAAAA
631234 A
65 A
631235 TGTTTATGCA
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
76 3 0.02
77 116 0.89
78 11 0.08
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (77 bp):
AGCCTCAAACAAAAGGTAAACTTCTTACTTTTATCAATCAAAGACCAAAAGTAGATCAAGAAAAA
AGATTGTCCAAT
Found at i:633190 original size:379 final size:377
Alignment explanation
Indices: 632567--633302 Score: 868
Period size: 379 Copynumber: 1.9 Consensus size: 377
632557 ATTGTTTTAT
* *
632567 TTTGGTAGCCTTGTGGCATAAGGTTAGAAAATCATTTTCGAACTATAAAATAATTTCTTGACTTT
1 TTTGGTAGCCTTGCGGCATAAGGTTAGAAAATCATTTTCGAACCATAAAATAATTTCTTGACTTT
* * * ** ** *
632632 TCTAATTTTTTCCCTTAAAGGCCATCGAAATACCTTTCTAAAGGTGTCTTGTTCACCTTTGGATC
66 TCTAATCTTTTCCCTTAAAAGCCATCAAAATACCTCCCTAAAGGTGTCGAGTTCACCCTTGGATC
* * *
632697 ATTCCAGATGAGGGAGTTTTGATTTTTCAAACCTTTGCTGCTTGGAACACTTAAAGCAAGCATGT
131 ATTCCAGATGAGGGAGTTATGATTTTTCAAACCTTTGCTGCTTGGAACACTTAAAGCAACCATGC
** **
632762 GATATTCTATTTGAGCCATTTAGGCTCATCAAATGATTTTTTTAAAACTTTTAAAAAATTTTGTT
196 GATATTCTATTTGAGCCATTTAGGCTCATCAAATGATTTTTCCAAAACTTTT-AAAAATTTTCAT
* * * * * *
632827 AAAAA-GTATAAAAAATTCCTTTTCTAGAAAGGTATGGTTCATGATTTAATGGTTTCGGATAAGT
260 AAAAACCT-TAAAAAATTCCCTTTCCAAAAAGGTATGGTTCATGATTTAATGATTTCGGATAAGC
632891 CCAAAATGATTTTTCAAAGTTTGATT-TTTTTTTACTTGCATATGTTGCAAGAA
324 CCAAAATGATTTTTCAAAGTTTGATTCTTTTTTTACTTGCATATGTTGCAAGAA
** * ** * *
632944 TTTGGTAGTGTTGCGGCCTAAGGTTAGAAAATCATTTTTTAACCATAAAATATTTTTCTTGATTT
1 TTTGGTAGCCTTGCGGCATAAGGTTAGAAAATCATTTTCGAACCATAAAATA-ATTTCTTGACTT
* * * ** ** *
633009 TTTTGATACTTTTCCTTTAAAAGCCATCAAAATATGTCCCTAAAGGTGTCGAGTTTGCCCTTGGT
65 TTCTAAT-CTTTTCCCTTAAAAGCCATCAAAATACCTCCCTAAAGGTGTCGAGTTCACCCTTGGA
*** * ** *
633074 TCATTTTGGTTGAGGGAGTTATGATTTTTCAAACCTTTGCTGCTTGGAAC-CTCTAGTGCTACCA
129 TCATTCCAGATGAGGGAGTTATGATTTTTCAAACCTTTGCTGCTTGGAACACT-TAAAGCAACCA
* * * *
633138 TGCGATATTTTGTTTGAGCCATTT-GTGCTTATCAAATGATTTTTCCAAAACTTTTAAATATTTT
193 TGCGATATTCTATTTGAGCCATTTAG-GCTCATCAAATGATTTTTCCAAAACTTTTAAAAATTTT
*** * * * *
633202 CATAAAAACCTTCTGAAATTCCCTTTCCAAAAAGGTATGGTTTATGATTTTATGATTTTGGATGA
257 CATAAAAACCTTAAAAAATTCCCTTTCCAAAAAGGTATGGTTCATGATTTAATGATTTCGGATAA
* *
633267 GCCCAAAATGATTTTTCAAATTTTGGTTCTTTTTTT
322 GCCCAAAATGATTTTTCAAAGTTTGATTCTTTTTTT
633303 TTTTTGCACA
Statistics
Matches: 295, Mismatches: 58, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
377 45 0.15
378 100 0.34
379 150 0.51
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.41
Consensus pattern (377 bp):
TTTGGTAGCCTTGCGGCATAAGGTTAGAAAATCATTTTCGAACCATAAAATAATTTCTTGACTTT
TCTAATCTTTTCCCTTAAAAGCCATCAAAATACCTCCCTAAAGGTGTCGAGTTCACCCTTGGATC
ATTCCAGATGAGGGAGTTATGATTTTTCAAACCTTTGCTGCTTGGAACACTTAAAGCAACCATGC
GATATTCTATTTGAGCCATTTAGGCTCATCAAATGATTTTTCCAAAACTTTTAAAAATTTTCATA
AAAACCTTAAAAAATTCCCTTTCCAAAAAGGTATGGTTCATGATTTAATGATTTCGGATAAGCCC
AAAATGATTTTTCAAAGTTTGATTCTTTTTTTACTTGCATATGTTGCAAGAA
Found at i:634019 original size:106 final size:104
Alignment explanation
Indices: 633727--634179 Score: 377
Period size: 106 Copynumber: 4.3 Consensus size: 104
633717 AACTTCGGAC
** * * * *
633727 AAACTCCAACCTTATTACTCTGAAA-GGATACTCTAA-TC-TTATTCTTCATAAAAATCAAATTT
1 AAACTCCAACCCCACTACTCT-AAAGGGATACTCTAACCCGTTATTCAT-AAAAAAATCAAATTT
* * * *
633789 TCTTTTTGTTCTTAAATATCTTCTTAATTCTCAACTTT-GGG
64 TCTCTTTGTTCTTAAATATTTTCATAATTCTCGA-TTTCGGG
* * * *
633830 AAAGCTCTAACCCCACTACTTCGAAA-GGATACTCTAACCC--TATTCTTAAAAAAATCAAATTG
1 AAA-CTCCAACCCCACTAC-TCTAAAGGGATACTCTAACCCGTTATTCATAAAAAAATCAAATTT
* * *
633892 TCTTTTTGTTCTTAAAAATTTTCATAATTCTTGATTTCAGGG
64 TCTCTTTGTTCTTAAATATTTTCATAATTCTCGATTTC-GGG
* *
633934 AAACTCCAACCCCACTACTCCAAAGGGATACTGC-AACCCTGTTTTTCATAAAAAAATCAAATTT
1 AAACTCCAACCCCACTACTCTAAAGGGATACT-CTAACCC-GTTATTCATAAAAAAATCAAATTT
*
633998 TCTCTTTGTTCTTAAATATTTTCATAATTCTCGATTTCGAAG
64 TCTCTTTGTTCTTAAATATTTTCATAATTCTCGATTTCG-GG
* * * * * * ** * * * *
634040 AAACTCTAATCCCCAGTGCTCTGAGGGGATACTCTGACCCGTCCTTCATTAAAAACTCGAGTTTT
1 AAACTCCAA-CCCCACTACTCTAAAGGGATACTCTAACCCGTTATTCATAAAAAAATCAAATTTT
* *
634105 CTCTTTGTTCCTAAATATTTTCATAATT-T-TATCTTCGGGG
65 CTCTTTGTTCTTAAATATTTTCATAATTCTCGAT-TTC-GGG
** * * *
634145 ATGCTCCAACCCCATTTCTCTAAGGGGATACTCTA
1 AAACTCCAACCCCACTACTCTAAAGGGATACTCTA
634180 GCTCCATTTT
Statistics
Matches: 290, Mismatches: 45, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
102 8 0.03
103 71 0.24
104 63 0.22
105 15 0.05
106 111 0.38
107 22 0.08
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (104 bp):
AAACTCCAACCCCACTACTCTAAAGGGATACTCTAACCCGTTATTCATAAAAAAATCAAATTTTC
TCTTTGTTCTTAAATATTTTCATAATTCTCGATTTCGGG
Found at i:637064 original size:87 final size:86
Alignment explanation
Indices: 636849--637069 Score: 223
Period size: 86 Copynumber: 2.6 Consensus size: 86
636839 AAATTTTCAA
* * * * * *
636849 AAAAATAAGGTTAGAGTATCCTTTTAGAATAGTAGGGATGGAGTTTCCTCGAGAATAAAATTACG
1 AAAAACAAGGTTAGAGTGTTCTCTTAGAATAGTAGGGATGGAGTTTCCCCAAGAATAAAATTACG
*
636914 AAAGAATATTTGATTTTTTTG
66 AAAGAATATTTGAGTTTTTTG
** ** * * *
636935 AAAAATGAGGTTAGAGTGTTCTCTCGGAATAATGGGGATGGAGTTTCCCCAATAATAAAATTATG
1 AAAAACAAGGTTAGAGTGTTCTCTTAGAATAGTAGGGATGGAGTTTCCCCAAGAATAAAATTA--
637000 CGAAAG-ATAATTTG-GTTTTTTG
64 CGAAAGAAT-ATTTGAGTTTTTTG
* * * *
637022 AAGAGCAATGTTAGAGTGTT-TCCTTAGAAGAGTAGGGATGGAGTTTCC
1 AAAAACAAGGTTAGAGTGTTCT-CTTAGAATAGTAGGGATGGAGTTTCC
637070 TTAAAGATAA
Statistics
Matches: 109, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
86 53 0.49
87 45 0.41
88 11 0.10
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (86 bp):
AAAAACAAGGTTAGAGTGTTCTCTTAGAATAGTAGGGATGGAGTTTCCCCAAGAATAAAATTACG
AAAGAATATTTGAGTTTTTTG
Found at i:637080 original size:87 final size:85
Alignment explanation
Indices: 636874--637196 Score: 260
Period size: 86 Copynumber: 3.7 Consensus size: 85
636864 GTATCCTTTT
* ** *
636874 AGAATAGTAGGGATGGAGTTTCC-TCGAGAATAAAATTA-CGAAAGAATATTTGATTTTTTTGAA
1 AGAAAAGTAGGGATGGAGTTTCCTTAAAG-ATAAAATTATCGAAAGAA-ATTTGA-ATTTTTGAA
* ***
636937 AAATGAGGTTAGAGTGT-TCTCTC
63 GAGCAAGGTTAGAGTGTCTC-CTC
* * ** **
636960 GGAATAA-TGGGGATGGAGTTTCCCCAATA-ATAAAATTATGCGAAAGATAATTTGGTTTTTTGA
1 AGAA-AAGTAGGGATGGAGTTTCCTTAA-AGATAAAATTAT-CGAAAGA-AATTTGAATTTTTGA
* * *
637023 AGAGCAATGTTAGAGTGTTTCCTT
62 AGAGCAAGGTTAGAGTGTCTCCTC
* ** * *
637047 AGAAGAGTAGGGATGGAGTTTCCTTAAAGATAAAATTATATAAAGGAAATTTAAATTTTTAAAGA
1 AGAAAAGTAGGGATGGAGTTTCCTTAAAGATAAAATTATCGAAA-GAAATTTGAATTTTTGAAGA
* * *
637112 GTAGGGTTGGAGTGTCTCCTC
65 GCAAGGTTAGAGTGTCTCCTC
* * *
637133 AGAAAAGTGGGGATGGAGTTTCCTTAATGATAAAATTATACGAACGAAAATTTGAATTTTTGAA
1 AGAAAAGTAGGGATGGAGTTTCCTTAAAGATAAAATTAT-CGAAAG-AAATTTGAATTTTTGAA
637197 AAACGGGGAT
Statistics
Matches: 187, Mismatches: 38, Indels: 23
0.75 0.15 0.09
Matches are distributed among these distances:
86 98 0.52
87 73 0.39
88 15 0.08
89 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.33
Consensus pattern (85 bp):
AGAAAAGTAGGGATGGAGTTTCCTTAAAGATAAAATTATCGAAAGAAATTTGAATTTTTGAAGAG
CAAGGTTAGAGTGTCTCCTC
Found at i:637149 original size:86 final size:85
Alignment explanation
Indices: 637035--637288 Score: 278
Period size: 87 Copynumber: 2.9 Consensus size: 85
637025 AGCAATGTTA
* * * *
637035 GAGTGTTTCCTTAGAAGAGTAGGGATGGAGTTTCCTTAAAGATAAAATTATATAAAGGAAATTTA
1 GAGTGTCTCCTTAGAAGAGTGGGGATGGAGTTTCCTTAAAGATAAAATTATACAAAGAAAATTTA
*
637100 AATTTTTAAAGAGTAGGGTTG
66 AATTTTTAAAGAGT-GGGATG
* * * *
637121 GAGTGTCTCCTCAGAAAAGTGGGGATGGAGTTTCCTTAATGATAAAATTATACGAACGAAAATTT
