Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold107
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: 2327068
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 11 of 15
Found at i:1568558 original size:84 final size:85
Alignment explanation
Indices: 1568468--1568953 Score: 450
Period size: 84 Copynumber: 5.8 Consensus size: 85
1568458 AAGTCGATAG
* *
1568468 GTAAACAAGGGATG-AAAGGTTGACCAAGGTTGAACCGATAAGTCAACAAAGGGTAAGGGAGTTT
1 GTAAACAAGGGATGAAAAGGTTGACCAAGGCTGAACCGATAAGTCAACAAAGGGTAAAGGAGTTT
* ** *
1568532 ACCAAGGACTGAGCCAAAAA
66 ACCAAGGACTAAGCTGACAA
* * * *
1568552 GTAAAC-AGGGATGAAAAGGTTGACCAAGGCTGAACTGATAAGTCAACAAAGGATAAAGAAATTT
1 GTAAACAAGGGATGAAAAGGTTGACCAAGGCTGAACCGATAAGTCAACAAAGGGTAAAGGAGTTT
** *
1568616 A-CTTGAGACTAAGATGACAA
66 ACCAAG-GACTAAGCTGACAA
* ** * * *
1568636 GTAAACAAGGGAT-AAAAGGTTGACTAAGTTTGAACTGATATGTCAACAAAGGGTAAGGGAGTTT
1 GTAAACAAGGGATGAAAAGGTTGACCAAGGCTGAACCGATAAGTCAACAAAGGGTAAAGGAGTTT
* *
1568700 ACCAAGGACTGAGTTGACAA
66 ACCAAGGACTAAGCTGACAA
* ** * * * * *
1568720 GAAAACAA-GGATGAAAAGGTTGACCAAGGCTGAAGTGATAAGTCAATAAAGGATGAAGAAATTT
1 GTAAACAAGGGATGAAAAGGTTGACCAAGGCTGAACCGATAAGTCAACAAAGGGTAAAGGAGTTT
* * *
1568784 ACTC-GGGACTAAGCTGATAG
66 AC-CAAGGACTAAGCTGACAA
* * * *
1568804 GTAAACAAGGGATG-AAAGATTGACCACGGTTGAATCGATAAGTCAACAAAGGGTAAAGGAGTTT
1 GTAAACAAGGGATGAAAAGGTTGACCAAGGCTGAACCGATAAGTCAACAAAGGGTAAAGGAGTTT
* ** *
1568868 GCCAAGGACTAAGCCAATAA
66 ACCAAGGACTAAGCTGACAA
* * * * ** * *
1568888 GTAAA-TAGAGATGAAAATGTT-AACAATGGCCAAATCGATAAGTCAACAAATGGTAAAGGAGTT
1 GTAAACAAGGGATGAAAAGGTTGACCAA-GGCTGAACCGATAAGTCAACAAAGGGTAAAGGAGTT
1568951 TAC
65 TAC
1568954 TAGGGACTGA
Statistics
Matches: 323, Mismatches: 69, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
83 23 0.07
84 286 0.89
85 14 0.04
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.19
Consensus pattern (85 bp):
GTAAACAAGGGATGAAAAGGTTGACCAAGGCTGAACCGATAAGTCAACAAAGGGTAAAGGAGTTT
ACCAAGGACTAAGCTGACAA
Found at i:1568683 original size:168 final size:167
Alignment explanation
Indices: 1568423--1568904 Score: 687
Period size: 168 Copynumber: 2.9 Consensus size: 167
1568413 TAAAATCAAC
1568423 AAGTCAATAAAGGATAAAGAAATTTACTCGAGACTAAGTCGATAGGTAAACAAGGGATGAAAGGT
1 AAGTCAATAAAGGATAAAGAAATTTACTCGAGACTAAGT-GATAGGTAAACAAGGGATGAAAGGT
*
1568488 TGACCAAGGTTGAACCGATAAGTCAACAAAGGGTAAGGGAGTTTACCAAGGACTGAGCCAAAAAG
65 TGACCAAGGTTGAACTGATAAGTCAACAAAGGGTAAGGGAGTTTACCAAGGACTGAGCCAAAAAG
1568553 TAAACAGGGATGAAAAGGTTGACCAAGGCTGAACTGAT
130 TAAACAGGGATGAAAAGGTTGACCAAGGCTGAACTGAT
* * * * *
1568591 AAGTCAACAAAGGATAAAGAAATTTACTTGAGACTAAGATGACAAGTAAACAAGGGATAAAAGGT
1 AAGTCAATAAAGGATAAAGAAATTTACTCGAGACTAAG-TGATAGGTAAACAAGGGATGAAAGGT
* * * *** *
1568656 TGACTAAGTTTGAACTGATATGTCAACAAAGGGTAAGGGAGTTTACCAAGGACTGAGTTGACAAG
65 TGACCAAGGTTGAACTGATAAGTCAACAAAGGGTAAGGGAGTTTACCAAGGACTGAGCCAAAAAG
* * *
1568721 AAAACAAGGATGAAAAGGTTGACCAAGGCTGAAGTGAT
130 TAAACAGGGATGAAAAGGTTGACCAAGGCTGAACTGAT
* * *
1568759 AAGTCAATAAAGGATGAAGAAATTTACTCGGGACTAAGCTGATAGGTAAACAAGGGATGAAAGAT
1 AAGTCAATAAAGGATAAAGAAATTTACTCGAGACTAAG-TGATAGGTAAACAAGGGATGAAAGGT
* * * * *
1568824 TGACCACGGTTGAA-TCGATAAGTCAACAAAGGGTAAAGGAGTTTGCCAAGGACTAAGCCAATAA
65 TGACCAAGGTTGAACT-GATAAGTCAACAAAGGGTAAGGGAGTTTACCAAGGACTGAGCCAAAAA
* *
1568888 GTAAATAGAGATGAAAA
129 GTAAACAGGGATGAAAA
1568905 TGTTAACAAT
Statistics
Matches: 272, Mismatches: 40, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
167 1 0.00
168 270 0.99
169 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.19
Consensus pattern (167 bp):
AAGTCAATAAAGGATAAAGAAATTTACTCGAGACTAAGTGATAGGTAAACAAGGGATGAAAGGTT
GACCAAGGTTGAACTGATAAGTCAACAAAGGGTAAGGGAGTTTACCAAGGACTGAGCCAAAAAGT
AAACAGGGATGAAAAGGTTGACCAAGGCTGAACTGAT
Found at i:1568776 original size:42 final size:41
Alignment explanation
Indices: 1568471--1568773 Score: 139
Period size: 42 Copynumber: 7.2 Consensus size: 41
1568461 TCGATAGGTA
* * * **
1568471 AACAAGGGATGAAAGGTTGACCAAGGTTGAACCGATAAGTC
1 AACAAAGGATAAAAGGTTGACCAAGGCTGAAGTGATAAGTC
* ** * ** * *
1568512 AACAAAGGGTAAGGGAGTTTACCAAGGACTG-AGCCAAAAAGTA
1 AACAAAGGATAAAAG-GTTGACCAAGG-CTGAAG-TGATAAGTC
* *
1568555 AAC-AGGGATGAAAAGGTTGACCAAGGCTGAACTGATAAGTC
1 AACAAAGGAT-AAAAGGTTGACCAAGGCTGAAGTGATAAGTC
** * ** * * *
1568596 AACAAAGGATAAAGAAATTTACTTGAGACT-AAGATGACAAGTA
1 AACAAAGGATAAA-AGGTTGAC-CAAGGCTGAAG-TGATAAGTC
* * ** * *
1568639 AACAAGGGATAAAAGGTTGACTAAGTTTGAACTGATATGTC
1 AACAAAGGATAAAAGGTTGACCAAGGCTGAAGTGATAAGTC
* ** * * **
1568680 AACAAAGGGTAAGGGAGTTTACCAAGGACTG-AGTTGACAAGAA
1 AACAAAGGATAAAAG-GTTGACCAAGG-CTGAAG-TGATAAGTC
1568723 AAC-AAGGATGAAAAGGTTGACCAAGGCTGAAGTGATAAGTC
1 AACAAAGGAT-AAAAGGTTGACCAAGGCTGAAGTGATAAGTC
*
1568764 AATAAAGGAT
1 AACAAAGGAT
1568774 GAAGAAATTT
Statistics
Matches: 183, Mismatches: 63, Indels: 31
0.66 0.23 0.11
Matches are distributed among these distances:
41 56 0.31
42 77 0.42
43 50 0.27
ACGTcount: A:0.43, C:0.12, G:0.27, T:0.18
Consensus pattern (41 bp):
AACAAAGGATAAAAGGTTGACCAAGGCTGAAGTGATAAGTC
Found at i:1569459 original size:44 final size:44
Alignment explanation
Indices: 1569418--1569590 Score: 140
Period size: 44 Copynumber: 3.9 Consensus size: 44
1569408 ATCTGACCGA
1569418 GGTGGTAACCATATGTTAGACCAAAAT-AAGAAGAGTTTGACCAG
1 GGTGGTAACCATATGTTA-ACCAAAATGAAGAAGAGTTTGACCAG
* ** ** * * *
1569462 GGTGGTAGCCATACATTAAATAGAAATGAGGTAGA-TTTGACCAA
1 GGTGGTAACCATATGTTAACCA-AAATGAAGAAGAGTTTGACCAG
* * * * *
1569506 GGTTGTAACCATATGTCTAATCAGAATGAA-AAGAATTTGACTAG
1 GGTGGTAACCATATGT-TAACCAAAATGAAGAAGAGTTTGACCAG
*
1569550 GGTGGTACCCATATGTTAGACCAAAATG-AGAA-ACGTTTGAC
1 GGTGGTAACCATATGTTA-ACCAAAATGAAGAAGA-GTTTGAC
1569591 TAGATCCTAA
Statistics
Matches: 98, Mismatches: 24, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
43 9 0.09
44 80 0.82
45 9 0.09
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (44 bp):
GGTGGTAACCATATGTTAACCAAAATGAAGAAGAGTTTGACCAG
Found at i:1569490 original size:88 final size:88
Alignment explanation
Indices: 1569398--1569562 Score: 192
Period size: 88 Copynumber: 1.9 Consensus size: 88
1569388 ATCAAATTAG
* *
1569398 AATGA-AAAGAATCTGACCGAGGTGGTAACCATATGT-TAGACCAAAAT-AAGAAGAGTTTGACC
1 AATGAGAAAG-ATCTGACCAAGGTGGTAACCATATGTCTA-ACCAAAATGAA-AAGAATTTGACC
*
1569460 AGGGTGGTAGCCATACATTAAATAGA
63 AGGGTGGTACCCATACATTAAATAGA
** * * * * *
1569486 AATGAGGTAGATTTGACCAAGGTTGTAACCATATGTCTAATCAGAATGAAAAGAATTTGACTAGG
1 AATGAGAAAGATCTGACCAAGGTGGTAACCATATGTCTAACCAAAATGAAAAGAATTTGACCAGG
1569551 GTGGTACCCATA
66 GTGGTACCCATA
1569563 TGTTAGACCA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
88 58 0.91
89 6 0.09
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (88 bp):
AATGAGAAAGATCTGACCAAGGTGGTAACCATATGTCTAACCAAAATGAAAAGAATTTGACCAGG
GTGGTACCCATACATTAAATAGA
Found at i:1569655 original size:47 final size:47
Alignment explanation
Indices: 1569584--1569694 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 47
1569574 AATGAGAAAC
* * * * * * *
1569584 GTTTGACTAGATCCTAATGCCAATATAGTCAAATGAGGGTGGAAAGA
1 GTTTGACCAGATCTTAAAGTCAATACAATCAAATGAGGGTAGAAAGA
*
1569631 GTTTGATCAGATCTTAAAGTCAATACAATCAAATGAGGGTAGAAAGA
1 GTTTGACCAGATCTTAAAGTCAATACAATCAAATGAGGGTAGAAAGA
*
1569678 GTTTGACCAGATTTTAA
1 GTTTGACCAGATCTTAA
1569695 CGCTAATAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (47 bp):
GTTTGACCAGATCTTAAAGTCAATACAATCAAATGAGGGTAGAAAGA
Found at i:1569762 original size:35 final size:35
Alignment explanation
Indices: 1569715--1570312 Score: 478
Period size: 35 Copynumber: 16.6 Consensus size: 35
1569705 TCAAACGATG
* *
1569715 ATGATGAAGGAAAGAGTTTGACCAGATATAGTCAA
1 ATGATGATGGAAAGAGTTTGACCAGATACAGTCAA
* * *
1569750 ATGATGATGGAAAAAGTTTGACCAGATATAGTTAA
1 ATGATGATGGAAAGAGTTTGACCAGATACAGTCAA
* * * *
1569785 ACGATGATGGAAAAAGTTTGACCAGATACAATAAA
1 ATGATGATGGAAAGAGTTTGACCAGATACAGTCAA
* * *
1569820 ACGATGATGGAAAAAGTTTAACCAGATACAGTCAA
1 ATGATGATGGAAAGAGTTTGACCAGATACAGTCAA
* * * *
1569855 ATGATAATGGAAAGGGTTTGACTAGATACAGTTAA
1 ATGATGATGGAAAGAGTTTGACCAGATACAGTCAA
* * * * * *
1569890 ATGATAAGGGAAAAAGTTTAATCAGATATAGTCAA
1 ATGATGATGGAAAGAGTTTGACCAGATACAGTCAA
* * *
1569925 ACGATGATGGAAAGGGTTTGACCAGATATAGTCAA
1 ATGATGATGGAAAGAGTTTGACCAGATACAGTCAA
** *** * *
1569960 ACAATGACAAAAAAAGTTTGAGCAGATACAGTCAA
1 ATGATGATGGAAAGAGTTTGACCAGATACAGTCAA
**
1569995 ACCATGATGGAAAGAGTTTGACCAGATACAGTCAA
1 ATGATGATGGAAAGAGTTTGACCAGATACAGTCAA
* * * *
1570030 AAGATGGTGGGAAGAGTTTGACCAGATATAGTCAAACA
1 ATGATGATGGAAAGAGTTTGACCAGATACAGTC--A-A
* * *
1570068 ATGATGATGATTAAAAGAGTTTAACCAGATACTGTCAAACA
1 ATGATGATG---GAAAGAGTTTGACCAGATACAGTC--A-A
* * *
1570109 ATGATGATGATGAAAAGAGTTTGACCATATAAAGTTAA
1 ATGATGATG--G-AAAGAGTTTGACCAGATACAGTCAA
* * * *
1570147 ATGATAATGCTAATGAAAAAAGTTTGACCAGATACAATTAA
1 ATG---ATG---ATGGAAAGAGTTTGACCAGATACAGTCAA
* * *
1570188 ATGATGATGGAAAAAGTTTGCCCAGATACAATCAA
1 ATGATGATGGAAAGAGTTTGACCAGATACAGTCAA
* * * * *
1570223 ACGATGATGGAAAGGGTTTAACCAAATATAGTCAA
1 ATGATGATGGAAAGAGTTTGACCAGATACAGTCAA
**
1570258 ATGATGATGGAAAGAGTTT-AGTTAGATACAGTCAA
1 ATGATGATGGAAAGAGTTTGA-CCAGATACAGTCAA
* *
1570293 ACGATGGTGGAAAGAGTTTG
1 ATGATGATGGAAAGAGTTTG
1570313 TTTGGTAAGA
Statistics
Matches: 459, Mismatches: 89, Indels: 29
0.80 0.15 0.05
Matches are distributed among these distances:
34 1 0.00
35 359 0.78
37 1 0.00
38 15 0.03
39 1 0.00
40 1 0.00
41 78 0.17
44 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.24
Consensus pattern (35 bp):
ATGATGATGGAAAGAGTTTGACCAGATACAGTCAA
Found at i:1570098 original size:41 final size:41
Alignment explanation
Indices: 1569998--1570181 Score: 166
Period size: 41 Copynumber: 4.6 Consensus size: 41
1569988 CAGTCAAACC
* *
1569998 ATGATGGAAAGAGTTTGACCAGATACAGTC-AA-AA-GATG
1 ATGATGAAAAGAGTTTGACCAGATACTGTCAAACAATGATG
**
1570036 --G-TGGGAAGAGTTTGACCAGATA-TAGTCAAACAATGATG
1 ATGATGAAAAGAGTTTGACCAGATACT-GTCAAACAATGATG
* *
1570074 ATGATTAAAAGAGTTTAACCAGATACTGTCAAACAATGATG
1 ATGATGAAAAGAGTTTGACCAGATACTGTCAAACAATGATG
* ** * ** *
1570115 ATGATGAAAAGAGTTTGACCATATAAAGTTAAATGATAATG
1 ATGATGAAAAGAGTTTGACCAGATACTGTCAAACAATGATG
* * *
1570156 CTAATGAAAAAAGTTTGACCAGATAC
1 ATGATGAAAAGAGTTTGACCAGATAC
1570182 AATTAAATGA
Statistics
Matches: 118, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
35 23 0.19
36 3 0.03
37 2 0.02
38 4 0.03
40 1 0.01
41 84 0.71
42 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.25
Consensus pattern (41 bp):
ATGATGAAAAGAGTTTGACCAGATACTGTCAAACAATGATG
Found at i:1572660 original size:20 final size:20
Alignment explanation
Indices: 1572631--1572669 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1572621 TACTCTCTGC
1572631 ATTTTCTTTT-TTATTTCATG
1 ATTTTCTTTTCTT-TTTCATG
*
1572651 ATTTTTTTTTCTTTTTCAT
1 ATTTTCTTTTCTTTTTCAT
1572670 TTTTCATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (20 bp):
ATTTTCTTTTCTTTTTCATG
Found at i:1572664 original size:25 final size:26
Alignment explanation
Indices: 1572632--1572687 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
1572622 ACTCTCTGCA
1572632 TTTTCTTTTT-TATTTCATGATTTTT
1 TTTTCTTTTTATATTTCATGATTTTT
* *
1572657 TTTTCTTTTTCATTTTTCATGCTTTTT
1 TTTTCTTTTT-ATATTTCATGATTTTT
1572684 TTTT
1 TTTT
1572688 GTGTGTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 10 0.37
27 17 0.63
ACGTcount: A:0.09, C:0.11, G:0.04, T:0.77
Consensus pattern (26 bp):
TTTTCTTTTTATATTTCATGATTTTT
Found at i:1580976 original size:36 final size:36
Alignment explanation
Indices: 1580927--1581004 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
1580917 TTCAATTTGA
* *
1580927 AAAAGA-AAGGCTCCATAATCACAAGTATTTCTAAG
1 AAAAGATAAAGCTCCATAATCACAACTATTTCTAAG
*