1 GAGTGTCTCCTTAGAAGAGTGGGGATGGAGTTTCCTTAAAGATAAAATTATAC-AAAGAAAATTT
* *
637186 GAATTTTTGAAAAACG-GGGATG
65 AAATTTTT-AAAGA-GTGGGATG
* * * * * *
637208 AAGTGTC-CACTTAGAGGACTGGAGATGGAGTTTCCCTAAGGATAAAATTATACAAATGAAAATT
1 GAGTGTCTC-CTTAGAAGAGTGGGGATGGAGTTTCCTTAAAGATAAAATTATACAAA-GAAAATT
*
637272 TAAATTTTTGAAGAGTG
64 TAAATTTTTAAAGAGTG
637289 AGATTAGAGT
Statistics
Matches: 139, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
85 1 0.01
86 54 0.39
87 79 0.57
88 4 0.03
89 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (85 bp):
GAGTGTCTCCTTAGAAGAGTGGGGATGGAGTTTCCTTAAAGATAAAATTATACAAAGAAAATTTA
AATTTTTAAAGAGTGGGATG
Found at i:638826 original size:13 final size:13
Alignment explanation
Indices: 638808--638864 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
638798 CATAAAGTGT
638808 TGTATCGATACAA
1 TGTATCGATACAA
638821 TGTATCGATACATAA
1 TGTATCGATAC--AA
638836 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
638853 TGTATCGATACA
1 TGTATCGATACA
638865 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:638843 original size:32 final size:32
Alignment explanation
Indices: 638788--638883 Score: 183
Period size: 32 Copynumber: 3.0 Consensus size: 32
638778 TTCAACGATT
638788 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
638821 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
638853 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
638884 TAAGCTTTGT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 50 0.79
33 13 0.21
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:638845 original size:19 final size:18
Alignment explanation
Indices: 638786--638902 Score: 119
Period size: 19 Copynumber: 6.8 Consensus size: 18
638776 ATTTCAACGA
638786 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
638805 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
638821 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
638837 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
638853 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
638869 TGTTGTATCGATACATAAG
1 T-TTGTATCGATACATAAG
638888 CTTTGTATCGATACA
1 -TTTGTATCGATACA
638903 ATGTATCGCT
Statistics
Matches: 84, Mismatches: 0, Indels: 28
0.75 0.00 0.25
Matches are distributed among these distances:
13 22 0.26
15 4 0.05
17 4 0.05
19 41 0.49
20 13 0.15
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:639035 original size:52 final size:52
Alignment explanation
Indices: 638957--639105 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 52
638947 TACTCAAATG
** *
638957 TATCGATACACTGATC-TTTGTATCGATACATGCAGGCAAATTTTCCTAGATA
1 TATCGATACACT-ATCAAATGTATCGATACATGCAGGCAAATTTTCCCAGATA
* * * * *
639009 TATCGATATACTATGAAATGTATCGATACATACAGGCAAATTTGCCCAGATG
1 TATCGATACACTATCAAATGTATCGATACATGCAGGCAAATTTTCCCAGATA
*
639061 TATCGATACACTATCAAATGAATCGATACATGCAGGCAAATTTTC
1 TATCGATACACTATCAAATGTATCGATACATGCAGGCAAATTTTC
639106 ATATTTTGGG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (52 bp):
TATCGATACACTATCAAATGTATCGATACATGCAGGCAAATTTTCCCAGATA
Found at i:642971 original size:51 final size:51
Alignment explanation
Indices: 642895--643037 Score: 232
Period size: 51 Copynumber: 2.8 Consensus size: 51
642885 TATGGAAAAG
*
642895 TACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTT
1 TACCCAGATGTATTGATACATTCTTCAATGTATCGATACATTCTGTCTTTT
* *
642946 TACCCAGATGTATTGATACATTCTTCATTGTATCGATCCATTCTGTCTTTT
1 TACCCAGATGTATTGATACATTCTTCAATGTATCGATACATTCTGTCTTTT
* * *
642997 TACCCGGATGTATTGATAAATTTTTCAATGTATCGATACAT
1 TACCCAGATGTATTGATACATTCTTCAATGTATCGATACAT
643038 CTAGTGAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 84 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.42
Consensus pattern (51 bp):
TACCCAGATGTATTGATACATTCTTCAATGTATCGATACATTCTGTCTTTT
Found at i:648153 original size:74 final size:74
Alignment explanation
Indices: 648027--648990 Score: 980
Period size: 74 Copynumber: 13.1 Consensus size: 74
648017 TTTGAGGTAG
* * * * *
648027 GAAAAGGCATTTTGCTTTTTAAGGACT-AACAAA-ATAAATGATGCCGCCAGCTTGTGTGGGCTT
1 GAAAAGGCATCTTACTCTTTGAGGACTGAA-AAAGATAAATGATGCCACCAGCTTGTGTGGGCTT
*
648090 TTAAGAAAAA
65 TGAAGAAAAA
* * * * *
648100 GAAAAGGCACCTTACTTTTTGAGGGCTGAAAAAGATAAATGATGCCACTAGCTTTTGTGGGCTTT
1 GAAAAGGCATCTTACTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
*
648165 AAAGAAAAA
66 GAAGAAAAA
* * * * * *
648174 GAAAAGGCATCCTACTCTTTGAGGACTGAAAAAGATAAATGATGCCACTAACTTATGTAGGTTTT
1 GAAAAGGCATCTTACTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
648239 GAAG--AAA
66 GAAGAAAAA
* * * * ** * **
648246 -AAAAGTCATCATGCTCTCTGAAAACT-AGAAAAGAAAAATGATGCCACCAATTTGTGTGGGCTT
1 GAAAAGGCATCTTACTCTTTGAGGACTGA-AAAAGATAAATGATGCCACCAGCTTGTGTGGGCTT
*
648309 T-AAAAAAAA
65 TGAAGAAAAA
* * * * * * *
648318 GAAAAGGTATCTTGCTCTTTGAGGACTGAAAAAGATAATTGATGTCGCCAGCTTATGTAGGCTTT
1 GAAAAGGCATCTTACTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
648383 GAAGAAAAA
66 GAAGAAAAA
* * * * *
648392 GAAAAGGCGTCTTGCTCTTTGAGGATTGAAAAAGATAGATGATGCCACCAGCTTTTGTGGGCTTT
1 GAAAAGGCATCTTACTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
648457 GAA-AAAAA
66 GAAGAAAAA
* * * **
648465 GTAAAAGGCATCCTGCTCTTTGAGGACT-AATAAAGATAAATGAGGCCACCAGCTTCCGTGGGCT
1 G-AAAAGGCATCTTACTCTTTGAGGACTGAA-AAAGATAAATGATGCCACCAGCTTGTGTGGGCT
648529 TTGAAGAAAAA
64 TTGAAGAAAAA
* * * * *
648540 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAAAGAAAAATGATGCCACCAACTTGTGTGGGCTTT
1 GAAAAGGCATCTTACTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
648605 GAAG-AAAA
66 GAAGAAAAA
* *
648613 -AAAAGGCATCTTACTCGTTGAGGACT-AAAAAGGATAAATGATGCCACCAGCTTGTGTAGGCTT
1 GAAAAGGCATCTTACTCTTTGAGGACTGAAAAA-GATAAATGATGCCACCAGCTTGTGTGGGCTT
*
648676 TAAAGAACAAA
65 TGAAGAA-AAA
* * * * * *
648687 -AAAAGACATCTTGCTTTTTGAGGACTGAAAAAGATAAATGATGCCACGAGCTTGTATCGGCTTT
1 GAAAAGGCATCTTACTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
648751 GAAGAAAACA
66 GAAGAAAA-A
* * * *
648761 -AAAAGGCATCCTATTTTTTGAGGACT-ATAAAAGATAAATGATGCCACCAGCTTGTATGGG-TT
1 GAAAAGGCATCTTACTCTTTGAGGACTGA-AAAAGATAAATGATGCCACCAGCTTGTGTGGGCTT
* *
648823 TTAA-AGAAA
65 TGAAGAAAAA
* * * * ** *
648832 -AAAAGGCAT-TCTACAT-TTTAAAGACTGAAAAAGATAAATGATCCCACCAGTTTACGTAGGCT
1 GAAAAGGCATCT-TAC-TCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCT
*
648894 TTGAAGAAAAT
64 TTGAAGAAAAA
* * *
648905 GAAAAGGCATCATACTCTTTGAGGACTGAAAAAGATAAATGATGCCACTAGCTT-TGTGGGATTT
1 GAAAAGGCATCTTACTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
*
648969 TAAGAAAAAAA
66 GAAG--AAAAA
648980 GAAAAGGCATC
1 GAAAAGGCATC
648991 CTGCTTGAAA
Statistics
Matches: 747, Mismatches: 116, Indels: 54
0.81 0.13 0.06
Matches are distributed among these distances:
70 3 0.00
71 100 0.13
72 71 0.10
73 108 0.14
74 438 0.59
75 27 0.04
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (74 bp):
GAAAAGGCATCTTACTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
GAAGAAAAA
Found at i:648722 original size:220 final size:221
Alignment explanation
Indices: 648028--648995 Score: 1022
Period size: 220 Copynumber: 4.4 Consensus size: 221
648018 TTGAGGTAGG
** * * * *
648028 AAAAGGCATTTTGCTTTTTAAGGACTAACAAA-ATAAATGATGCCGCCAGCTTGTGTGGGCTTTT
1 AAAAGGCATCATGCTCTTTGAGGACTAA-AAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTG
* * * * *
648092 AAGAAAAAGAAAAGGCA-CCTTACTTTTTGAGGGCTGAAAAAGATAAATGATGCCACTAGCTTTT
65 AAGAAAAAGAAAAGGCATCC-TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGT
*
648156 GTGGGCTTTAAAGAAAAAGAAAAGGCATCCTACTCTTTGAGGACTGAAAAAGATAAATGATGCCA
129 GTGGGCTTTAAAGAAAAAGAAAAGGCATCTTACTCTTTGAGGACTGAAAAAGATAAATGATGCCA
* * * *
648221 CTAACTTATGTAGGTTTTGAAG--AA-A
194 CCAGCTTATGTAGGCTTTAAAGAAAAGA
* * ** * **
648246 AAAAGTCATCATGCTCTCTGAAAACTAGAAAAGAAAAATGATGCCACCAATTTGTGTGGGCTTT-
1 AAAAGGCATCATGCTCTTTGAGGACTA-AAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTG
* * * * * * *
648310 AAAAAAAAGAAAAGGTATCTTGCTCTTTGAGGACTGAAAAAGATAATTGATGTCGCCAGCTTATG
65 AAGAAAAAGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTG
* * * * * *
648375 TAGGCTTTGAAGAAAAAGAAAAGGCGTCTTGCTCTTTGAGGATTGAAAAAGATAGATGATGCCAC
130 TGGGCTTTAAAGAAAAAGAAAAGGCATCTTACTCTTTGAGGACTGAAAAAGATAAATGATGCCAC
* * *
648440 CAGCTTTTGTGGGCTTTGAAA-AAAAGT
195 CAGCTTATGTAGGCTTT-AAAGAAAAGA
* * **
648467 AAAAGGCATCCTGCTCTTTGAGGACTAATAAAGATAAATGAGGCCACCAGCTTCCGTGGGCTTTG
1 AAAAGGCATCATGCTCTTTGAGGACTAA-AAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTG
* * *
648532 AAGAAAAAGAAAAGGCATCCTGCTCTTTGAGGACTGGAAAAGAAAAATGATGCCACCAACTTGTG
65 AAGAAAAAGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTG
* *
648597 TGGGCTTTGAAG-AAAA-AAAAGGCATCTTACTCGTTGAGGACT-AAAAAGGATAAATGATGCCA
130 TGGGCTTTAAAGAAAAAGAAAAGGCATCTTACTCTTTGAGGACTGAAAAA-GATAAATGATGCCA
*
648659 CCAGCTTGTGTAGGCTTTAAAGAACAA-A
194 CCAGCTTATGTAGGCTTTAAAGAA-AAGA
* * * * * *
648687 AAAAGACATCTTGCTTTTTGAGGACTGAAAAAGATAAATGATGCCACGAGCTTGTATCGGCTTTG
1 AAAAGGCATCATGCTCTTTGAGGACT-AAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTG
** *
648752 AAGAAAACA-AAAAGGCATCCTATTTTTTGAGGACT-ATAAAAGATAAATGATGCCACCAGCTTG
65 AAGAAAA-AGAAAAGGCATCCTGCTCTTTGAGGACTGA-AAAAGATAAATGATGCCACCAGCTTG
* * * * *
648815 TATGGGTTTTAAAG--AAA-AAAAGGCAT-TCTACAT-TTTAAAGACTGAAAAAGATAAATGATC
128 TGTGGGCTTTAAAGAAAAAGAAAAGGCATCT-TAC-TCTTTGAGGACTGAAAAAGATAAATGATG
* * *
648875 CCACCAGTTTACGTAGGCTTTGAAGAAAATG-
191 CCACCAGCTTATGTAGGCTTTAAAGAAAA-GA
* * * *
648906 AAAAGGCATCATACTCTTTGAGGACTGAAAAAGATAAATGATGCCACTAGCTT-TGTGGGATTTT
1 AAAAGGCATCATGCTCTTTGAGGACT-AAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTG
648970 AAGAAAAAAAGAAAAGGCATCCTGCT
65 AAG--AAAAAGAAAAGGCATCCTGCT
648996 TGAAAAAAGA
Statistics
Matches: 623, Mismatches: 104, Indels: 44
0.81 0.13 0.06
Matches are distributed among these distances:
218 157 0.25
219 143 0.23
220 197 0.32
221 60 0.10
222 66 0.11
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (221 bp):
AAAAGGCATCATGCTCTTTGAGGACTAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGA
AGAAAAAGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGT
GGGCTTTAAAGAAAAAGAAAAGGCATCTTACTCTTTGAGGACTGAAAAAGATAAATGATGCCACC
AGCTTATGTAGGCTTTAAAGAAAAGA
Found at i:649587 original size:20 final size:20
Alignment explanation
Indices: 649559--649675 Score: 117
Period size: 20 Copynumber: 5.7 Consensus size: 20
649549 TTTTACCCAG
*
649559 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTGTTCA
* * * *
649579 ATGTTTCGATACATGGATGA
1 ATGTATCGATACATTGTTCA
*
649599 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTGTTCA
* * *
649619 ATGTGTCGATACATTCTACCCA
1 ATGTATCGATACATTGT--TCA
649641 GATGTATCGATACATTGTTCA
1 -ATGTATCGATACATTGTTCA
*
649662 ATGTATCCATACAT
1 ATGTATCGATACAT
649676 CTAGTTAAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
20 59 0.76
21 2 0.03
22 2 0.03
23 15 0.19
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTTCA
Found at i:653057 original size:74 final size:74
Alignment explanation
Indices: 652869--653067 Score: 210
Period size: 74 Copynumber: 2.7 Consensus size: 74
652859 TGACACTGCA
* *
652869 CTTTGAGGATTGAAATAGATAAATGATGCCA-TCAGCTTGTATAGGCTTTGAAGGAAAAGAAAAA
1 CTTTGAGGATTGAAAAAGATAAATGATGCCACT-AGCTTGTGTAGGCTTTGAAGGAAAAGAAAAA
652933 GCATCCTACT
65 GCATCCTACT
* * **
652943 CTTTGAAG-TCT-AAAAATGATAAATGATGCCACCAATTTGTGTAGGCTTTGAA-GACAAAGAAA
1 CTTTGAGGAT-TGAAAAA-GATAAATGATGCCACTAGCTTGTGTAGGCTTTGAAGGA-AAAGAAA
* * * *
653005 AGGCGTCTTGCT
63 AAGCATCCTACT
* *
653017 CTTTGAGGATTGAAAAAAATAAATGATACCACTAGCTTGTGT-GAGCTTTGA
1 CTTTGAGGATTGAAAAAGATAAATGATGCCACTAGCTTGTGTAG-GCTTTGA
653068 TTTTGAGGAC
Statistics
Matches: 102, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
73 8 0.08
74 88 0.86
75 6 0.06
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (74 bp):
CTTTGAGGATTGAAAAAGATAAATGATGCCACTAGCTTGTGTAGGCTTTGAAGGAAAAGAAAAAG
CATCCTACT
Found at i:653116 original size:51 final size:51
Alignment explanation
Indices: 653018--653116 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
653008 CGTCTTGCTC
* * * *
653018 TTTGAGGATTGAAAAAAATAAATGATACCACTAGCTTGTGTGAGCTTTGAT
1 TTTGAGGACTGAAAAAAATAAATGATACCACCAACTTATGTGAGCTTTGAT
*
653069 TTTGAGGACTGAAAAAGAA-AAATGATACCACCAACTTATGTGGGCTTT
1 TTTGAGGACTGAAAAA-AATAAATGATACCACCAACTTATGTGAGCTTT
653117 AAAGAAGAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 40 0.95
52 2 0.05
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (51 bp):
TTTGAGGACTGAAAAAAATAAATGATACCACCAACTTATGTGAGCTTTGAT
Found at i:653166 original size:125 final size:126
Alignment explanation
Indices: 652954--653191 Score: 320
Period size: 125 Copynumber: 1.9 Consensus size: 126
652944 TTTGAAGTCT
* * * * * *
652954 AAAAATGATAAATGATGCCACCAATTTGTGTAGGCTTTGAAGACAAAGAAAAGGCGTCTTGCTCT
1 AAAAATGAAAAATGATACCACCAACTTATGTAGGCTTTAAAGACAAAGAAAAGGCATCTTGCTCT
* *
653019 TTGAGGATTGAAAAAAATAAATGATACCACTAGCTTGTGTGAGCTTTGATTTTGAGGACTG
66 TTGAGGATTGAAAAAAATAAATGATACCACCAACTTGTGTGAGCTTTGATTTTGAGGACTG
* *
653080 AAAAA-GAAAAATGATACCACCAACTTATGTGGGCTTTAAAGA-AGAAGGAAAGGCATCTTGCTC
1 AAAAATGAAAAATGATACCACCAACTTATGTAGGCTTTAAAGACA-AAGAAAAGGCATCTTGCTC
* * *
653143 TTTGAGGATT-AAAAATGATAAATGATGCCACCAACTTGTGTGGGCTTTG
65 TTTGAGGATTGAAAAA-AATAAATGATACCACCAACTTGTGTGAGCTTTG
653192 GAAGAAAAGG
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
124 6 0.06
125 86 0.89
126 5 0.05
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (126 bp):
AAAAATGAAAAATGATACCACCAACTTATGTAGGCTTTAAAGACAAAGAAAAGGCATCTTGCTCT
TTGAGGATTGAAAAAAATAAATGATACCACCAACTTGTGTGAGCTTTGATTTTGAGGACTG
Found at i:653419 original size:148 final size:148
Alignment explanation
Indices: 653069--653523 Score: 635
Period size: 148 Copynumber: 3.1 Consensus size: 148
653059 GAGCTTTGAT
* * * * *
653069 TTTGAGGACTGAAAAAGAAAAATGATACCACCAACTTATGTGGGCTTTAAAGAAGAAGGAAAGGC
1 TTTGAGGACTGAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTAAAGAAAAAGAAAAGGC
* * * *
653134 ATCTTGCTCTTTGAGGATTAAAAATGATAAATGATGCCACCAACTTGTGTGGGCTTTGGAAGAAA
66 ATCTTGCTCTTTAAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT-GAAGAAA
*
653199 AGGAAAAGGCA-TCTTGCTC
130 AAGAAAAGGCATTC-TGCTC
* *
653218 TTTAAGGACTGAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTGAAGAAAAAGAAAAGGC
1 TTTGAGGACTGAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTAAAGAAAAAGAAAAGGC
* *
653283 ATCTTGCTCTTTAAGGACTAAAAAAGAAAAATGATGCCATCAGCTTGTGTGGGCTTTGAAGAAAA
66 ATCTTGCTCTTTAAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAA
653348 AGAAAAGGCATTCTGCTC
131 AGAAAAGGCATTCTGCTC
* * *
653366 TTTGAGGATTGAAAATA-ATAAATGATGCCACCAGCTTGTGTGGGCTTTAAAGAAAAAGAATAGG
1 TTTGAGGACTGAAAA-AGATAAATGATGCCACCAACTTGTGTGGGCTTTAAAGAAAAAGAAAAGG
* ** * * *
653430 CATTTTATTTTTTAGGGACTAAAAAAGATAAATTATGCCACCAGCTTGTGTGGGCTTTGAAGAAA
65 CATCTTGCTCTTTAAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAA
* *