1580962 AAAAGATAAAGCTCCATAATCACAACTATTTTTAAG
1 AAAAGATAAAGCTCCATAATCACAACTATTTCTAAG
*
1580998 AGAAGAT
1 AAAAGAT
1581005 TAGTTCTTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
35 6 0.16
36 32 0.84
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.24
Consensus pattern (36 bp):
AAAAGATAAAGCTCCATAATCACAACTATTTCTAAG
Found at i:1584948 original size:28 final size:27
Alignment explanation
Indices: 1584909--1584990 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 27
1584899 TAATGTTTTG
*
1584909 GAGATAATAACGAGGTTGGAGTGTTCCCT
1 GAGA-AATAACGAGGTTGGAGT-ATCCCT
* *
1584938 CG-GAAGTAACGGGGTTGGAGTATCCCT
1 -GAGAAATAACGAGGTTGGAGTATCCCT
1584965 GATGAAATAACGAGGTTGGAGTATCC
1 GA-GAAATAACGAGGTTGGAGTATCC
1584991 TCGATTGTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 5 0.11
28 36 0.80
29 2 0.04
30 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (27 bp):
GAGAAATAACGAGGTTGGAGTATCCCT
Found at i:1585188 original size:27 final size:28
Alignment explanation
Indices: 1585125--1585200 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
1585115 AAAATAAAGT
*
1585125 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
1585153 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1585180 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1585201 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1587682 original size:13 final size:13
Alignment explanation
Indices: 1587664--1587689 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1587654 ACAAAGATCC
1587664 ATGTATCGATACA
1 ATGTATCGATACA
1587677 ATGTATCGATACA
1 ATGTATCGATACA
1587690 CAGAAAAATG
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:1587685 original size:33 final size:33
Alignment explanation
Indices: 1587643--1587709 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1587633 AAAATTTCCA
***
1587643 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1587676 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1587709 A
1 A
1587710 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1587753 original size:19 final size:18
Alignment explanation
Indices: 1587729--1587796 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1587719 CAGTAGCCAA
1587729 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1587748 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1587763 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1587780 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1587797 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1587769 original size:13 final size:13
Alignment explanation
Indices: 1587751--1587775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1587741 ACAATACTTA
1587751 TGTATCGATACAT
1 TGTATCGATACAT
1587764 TGTATCGATACA
1 TGTATCGATACA
1587776 AAACTTATGT
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:1587773 original size:32 final size:32
Alignment explanation
Indices: 1587732--1587794 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1587722 TAGCCAATTA
*
1587732 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1587764 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1587795 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1588541 original size:21 final size:21
Alignment explanation
Indices: 1588517--1588559 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1588507 GCTATCGCCA
1588517 ACAAAATGTATCGATACATTC
1 ACAAAATGTATCGATACATTC
* *
1588538 ACAAGATGTATTGATACATTC
1 ACAAAATGTATCGATACATTC
1588559 A
1 A
1588560 GTCCTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (21 bp):
ACAAAATGTATCGATACATTC
Found at i:1588973 original size:37 final size:32
Alignment explanation
Indices: 1588925--1589015 Score: 96
Period size: 32 Copynumber: 2.7 Consensus size: 32
1588915 AATTGTTTAC
*
1588925 CTTT-AAGGCTAAGGTATAACCT-TACAACCCTAT
1 CTTTCAAGGCTAAGGTAGAACCTGTAC-A--CTAT
*
1588958 CTTTTACAAAGGCTAAGATAGAACCTGTACACTAT
1 C-TTT-C-AAGGCTAAGGTAGAACCTGTACACTAT
1588993 CTTTCAAGGCTAAGGTAGAACCT
1 CTTTCAAGGCTAAGGTAGAACCT
1589016 CTTAATCACT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
32 17 0.34
33 2 0.04
34 6 0.12
35 5 0.10
37 17 0.34
38 3 0.06
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (32 bp):
CTTTCAAGGCTAAGGTAGAACCTGTACACTAT
Found at i:1591106 original size:20 final size:19
Alignment explanation
Indices: 1591081--1591168 Score: 89
Period size: 20 Copynumber: 4.8 Consensus size: 19
1591071 TGTATCGATA
1591081 CATTGTATCGATACATTGCT
1 CATTGTATCGATACATT-CT
1591101 CATTGTATCGAT--A----
1 CATTGTATCGATACATTCT
1591114 CATTGTATCGATACATTGCT
1 CATTGTATCGATACATT-CT
*
1591134 CATTGTATCGATACATTTT
1 CATTGTATCGATACATTCT
*
1591153 ACAATGTATCGATACA
1 -CATTGTATCGATACA
1591169 GTCAGGCATT
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
13 12 0.21
15 1 0.02
18 1 0.02
19 1 0.02
20 43 0.74
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (19 bp):
CATTGTATCGATACATTCT
Found at i:1591113 original size:33 final size:33
Alignment explanation
Indices: 1591071--1591150 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
1591061 TTTACCCAGA
1591071 TGTATCGATACATTGTATCGATACATTGCTCAT
1 TGTATCGATACATTGTATCGATACATTGCTCAT
1591104 TGTATCGATACATTGTATCGATACATTGCTCAT
1 TGTATCGATACATTGTATCGATACATTGCTCAT
1591137 TGTATCGATACATT
1 TGTATCGATACATT
1591151 TTACAATGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACATTGCTCAT
Found at i:1591150 original size:13 final size:13
Alignment explanation
Indices: 1591071--1591131 Score: 80
Period size: 13 Copynumber: 5.2 Consensus size: 13
1591061 TTTACCCAGA
1591071 TGTATCGATACAT
1 TGTATCGATACAT
1591084 TGTATCGATACAT
1 TGTATCGATACAT
1591097 TG---C--T-CAT
1 TGTATCGATACAT
1591104 TGTATCGATACAT
1 TGTATCGATACAT
1591117 TGTATCGATACAT
1 TGTATCGATACAT
1591130 TG
1 TG
1591132 CTCATTGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 5 0.12
8 1 0.02
10 2 0.05
12 1 0.02
13 33 0.79
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1593551 original size:51 final size:51
Alignment explanation
Indices: 1593461--1593694 Score: 319
Period size: 51 Copynumber: 4.6 Consensus size: 51
1593451 AAATTTCTAG
* * * * * *
1593461 ATTTTTCAT-CTCGGGGATACTCTAA-TCCCGGTTTCATTTCCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACACCC
* *
1593511 ATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCC
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCC
* *
1593562 ATTTTTAATAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCC
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCC
* *
1593613 ATTTTTCATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAACACCG
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCC
* *
1593664 ACTTTTCACAATCGGGGATACTCCAACTCCG
1 ATTTTTCATAATCGGGGATACTCCAACTCCG
1593695 TTATTTCTGA
Statistics
Matches: 165, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
50 8 0.05
51 156 0.95
52 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.35
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCC
Found at i:1593863 original size:78 final size:78
Alignment explanation
Indices: 1593626--1593922 Score: 362
Period size: 79 Copynumber: 3.8 Consensus size: 78
1593616 TTTCATAATC
* * * * *
1593626 GGGGATACTCCAACTCTGATTTTATTTCCAAAACACCGACTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACC-AATTTTCACAATCGGGGATACTCCAAC
*
1593691 TCCGTTA-TTTCTGA
65 CCCGTTATTTTC-GA
* * * * ** * *
1593705 GGGGACACTCTAACCCCAGTTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTT-TCACAATCGGGGATACTCCAAC
* *
1593770 CCCATTATTTCCGA
65 CCCGTTATTTTCGA
* * * *
1593784 GGGGATATTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCATAATCGAGGATACTCCAACC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCACAATCGGGGATACTCCAACC
1593849 CCGTTATTTTCGA
66 CCGTTATTTTCGA
*
1593862 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATT-TTCACAATCGGGGATACTC
1593923 AAACTCCGAT
Statistics
Matches: 184, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
78 75 0.41
79 106 0.58
80 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCACAATCGGGGATACTCCAACC
CCGTTATTTTCGA
Found at i:1593913 original size:157 final size:158
Alignment explanation
Indices: 1593626--1593922 Score: 402
Period size: 157 Copynumber: 1.9 Consensus size: 158
1593616 TTTCATAATC
* * * *
1593626 GGGGATACTCCAACTCTGATTTTATTTCCAAAACACCGACTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGAATTTTCACAATCGAGGATACTCCAAC
* * * ** *
1593691 TCCGTTATTTCTGAGGGGACACTCTAACCCCAGTTTTATTTCTAAAATATTAATTTCTCATAATC
66 CCCGTTATTTCTGAGGGGACACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTCTCACAATC
1593756 GGGGATACTCTAACCCCATTATTTCCGA
131 GGGGATACTCTAACCCCATTATTTCCGA
* * * * *
1593784 GGGGATATTCCAACCCCGGTTTTATTTCTAAAACATC-AATTTTCATAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGAATTTTCACAATCGAGGATACTCCAAC
* *
1593848 CCCGTTATTT-TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAA-TTCTCCACAA
66 CCCGTTATTTCT-GAGGGGACACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTCT-CACAA
1593911 TCGGGGATACTC
129 TCGGGGATACTC
1593923 AAACTCCGAT
Statistics
Matches: 120, Mismatches: 17, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
156 5 0.04
157 84 0.70
158 31 0.26
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGAATTTTCACAATCGAGGATACTCCAAC
CCCGTTATTTCTGAGGGGACACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTCTCACAATC
GGGGATACTCTAACCCCATTATTTCCGA
Found at i:1593938 original size:51 final size:51
Alignment explanation
Indices: 1593862--1593981 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
1593852 TTATTTTCGA
* *
1593862 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCAAACCCCGATTTTATTTTC-AAAACACCAATTCTCCACAATC
* * * *
1593913 GGGGATACTCAAACTCCGATTTTATTTTCAAAACACTAATTTTTCACAATC
1 GGGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTCTCCACAATC
* *
1593964 GGGGATACGCCAACCCCG
1 GGGGATACTCAAACCCCG
1593982 TTATTTCATC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 55 0.93
52 4 0.07
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (51 bp):
GGGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTCTCCACAATC
Found at i:1593995 original size:79 final size:79
Alignment explanation
Indices: 1593910--1594060 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 79
1593900 ATTCTCCACA
* * * * *
1593910 ATCGGGGATACTCAAACTCCGATTTTATTTTCAAAACACTAATTTTTCACAATCGGGGATACGCC
1 ATCGGGGATACTCAAACCCCGACTTTATTTCCAAAACACTAATTTCTCACAATCAGGGATACGCC
1593975 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* * * * * **
1593989 ATCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCAGGGATACTTC
1 ATCGGGGATACTCAAACCCCGACTTTATTTCCAAAACACTAATTTCTCACAATCAGGGATACGCC
1594054 AACCCCG
66 AACCCCG
1594061 GCCTTATTTC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 60 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCAAACCCCGACTTTATTTCCAAAACACTAATTTCTCACAATCAGGGATACGCC
AACCCCGTTATTTC
Found at i:1594057 original size:51 final size:51
Alignment explanation
Indices: 1593993--1594108 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
1593983 TATTTCATCG
*
1593993 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCA
1 GGGATACTCCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
* *
1594044 GGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATC-
1 GGGATACTCCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
*
1594094 GTGGACACTCCAACC
1 G-GGATACTCCAACC
1594109 TTGTTATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 1 0.02
51 58 0.98
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
Found at i:1594158 original size:130 final size:130
Alignment explanation
Indices: 1593785--1594138 Score: 398