653495 AAGAAAAGCCATTCAGCTC
130 AAGAAAAGGCATTCTGCTC
*
653514 TTTGAAGACT
1 TTTGAGGACT
653524 AAAGTAGATA
Statistics
Matches: 273, Mismatches: 31, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
148 161 0.59
149 112 0.41
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (148 bp):
TTTGAGGACTGAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTAAAGAAAAAGAAAAGGC
ATCTTGCTCTTTAAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAA
AGAAAAGGCATTCTGCTC
Found at i:653524 original size:74 final size:74
Alignment explanation
Indices: 653069--653526 Score: 573
Period size: 74 Copynumber: 6.2 Consensus size: 74
653059 GAGCTTTGAT
* * * * * * *
653069 TTTGAGGACTGAAAAAGAAAAATGATACCACCAACTTATGTGGGCTTTAAAGAAGAAGGAAAGGC
1 TTTGAGGACTAAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTGAAGAAAAAGAAAAGGC
653134 ATCTTGCTC
66 ATCTTGCTC
* * *
653143 TTTGAGGATTAAAAATGATAAATGATGCCACCAACTTGTGTGGGCTTTGGAAGAAAAGGAAAAGG
1 TTTGAGGACTAAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTT-GAAGAAAAAGAAAAGG
653208 CATCTTGCTC
65 CATCTTGCTC
* *
653218 TTTAAGGACTGAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTGAAGAAAAAGAAAAGGC
1 TTTGAGGACTAAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTGAAGAAAAAGAAAAGGC
653283 ATCTTGCTC
66 ATCTTGCTC
* * * *
653292 TTTAAGGACTAAAAAAGAAAAATGATGCCATCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGC
1 TTTGAGGACTAAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTGAAGAAAAAGAAAAGGC
653357 AT-TCTGCTC
66 ATCT-TGCTC
* * * * *
653366 TTTGAGGATTGAAAATA-ATAAATGATGCCACCAGCTTGTGTGGGCTTTAAAGAAAAAGAATAGG
1 TTTGAGGACT-AAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTGAAGAAAAAGAAAAGG
** *
653430 CAT-TTTATT
65 CATCTTGCTC
* * * *
653439 TTTTAGGGACTAAAAAAGATAAATTATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGC
1 TTTGA-GGACTAAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTGAAGAAAAAGAAAAGG
*
653504 CAT-TCAGCTC
65 CATCT-TGCTC
*
653514 TTTGAAGACTAAA
1 TTTGAGGACTAAA
653527 GTAGATAATG
Statistics
Matches: 336, Mismatches: 42, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
73 12 0.04
74 248 0.74
75 76 0.23
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (74 bp):
TTTGAGGACTAAAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTGAAGAAAAAGAAAAGGC
ATCTTGCTC
Found at i:654104 original size:21 final size:21
Alignment explanation
Indices: 654080--654135 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
654070 TTTGTGTCCA
654080 AATGTATCGATACATTTCTAG
1 AATGTATCGATACATTTCTAG
654101 AATGTATCGATACATTTCTAG
1 AATGTATCGATACATTTCTAG
654122 AATGTATCGATACA
1 AATGTATCGATACA
654136 AGGTCCCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTCTAG
Found at i:654255 original size:20 final size:20
Alignment explanation
Indices: 654230--654284 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
654220 ACTGCCAAGA
654230 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
654250 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
654270 TTTGTATCGATACAT
1 AATGTATCGATACAT
654285 CTGGGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:660682 original size:47 final size:46
Alignment explanation
Indices: 660631--660801 Score: 122
Period size: 47 Copynumber: 3.6 Consensus size: 46
660621 ATTAACTTTA
660631 AAAAAATT-AATATTAATAAATTAAAATATTAATTATTTTTTTAAAAT
1 AAAAAATTAAAT-TTAATAAATTAAAATATT-ATTATTTTTTTAAAAT
* * *
660678 AAAAAATTAAA-TTAA-AAAGGGTT-TATTATTATTA-TTTTTTATAAT
1 AAAAAATTAAATTTAATAAA---TTAAAATATTATTATTTTTTTAAAAT
*
660723 AAAATTATTTAAATTTAATAAA-TAATATATCAATTATTATTTTTTATAAAAT
1 AAAA--AATTAAATTTAATAAATTAA-A-AT--ATTATTATTTTTT-TAAAAT
*
660775 TAAAAA-TAATATTTAATTAAATTAAAA
1 AAAAAATTAA-ATTTAA-TAAATTAAAA
660802 AAATTAAGAT
Statistics
Matches: 97, Mismatches: 9, Indels: 33
0.70 0.06 0.24
Matches are distributed among these distances:
45 18 0.19
46 8 0.08
47 20 0.21
48 9 0.09
49 6 0.06
50 15 0.15
51 10 0.10
52 11 0.11
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.45
Consensus pattern (46 bp):
AAAAAATTAAATTTAATAAATTAAAATATTATTATTTTTTTAAAAT
Found at i:661138 original size:23 final size:24
Alignment explanation
Indices: 661089--661138 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
661079 TTTAAAAAAA
*
661089 TTTTAAAATCTAATTTATTTTTAT
1 TTTTAAAATCTAATTTATTTGTAT
661113 TTTTAAAAT-TAATTTAATTTGT-T
1 TTTTAAAATCTAATTT-ATTTGTAT
661136 TTT
1 TTT
661139 ATGAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTAAAATCTAATTTATTTGTAT
Found at i:661198 original size:195 final size:192
Alignment explanation
Indices: 660791--661143 Score: 451
Period size: 195 Copynumber: 1.8 Consensus size: 192
660781 TAATATTTAA
*
660791 TTAAA-TTAAAAAAATTAAGATATGATTTGTAAAATTAATTGTTAAAATATTTTTTAATATAATT
1 TTAAATTTAAAAAAATTAAGATATGATTTGTAAAATTAATTATTAAAATATTTTTTAATATAATT
* *** * *
660855 ATACAAATTTAATTTAATTTTTTTAGATAATTTAAAACTTTTTTAAAGTATGATTTTTTTATTTA
66 ATACAAATTTAATTTAATTTTTTAAGATAATTTAAAAAAATTTTAAAATATAATTTTTTTATTTA
* ****
660920 CAAAATTAATTTAATTTATTTTTATGTATTCTTTTTCGGTAACGACTTAAATATAAATTTTTCT
131 CAAAATTAATTTAATTTATTTTTATGAATTCTTTTT--GTAACGACTTAAATATAAATTAAAAT
* *
660984 TTAAAATTTTAAAAAATTAAGATATGATTTGTAAAATTAATTATTAAAATA-TTTTTGATATAAT
1 TT-AAATTTAAAAAAATTAAGATATGATTTGTAAAATTAATTATTAAAATATTTTTTAATATAAT
** *
661048 TATATTAATTTAATTTAAATTTTTTAAG-TAATTTAAAAAAATTTTAAAATCTAATTTATTTTTA
65 TATACAAATTTAATTT-AATTTTTTAAGATAATTTAAAAAAATTTTAAAATATAA-TT-TTTTTA
** *
661112 TTTTTAAAATTAATTTAATTTGTTTTTATGAA
127 TTTACAAAATTAATTTAATTTATTTTTATGAA
661144 ATTTATTTTT
Statistics
Matches: 139, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
193 2 0.01
194 49 0.35
195 54 0.39
196 34 0.24
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (192 bp):
TTAAATTTAAAAAAATTAAGATATGATTTGTAAAATTAATTATTAAAATATTTTTTAATATAATT
ATACAAATTTAATTTAATTTTTTAAGATAATTTAAAAAAATTTTAAAATATAATTTTTTTATTTA
CAAAATTAATTTAATTTATTTTTATGAATTCTTTTTGTAACGACTTAAATATAAATTAAAAT
Found at i:661207 original size:24 final size:24
Alignment explanation
Indices: 661154--661207 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
661144 ATTTATTTTT
* *
661154 ATTTT-ATTATATATAAATTAAAA
1 ATTTTAATTATAAAAAAATTAAAA
*
661177 ATATTAATTATAAAAAAATTAAAA
1 ATTTTAATTATAAAAAAATTAAAA
*
661201 TTTTTAA
1 ATTTTAA
661208 AAAAAAGGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTTTAATTATAAAAAAATTAAAA
Found at i:667233 original size:49 final size:49
Alignment explanation
Indices: 667176--667369 Score: 188
Period size: 49 Copynumber: 4.1 Consensus size: 49
667166 CAATGTGCCA
* * * *
667176 ATTCAAGGCCAACAACATTGGGCTAAGGGAAAAGTGGACCATTCTGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATATGCTG
* * *
667225 ATTCAAGGCCAGTGACATTGGGCTAA--TAAAGGT-G-CCAATATGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATATGCTG
* * * * *
667270 ATTCAATGCCAGCGACATTAGGCTAAGGGAAAAATGGACCAATGTGCTA
1 ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATATGCTG
* * * *
667319 ATTCAAGGCTAGCGATATTGGGCTAA--TAAAGGT-G-CCAATATGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATATGCTG
667364 ATTCAA
1 ATTCAA
667370 TGTCAACGAT
Statistics
Matches: 117, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
45 47 0.40
46 2 0.02
47 13 0.11
48 1 0.01
49 54 0.46
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (49 bp):
ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATATGCTG
Found at i:667287 original size:45 final size:45
Alignment explanation