Period size: 130 Copynumber: 2.7 Consensus size: 130
1593775 TATTTCCGAG
* *
1593785 GGGATA-TTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCATAATCGAGGATACTCCAACC
1 GGGATACTT-CAACCCCGGTTTTATTTCTAAAACATTAATTTTCACAATCGAGGATACTCCAACC
* * *
1593849 CCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA-CCAATTCTCCACAATC
65 CCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTCAATTCTCCACAATC
*
1593913 G
130 A
* * * * *
1593914 GGGATAC-TCAAACTCCGATTTTATTT-TCAAAACACTAATTTTTCACAATCGGGGATACGCCAA
1 GGGATACTTC-AACCCCGGTTTTATTTCT-AAAACATTAA-TTTTCACAATCGAGGATACTCCAA
* * *
1593977 CCCCGTTA-TTTC-ATCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCT-CAC
63 CCCCGTTATTTTCGA--GGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTCAATTCTCCAC
1594039 AATCA
126 AATCA
** * * * *
1594044 GGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCGTGGACACTCCAACC
1 GGGATACTTCAACCCCGGTTTTATTTCTAAAACATTAATTT-TCACAATCGAGGATACTCCAACC
**
1594109 TTGTTATTTTCGAGGGGATACTCCAACCCC
65 CCGTTATTTTCGAGGGGATACTCCAACCCC
1594139 ATTATTATCC
Statistics
Matches: 187, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
128 3 0.02
129 36 0.19
130 135 0.72
131 12 0.06
132 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (130 bp):
GGGATACTTCAACCCCGGTTTTATTTCTAAAACATTAATTTTCACAATCGAGGATACTCCAACCC
CGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTCAATTCTCCACAATCA
Found at i:1606453 original size:1 final size:1
Alignment explanation
Indices: 1606447--1606499 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
1606437 CTTCTTTTCT
* * * * * *
1606447 AAAAAAAAAAACAAAAAAAAAACAAAAACAAAAAAAACAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1606500 GAGAGAAAAG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:1606464 original size:9 final size:9
Alignment explanation
Indices: 1606450--1606499 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
1606440 CTTTTCTAAA
1606450 AAAAAAAAC
1 AAAAAAAAC
1606459 AAAAAAAA-
1 AAAAAAAAC
*
1606467 AACAAAAAC
1 AAAAAAAAC
1606476 AAAAAAAAC
1 AAAAAAAAC
* *
1606485 AAAACAAAG
1 AAAAAAAAC
1606494 AAAAAA
1 AAAAAA
1606500 GAGAGAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 7 0.20
9 28 0.80
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1606473 original size:17 final size:17
Alignment explanation
Indices: 1606447--1606499 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
1606437 CTTCTTTTCT
1606447 AAAAAA-AAAAACAAAA
1 AAAAAACAAAAACAAAA
1606463 AAAAAACAAAAAC--AA
1 AAAAAACAAAAACAAAA
1606478 AAAAAAC-AAAACAAAGA
1 AAAAAACAAAAACAAA-A
1606495 AAAAA
1 AAAAA
1606500 GAGAGAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
14 5 0.15
15 9 0.27
16 7 0.21
17 12 0.36
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAACAAAAACAAAA
Found at i:1607769 original size:55 final size:55
Alignment explanation
Indices: 1607593--1608244 Score: 709
Period size: 55 Copynumber: 11.3 Consensus size: 55
1607583 TTCTCCCTTT
*
1607593 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
*
1607648 TAGTCCTCAAAGAGCAGGACGCATTTTCCTTTCAAAGCCCACACAAGTGGGTGGCA-TTTTC
1 -AGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * *
1607709 TAGTCCTTAAAGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
1607765 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA----CTTTTC
* * * **
1607824 GGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* **
1607879 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACATGAGTTGGTGGCA-TTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
*
1607933 TAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 -AGTCCTCAAAGAGCAGGACGCC-TTTC-----AAAGCCCACACAAGTTGGTGGCACTTTT-C
* * *
1607995 AATCCTCAAAGAGCATGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * *
1608050 AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTAGGTGGTATTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
1608105 AGTCCTCAAAGAGTAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
1608166 AGTCCTCAAAGAGCAAGACGCCTTTCCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
*
1608227 AGTCCTTAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1608245 TGCACTTTAT
Statistics
Matches: 513, Mismatches: 49, Indels: 63
0.82 0.08 0.10
Matches are distributed among these distances:
54 5 0.01
55 229 0.45
56 32 0.06
57 1 0.00
59 51 0.10
60 5 0.01
61 157 0.31
62 32 0.06
63 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:1608025 original size:116 final size:116
Alignment explanation
Indices: 1607592--1608244 Score: 674
Period size: 116 Copynumber: 5.7 Consensus size: 116
1607582 TTTCTCCCTT
* *
1607592 TAGTCCTCAAAGAGCAGGAC-GC---CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTC
1 TAGTCCTCAAAGAGCAGGACACCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTC
* *
1607653 CTCAAAGAGCAGGACGCATTTTCCTTTCAAAGCCCACACAAGTGGGTGGCATTTTC
66 CTCAAAGAGCAGGACGC---CT-C-TTCAAAGCCCACACAAGTTGGTGGCATTTTC
* * * * *
1607709 TAGTCCTTAAAGAGCAGG--A-C-GTCTTTCAAAGCCCACATAAGTTGGTGGCACCTTT-CAGTC
1 TAGTCCTCAAAGAGCAGGACACCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTC
*
1607769 CTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTTTTTT
66 CTCAAAGAGCAGGACGCCTCTTCAAAGCCCACACAAGTTGGTGGCA----TTTTC
* *
1607823 TGGTCCTCAAAGAGCAGGACA-C---CTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCCAGTC
1 TAGTCCTCAAAGAGCAGGACACCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTC
* **
1607883 CTCAAAGAGCAGGACACCT-TTCAAAGCCCACATGAGTTGGTGGCATTTTC
66 CTCAAAGAGCAGGACGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTC
*
1607933 TAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAA
1 TAGTCCTCAAAGAGCAGGACACC-TTTC-TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAG
*
1607997 TCCTCAAAGAGCATGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCATTTT-
64 TCCTCAAAGAGCAGGACGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTC
* * * * *
1608048 TCAGTCCTCAAAGAGCAAGACGCCTTTC----AAAGCCCACACAAGTAGGTGGTA-TTTTTCAGT
1 T-AGTCCTCAAAGAGCAGGACACCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGT
* * *
1608108 CCTCAAAGAGTAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTC
65 CCTCAAAGAGCAGGACGC---CTC-TT-CAAAGCCCACACAAGTTGGTGGCA-TTTTC
* * * *
1608166 -AGTCCTCAAAGAGCAAGACGCCTTTCCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-TAG
1 TAGTCCTCAAAGAGCAGGACACCTTT--CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAG
*
1608229 TCCTTAAAGAGCAGGA
64 TCCTCAAAGAGCAGGA
1608245 TGCACTTTAT
Statistics
Matches: 463, Mismatches: 39, Indels: 63
0.82 0.07 0.11
Matches are distributed among these distances:
110 92 0.20
111 1 0.00
113 6 0.01
114 96 0.21
115 7 0.02
116 167 0.36
117 52 0.11
118 1 0.00
122 37 0.08
123 4 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (116 bp):
TAGTCCTCAAAGAGCAGGACACCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTC
CTCAAAGAGCAGGACGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTC
Found at i:1608076 original size:171 final size:175
Alignment explanation
Indices: 1607615--1608244 Score: 713
Period size: 171 Copynumber: 3.6 Consensus size: 175
1607605 GCAGGACGCC
* * *
1607615 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCATTTTCCTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTTCCAGTCCTCAAAGAGCAGGACGC---CTCCTTT
* * *
1607680 CAAAGCCCACACAAGTGGGTGGCA-TTTTCTAGTCCTTAAAGAGCAGGACGTCTTTCAAAGCCCA
63 CAAAGCCCACACAAGTTGGTGGCATTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCA
* *
1607744 CATAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGCC-TTTC-
127 CATAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCT
*** *
1607791 ----AAAGCCCACACAAGTTGGTGGCATTTTTTTTTTGGTCCTCAAAGAGCAGGACACCT--TTT
1 TTTTAAAGCCCACACAAGTTGGTGGCA---TTTTTCCAGTCCTCAAAGAGCAGGACGCCTCCTTT
* ** *
1607850 -AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCAC
63 CAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCAC
*
1607914 ATGAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCT
128 ATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCT
* *
1607962 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTCAAAGAGCATGACGCCT-C-TT-AA
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTTCCAGTCCTCAAAGAGCAGGACGCCTCCTTTCAA
* *
1608023 AGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACA
66 AGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATA
* * * **
1608088 AGTAGGTGGTATTTT-TCAGTCCTCAAAGAGTAGGA-TGCTTTCTCT
131 AGTTGGTGGCATTTTCT-AGTCCTCAAAGAGCAGGACACCTTT-TCT
** ** *
1608133 TTGCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAAGACGCCTTTCCCTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTTCCAGTCCTCAAAGAGCAGGACGCC--T-CCTTT
*
1608197 CAAAGCCCACACAAGTTGGTGGCACTTTTT-AGTCCTTAAAGAGCAGGA
63 CAAAGCCCACACAAGTTGGTGGCA-TTTTTCAGTCCTCAAAGAGCAGGA
1608245 TGCACTTTAT
Statistics
Matches: 393, Mismatches: 39, Indels: 43
0.83 0.08 0.09
Matches are distributed among these distances:
168 4 0.01
169 88 0.22
170 15 0.04
171 164 0.42
172 27 0.07
173 1 0.00
175 48 0.12
176 2 0.01
177 39 0.10
178 5 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (175 bp):
TTTTAAAGCCCACACAAGTTGGTGGCATTTTTCCAGTCCTCAAAGAGCAGGACGCCTCCTTTCAA
AGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATA
AGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCT
Found at i:1609181 original size:20 final size:20
Alignment explanation
Indices: 1609156--1609242 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
1609146 TTTACCCAGA
*
1609156 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
1609176 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
1609196 TGTATCGAT--A-----CAT
1 TGTATCGATACATTGCTCAT
1609209 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
*
1609229 TGTATTGATACATT
1 TGTATCGATACATT
1609243 CAGGCATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
13 12 0.21
15 1 0.02
18 1 0.02
20 42 0.74
21 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:1609215 original size:33 final size:33
Alignment explanation
Indices: 1609173--1609242 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
1609163 ATACATTTTG
1609173 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
1609206 CATTGTATCGATACATTGCTCATTGTATTGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
1609239 CATT
1 CATT
1609243 CAGGCATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:1609242 original size:13 final size:13
Alignment explanation
Indices: 1609193--1609223 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1609183 ATACATTGCT
1609193 CATTGTATCGATA
1 CATTGTATCGATA
1609206 CATTGTATCGATA
1 CATTGTATCGATA
1609219 CATTG
1 CATTG
1609224 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1611626 original size:51 final size:51
Alignment explanation
Indices: 1611571--1611714 Score: 189
Period size: 51 Copynumber: 2.8 Consensus size: 51
1611561 TCCCGGTTTC
* *
1611571 ATTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAACTCCGATTTT
1 ATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAACTCCGATTTT
* * *
1611622 ATTTCTAAAACACCCATTTTCCATAATCGGGGATACTCCAACTCCGATTTT
1 ATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAACTCCGATTTT
* * * * * *
1611673 ATTTTCAAAATACCGACTTTTCACAATCAGGGATACTCCAAC
1 ATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1611715 CCCGTTATTT
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 80 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (51 bp):
ATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAACTCCGATTTT
Found at i:1611742 original size:79 final size:77
Alignment explanation
Indices: 1611650--1611951 Score: 345
Period size: 79 Copynumber: 3.8 Consensus size: 77
1611640 TTCCATAATC
* * *
1611650 GGGGATACTCCAACTCCGATTTTATTT-TCAAAATACCGACTTTTCACAATCAGGGATACTCCAA
1 GGGGATACTCCAAC-CCGATTTTATTTCT-AAAACACC-AATTTTCACAATCGGGGATACTCCAA
*
1611714 CCCCGTTATTTCCGA
63 CCCCGTTATTTTCGA
* * * ** * *
1611729 GGGGACACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTCTCATAACCGGGGATACTCCAAC
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACACCAATTT-TCACAATCGGGGATACTCCAAC
*
1611794 CCCATTATTTTCGA
64 CCCGTTATTTTCGA
* * * * *
1611808 GGGGATATTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAAC
1 GGGGATACTCCAACC-CGATTTTATTTCTAAAACACCAA-TTTTCACAATCGGGGATACTCCAAC
1611873 CCCGTTATTTTCGA
64 CCCGTTATTTTCGA
* *
1611887 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCGA-TTTTATTTCTAAAACACCAATT-TTCACAATCGGGGATACTCCAAC
1611952 TCCGATTTTA
Statistics
Matches: 192, Mismatches: 24, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
78 9 0.05
79 178 0.93
80 5 0.03
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (77 bp):
GGGGATACTCCAACCCGATTTTATTTCTAAAACACCAATTTTCACAATCGGGGATACTCCAACCC
CGTTATTTTCGA
Found at i:1611963 original size:51 final size:51
Alignment explanation
Indices: 1611887--1612005 Score: 170
Period size: 51 Copynumber: 2.3 Consensus size: 51
1611877 TTATTTTCGA
1611887 GGGGATACTCCAACCCCAGTTTTA-TTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCCCAGTTTTATTTTC-AAAACACCAATTCTCCACAATC
* * * *
1611938 GGGGATACTCCAACTCC-GATTTTATTTTCAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCAG-TTTTATTTTCAAAACACCAATTCTCCACAATC
1611989 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
1612006 GTTATTTCAT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 1 0.02
51 56 0.92
52 4 0.07
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTCTCCACAATC
Found at i:1612051 original size:28 final size:28
Alignment explanation
Indices: 1611989--1612058 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
1611979 TTTCACAATC
*
1611989 GGGGATACTCCAACCCCGTTATTTCATCA
1 GGGGATACTCCAACCCCATTATTTCA-CA
*
1612018 -GAGATACTCCAACCCCATTATTTC-CGA
1 GGGGATACTCCAACCCCATTATTTCAC-A
1612045 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1612059 TCCGGCTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 34 0.94
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTCACA
Found at i:1612093 original size:158 final size:158
Alignment explanation
Indices: 1611862--1612160 Score: 368
Period size: 158 Copynumber: 1.9 Consensus size: 158
1611852 CATAATCGAG
* * * *
1611862 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAAT
1 GATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCAAAACACCAAT
* * * ** *
1611927 TCTCCACAATCGGGGATACTCCAACTCCGATTTTATTT-TCAAAACACTAATTTTTCACAATCGG
66 TCTCCACAATCAGAGATACTCCAACCCCGACCTTATTTCT-AAAACACTAATTTCTCACAATCGG
*
1611991 GGATACTCCAACCCCGTTATTTCATCAGA
130 GGACACTCCAACCCCGTTATTTCATCAGA
* * * ***
1612020 GATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACTCCGGCTTTATTTCCAAAATATTGAT
1 GATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCAAAACACCAAT
* * * * *
1612085 T-TCTCACAATCAGAGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCGG
66 TCTC-CACAATCAGAGATACTCCAACCCCGACCTTATTTCTAAAACACTAATTTCTCACAATCGG
1612149 GGACACTCCAAC
130 GGACACTCCAAC
1612161 TTCATTATTT
Statistics
Matches: 117, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
157 2 0.02
158 114 0.97
159 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.30
Consensus pattern (158 bp):
GATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCAAAACACCAAT
TCTCCACAATCAGAGATACTCCAACCCCGACCTTATTTCTAAAACACTAATTTCTCACAATCGGG
GACACTCCAACCCCGTTATTTCATCAGA
Found at i:1612115 original size:51 final size:51
Alignment explanation
Indices: 1612048--1612160 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 51
1612038 TTTCCGAGGG
* *
1612048 GATACTCCAACTCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCAGA
1 GATACTCCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCAGA
* * * *
1612099 GATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCGGG
1 GATACTCCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCAGA
*
1612150 GACACTCCAAC
1 GATACTCCAAC
1612161 TTCATTATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
GATACTCCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCAGA
Found at i:1612197 original size:158 final size:157
Alignment explanation
Indices: 1611861--1612197 Score: 365
Period size: 158 Copynumber: 2.1 Consensus size: 157
1611851 TCATAATCGA
* * *
1611861 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAA
1 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCAAAACACCAA
* * * ** *
1611926 TTCTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCACAATCGG
66 TTCTCCACAATCAGAGATACTCCAACCCCGACCTTATTTTCAAAACACTAATTTCTCACAATCGG
* *
1611991 GGATACTCCAACCCCGTTATTTCATCAG
131 GGACACTCCAACCCCATTATTT-ATCAG
* * * * * ***
1612019 AGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACTCCGGCTTTATTTCCAAAATATTGA
1 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCAAAACACCAA
* * * * *
1612084 TT-TCTCACAATCAGAGATACTTCAACCCCGGCCTTA-TTTCTAAAATATTGATTTCTCACAATC
66 TTCTC-CACAATCAGAGATACTCCAACCCCGACCTTATTTTC-AAAACACTAATTTCTCACAATC
**
1612147 GGGGACACTCCAACTTCATTATTT-TCGAGG
129 GGGGACACTCCAACCCCATTATTTATC-A-G
*
1612177 GGATACTCCAACCTCGTTATT
1 GGATACTCCAACCCCGTTATT
1612198 ATCCCCAAAA
Statistics
Matches: 146, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
156 2 0.01
157 7 0.05
158 137 0.94
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (157 bp):
GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCAAAACACCAA
TTCTCCACAATCAGAGATACTCCAACCCCGACCTTATTTTCAAAACACTAATTTCTCACAATCGG
GGACACTCCAACCCCATTATTTATCAG
Found at i:1613990 original size:20 final size:21
Alignment explanation
Indices: 1613961--1614001 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1613951 TAATAGCAAA
* *
1613961 TATGTGTCAATACA-TTGGCC
1 TATGTCTCAACACATTTGGCC
1613981 TATGTCTCAACACATTTGGCC
1 TATGTCTCAACACATTTGGCC
1614002 ACATATTCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (21 bp):
TATGTCTCAACACATTTGGCC
Found at i:1617663 original size:15 final size:15
Alignment explanation
Indices: 1617643--1617674 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1617633 GTTAATGTGT
1617643 ATGTGTGGATCGTGA
1 ATGTGTGGATCGTGA
1617658 ATGTGTGGATCGTGA
1 ATGTGTGGATCGTGA
1617673 AT
1 AT
1617675 TAATATGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.06, G:0.38, T:0.34
Consensus pattern (15 bp):
ATGTGTGGATCGTGA
Found at i:1617847 original size:22 final size:21
Alignment explanation
Indices: 1617784--1617847 Score: 51
Period size: 22 Copynumber: 3.0 Consensus size: 21
1617774 AAAAACAGCT
* *
1617784 TAATAAAATA-AAAAATGACA
1 TAATAAAATATAAAAATAAAA
* *
1617804 TGATACAAAAATAATAAA-AAAA
1 TAATA-AAATATAA-AAATAAAA
1617826 TAATATAAATATAAAAATAAAA
1 TAATA-AAATATAAAAATAAAA
1617848 AAAATTGAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 4 0.12
21 7 0.21
22 19 0.58
23 3 0.09
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (21 bp):
TAATAAAATATAAAAATAAAA
Found at i:1619673 original size:33 final size:33
Alignment explanation
Indices: 1619604--1619667 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
1619594 TGTTTGTGAA
1619604 AAAAATAAGCACAAAGGAATACAAATGAGCTTTG
1 AAAAATAAGCACAAAGGAATACAAA-GAGCTTTG
1619638 AAAAATAA-CAACAAA-GAATACAAA-AGCTTT
1 AAAAATAAGC-ACAAAGGAATACAAAGAGCTTT
1619668 TTGAAATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 6 0.21
33 10 0.34
34 13 0.45
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.17
Consensus pattern (33 bp):
AAAAATAAGCACAAAGGAATACAAAGAGCTTTG
Found at i:1620187 original size:21 final size:21
Alignment explanation
Indices: 1620162--1620202 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1620152 ACTTTGGATT
1620162 ATTTTTA-CTTGAAAACATATG
1 ATTTTTATCTTGAAAA-ATATG
1620183 ATTTTTATCTTGAAAAATAT
1 ATTTTTATCTTGAAAAATAT
1620203 TTGTACTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (21 bp):
ATTTTTATCTTGAAAAATATG
Found at i:1620878 original size:47 final size:46
Alignment explanation
Indices: 1620809--1620901 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 46
1620799 AATTTTATAA
1620809 AACAAATTTATTACAAAATATCTCATCTCTCCCTCTTTTCATCTCTC
1 AACAAATTTATTACAAAATATCTCATCTC-CCCTCTTTTCATCTCTC
1620856 AACAAATTTATTACAAAATATCTCATCTCCCCTCTTTTCATCTCTC
1 AACAAATTTATTACAAAATATCTCATCTCCCCTCTTTTCATCTCTC
1620902 CCCCTTAGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 17 0.37
47 29 0.63
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (46 bp):
AACAAATTTATTACAAAATATCTCATCTCCCCTCTTTTCATCTCTC
Found at i:1627251 original size:3 final size:3
Alignment explanation
Indices: 1627243--1627268 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1627233 GTCAACTTTT
1627243 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
1627269 TTTGATGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:1629081 original size:19 final size:19
Alignment explanation
Indices: 1629057--1629109 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
1629047 TATATTAGTG
*
1629057 TGTATCGATACAATGAATA
1 TGTATCGATACAATGAACA
* *
1629076 TGTATCAATCCAATGAACA
1 TGTATCGATACAATGAACA
1629095 TGTATCGATACAATG
1 TGTATCGATACAATG
1629110 TATCAATACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (19 bp):
TGTATCGATACAATGAACA
Found at i:1630303 original size:2 final size:2
Alignment explanation
Indices: 1630298--1630331 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1630288 AGAGAGAGGA
1630298 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1630332 GAAGAGAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1630457 original size:14 final size:14
Alignment explanation
Indices: 1630438--1630486 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
1630428 AATATTTATA
1630438 TAAAATAAAAATTT
1 TAAAATAAAAATTT
*
1630452 TAAAATTATAAATATT
1 TAAAA-TAAAAAT-TT
* *
1630468 TAATATAAAAAATT
1 TAAAATAAAAATTT
1630482 TAAAA
1 TAAAA
1630487 AATAAATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 11 0.39
15 11 0.39
16 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAATAAAAATTT
Found at i:1630478 original size:30 final size:30
Alignment explanation
Indices: 1630437--1630528 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 30
1630427 AAATATTTAT
*
1630437 ATAAA-ATAAAAATTTTAAAATTATAAAT-A
1 ATAAATATAAAAATTTTAAAA-AATAAATAA
* * *
1630466 TTTAATATAAAAAATTTAAAAAATAAATAA
1 ATAAATATAAAAATTTTAAAAAATAAATAA
*
1630496 ATAAATATCAAAATATTTT-AAAAATAAAGAA
1 ATAAATAT-AAAA-ATTTTAAAAAATAAATAA
1630527 AT
1 AT
1630529 TATTATTAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
29 9 0.18
30 21 0.41
31 17 0.33
32 4 0.08
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (30 bp):
ATAAATATAAAAATTTTAAAAAATAAATAA
Found at i:1630482 original size:31 final size:32
Alignment explanation
Indices: 1630444--1630528 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 32
1630434 TATATAAAAT
* * *
1630444 AAAAATTTTAAAATTATAAAT-ATTTAATAT-A
1 AAAAATTTTAAAA-AATAAATAAATAAATATCA
1630475 AAAAA-TTTAAAAAATAAATAAATAAATATCA
1 AAAAATTTTAAAAAATAAATAAATAAATATCA
* *
1630506 AAATATTTT-AAAAATAAAGAAAT
1 AAAAATTTTAAAAAATAAATAAAT
1630529 TATTATTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
29 6 0.13
30 14 0.30
31 23 0.50
32 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (32 bp):
AAAAATTTTAAAAAATAAATAAATAAATATCA
Found at i:1638354 original size:17 final size:16
Alignment explanation
Indices: 1638319--1638363 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