Indices: 667220--667369 Score: 174
Period size: 45 Copynumber: 3.2 Consensus size: 45
667210 TGGACCATTC
*
667220 TGCTGATTCAAGGCCAGTGACATTGGGCTAATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGGCTAATAAAGGTGCCAATA
* * * ** *
667265 TGCTGATTCAATGCCAGCGACATTAGGCTAAGGGAAAAATGGACCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGGCTAA--TAAAGGT-G-CCAATA
* * *
667314 TGCTAATTCAAGGCTAGCGATATTGGGCTAATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGGCTAATAAAGGTGCCAATA
667359 TGCTGATTCAA
1 TGCTGATTCAA
667370 TGTCAACGAT
Statistics
Matches: 84, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
45 43 0.51
46 1 0.01
47 8 0.10
48 1 0.01
49 31 0.37
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (45 bp):
TGCTGATTCAAGGCCAGCGACATTGGGCTAATAAAGGTGCCAATA
Found at i:667295 original size:94 final size:94
Alignment explanation
Indices: 667162--667376 Score: 295
Period size: 94 Copynumber: 2.3 Consensus size: 94
667152 GATGAGAGGA
* ** * * * * *
667162 GTGCCAATGTGCCAATTCAAGGCCAACAACATTGGGCTAAGGGAAAAGTGGACCATTCTGCTGAT
1 GTGCCAATATGCTGATTCAATGCCAACAACATTAGGCTAAGGGAAAAATGGACCAATCTGCTAAT
*
667227 TCAAGGCCAGTGACATTGGGCTAATAAAG
66 TCAAGGCCAGCGACATTGGGCTAATAAAG
* * *
667256 GTGCCAATATGCTGATTCAATGCCAGCGACATTAGGCTAAGGGAAAAATGGACCAATGTGCTAAT
1 GTGCCAATATGCTGATTCAATGCCAACAACATTAGGCTAAGGGAAAAATGGACCAATCTGCTAAT
* *
667321 TCAAGGCTAGCGATATTGGGCTAATAAAG
66 TCAAGGCCAGCGACATTGGGCTAATAAAG
*
667350 GTGCCAATATGCTGATTCAATGTCAAC
1 GTGCCAATATGCTGATTCAATGCCAAC
667377 GATATCGGAC
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 105 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (94 bp):
GTGCCAATATGCTGATTCAATGCCAACAACATTAGGCTAAGGGAAAAATGGACCAATCTGCTAAT
TCAAGGCCAGCGACATTGGGCTAATAAAG
Found at i:667669 original size:121 final size:115
Alignment explanation
Indices: 667421--667978 Score: 562
Period size: 121 Copynumber: 4.8 Consensus size: 115
667411 TGAAAAGAGT
** * *
667421 TGCCATCGACTTGTGTGGGCTTT-AAATTGGTGCCACCGACTTGTGGGCTTTGAAAGGGTATGCC
1 TGCCA-CGA-TTGTGTGGGCTTTGAAAGAGTTGCCACCGACTTGTGGGCTTTGAAAAGGT-TGCC
* *
667485 ACTGACATGTGGGCTTTGAAAA-GGTGCCA-TGACTTGTGGGCTTTGGAAGGG
63 ACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
*
667536 TGCCACCGATTTGTGTGGGCTTTGAACAGAGTTGCCACCGACTTGTGTGAACTTTGAAAAGAGTT
1 TGCCA-CGA-TTGTGTGGGCTTTGAA-AGAGTTGCCACCGACTTGTG-G-GCTTTGAAAAG-GTT
* * * *
667601 ACCACTGACTTGTGAGCTTTGAAAAGGGTGCCACTGACTTATGGGCCTTGAAAGGG
60 GCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* *
667657 TGCCATCGATTTGTGTGGGCTTTAAATAGAGTTGCCACCGACTTGTGTGGACTTTGAAAAGACTT
1 TGCCA-CGA-TTGTGTGGGCTTTGAA-AGAGTTGCCACCGACTTGTG-GG-CTTTGAAAAG-GTT
* * * * *
667722 ACCACTAACTTATGGGCTTTGAAAAGGGTGCCACTAACTTGTTGGCTTTGAAAGGG
60 GCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
667778 TATGCCACTGACT-TGTGGGCTTTTAAAGGATGTTG---CTGACTTGTGGGCTTTG-AAAGGATG
1 --TGCCAC-GATTGTGTGGGCTTTGAAA-GA-GTTGCCACCGACTTGTGGGCTTTGAAAAGGTTG
* * *
667838 CCATTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
61 CCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * *
667892 TGCCACTGACT-TGTGGGCTTTGAAA-AGATGCCACTGACTTGTGGGCTTAGAGAAGGATGCCAC
1 TGCCAC-GATTGTGTGGGCTTTGAAAGAGTTGCCACCGACTTGTGGGCTTTGAAAAGGTTGCCAC
*
667955 TAACTTGTGGGCTTTGAAAAGGGT
65 TGACTTGTGGGCTTTGAAAAGGGT
667979 TGTATTGATG
Statistics
Matches: 381, Mismatches: 44, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
109 3 0.01
110 1 0.00
112 40 0.10
113 25 0.07
114 37 0.10
115 39 0.10
116 6 0.02
117 22 0.06
118 3 0.01
119 41 0.11
120 10 0.03
121 141 0.37
122 6 0.02
123 7 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (115 bp):
TGCCACGATTGTGTGGGCTTTGAAAGAGTTGCCACCGACTTGTGGGCTTTGAAAAGGTTGCCACT
GACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
Found at i:667823 original size:28 final size:28
Alignment explanation
Indices: 667434--667973 Score: 469
Period size: 28 Copynumber: 18.5 Consensus size: 28
667424 CATCGACTTG
*
667434 TGTGGGCTTT-AAATTGG-TGCCACCGACT
1 TGTGGGCTTTGAAA--GGATGCCACTGACT
*
667462 TGTGGGCTTTGAAAGGGTATGCCACTGACA
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
667492 TGTGGGCTTTGAAAAGG-TGCCA-TGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * * *
667519 TGTGGGCTTTGGAAGGGTGCCACCGATTT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
* *
667548 GTGTGGGCTTTGAACAGAGTTGCCACCGACT
1 -TGTGGGCTTTGAA-AG-GATGCCACTGACT
* * *
667579 TGTGTGAACTTTGAAAAGAGTTACCACTGACT
1 TGTG-G-GCTTTG-AAAG-GATGCCACTGACT
* *
667611 TGTGAGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * * *
667640 TATGGGCCTTGAAAGGGTGCCA-TCGATTT
1 TGTGGGCTTTGAAAGGATGCCACT-GA-CT
* * *
667669 GTGTGGGCTTTAAATAGAGTTGCCACCGACT
1 -TGTGGGCTTTGAA-AG-GATGCCACTGACT
* * *
667700 TGTGTGGACTTTGAAAAGACTTACCACTAACT
1 TGTG-GG-CTTTGAAAGGA--TGCCACTGACT
* * *
667732 TATGGGCTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
667761 TGTTGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* ***
667791 TGTGGGCTTTTAAAGGATGTTGCTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
667819 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
667847 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
667875 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
667903 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
667931 TGTGGGCTTAGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
667960 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
667974 AGGGTTGTAT
Statistics
Matches: 426, Mismatches: 59, Indels: 54
0.79 0.11 0.10
Matches are distributed among these distances:
26 4 0.01
27 21 0.05
28 160 0.38
29 72 0.17
30 90 0.21
31 19 0.04
32 58 0.14
33 2 0.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:668051 original size:14 final size:14
Alignment explanation
Indices: 668032--668069 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
668022 TCGACAGAAG
*
668032 TTCTTGACAATAAT
1 TTCTTGACAACAAT
*
668046 TTCTTGACAACCAT
1 TTCTTGACAACAAT
668060 TTCTTGACAA
1 TTCTTGACAA
668070 ATGGCGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (14 bp):
TTCTTGACAACAAT
Found at i:669268 original size:7 final size:7
Alignment explanation
Indices: 669256--669287 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
669246 TCTGAACCCT
669256 TTTTTTG
1 TTTTTTG
669263 TTTTTTG
1 TTTTTTG
669270 -TTTTT-
1 TTTTTTG
669275 TTTTTTG
1 TTTTTTG
669282 TTTTTT
1 TTTTTT
669288 TGGGTACGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 10 0.43
7 13 0.57
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (7 bp):
TTTTTTG
Found at i:669278 original size:12 final size:12
Alignment explanation
Indices: 669257--669288 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
669247 CTGAACCCTT
669257 TTTTTGTTTTTTG
1 TTTTT-TTTTTTG
669270 TTTTTTTTTTTG
1 TTTTTTTTTTTG
669282 TTTTTTT
1 TTTTTTT
669289 GGGTACGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:676521 original size:13 final size:13
Alignment explanation
Indices: 676503--676527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
676493 CATAAAGTGT
676503 TGTATCGATACAA
1 TGTATCGATACAA
676516 TGTATCGATACA
1 TGTATCGATACA
676528 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:676525 original size:33 final size:33
Alignment explanation
Indices: 676483--676549 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
676473 TTCAACGATT
676483 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