1638309 TTAGAAGGTT
1638319 ATAAAAATAAAATATA
1 ATAAAAATAAAATATA
1638335 ATAAATAATGAAAA-ATA
1 ATAAA-AAT-AAAATATA
1638352 ATAAAAATAAAA
1 ATAAAAATAAAA
1638364 GTAAAAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.15
16 8 0.30
17 11 0.41
18 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
ATAAAAATAAAATATA
Found at i:1639433 original size:20 final size:21
Alignment explanation
Indices: 1639408--1639460 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
1639398 TTACAAGCCA
1639408 ATGTATCGATACAAT-TTGGG
1 ATGTATCGATACAATCTTGGG
* *
1639428 ATGTATCAATAC-ATCTTGTG
1 ATGTATCGATACAATCTTGGG
1639448 -TGTATCGATACAA
1 ATGTATCGATACAA
1639461 ATAGTTAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACAATCTTGGG
Found at i:1639548 original size:20 final size:21
Alignment explanation
Indices: 1639501--1639552 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
1639491 GCCAATCACC
*
1639501 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
1639522 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
1639542 TGTATCGATAC
1 TGTATCGATAC
1639553 TGTGCATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 13 0.48
21 13 0.48
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:1642097 original size:20 final size:21
Alignment explanation
Indices: 1642072--1642111 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1642062 AGTTTTCCAG
1642072 ATGTATCGATACATT-TGAAC
1 ATGTATCGATACATTCTGAAC
1642092 ATGTATCGATACATTCTGAA
1 ATGTATCGATACATTCTGAA
1642112 ATTTTTCCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACATTCTGAAC
Found at i:1646900 original size:20 final size:20
Alignment explanation
Indices: 1646871--1646945 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
1646861 AAAAAGACAT
*
1646871 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
1646891 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
1646911 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
1646931 AATGTATCGATACAT
1 AATGTATCGATACAT
1646946 CTAGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:1646939 original size:40 final size:39
Alignment explanation
Indices: 1646868--1646945 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1646858 GGTAAAAAGA
* *
1646868 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1646907 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1646946 CTAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1647581 original size:28 final size:28
Alignment explanation
Indices: 1647535--1648461 Score: 989
Period size: 28 Copynumber: 32.6 Consensus size: 28
1647525 CACTAACTTC
1647535 TGTGGGCTTT-AAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
* * *
1647563 TGTTGGCTTTCAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1647591 TGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** * * *
1647619 CATGGGCTTTGAAAAGTTGACACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* ** * *
1647647 CGTGGGCTTTGAAAAAATGCCCCCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1647675 TGTGGACATTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1647703 TGTGGGTTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1647731 TGTGGGCTTTGAAAAGATGCCA-TCGACT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * *
1647759 TGTGGTCTTTGAAAAGGGTTGCCACCGACT
1 TGTGGGCTTTG-AAA-GGATGCCACTGACT
* *
1647789 CGTGTGGGCTTTGAAAAGAGTGCCATTGACT
1 --TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
1647820 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1647848 TGTGGGCTTTGAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1647876 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1647904 TGTAGGCTTTGAAATGGGTTGCCACCGACTT
1 TGTGGGCTTTGAAA--GGATGCCACTGAC-T
1647935 GTGTGGGCTTTGAAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1647964 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * **
1647992 TATGGGCTTTGAAAAGTGTTGCCACCAACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
* *
1648022 CGTAGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1648050 TGTGGGCTTTGAAAAGGGTTGCCACCGACT
1 TGTGGGCTTTG-AAA-GGATGCCACTGACT
*
1648080 CGTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTGAAAGGA-TGCCACTGACT
1648111 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1648139 TGTGGGCTTTGAAAAGTACTGCCACCGAAT
1 TGTGGGCTTTG-AAAGGA-TGCCACTGACT
* *
1648169 CGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1648197 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1648225 TGTGGGCTTTGAAA-GAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
1648253 TGTGGGC-TTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
1648280 CGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
1648308 CGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
1648336 TGTAGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
1648364 TGTGGAC-TTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
1648391 CGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
1648419 CGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
1648447 CGTGGGC-TTGAAAGG
1 TGTGGGCTTTGAAAGG
1648462 GATGAACATT
Statistics
Matches: 763, Mismatches: 98, Indels: 78
0.81 0.10 0.08
Matches are distributed among these distances:
26 8 0.01
27 52 0.07
28 492 0.64
29 68 0.09
30 83 0.11
31 26 0.03
32 34 0.04
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:1649704 original size:12 final size:12
Alignment explanation
Indices: 1649677--1649725 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
1649667 GACCCTTTTC
*
1649677 TTTTTTTTGCTAT
1 TTTTTTTTGGT-T
*
1649690 TTTTTCTTGGTT
1 TTTTTTTTGGTT
*
1649702 TTTTTGTTTTGTT
1 TTTTT-TTTGGTT
1649715 TTTTTTTTGGT
1 TTTTTTTTGGT
1649726 GTAAAGGACG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.02, C:0.04, G:0.14, T:0.80
Consensus pattern (12 bp):
TTTTTTTTGGTT
Found at i:1663036 original size:40 final size:39
Alignment explanation
Indices: 1662965--1663040 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 39
1662955 GGTAAAAAGA
* *
1662965 CATAATGTATCGATACATTGCAGAATATATCGATACGTT
1 CATAATGTATCGATACATTGAAAAATATATCGATACGTT
* * *
1663004 CATACATGTATTGATATATTGAAAAATGTATCGATAC
1 CATA-ATGTATCGATACATTGAAAAATATATCGATAC
1663041 ATCTGGGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 4 0.13
40 27 0.87
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.34
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACGTT
Found at i:1665458 original size:30 final size:30
Alignment explanation
Indices: 1665424--1665487 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
1665414 AGGCCATCTT
1665424 TATCAAAGAATGCTCTTTGAGTTTCAAGCA
1 TATCAAAGAATGCTCTTTGAGTTTCAAGCA
1665454 TATCAAAGAATGCTCTTTGAGTTTCAAGCA
1 TATCAAAGAATGCTCTTTGAGTTTCAAGCA
1665484 TATC
1 TATC
1665488 GTTTAACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (30 bp):
TATCAAAGAATGCTCTTTGAGTTTCAAGCA
Found at i:1666178 original size:12 final size:12
Alignment explanation
Indices: 1666161--1666191 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1666151 TCTCAGTCAC
1666161 CATCATCATCCT
1 CATCATCATCCT
*
1666173 CATCATCATCTT
1 CATCATCATCCT
1666185 CATCATC
1 CATCATC
1666192 CTTGATGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.39, G:0.00, T:0.35
Consensus pattern (12 bp):
CATCATCATCCT
Found at i:1667632 original size:13 final size:13
Alignment explanation
Indices: 1667614--1667639 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1667604 CAATTTGGGA
1667614 TGTATCGATACAT
1 TGTATCGATACAT
1667627 TGTATCGATACAT
1 TGTATCGATACAT
1667640 CTTGTGTGTA
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:1667636 original size:33 final size:32
Alignment explanation
Indices: 1667594--1667657 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1667584 TACAAGCCAA
1667594 TGTATCGATACAAT-TTGGGATGTATCGATACAT
1 TGTATCGATAC-ATCTTGGG-TGTATCGATACAT
*
1667627 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
1667658 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:1667757 original size:13 final size:13
Alignment explanation
Indices: 1667739--1667763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1667729 ACATTTGGTC
1667739 ATGTATCGATACA
1 ATGTATCGATACA
1667752 ATGTATCGATAC
1 ATGTATCGATAC
1667764 TGTGCATTCT
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:1669636 original size:38 final size:37
Alignment explanation
Indices: 1669570--1669649 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 37
1669560 TTTCAATGCA
* *
1669570 TTTTATGTCATTAAGTCATTTTCGATGACTTAGAGAT
1 TTTTACGTCATTAAGTCATTTTCGATGACTTAAAGAT
* *
1669607 TTTTACGTCATTTTAGTCATTTTCTATGACTTAAAGAT
1 TTTTACGTCA-TTAAGTCATTTTCGATGACTTAAAGAT
1669645 TTTTA
1 TTTTA
1669650 TAAAATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
37 9 0.24
38 29 0.76
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.50
Consensus pattern (37 bp):
TTTTACGTCATTAAGTCATTTTCGATGACTTAAAGAT
Found at i:1669658 original size:38 final size:38
Alignment explanation
Indices: 1669583--1669659 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
1669573 TATGTCATTA
* ***
1669583 AGTCATTTTCGATGACTTAGAGATTTTTACGTCATTTT
1 AGTCATTTTCGATGACTTAAAGATTTTTACAAAATTTT
* *
1669621 AGTCATTTTCTATGACTTAAAGATTTTTATAAAATTTT
1 AGTCATTTTCGATGACTTAAAGATTTTTACAAAATTTT
1669659 A
1 A
1669660 TATATTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (38 bp):
AGTCATTTTCGATGACTTAAAGATTTTTACAAAATTTT
Found at i:1669887 original size:57 final size:57
Alignment explanation
Indices: 1669821--1669938 Score: 134
Period size: 57 Copynumber: 2.1 Consensus size: 57
1669811 TTTATGTAAT
* *
1669821 TTTTCATGATCGAGGGACTTAGATGAAATTTTATGA-ATGTTG-GGAT-ATTTAAGTTA
1 TTTTCATGATAGAGAGACTTAGATGAAATTTTAT-ATATGTTGAGG-TCATTTAAGTTA
* ** *
1669877 TTTTCAATGATATAGAGACTTTTATTAAATTTTATATATGTTGAGGTCATTTAAGTTA
1 TTTTC-ATGATAGAGAGACTTAGATGAAATTTTATATATGTTGAGGTCATTTAAGTTA
1669935 TTTT
1 TTTT
1669939 TCATAATTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
56 6 0.12
57 30 0.58
58 16 0.31
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.47
Consensus pattern (57 bp):
TTTTCATGATAGAGAGACTTAGATGAAATTTTATATATGTTGAGGTCATTTAAGTTA
Found at i:1669957 original size:57 final size:57
Alignment explanation
Indices: 1669846--1669957 Score: 133
Period size: 57 Copynumber: 2.0 Consensus size: 57
1669836 GACTTAGATG
* *
1669846 AAATTTTATGAATGTTGGGATATTTAAGTTATTTTCAATGATATAGAGACTTTTATT
1 AAATTTTATGAATGTTGGGATATTTAAGTTATTTTCAATAATATAGAGAATTTTATT
*
1669903 AAATTTTAT-ATATGTTGAGG-TCATTTAAGTTATTTTTC-ATAATTTA-AGAATTTTA
1 AAATTTTATGA-ATGTTG-GGAT-ATTTAAGTTA-TTTTCAATAATATAGAGAATTTTA
1669958 ATGCATTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
56 1 0.02
57 24 0.50
58 18 0.38
59 5 0.10
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (57 bp):
AAATTTTATGAATGTTGGGATATTTAAGTTATTTTCAATAATATAGAGAATTTTATT
Found at i:1673770 original size:20 final size:21
Alignment explanation
Indices: 1673745--1673798 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
1673735 AAAACCCAGC
*
1673745 ATGTATCAATACAATG-AATA
1 ATGTATCAATACAATGCAAGA
** * *
1673765 ATGTATTGATACATTGCAAGC
1 ATGTATCAATACAATGCAAGA
1673786 ATGTATCAATACA
1 ATGTATCAATACA
1673799 TTCACTTATG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (21 bp):
ATGTATCAATACAATGCAAGA
Found at i:1673886 original size:20 final size:21
Alignment explanation
Indices: 1673856--1673910 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
1673846 CGAAAGGGTC
*
1673856 AGTATCAATACATTCATTTAT
1 AGTATCAATACATTCACTTAT
* *
1673877 A-TATCGATACATTTACTTAT
1 AGTATCAATACATTCACTTAT
1673897 AGTATCAATACATT
1 AGTATCAATACATT
1673911 ATAGAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
AGTATCAATACATTCACTTAT
Found at i:1677967 original size:50 final size:50
Alignment explanation
Indices: 1677913--1678026 Score: 192
Period size: 50 Copynumber: 2.3 Consensus size: 50
1677903 ATGAACGTAC
*
1677913 ATGTATCGATACATTCTATTTTTTACCCAGATATATCGATACATTTTTCA
1 ATGTATCGATACATTCTACTTTTTACCCAGATATATCGATACATTTTTCA
* *
1677963 ATGTATCGATACATTCTACTTTTTACCCAGATGTATTGATACATTTTTCA
1 ATGTATCGATACATTCTACTTTTTACCCAGATATATCGATACATTTTTCA
*
1678013 ATATATCGATACAT
1 ATGTATCGATACAT
1678027 CTAGTTAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.43
Consensus pattern (50 bp):
ATGTATCGATACATTCTACTTTTTACCCAGATATATCGATACATTTTTCA
Found at i:1682635 original size:19 final size:19
Alignment explanation
Indices: 1682611--1682663 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
1682601 TATATTAGTG
*
1682611 TGTATCGATACAATGAATA
1 TGTATCGATACAATGAACA
* * *
1682630 TGTATCAATCCAATGGACA
1 TGTATCGATACAATGAACA
1682649 TGTATCGATACAATG
1 TGTATCGATACAATG
1682664 TATCAATACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (19 bp):
TGTATCGATACAATGAACA
Found at i:1683846 original size:2 final size:2
Alignment explanation
Indices: 1683841--1683877 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1683831 AGAGAGAGGA
1683841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1683878 GAAAGAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1684007 original size:14 final size:14
Alignment explanation
Indices: 1683988--1684036 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
1683978 AATATTTATA
1683988 TAAAATAAAAATTT
1 TAAAATAAAAATTT
*
1684002 TAAAATTATAAATATT
1 TAAAA-TAAAAAT-TT
* *
1684018 TAATATAAAAAATT
1 TAAAATAAAAATTT
1684032 TAAAA
1 TAAAA
1684037 AATAAATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 11 0.39
15 11 0.39
16 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAATAAAAATTT
Found at i:1684028 original size:30 final size:30
Alignment explanation
Indices: 1683987--1684078 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 30
1683977 AAATATTTAT
*
1683987 ATAAA-ATAAAAATTTTAAAATTATAAAT-A
1 ATAAATATAAAAATTTTAAAA-AATAAATAA
* * *
1684016 TTTAATATAAAAAATTTAAAAAATAAATAA
1 ATAAATATAAAAATTTTAAAAAATAAATAA
*
1684046 ATAAATATCAAAATATTTT-AAAAATAAAGAA
1 ATAAATAT-AAAA-ATTTTAAAAAATAAATAA
1684077 AT
1 AT
1684079 TATTATTAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
29 9 0.18
30 21 0.41
31 17 0.33
32 4 0.08
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (30 bp):
ATAAATATAAAAATTTTAAAAAATAAATAA
Found at i:1684032 original size:31 final size:32
Alignment explanation
Indices: 1683994--1684078 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 32
1683984 TATATAAAAT
* * *
1683994 AAAAATTTTAAAATTATAAAT-ATTTAATAT-A
1 AAAAATTTTAAAA-AATAAATAAATAAATATCA
1684025 AAAAA-TTTAAAAAATAAATAAATAAATATCA
1 AAAAATTTTAAAAAATAAATAAATAAATATCA
* *
1684056 AAATATTTT-AAAAATAAAGAAAT
1 AAAAATTTTAAAAAATAAATAAAT
1684079 TATTATTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
29 6 0.13
30 14 0.30
31 23 0.50
32 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (32 bp):
AAAAATTTTAAAAAATAAATAAATAAATATCA
Found at i:1691476 original size:10 final size:10
Alignment explanation
Indices: 1691461--1691494 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
1691451 TCTTTTTTAT
1691461 TTTTTATTTC
1 TTTTTATTTC
1691471 TTTTTATTTC
1 TTTTTATTTC
1691481 TTGTTTATTT-
1 TT-TTTATTTC
1691491 TTTT
1 TTTT
1691495 GCTTTGTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.09
10 14 0.61
11 7 0.30
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.82
Consensus pattern (10 bp):
TTTTTATTTC
Found at i:1691491 original size:17 final size:17
Alignment explanation
Indices: 1691454--1691492 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1691444 CCTTTTATCT
* *
1691454 TTTTTATTTTTTATTTC
1 TTTTTATTTCTTATTTA
*
1691471 TTTTTATTTCTTGTTTA
1 TTTTTATTTCTTATTTA
1691488 TTTTT
1 TTTTT
1691493 TTGCTTTGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTATTTCTTATTTA
Found at i:1691902 original size:6 final size:6
Alignment explanation
Indices: 1691891--1691942 Score: 52
Period size: 6 Copynumber: 8.2 Consensus size: 6
1691881 TTAGAAGGTT
*
1691891 ATAAAA ATAAAA TATAATAA ATAATGAA A-AATA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA -ATAA-AA ATAA--AA ATAAAA ATAAAA ATAAAA ATAAAA
1691942 A
1 A
1691943 GGATATTAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 2 0.05
6 22 0.56
7 10 0.26
8 5 0.13
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:1692997 original size:18 final size:19
Alignment explanation
Indices: 1692976--1693020 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1692966 CATAAGGTCA
1692976 TTTTCTTTTA-ATCTCTAC
1 TTTTCTTTTACATCTCTAC
* * *
1692994 TTTTATTTTACATCTTTTC
1 TTTTCTTTTACATCTCTAC
1693013 TTTTCTTT
1 TTTTCTTT
1693021 AATGAAAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTCTTTTACATCTCTAC
Found at i:1693812 original size:38 final size:37
Alignment explanation
Indices: 1693746--1693825 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 37
1693736 TTTCAATGTA
* *
1693746 TTTTATGTCATTAAGTCATTTTCGATGACTTAGAGAT
1 TTTTACGTCATTAAGTCATTTTCGATGACTTAAAGAT
* *
1693783 TTTTACGTCATTTTAGTCATTTTCTATGACTTAAAGAT
1 TTTTACGTCA-TTAAGTCATTTTCGATGACTTAAAGAT
1693821 TTTTA
1 TTTTA
1693826 TAAAATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
37 9 0.24
38 29 0.76
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.50
Consensus pattern (37 bp):
TTTTACGTCATTAAGTCATTTTCGATGACTTAAAGAT
Found at i:1693834 original size:38 final size:38
Alignment explanation
Indices: 1693759--1693835 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
1693749 TATGTCATTA
* ***
1693759 AGTCATTTTCGATGACTTAGAGATTTTTACGTCATTTT
1 AGTCATTTTCGATGACTTAAAGATTTTTACAAAATTTT
* *
1693797 AGTCATTTTCTATGACTTAAAGATTTTTATAAAATTTT
1 AGTCATTTTCGATGACTTAAAGATTTTTACAAAATTTT
1693835 A
1 A
1693836 TATATTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (38 bp):
AGTCATTTTCGATGACTTAAAGATTTTTACAAAATTTT
Found at i:1694048 original size:58 final size:59
Alignment explanation
Indices: 1693983--1694125 Score: 168
Period size: 58 Copynumber: 2.5 Consensus size: 59
1693973 GCATTTTAAT
* * *
1693983 ATCATTTATGTAATTTTTCATGATCTAGGGACTTAGATGAAATTTTATGA-ATGTTG-GG
1 ATCATTTAAGTTATTTTTCATGATCTAGAGACTTAGATGAAATTTTAT-ATATGTTGAGG
* ** *
1694041 ATCATTTAAGTTA-TTTTCAATGATATAGAGACTTTTATTAAATTTTATATATGTTGAGG
1 ATCATTTAAGTTATTTTTC-ATGATCTAGAGACTTAGATGAAATTTTATATATGTTGAGG
*
1694100 -TCATTTAAGTTATTTTTCATAATCTA
1 ATCATTTAAGTTATTTTTCATGATCTA
1694126 AGAATTTTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
57 6 0.08
58 59 0.82
59 7 0.10
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (59 bp):
ATCATTTAAGTTATTTTTCATGATCTAGAGACTTAGATGAAATTTTATATATGTTGAGG
Found at i:1697947 original size:20 final size:20
Alignment explanation
Indices: 1697922--1697997 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
1697912 AAAACCCAGC
1697922 ATGTATCAATACAATGAATA
1 ATGTATCAATACAATGAATA
** * **
1697942 ATGTATTGATACATTGCAAGC
1 ATGTATCAATACAATG-AATA
* * * *
1697963 ATGTATCAATACATTCACTT
1 ATGTATCAATACAATGAATA
1697983 ATGTATCAATACAAT
1 ATGTATCAATACAAT
1697998 TTTTTTAGAA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (20 bp):
ATGTATCAATACAATGAATA
Found at i:1698074 original size:20 final size:20
Alignment explanation
Indices: 1698035--1698086 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1698025 AAAAGGTCCA
*
1698035 ATATCAATACATTCATTTAT
1 ATATCAATACATTCACTTAT
* *
1698055 ATATCGATACATTTACTTATT
1 ATATCAATACATTCACTTA-T
*
1698076 GTATCAATACA
1 ATATCAATACA
1698087 AATTATAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.42
Consensus pattern (20 bp):
ATATCAATACATTCACTTAT
Found at i:1702153 original size:20 final size:20
Alignment explanation
Indices: 1702128--1702208 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
1702118 TACCCAGATA
1702128 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
1702148 TATCGATCCATTCTATTTTTTACCCAGATG
1 TATCGAT--A--C-A-TTTTT---CA-ATG
*
1702178 TATTGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
1702198 TATCGATACAT
1 TATCGATACAT
1702209 CTAGTTAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
20 20 0.41
21 2 0.04
22 1 0.02
24 6 0.12
25 2 0.04
26 6 0.12
28 1 0.02
29 2 0.04
30 9 0.18
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.44
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:1702153 original size:50 final size:50
Alignment explanation
Indices: 1702095--1702208 Score: 201
Period size: 50 Copynumber: 2.3 Consensus size: 50
1702085 ATAAACGTAC
1702095 ATGTATCGATACATTCTATTTTTTACCCAGATATATCGATACATTTTTCA
1 ATGTATCGATACATTCTATTTTTTACCCAGATATATCGATACATTTTTCA
* * *
1702145 ATGTATCGATCCATTCTATTTTTTACCCAGATGTATTGATACATTTTTCA
1 ATGTATCGATACATTCTATTTTTTACCCAGATATATCGATACATTTTTCA
1702195 ATGTATCGATACAT
1 ATGTATCGATACAT
1702209 CTAGTTAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.44
Consensus pattern (50 bp):
ATGTATCGATACATTCTATTTTTTACCCAGATATATCGATACATTTTTCA
Found at i:1705532 original size:30 final size:30
Alignment explanation
Indices: 1705493--1705563 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
1705483 GTCCCTAGAC
1705493 TATATAAAATAACATAAATGAT-CATAAAATG
1 TATA-AAAATAACA-AAATGATCCATAAAATG
** * *
1705524 TATAAAAATTGCAAAATGATCCCTAATATG
1 TATAAAAATAACAAAATGATCCATAAAATG
*
1705554 TATGAAAATA
1 TATAAAAATA
1705564 TTTTGGAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 7 0.21
30 22 0.67
31 4 0.12
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (30 bp):
TATAAAAATAACAAAATGATCCATAAAATG
Found at i:1706789 original size:79 final size:79
Alignment explanation
Indices: 1706677--1706921 Score: 298
Period size: 79 Copynumber: 3.1 Consensus size: 79
1706667 TATTTTGGAG
* * *
1706677 ATAATAAT-GGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAA
1 ATAA-AATCGGGGTTGGAGTATTCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAA
* *
1706741 ATCGATGATTTGGAA
65 ATCGATGTTTTAGAA
* * * * * * * *
1706756 ATAAAATCGGGATTGGAGCATTCCCTCGGAAATAATGAGGTTGGAGTATCCCCGACTATAAAAAA
1 ATAAAATCGGGGTTGGAGTATTCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
*
1706821 TTGATGTTTTAGAA
66 TCGATGTTTTAGAA
*
1706835 ATAAAACCGGGGTTGGAGTA-TCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAA
1 ATAAAATCGGGGTTGGAGTATTCCC-TCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAA
*
1706899 GTC-AGTGTTTTAGAA
65 ATCGA-TGTTTTAGAA
1706914 ATAAAATC
1 ATAAAATC
1706922 AAAGTTAGAA
Statistics
Matches: 137, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
78 8 0.06
79 129 0.94
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (79 bp):
ATAAAATCGGGGTTGGAGTATTCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
TCGATGTTTTAGAA
Found at i:1706936 original size:130 final size:130
Alignment explanation
Indices: 1706802--1707049 Score: 340
Period size: 130 Copynumber: 1.9 Consensus size: 130
1706792 GAGGTTGGAG
* ** *
1706802 TATCCCCGACTATAAAAAATT-GATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAA
1 TATCCCCGACTACAAAAAATTAG-TGTTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAA
* *
1706866 ATAACGGGGTTGGAGTATCCCCGATTGTG-AAAAGTCAGTGTTTT-AGAAATAAAATCAAAGTTA
65 ATAACGGGGCTGGAGTATCCCCGATTATGAAAAAGTCA-TGTTTTCA-AAATAAAATCAAAGTTA
1706929 GAA
128 GAA
* * ** *
1706932 TATCCCCGATTGCGGAGAATTAGTGTTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAA
1 TATCCCCGACTACAAAAAATTAGTGTTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAA
*
1706997 TAACGGGGCTGGAGTATCCCCGATTATGAAAAAGTGATGTTTTCAAAATAAAA