676516 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
676549 T
1 T
676550 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:676608 original size:13 final size:13
Alignment explanation
Indices: 676590--676614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
676580 ATCACTTAAA
676590 TGTATCGATACAT
1 TGTATCGATACAT
676603 TGTATCGATACA
1 TGTATCGATACA
676615 CCGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:676679 original size:52 final size:52
Alignment explanation
Indices: 676623--676751 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
676613 CACCGATCTT
*
676623 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
676675 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
676727 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
676752 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:682455 original size:52 final size:52
Alignment explanation
Indices: 682388--682749 Score: 252
Period size: 52 Copynumber: 6.9 Consensus size: 52
682378 TCAATTGTGA
** *
682388 AAAATTGGTGTTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGG
1 AAAATTGGTG-TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
* **
682441 AAAATTGGTGTTTTGGAAATAAAACCGGGGCTGGAGTATCCCCGATT-GTGG
1 AAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
* * *
682492 -AAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATT--ATG
1 AAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
*** * *** * * *
682541 AGAAATCAATATTTCAAAAATAAAGCCGGGGTTGGAGTATCCACTCAGAGGTAACGG
1 A-AAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCC-C-C-GA-TTAAAGG
** * * ***** * * ** ** *
682598 --GGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTTGATT-GTGA
1 AAAATTGGTGTTTTGGAAAT-AAA-ACCGGGGTTGGAGTATCCCCGATTAAAGG
* *
682649 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
1 AAAATTGGTG-TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
*
682702 AAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCTCGATTA
1 AAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTA
682750 TGAACAAATG
Statistics
Matches: 234, Mismatches: 61, Indels: 29
0.72 0.19 0.09
Matches are distributed among these distances:
49 1 0.00
50 43 0.18
51 37 0.16
52 89 0.38
53 32 0.14
54 12 0.05
55 4 0.02
56 15 0.06
57 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (52 bp):
AAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
Found at i:682516 original size:50 final size:51
Alignment explanation
Indices: 682365--682582 Score: 215
Period size: 52 Copynumber: 4.3 Consensus size: 51
682355 GAAATAATGA
* * * * * * **
682365 GGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTAGTG-TTTTAGAAATAAAACCGG
* * * *
682417 AGTTGGAGTATCCCCGATTA-AAGGAAAATTGGTGTTTTGGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGA-G-AAATTAGTGTTTTAGAAATAAAACCGG
* *
682469 GGCTGGAGTATCCCCGATTGTG-GAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTAGTGTTTTAGAAATAAAACCGG
* * * * * *
682519 GGTTGGAGTATCCCCGATTATGAGAAATCAATATTTCAAAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTAGTGTTTTAGAAATAAAACCGG
682570 GGTTGGAGTATCC
1 GGTTGGAGTATCC
682583 ACTCAGAGGT
Statistics
Matches: 140, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
50 45 0.32
51 37 0.26
52 49 0.35
53 9 0.06
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAGAAATTAGTGTTTTAGAAATAAAACCGG
Found at i:682570 original size:51 final size:50
Alignment explanation
Indices: 682457--682582 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 50
682447 GGTGTTTTGG
* * * * * * *
682457 AAATAAAACCGGGGCTGGAGTATCCCCGATTGTGGAAATTAGTGTTTTAG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAATCAATATTTCAA
682507 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTCAA
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATG-GAAATCAATATTTCAA
*
682558 AAATAAAGCCGGGGTTGGAGTATCC
1 AAATAAAACCGGGGTTGGAGTATCC
682583 ACTCAGAGGT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 32 0.48
51 35 0.52
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (50 bp):
AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAATCAATATTTCAA
Found at i:682577 original size:261 final size:261
Alignment explanation
Indices: 682255--682748 Score: 853
Period size: 261 Copynumber: 1.9 Consensus size: 261
682245 TCGAAAATAA
* ***
682255 CGGGGTTGGAGTATCCCTAATTACGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTACGAGAAATCAATATTTCAAAAATAAAGCCGGGGTTGGAGTAT
* * *
682320 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGACGAAATAATGAGGTTGGAGTATCCTCAATTG
66 CCACTCAGAGGTAACGGGGTTGGAGTATCCCCGACGAAATAACGAGGTTGGAGTATCCTCAATTG
*
682385 TGAAAAATTGGTGTTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
682450 GTTTTGGAAATAAAACCGGGGCTGGAGTATCCCCGATTGTGGAAATTAGTGTTTTAGAAATAAAA
196 GTTTTGGAAATAAAACCGGGGCTGGAGTATCCCCGATTGTGGAAATTAGTGTTTTAGAAATAAAA
682515 C
261 C
* *
682516 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTCAAAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTACGAGAAATCAATATTTCAAAAATAAAGCCGGGGTTGGAGTAT
* **
682581 CCACTCAGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTTGATTG
66 CCACTCAGAGGTAACGGGGTTGGAGTATCCCCGACGAAATAACGAGGTTGGAGTATCCTCAATTG
682646 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
* *
682711 GTTTTGGAAATAAAACCGGGGTTGGAGTATCCTCGATT
196 GTTTTGGAAATAAAACCGGGGCTGGAGTATCCCCGATT
682749 ATGAACAAAT
Statistics
Matches: 218, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
261 218 1.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (261 bp):
CGGGGTTGGAGTATCCCCAATTACGAGAAATCAATATTTCAAAAATAAAGCCGGGGTTGGAGTAT
CCACTCAGAGGTAACGGGGTTGGAGTATCCCCGACGAAATAACGAGGTTGGAGTATCCTCAATTG
TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
GTTTTGGAAATAAAACCGGGGCTGGAGTATCCCCGATTGTGGAAATTAGTGTTTTAGAAATAAAA
C
Found at i:682623 original size:28 final size:28
Alignment explanation
Indices: 682567--682638 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
682557 AAAATAAAGC
**
682567 CGGGGTTGGAGTATCCACTCAGAGGTAA
1 CGGGGTTGGAGTATCCACTCAGAAATAA
682595 CGGGGTTGGAGTATCC-C-CGATGAAATAA
1 CGGGGTTGGAGTATCCACTC-A-GAAATAA
*
682623 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
682639 TTGATTGTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 36 0.92
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCACTCAGAAATAA
Found at i:685155 original size:21 final size:21
Alignment explanation
Indices: 685131--685172 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
685121 GTATCAATAC
685131 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
685152 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
685173 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:685219 original size:17 final size:17
Alignment explanation
Indices: 685197--685274 Score: 83
Period size: 17 Copynumber: 4.7 Consensus size: 17
685187 AGCGATACAT
685197 TGTATCAATACAACTTA
1 TGTATCAATACAACTTA
*
685214 TGTATCGATAC-A--T-
1 TGTATCAATACAACTTA
*
685227 TGTATCGATACAACTTA
1 TGTATCAATACAACTTA
*
685244 TGTATCGATATAAAACTTA
1 TGTATC-A-ATACAACTTA
685263 TGTATCAATACA
1 TGTATCAATACA
685275 TTTACTGAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.22
14 2 0.04
16 2 0.04
17 20 0.39
18 1 0.02
19 15 0.29
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (17 bp):
TGTATCAATACAACTTA
Found at i:685223 original size:30 final size:30
Alignment explanation
Indices: 685189--685253 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
685179 AGCTTCGTAG
685189 CGATACATTGTATCAATACAACTTATGTAT
1 CGATACATTGTATCAATACAACTTATGTAT
*
685219 CGATACATTGTATCGATACAACTTATGTAT
1 CGATACATTGTATCAATACAACTTATGTAT
685249 CGATA
1 CGATA
685254 TAAAACTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (30 bp):
CGATACATTGTATCAATACAACTTATGTAT
Found at i:685232 original size:13 final size:13
Alignment explanation
Indices: 685189--685238 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 13
685179 AGCTTCGTAG
685189 CGATACATTGTAT
1 CGATACATTGTAT
*
685202 CAATACAACTTATGTAT
1 CGATAC-A--T-TGTAT
685219 CGATACATTGTAT
1 CGATACATTGTAT
685232 CGATACA
1 CGATACA
685239 ACTTATGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 17 0.55
14 2 0.06
16 2 0.06
17 10 0.32
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:686220 original size:61 final size:59
Alignment explanation
Indices: 686132--686802 Score: 687
Period size: 61 Copynumber: 11.4 Consensus size: 59
686122 ATAAAGTGCA
* ** *
686132 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCATGTAGGCTTTGAAAAGGAAAGACG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAG-CG
* * ** * *
686193 TCCTACTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCCTTGCAAAGGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGAAA-GCG
* * ** * *
686254 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTTTGGGCTTTGCAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAAGCG
* * *
686315 TCCTGCTTTTTGAGGATTGGGAAATGCCACCAACTTGTGTGGGCTTTGAAA-G---GCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCG
*
686370 TCCTGCTCTTTGAGGACTGGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGAAA-GCG
**
686432 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-G---GCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCG
* *
686487 TCCTGCTCTTTGAAGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAA-G---GCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCG
* * *
686542 TCCTGCTCTTTGAGTACTAGAAAATGCCACCAACTTGTATGGGCTTTGAAA-G---GCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCG
* * * *
686597 TCATGCTCTTTGAGGACAGGAAAATGCCACCAACTCGTGTGGGCTTTGAGAAGGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGA-AAGGAAA-GCG
* * * * *
686658 TCCTGCTCCTTGAGGACTGGAAAATGCCACTAACTCGTGTGGGTTTTGAAAAGGAAATGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGAAA-GCG
** * *
686719 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTATGTGGGCTTTGCAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGA-AA-GCG
*
686780 TCCTACTCTTTGAGGACT-GAAAA
1 TCCTGCTCTTTGAGGACTGGAAAA
686803 GTGGAAGGAG
Statistics
Matches: 525, Mismatches: 67, Indels: 36
0.84 0.11 0.06
Matches are distributed among these distances:
55 167 0.32
56 30 0.06
57 4 0.01
58 2 0.00
59 1 0.00
60 34 0.06
61 258 0.49
62 29 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCG
Found at i:686391 original size:55 final size:55
Alignment explanation
Indices: 686315--686771 Score: 511
Period size: 55 Copynumber: 8.0 Consensus size: 55
686305 AGAGAAAGCA
* * *
686315 TCCTGCTTTTTGAGGATTGGGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
686370 TCCTGCTCTTTGAGGACTGGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT------GAAAGGCG
**
686432 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
686487 TCCTGCTCTTTGAAGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
686542 TCCTGCTCTTTGAGTACTAGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
686597 TCATGCTCTTTGAGGACAGGAAAATGCCACCAACTCGTGTGGGCTTTGAGAAGGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------GAAAGGCG
* * * * *
686658 TCCTGCTCCTTGAGGACTGGAAAATGCCACTAACTCGTGTGGGTTTTGAAAAGGAAATGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAA-G----GCG
** * *
686719 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTATGTGGGCTTTGCAAAGG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGG
686772 AGAAGGCGTC
Statistics
Matches: 348, Mismatches: 35, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
55 170 0.49
56 30 0.09
57 1 0.00
59 1 0.00
60 25 0.07
61 95 0.27
62 26 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:687784 original size:1 final size:1
Alignment explanation
Indices: 687778--687849 Score: 72
Period size: 1 Copynumber: 72.0 Consensus size: 1
687768 ATTCTTCTCC
* * * * * * * *
687778 TTTTTTTTCTTTTTTCTTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTATTTTTTTTTGTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
687843 TTTTTTT
1 TTTTTTT
687850 GAAAAAAGAA
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.01, C:0.03, G:0.07, T:0.89
Consensus pattern (1 bp):
T
Found at i:687808 original size:18 final size:17
Alignment explanation
Indices: 687781--687849 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 17
687771 CTTCTCCTTT
687781 TTTTTCTTTTTTCTTTTTG
1 TTTTT-TTTTTT-TTTTTG
687800 TTTTTTTTTGTTTTTTTG
1 TTTTTTTTT-TTTTTTTG
687818 TTTTTTTATTTTTTTTTG
1 TTTTTTT-TTTTTTTTTG
687836 TTGTTTTTTTTTTT
1 TT-TTTTTTTTTTT
687850 GAAAAAAGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
18 33 0.70
19 14 0.30
ACGTcount: A:0.01, C:0.03, G:0.07, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTTG
Found at i:687816 original size:26 final size:25
Alignment explanation
Indices: 687778--687850 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 25
687768 ATTCTTCTCC
687778 TTTTTT-TTCTTTTTTCTTTTTGTTT
1 TTTTTTGTTCTTTTTT-TTTTTGTTT
* *
687803 TTTTTTGTTTTTTTGTTTTTTTATTT
1 TTTTTTGTTCTTTT-TTTTTTTGTTT
*
687829 TTTTTTGTTGTTTTTTTTTTTG
1 TTTTTTGTTCTTTTTTTTTTTG
687851 AAAAAAGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.31
26 27 0.64
27 2 0.05
ACGTcount: A:0.01, C:0.03, G:0.08, T:0.88
Consensus pattern (25 bp):
TTTTTTGTTCTTTTTTTTTTTGTTT
Found at i:696101 original size:79 final size:79
Alignment explanation
Indices: 695970--696150 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 79
695960 TTTTGGAGAT
* ** ** *
695970 AATAACTGGGTTGGAGTATCCCCGGTTGTGAAAAATCAATGATTAGAAAATAAAATCGGGATT-G
1 AATAACGGGGTTGGAGTATCCCCAATTACGAAAAATCAATGATTAGAAAATAAAACCGGGATTCG
696034 AAGTATCCCCTCGGA
66 -AGTATCCCCTCGGA
* * * *
696049 AATAACGGGGTTGGAGTATCCCCAATTACGAGAAATCAAT-ATTTTGAAAATAAAGCCGGGGTTC
1 AATAACGGGGTTGGAGTATCCCCAATTACGAAAAATCAATGA-TTAGAAAATAAAACCGGGATTC
696113 GAGTATCCCCTCGGA
65 GAGTATCCCCTCGGA
**
696128 GGTAACGGGGTTGGAGTATCCCC
1 AATAACGGGGTTGGAGTATCCCC
696151 GATGAAATAA
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 86 0.98
80 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (79 bp):
AATAACGGGGTTGGAGTATCCCCAATTACGAAAAATCAATGATTAGAAAATAAAACCGGGATTCG
AGTATCCCCTCGGA
Found at i:696224 original size:52 final size:51
Alignment explanation
Indices: 696165--696289 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 51
696155 AAATAACGAG
* *
696165 GTTGGAGTATCCTCGATTATGGAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATTGGTG-TTTTGGAAATAAAACCGGA
* *
696217 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-ATGGAAAATTGGTGTTTTGGAAATAAAACCGGA
696269 GTTGGAGTATCCCCGATTATG
1 GTTGGAGTATCCCCGATTATG
696290 AACAACTGAG
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.03
52 52 0.78
53 13 0.19
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTGGAAATAAAACCGGA
Found at i:698680 original size:21 final size:21
Alignment explanation
Indices: 698654--698694 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
698644 ACAAAGATCG