66 TAACGGGGCTGGAGTATCCCCGATTATGAAAAAGTCATGTTTTCAAAATAAAA
1707050 CCGGGGTTGG
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
130 94 0.91
131 9 0.09
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (130 bp):
TATCCCCGACTACAAAAAATTAGTGTTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAA
TAACGGGGCTGGAGTATCCCCGATTATGAAAAAGTCATGTTTTCAAAATAAAATCAAAGTTAGAA
Found at i:1706937 original size:51 final size:51
Alignment explanation
Indices: 1706881--1706989 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 51
1706871 GGGGTTGGAG
* *
1706881 TATCCCCGATTG-TGAAAAGTCAGTGTTTTAGAAATAAAATCAAAGTTAGAA
1 TATCCCCGATTGCGGAAAA-TCAGTGTTTTAGAAATAAAACCAAAGTTAGAA
* * * * *
1706932 TATCCCCGATTGCGGAGAATTAGTGTTTTAGAAATAAAACCAAGGTTGGAG
1 TATCCCCGATTGCGGAAAATCAGTGTTTTAGAAATAAAACCAAAGTTAGAA
1706983 TATCCCC
1 TATCCCC
1706990 TCGAAAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 46 0.92
52 4 0.08
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (51 bp):
TATCCCCGATTGCGGAAAATCAGTGTTTTAGAAATAAAACCAAAGTTAGAA
Found at i:1707063 original size:79 final size:79
Alignment explanation
Indices: 1706955--1707223 Score: 341
Period size: 79 Copynumber: 3.4 Consensus size: 79
1706945 GGAGAATTAG
** *
1706955 TGTTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCGA
1 TGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA
1707020 TTATGAAAAAGTGA
66 TTATGAAAAAGTGA
* * *
1707034 TGTTTTCA-AAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGAAGTATCCTCG
1 TGTTTT-AGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCG
*
1707098 ---ATGAAAAATTGA
65 ATTATGAAAAAGTGA
* * *
1707110 TGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCGAAAATAATGGGGTTGGAGTATCTCCGA
1 TGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA
* *
1707175 TTGTG-AAAAGTCA
66 TTATGAAAAAGTGA
* * * *
1707188 GTGTTTTGGAAATAAAATCGGAGTTGGAGTACCCCC
1 -TGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1707224 GATTATGGAA
Statistics
Matches: 163, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
75 1 0.01
76 67 0.41
78 6 0.04
79 88 0.54
80 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (79 bp):
TGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA
TTATGAAAAAGTGA
Found at i:1707214 original size:51 final size:51
Alignment explanation
Indices: 1707159--1707279 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 51
1707149 AAATAATGGG
* * * *
1707159 GTTGGAGTATCTCCGATTGT-GAAAAGTCAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAA-TCAGTGCTTTAGAAATAAAATCGGA
* **
1707210 GTTGGAGTACCCCCGATTATGGAAAATGGGTGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATCAGTGCTTTAGAAATAAAATCGGA
*
1707261 GTTGGAGTATCCTCGATTA
1 GTTGGAGTATCCCCGATTA
1707280 AGAAAAATTG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
51 55 0.92
52 5 0.08
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATCAGTGCTTTAGAAATAAAATCGGA
Found at i:1707226 original size:285 final size:285
Alignment explanation
Indices: 1706687--1707272 Score: 791
Period size: 285 Copynumber: 2.0 Consensus size: 285
1706677 ATAATAATGG
* * * *
1706687 GGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGATTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCGATTATGAAAAATCGATGATTT
** * * * * *
1706752 GGAAATAAAATCGGGATTGGAGCATTCCCTCGGAAATAATGAGGTTGGAGTATCCCCGACTATAA
66 CAAAATAAAACCGGGATTGGAGCATCCCCTCGAAAATAACGAGGTTGAAGTATCCCCGA--ATAA
*
1706817 AAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGT
129 AAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGT
* *
1706882 ATCCCCGATTGTGAAAAGTCAGTGTTTTAGAAATAAAATCAAAGTTAGAATATCCCCGATTGCGG
194 ATCCCCGATTGTGAAAAGTCAGTGTTTTAGAAATAAAATCAAAGTTAGAATACCCCCGATTACGG
* * *
1706947 AGAATTAGTGTTTTAGAAATAAAACCAA
259 AAAATGAGTGCTTTAGAAATAAAACC-A
*
1706975 GGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCGATTATGAAAAAGT-GATGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCGATTATGAAAAA-TCGATGATT
* * * *
1707039 TCAAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACG-GGATTGAAGTATCCTCG-ATGA
65 TCAAAATAAAACCGGGATTGGAGCATCCCCTCGAAAATAACGAGG-TTGAAGTATCCCCGAATAA
* *
1707102 AAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCGAAAATAATGGGGTTGGAGT
129 AAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGT
* * ** * * *
1707167 ATCTCCGATTGTGAAAAGTCAGTGTTTTGGAAATAAAATCGGAGTTGGAGTACCCCCGATTATGG
194 ATCCCCGATTGTGAAAAGTCAGTGTTTTAGAAATAAAATCAAAGTTAGAATACCCCCGATTACGG
* * *
1707232 AAAATGGGTGCTTTAGAAATAAAATCG
259 AAAATGAGTGCTTTAGAAATAAAACCA
1707259 GAGTTGGAGTATCC
1 G-GTTGGAGTATCC
1707273 TCGATTAAGA
Statistics
Matches: 261, Mismatches: 34, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
284 1 0.00
285 154 0.59
287 2 0.01
288 103 0.39
289 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (285 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCGATTATGAAAAATCGATGATTT
CAAAATAAAACCGGGATTGGAGCATCCCCTCGAAAATAACGAGGTTGAAGTATCCCCGAATAAAA
AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT
CCCCGATTGTGAAAAGTCAGTGTTTTAGAAATAAAATCAAAGTTAGAATACCCCCGATTACGGAA
AATGAGTGCTTTAGAAATAAAACCA
Found at i:1707302 original size:51 final size:51
Alignment explanation
Indices: 1707189--1707327 Score: 163
Period size: 51 Copynumber: 2.7 Consensus size: 51
1707179 GAAAAGTCAG
* * * *
1707189 TGTTTTGGAAATAAAATCGGAGTTGGAGTACCCCCGATTATGGAAAATGGG
1 TGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATGGA
* * * *
1707240 TGCTTTAGAAATAAAATCGGAGTTGGAGTATCCTCGATTAAGAAAAATTGA
1 TGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATGGA
* * *
1707291 TGTTTTGGAAATGAAATTGG-GATTGGAGTATTCCCGA
1 TGTTTTGGAAATAAAATCGGAG-TTGGAGTATCCCCGA
1707328 GATGAAAAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
50 1 0.01
51 72 0.99
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATGGA
Found at i:1709696 original size:33 final size:33
Alignment explanation
Indices: 1709649--1709718 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
1709639 TACATTGTAA
1709649 AATGTATCAATACAATGAGCAATGTATCGATAC
1 AATGTATCAATACAATGAGCAATGTATCGATAC
**
1709682 AATGTATCGCTACAATGAGCAATGTATCGATAC
1 AATGTATCAATACAATGAGCAATGTATCGATAC
1709715 AATG
1 AATG
1709719 CAAAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (33 bp):
AATGTATCAATACAATGAGCAATGTATCGATAC
Found at i:1709704 original size:20 final size:20
Alignment explanation
Indices: 1709629--1709735 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
1709619 AAAATGTCTG
* *
1709629 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGC
*
1709649 AATGTATCAATACAATGAGC
1 AATGTATCGATACAATGAGC
1709669 AATGTATCG-----AT-A-C
1 AATGTATCGATACAATGAGC
*
1709682 AATGTATCGCTACAATGAGC
1 AATGTATCGATACAATGAGC
*
1709702 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGC
1709722 AATGTATCGATACA
1 AATGTATCGATACA
1709736 TCTGGGTAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
13 10 0.14
14 1 0.01
15 2 0.03
18 2 0.03
19 2 0.03
20 54 0.75
21 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:1709717 original size:13 final size:13
Alignment explanation
Indices: 1709668--1709698 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1709658 ATACAATGAG
1709668 CAATGTATCGATA
1 CAATGTATCGATA
*
1709681 CAATGTATCGCTA
1 CAATGTATCGATA
1709694 CAATG
1 CAATG
1709699 AGCAATGTAT
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:0.19, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1709792 original size:13 final size:13
Alignment explanation
Indices: 1709774--1709799 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1709764 ACAAAGATCG
1709774 ATGTATCGATACA
1 ATGTATCGATACA
1709787 ATGTATCGATACA
1 ATGTATCGATACA
1709800 TTTCCTTGGC
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:1714554 original size:49 final size:49
Alignment explanation
Indices: 1714461--1714554 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 49
1714451 ATTCATGCCA
* ** *
1714461 CCATAAAAAAAGAGAAGATAGCAGCTTTCATCAGATGATTATTTTTCTG
1 CCATAAAAAAAGAGAAGATAGCACCTTTCATCAGACCATAATTTTTCTG
*
1714510 CCAT-AAAAAAGAGAAGATAGCAACCTTT-ATCAGACCATAAATTTT
1 CCATAAAAAAAGAGAAGATAGC-ACCTTTCATCAGACCATAATTTTT
1714555 ATTTTTGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
48 30 0.77
49 9 0.23
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (49 bp):
CCATAAAAAAAGAGAAGATAGCACCTTTCATCAGACCATAATTTTTCTG
Found at i:1715735 original size:23 final size:21
Alignment explanation
Indices: 1715688--1715735 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
1715678 CCACTAGATG
* *
1715688 ATTTTTATGAAAATTTTAAAT
1 ATTTTTATGAAAATTGTAAAA
*
1715709 ATTTTTCTGAAAACTATGTAAAA
1 ATTTTTATGAAAA-T-TGTAAAA
1715732 ATTT
1 ATTT
1715736 CATTTTGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 12 0.55
22 1 0.05
23 9 0.41
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (21 bp):
ATTTTTATGAAAATTGTAAAA
Found at i:1718374 original size:168 final size:154
Alignment explanation
Indices: 1718251--1718544 Score: 392
Period size: 154 Copynumber: 1.9 Consensus size: 154
1718241 TTTACATTTT
*
1718251 CTTTTAG-ATTTTTTTAATTTTCAAAATACAAAGGCTTTTTTACTTCATAAATTTCTCCGGTAGT
1 CTTTTAGAATTTTCTT-ATTTTCAAAATACAAAGGCTTTTTTACTTCATAAATTTCTCCGGTAGT
* * *
1718315 ATTTTTTTAAGTTTATAATTTTTAAAATTCTTCAAATATTATTGTTTAATACATATTAAATCACT
65 ATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATTATTGTTTAATACATATTAAATCAGT
* *
1718380 TTGAAAAATTTAAGTTATTTTATGA
130 TTAAAAAATTTAAGTAATTTTATGA
* * * ** * * *
1718405 GTTTTAGAATTTTCTTGTTTTCAAAATACGAAGTTTTTTTTACTTCGTAAATTTCTCTGGTTGTA
1 CTTTTAGAATTTTCTTATTTTCAAAATACAAAGGCTTTTTTACTTCATAAATTTCTCCGGTAGTA
* * * *
1718470 TTTTTCTGAGTTTATAATTTTCAAAATTCTTCAAATATTATTGTTTAATTCATATTGAATTAGTT
66 TTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATTATTGTTTAATACATATTAAATCAGTT
**
1718535 TTTAAAATTT
131 TAAAAAATTT
1718545 TTTTTATTTC
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
154 114 0.94
155 7 0.06
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.52
Consensus pattern (154 bp):
CTTTTAGAATTTTCTTATTTTCAAAATACAAAGGCTTTTTTACTTCATAAATTTCTCCGGTAGTA
TTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATTATTGTTTAATACATATTAAATCAGTT
TAAAAAATTTAAGTAATTTTATGA
Found at i:1721103 original size:19 final size:19
Alignment explanation
Indices: 1721052--1721107 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
1721042 CAAAACATGA
1721052 AAAATTATGCTTTATGGCT
1 AAAATTATGCTTTATGGCT
*
1721071 AAAA--GTGC---ATGGCT
1 AAAATTATGCTTTATGGCT
1721085 AAAATTATGCTTTATGGCT
1 AAAATTATGCTTTATGGCT
1721104 AAAA
1 AAAA
1721108 AACGTGAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 10 0.33
16 3 0.10
17 3 0.10
19 14 0.47
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
AAAATTATGCTTTATGGCT
Found at i:1721667 original size:166 final size:164
Alignment explanation
Indices: 1721377--1722070 Score: 735
Period size: 166 Copynumber: 4.2 Consensus size: 164
1721367 TAGGTACTAT
* * * *
1721377 AATGAAAATTTTGAAAAGTTTAGGGATTAAATAGTAA-ATTTAGTTTTTAGAGTTAAAATCATCA
1 AATG-AAATTTTCAAAAGTTTAGGGATTAAATAGCAACTTTTAGTTTTTAGAGGTAAAATCAT-A
* * * *
1721441 TTTTAGTCATTTTTAAAGGTTTTTATTATCCCTTTGGCCTTCCTTAAGGGGTATAAAATTTTTCA
64 TTTTAGTCATTTTTAAAGGTTTCTATTATTCCTATGGCCTTTC-TAAGGGGTATAAAATTTTT-A
* *
1721506 AAACTTTTCGTATCCTCTTGGTTTTTCTTCGAGTACGA
127 AAACTTTTCGTATCCTCTCGATTTTTCTTCGAGTACGA
*
1721544 AATGAAATTTTCAAAAGTTCAGGGATTAAATAGCAACTTTTAGTTTTTAGAGGTAAAATCAT-TT
1 AATGAAATTTTCAAAAGTTTAGGGATTAAATAGCAACTTTTAGTTTTTAGAGGTAAAATCATATT
* * *
1721608 TTAGTCATTTCTAAAGGTTTCTATTATTCTTATGGCCTTTCGTAA-GGGTATAAAAAATTTTAAA
66 TTAGTCATTTTTAAAGGTTTCTATTATTCCTATGGCCTTTC-TAAGGGGTAT-AAAATTTTTAAA
* * *