698654 ATGTATCGATACATTTCCTTA
1 ATGTATCGATACATTTCCTTA
698675 ATGTATCGATACATTTCCTT
1 ATGTATCGATACATTTCCTT
698695 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATTTCCTTA
Found at i:698754 original size:19 final size:19
Alignment explanation
Indices: 698719--698847 Score: 113
Period size: 19 Copynumber: 6.7 Consensus size: 19
698709 AGCGATACAT
698719 TGTATCGATAC--AACTTA
1 TGTATCGATACAAAACTTA
698736 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
** *
698755 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
* *
698776 AGTATCAATAC-AAA-TTAA
1 TGTATCGATACAAAACTT-A
698794 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
** *
698813 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
698834 TGTATCGATACAAA
1 TGTATCGATACAAA
698848 TTATTGAAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
17 11 0.12
18 11 0.12
19 35 0.40
20 8 0.09
21 23 0.26
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:698805 original size:58 final size:58
Alignment explanation
Indices: 698720--698850 Score: 228
Period size: 58 Copynumber: 2.3 Consensus size: 58
698710 GCGATACATT
*
698720 GTATCGATACAACTT-ATGTATCGATACAAAACTTATGTATCGATACATTTACTGAAA
1 GTATCGATACAAATTAATGTATCGATACAAAACTTATGTATCGATACATTTACTGAAA
* *
698777 GTATCAATACAAATTAATGTATCGATACAAAACTTATGTATCGATACATTTACTGAAT
1 GTATCGATACAAATTAATGTATCGATACAAAACTTATGTATCGATACATTTACTGAAA
698835 GTATCGATACAAATTA
1 GTATCGATACAAATTA
698851 TTGAAATTCA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
57 13 0.19
58 56 0.81
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (58 bp):
GTATCGATACAAATTAATGTATCGATACAAAACTTATGTATCGATACATTTACTGAAA
Found at i:701491 original size:13 final size:13
Alignment explanation
Indices: 701473--701498 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
701463 TACACAAAGT
701473 ATGTATCGATACA
1 ATGTATCGATACA
701486 ATGTATCGATACA
1 ATGTATCGATACA
701499 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:701496 original size:32 final size:33
Alignment explanation
Indices: 701455--701518 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
701445 TAGCCAAACT
**
701455 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
701487 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
701519 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:702394 original size:13 final size:13
Alignment explanation
Indices: 702376--702401 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
702366 CAATTTTTTG
702376 TGTATCGATACAT
1 TGTATCGATACAT
702389 TGTATCGATACAT
1 TGTATCGATACAT
702402 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:702466 original size:21 final size:21
Alignment explanation
Indices: 702440--702515 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
702430 CTGCCAAGAA
702440 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
702461 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
702481 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
702502 ATGTATCGATACAT
1 ATGTATCGATACAT
702516 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:702485 original size:20 final size:20
Alignment explanation
Indices: 702460--702533 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
702450 ACATCTTTTT
702460 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
702480 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
702501 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
702521 CATGTATCGATAC
1 CATGTATCGATAC
702534 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:702497 original size:41 final size:41
Alignment explanation
Indices: 702440--702533 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
702430 CTGCCAAGAA
702440 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
702481 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
702522 ATGTATCGATAC
1 ATGTATCGATAC
702534 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:704989 original size:13 final size:13
Alignment explanation
Indices: 704971--705009 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
704961 ATAATCACCC
*
704971 TGTATCGATACAG
1 TGTATCGATACAA
704984 TGTATCGATACAA
1 TGTATCGATACAA
704997 TGTATCGATACAA
1 TGTATCGATACAA
705010 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:705020 original size:20 final size:20
Alignment explanation
Indices: 704995--705073 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
704985 GTATCGATAC
704995 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
705015 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
705040 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
705060 CATGTATCGATACA
1 AATGTATCGATACA
705074 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:708935 original size:21 final size:21
Alignment explanation
Indices: 708906--708950 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
708896 AAGTTTTCAT
*
708906 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
708926 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
708948 TTT
1 TTT
708951 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:711183 original size:13 final size:13
Alignment explanation
Indices: 711165--711190 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
711155 CAATTTTTTG
711165 TGTATCGATACAT
1 TGTATCGATACAT
711178 TGTATCGATACAT
1 TGTATCGATACAT
711191 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:711255 original size:21 final size:21
Alignment explanation
Indices: 711229--711304 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
711219 CTGCCAAGAA
711229 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
711250 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
711270 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
711291 ATGTATCGATACAT
1 ATGTATCGATACAT
711305 TGCAACATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:711274 original size:20 final size:20
Alignment explanation
Indices: 711249--711322 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
711239 ACATCTTTTT
711249 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
711269 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
711290 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
*
711310 CATTTATCGATAC
1 CATGTATCGATAC
711323 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:711286 original size:41 final size:41
Alignment explanation
Indices: 711229--711322 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
711219 CTGCCAAGAA
711229 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
711270 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
711311 ATTTATCGATAC
1 ATGTATCGATAC
711323 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:717045 original size:13 final size:13
Alignment explanation
Indices: 717027--717052 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
717017 TACAGAAAGT
717027 ATGTATCGATACA
1 ATGTATCGATACA
717040 ATGTATCGATACA
1 ATGTATCGATACA
717053 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:717052 original size:32 final size:33
Alignment explanation
Indices: 717011--717072 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
717001 GCCAAACTTC
* **
717011 TATCGATACAGAAAGTA-TGTATCGATACAATG
1 TATCGATACACAAAAAATTGTATCGATACAATG
717043 TATCGATACACAAAAAATTGTATCGATACA
1 TATCGATACACAAAAAATTGTATCGATACA
717073 TTGGCTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
TATCGATACACAAAAAATTGTATCGATACAATG
Done.