1721672 ACTTTTCGTATCCTCT-TAATTTTCTATC-AGGTATGA
129 ACTTTTCGTATCCTCTCGATTTTTCT-TCGA-GTACGA
* * ** *
1721708 AATGAAATTTTCAAAAGTTTAGGGATTAAATAGCAAATTTTAGCTTTTAGACATAAAAGCATCAT
1 AATGAAATTTTCAAAAGTTTAGGGATTAAATAGCAACTTTTAGTTTTTAGAGGTAAAATCAT-AT
* * * *
1721773 TTTAGTCATTTTTAAAAGTTTCTATTATTCCTATAGTCTTTC-ATGGGGGTATAAAATTTTTTAA
65 TTTAGTCATTTTTAAAGGTTTCTATTATTCCTATGGCCTTTCTA-AGGGGTATAAAA-TTTTTAA
* *
1721837 AACTTTTCGTATCCTCTCGATTTTTCATT-GGGTACAA
128 AACTTTTCGTATCCTCTCGATTTTTC-TTCGAGTACGA
* *** * * *
1721874 AATAAAATTTTCAAAAGTTTAAATATTAAACT-GC-ACAGTTTACTTTTTAGAGGAAAAATCATC
1 AATGAAATTTTCAAAAGTTTAGGGATTAAA-TAGCAAC-TTTTAGTTTTTAGAGGTAAAATCAT-
* * *
1721937 ATTTTAGTTATTTTTAAAGATTTTTATTATTCCTATGGCC-TTCTATAGGGGTATAAAAAATTTT
63 ATTTTAGTCATTTTTAAAGGTTTCTATTATTCCTATGGCCTTTCTA-AGGGGTAT--AAAATTTT
* * *
1722001 TAAAACTTTTCGTATCCTCTCGATTTTTTATTAG-GTATGA
125 TAAAACTTTTCGTATCCTCTCGA-TTTTTCTTCGAGTACGA
* * *
1722041 AATGAAATTTTTAAAAATTTAAGGACTTAA
1 AATGAAATTTTCAAAAGTTTAGGGA-TTAA
1722071 TTGTAATTTT
Statistics
Matches: 445, Mismatches: 62, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
163 7 0.02
164 89 0.20
165 56 0.13
166 190 0.43
167 88 0.20
168 15 0.03
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (164 bp):
AATGAAATTTTCAAAAGTTTAGGGATTAAATAGCAACTTTTAGTTTTTAGAGGTAAAATCATATT
TTAGTCATTTTTAAAGGTTTCTATTATTCCTATGGCCTTTCTAAGGGGTATAAAATTTTTAAAAC
TTTTCGTATCCTCTCGATTTTTCTTCGAGTACGA
Found at i:1722437 original size:155 final size:155
Alignment explanation
Indices: 1722187--1722932 Score: 710
Period size: 155 Copynumber: 4.8 Consensus size: 155
1722177 TATATCGAAG
* ** * * * *
1722187 GTATACCCTAGGGGTATTTTCGTAA-TTTTATA-AAATGAGTTTTAGGTTGTCATTGGGATGCTT
1 GTATACCCTAGGGGCATTTTCAAAATTTTTCTAGAACTGAGTCTTAGGTTGTCATCGGGATGCTT
* * *
1722250 TTATGCTAAAAATGTGCATTTAGGATAGGTTCATCTCATTTATGATCCTTTTTAAGTCTTTTAGC
66 TTATGCCAAAAGTGTGCATTTAGGATAGGTTCATCTCATTTATGATCATTTTTAAGTCTTTTAG-
* *
1722315 GTTACCAAG-TACTTTAATGTTGAAA
130 ATTACCAGGATACTTTAATGTTGAAA
* * * * * * *
1722340 ATATACCTTAGGGGTATTTACAAAATTTTTCTAGAA-TAAAGTCTTAGGTTGTCACCAGGATGCT
1 GTATACCCTAGGGGCATTTTCAAAATTTTTCTAGAACT-GAGTCTTAGGTTGTCATCGGGATGCT
* *
1722404 TTTATGCCAAAAGTATGCATTTA-GAGTAAGTTCATCTCATTTATGATCATTTTTAAGTCTTTTG
65 TTTATGCCAAAAGTGTGCATTTAGGA-TAGGTTCATCTCATTTATGATCATTTTTAAGTCTTTT-
* * * *
1722468 GGGTTACTAGG-TACTTTCATGTTGAAA
128 AGATTACCAGGATACTTTAATGTTGAAA
** ** * *
1722495 GTATACCCTAAAGGCATTTTTGTAAA-TTTTCTA-AACTGAGTCTTAAGTTATCATCGGGATGCT
1 GTATACCCTAGGGGCA-TTTTCAAAATTTTTCTAGAACTGAGTCTTAGGTTGTCATCGGGATGCT
* *
1722558 TTTATGCC-AAAGTTGTGCATTTAGGATAAGTTCATCTCATTTATGATCATTTTTAAGTCCTTTA
65 TTTATGCCAAAAG-TGTGCATTTAGGATAGGTTCATCTCATTTATGATCATTTTTAAGT-CTTTT
*
1722622 AGATTACC-GGATACTTTAATG-TCAAA
128 AGATTACCAGGATACTTTAATGTTGAAA
* * *** * * * * *
1722648 GGTATACCTTAGGGGTATTTTTGTAATTTTTTTAAAACCGGGTCTTATGTTGT-ATCGGGATGCT
1 -GTATACCCTAGGGGCATTTTCAAAATTTTTCTAGAACTGAGTCTTAGGTTGTCATCGGGATGCT
* * * * *
1722712 TTTATGCCAAAGGTGTGTATTTAGGATAGGTTCATCTCATTTACGACCATTTTTAAGTCCTTTAA
65 TTTATGCCAAAAGTGTGCATTTAGGATAGGTTCATCTCATTTATGATCATTTTTAAGT-CTTTTA
** * *
1722777 GATTACTGGGATATTTTAATGTCGAAA
129 GATTACCAGGATACTTTAATGTTGAAA
* * * ** * *
1722804 GTATACCCTAGGAGCATTTTCATAATTTTCCTAGAACTGAGTCTTAGGTTG-CCGCTAGGATACT
1 GTATACCCTAGGGGCATTTTCAAAATTTTTCTAGAACTGAGTCTTAGGTTGTCATC-GGGATGCT
* * * * *
1722868 TTTATGCCAAAGGTAT-CTATTTAGGATAGGTTCATCTCATTTATGATTATTTTTTAGTCCTTTA
65 TTTATGCCAAAAGTGTGC-ATTTAGGATAGGTTCATCTCATTTATGATCATTTTTAAGTCTTTTA
1722932 G
129 G
1722933 GGTCACTAGG
Statistics
Matches: 489, Mismatches: 84, Indels: 38
0.80 0.14 0.06
Matches are distributed among these distances:
153 36 0.07
154 186 0.38
155 200 0.41
156 67 0.14
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (155 bp):
GTATACCCTAGGGGCATTTTCAAAATTTTTCTAGAACTGAGTCTTAGGTTGTCATCGGGATGCTT
TTATGCCAAAAGTGTGCATTTAGGATAGGTTCATCTCATTTATGATCATTTTTAAGTCTTTTAGA
TTACCAGGATACTTTAATGTTGAAA
Found at i:1722606 original size:154 final size:155
Alignment explanation
Indices: 1722187--1722951 Score: 780
Period size: 154 Copynumber: 4.9 Consensus size: 155
1722177 TATATCGAAG
* * * *
1722187 GTATACCCTAGGGGTATTTTCGT-AATTTTATAAAATGAGTTTTAGGTTGTCATTGGGATGCTTT
1 GTATACCCTAGGGGTATTTTCGTAAATTTTCTAAACTGAGTCTTAGGTTGTCATCGGGATGCTTT
* ** * * *
1722251 TATGCTAAAAATGTGCATTTAGGATAGGTTCATCTCATTTATGATCCTTTTTAAGTCTTTTAGCG
66 TATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTCATTTATGATCATTTTTAAGTCCTTTAGGG
* *
1722316 TTACCAAG-TACTTTAATGTTGAAA
131 TTACTAGGATACTTTAATGTTGAAA
* * * * * * *
1722340 ATATACCTTAGGGGTATTTAC-AAAATTTTTCTAGAA-TAAAGTCTTAGGTTGTCACCAGGATGC
1 GTATACCCTAGGGGTATTTTCGTAAA-TTTTCTA-AACT-GAGTCTTAGGTTGTCATCGGGATGC
* * * *
1722403 TTTTATGCCAAAAGTATGCATTTA-GAGTAAGTTCATCTCATTTATGATCATTTTTAAGTCTTTT
63 TTTTATGCCAAAGGTGTGCATTTAGGA-TAGGTTCATCTCATTTATGATCATTTTTAAGTCCTTT
* *
1722467 GGGGTTACTAGG-TACTTTCATGTTGAAA
127 AGGGTTACTAGGATACTTTAATGTTGAAA
** * * * *
1722495 GTATACCCTAAAGGCATTTTTGTAAATTTTCTAAACTGAGTCTTAAGTTATCATCGGGATGCTTT
1 GTATACCCTAGGGGTATTTTCGTAAATTTTCTAAACTGAGTCTTAGGTTGTCATCGGGATGCTTT
* * * *
1722560 TATGCCAAAGTTGTGCATTTAGGATAAGTTCATCTCATTTATGATCATTTTTAAGTCCTTTAAGA
66 TATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTCATTTATGATCATTTTTAAGTCCTTTAGGG
* *
1722625 TTAC-CGGATACTTTAATG-TCAAA
131 TTACTAGGATACTTTAATGTTGAAA
* * * * * * *
1722648 GGTATACCTTAGGGGTATTTTTGTAATTTTTTTAAAACCGGGTCTTATGTTGT-ATCGGGATGCT
1 -GTATACCCTAGGGGTATTTTCGTAAATTTTCT-AAACTGAGTCTTAGGTTGTCATCGGGATGCT
* * * *
1722712 TTTATGCCAAAGGTGTGTATTTAGGATAGGTTCATCTCATTTACGACCATTTTTAAGTCCTTTAA
64 TTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTCATTTATGATCATTTTTAAGTCCTTTAG
* * * *
1722777 GATTACTGGGATATTTTAATGTCGAAA
129 GGTTACTAGGATACTTTAATGTTGAAA
* * * ** * *
1722804 GTATACCCTAGGAGCATTTTCAT-AATTTTCCTAGAACTGAGTCTTAGGTTG-CCGCTAGGATAC
1 GTATACCCTAGGGGTATTTTCGTAAATTTT-CTA-AACTGAGTCTTAGGTTGTCATC-GGGATGC
* * *
1722867 TTTTATGCCAAAGGTAT-CTATTTAGGATAGGTTCATCTCATTTATGATTATTTTTTAGTCCTTT
63 TTTTATGCCAAAGGTGTGC-ATTTAGGATAGGTTCATCTCATTTATGATCATTTTTAAGTCCTTT
* *
1722931 AGGGTCACTAGGATATTTTAA
127 AGGGTTACTAGGATACTTTAA
1722952 AGTCGAAGGT
Statistics
Matches: 508, Mismatches: 86, Indels: 33
0.81 0.14 0.05
Matches are distributed among these distances:
153 26 0.05
154 211 0.42
155 186 0.37
156 85 0.17
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.41
Consensus pattern (155 bp):
GTATACCCTAGGGGTATTTTCGTAAATTTTCTAAACTGAGTCTTAGGTTGTCATCGGGATGCTTT
TATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTCATTTATGATCATTTTTAAGTCCTTTAGGG
TTACTAGGATACTTTAATGTTGAAA
Found at i:1722806 original size:309 final size:308
Alignment explanation
Indices: 1722153--1722931 Score: 829
Period size: 309 Copynumber: 2.5 Consensus size: 308
1722143 TATTTTCATA
* * * * * * * *
1722153 TCCTTTAGGATTA-TCGAGTACTTTTATATCGAAGGTATACCCTAGGGGTATTTTCGTAATTTTA
1 TCCTTTAAGATTACTAG-GTACTTTAATGTCGAAAGTATACCCTAAGGGCATTTTCGTAATTTTC
* * * * *
1722217 TAAAATGAGTTTTAGGTTGTCATTGGGATGCTTTTATGCTAAAAATGTGCATTTAGGATAGGTTC
65 TAAACTGAGTCTTAGGTT-TCATCGGGATGCTTTTATGCCAAAGATGTGCATTTAGGATAGGTTC
* * * *
1722282 ATCTCATTTATGATCCTTTTTAAGT-CTTTTAGCGTTACCAAGTACTTTAATGTTGAAAATATAC
129 ATCTCATTTATGATCATTTTTAAGTCCTTTAAGCATTACCAAGTACTTTAATGTTCAAAATATAC
* *
1722346 CTTAGGGGTATTTACAAAATTTTTCTAGAATAAAGTCTTAGGTTGTCACCAGGATGCTTTTATGC
194 CTTAGGGGTATTTACAAAATTTTTCTAAAACAAAGTCTTAGGTTGTCACCAGGATGCTTTTATGC
* *
1722411 CAAAAGTATGCATTTAGAGTAAGTTCATCTCATTTATGATCATTTTTAAG
259 CAAAAGTATGCATTTAGAGTAAGTTCATCTCATTTACGACCATTTTTAAG
* ** * * * * *
1722461 TCTTTTGGGGTTACTAGGTACTTTCATGTTGAAAGTATACCCTAAAGGCATTTTTGTAAATTTTC
1 TCCTTTAAGATTACTAGGTACTTTAATGTCGAAAGTATACCCTAAGGGCATTTTCGT-AATTTTC
* * *
1722526 TAAACTGAGTCTTAAGTTATCATCGGGATGCTTTTATGCCAAAGTTGTGCATTTAGGATAAGTTC
65 TAAACTGAGTCTTAGGTT-TCATCGGGATGCTTTTATGCCAAAGATGTGCATTTAGGATAGGTTC
* *
1722591 ATCTCATTTATGATCATTTTTAAGTCCTTTAAG-ATTACC-GGATACTTTAATG-TCAAAGGTAT
129 ATCTCATTTATGATCATTTTTAAGTCCTTTAAGCATTACCAAG-TACTTTAATGTTCAAA-ATAT
**** * *** * * *
1722653 ACCTTAGGGGTATTTTTGTAATTTTTTTAAAACCGGGTCTTATGTTGT-ATCGGGATGCTTTTAT
192 ACCTTAGGGGTATTTACAAAATTTTTCTAAAACAAAGTCTTAGGTTGTCACCAGGATGCTTTTAT
* * * *
1722717 GCCAAAGGTGTGTATTTAG-GATAGGTTCATCTCATTTACGACCATTTTTAAG
257 GCCAAAAGTATGCATTTAGAG-TAAGTTCATCTCATTTACGACCATTTTTAAG
* * *
1722769 TCCTTTAAGATTACTGGGATATTTTAATGTCGAAAGTATACCCT-AGGAGCATTTTCATAATTTT
1 TCCTTTAAGATTACTAGG-TACTTTAATGTCGAAAGTATACCCTAAGG-GCATTTTCGTAATTTT
* ** * * * *
1722833 CCTAGAACTGAGTCTTAGGTTGCCGCTAGGATACTTTTATGCCAAAGGTAT-CTATTTAGGATAG
64 -CTA-AACTGAGTCTTAGGTTTCATC-GGGATGCTTTTATGCCAAAGATGTGC-ATTTAGGATAG
* *
1722897 GTTCATCTCATTTATGATTATTTTTTAGTCCTTTA
125 GTTCATCTCATTTATGATCATTTTTAAGTCCTTTA
1722932 GGGTCACTAG
Statistics
Matches: 390, Mismatches: 69, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
307 1 0.00
308 126 0.32
309 179 0.46
310 84 0.22
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (308 bp):
TCCTTTAAGATTACTAGGTACTTTAATGTCGAAAGTATACCCTAAGGGCATTTTCGTAATTTTCT
AAACTGAGTCTTAGGTTTCATCGGGATGCTTTTATGCCAAAGATGTGCATTTAGGATAGGTTCAT
CTCATTTATGATCATTTTTAAGTCCTTTAAGCATTACCAAGTACTTTAATGTTCAAAATATACCT
TAGGGGTATTTACAAAATTTTTCTAAAACAAAGTCTTAGGTTGTCACCAGGATGCTTTTATGCCA
AAAGTATGCATTTAGAGTAAGTTCATCTCATTTACGACCATTTTTAAG
Found at i:1723953 original size:20 final size:21
Alignment explanation
Indices: 1723911--1723962 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1723901 TTCTACAATT
* *
1723911 TGTATCTATACAATAACTTAA
1 TGTATCAATACAATAACTGAA
* *
1723932 TGTATCGATAC-ATAAGTGAA
1 TGTATCAATACAATAACTGAA
1723952 TGTATCAATAC
1 TGTATCAATAC
1723963 TAGACCTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (21 bp):
TGTATCAATACAATAACTGAA
Found at i:1727441 original size:52 final size:53
Alignment explanation
Indices: 1727332--1727450 Score: 124
Period size: 52 Copynumber: 2.3 Consensus size: 53
1727322 TTTATCGATG
* *
1727332 CATT-TTTCATTGTATGAATACATTCTGGGTTTTTGACACAAAATATTCGATA
1 CATTCTTTCATTGTATGAATACATTCTGAGTTTTTGACACAAAATATTCAATA
* *
1727384 TATTCTTT-ATTGTATCG-ATACATTCTGAGTTTTTGAC-CTAAATGTATT-AATA
1 CATTCTTTCATTGTAT-GAATACATTCTGAGTTTTTGACAC-AAA-ATATTCAATA
*
1727436 CATTC-TTCAATGTAT
1 CATTCTTTCATTGTAT
1727451 TGATATATCT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
51 3 0.05
52 45 0.80
53 8 0.14
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.45
Consensus pattern (53 bp):
CATTCTTTCATTGTATGAATACATTCTGAGTTTTTGACACAAAATATTCAATA
Found at i:1729750 original size:10 final size:10
Alignment explanation
Indices: 1729735--1729762 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
1729725 GTATCGATAC
1729735 AACGGCTAGT
1 AACGGCTAGT
1729745 AACGGCTAGT
1 AACGGCTAGT
1729755 AACGGCTA
1 AACGGCTA
1729763 TATTTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (10 bp):
AACGGCTAGT
Found at i:1735907 original size:13 final size:13
Alignment explanation
Indices: 1735889--1735927 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1735879 ACAGTATTCT
1735889 TTGTATCGATACA
1 TTGTATCGATACA
1735902 TTGTATCGATACA
1 TTGTATCGATACA
* *
1735915 CTGTATTGATACA
1 TTGTATCGATACA
1735928 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1736403 original size:20 final size:21
Alignment explanation
Indices: 1736363--1736414 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
1736353 CCCCTAGGCA
* *
1736363 GCACCCACCAAGTCGCGACC-G
1 GCACCC-CCAAGTCACAACCGG
1736384 GCACCCCCAAGTCACAACCGG
1 GCACCCCCAAGTCACAACCGG
1736405 GCAGCCCCCA
1 GCA-CCCCCA
1736415 CACTAGCCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.25, C:0.50, G:0.21, T:0.04
Consensus pattern (21 bp):
GCACCCCCAAGTCACAACCGG
Done.