Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold20
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: 3599867
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 51021 characters in sequence are not A, C, G, or T
File 12 of 25
Found at i:1644939 original size:19 final size:19
Alignment explanation
Indices: 1644912--1644951 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
1644902 TCCTTTTTTC
1644912 TTTTTTTC-TTTTTTTCTT
1 TTTTTTTCTTTTTTTTCTT
1644930 TTTTTCTTCTTTTTTTTCTT
1 TTTTT-TTCTTTTTTTTCTT
1644950 TT
1 TT
1644952 CCAACCCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.25
19 3 0.15
20 12 0.60
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTTTTCTTTTTTTTCTT
Found at i:1646096 original size:27 final size:27
Alignment explanation
Indices: 1646022--1646101 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 27
1646012 TTCCTATTAA
*
1646022 GTGCTAGTTAATGTGGAC-TTGTACTTAG
1 GTGCTAGTT-ATGTGGGCTTTG-ACTTAG
* *
1646050 GTGCCAGCTAATGTGGGCTTTGACTTAG
1 GTGCTAG-TTATGTGGGCTTTGACTTAG
1646078 GTGCTAGTTATGTGGGCTTTGACT
1 GTGCTAGTTATGTGGGCTTTGACT
1646102 CATATGCCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 16 0.36
28 25 0.56
29 4 0.09
ACGTcount: A:0.17, C:0.14, G:0.31, T:0.38
Consensus pattern (27 bp):
GTGCTAGTTATGTGGGCTTTGACTTAG
Found at i:1646220 original size:56 final size:56
Alignment explanation
Indices: 1646090--1646223 Score: 130
Period size: 56 Copynumber: 2.4 Consensus size: 56
1646080 GCTAGTTATG
* * * * * *
1646090 TGGGCTTTGACTCATATGCCAACTAATATGGGTTTTGACTCGTGTCCTAGCTTTCA
1 TGGGCTTTGATTCATGTGCCAACTAACATGAGCTTTGACTCGTGTCCTAGCTGTCA
** * *
1646146 TGATCTTTGACTT-GTGTGCCAACTAGCATGAGCTTTGACTCGTGTGCC-AGCTAGT-A
1 TGGGCTTTGA-TTCATGTGCCAACTAACATGAGCTTTGACTCGTGT-CCTAGCT-GTCA
1646202 TGGGCTTTGATTCATGTGCCAA
1 TGGGCTTTGATTCATGTGCCAA
1646224 ATAGTGTGAG
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
55 2 0.03
56 55 0.90
57 4 0.07
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (56 bp):
TGGGCTTTGATTCATGTGCCAACTAACATGAGCTTTGACTCGTGTCCTAGCTGTCA
Found at i:1646228 original size:28 final size:28
Alignment explanation
Indices: 1646093--1646236 Score: 103
Period size: 28 Copynumber: 5.1 Consensus size: 28
1646083 AGTTATGTGG
* * *
1646093 GCTTTGACTCATATGCCAACTAATATGG
1 GCTTTGACTCATGTGCCAACTAGTATGA
* * * *
1646121 GTTTTGACTCGTGT-CCTAGCT-TTCATGA
1 GCTTTGACTCATGTGCC-AACTAGT-ATGA
* ** *
1646149 TCTTTGACTTGTGTGCCAACTAGCATGA
1 GCTTTGACTCATGTGCCAACTAGTATGA
* * *
1646177 GCTTTGACTCGTGTGCCAGCTAGTATGG
1 GCTTTGACTCATGTGCCAACTAGTATGA
* * *
1646205 GCTTTGATTCATGTGCCAAATAGTGTGA
1 GCTTTGACTCATGTGCCAACTAGTATGA
1646233 GCTT
1 GCTT
1646237 AGATGCCAAC
Statistics
Matches: 89, Mismatches: 23, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
27 3 0.03
28 84 0.94
29 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (28 bp):
GCTTTGACTCATGTGCCAACTAGTATGA
Found at i:1646297 original size:28 final size:27
Alignment explanation
Indices: 1646266--1646469 Score: 103
Period size: 28 Copynumber: 7.4 Consensus size: 27
1646256 TTAATTAGAA
1646266 GCCAGCTAATGTGGGCTTAAACTTAAAT
1 GCCAGCTAATGTGGGCTT-AACTTAAAT
* * * *
1646294 GCCAACTAATGTAGGCTTTAACATGAAT
1 GCCAGCTAATGTGGGC-TTAACTTAAAT
* * * ***
1646322 GCCTGCTAATATGGGCTTCGACTTGTGT
1 GCCAGCTAATGTGGGCTT-AACTTAAAT
* * *
1646350 GCCAACTATTGTGAGCTTTAA-TATAAAT
1 GCCAGCTAATGTGGGC-TTAACT-TAAAT
* *
1646378 ACCAGCTAATGTGGGCTT-ACTCT-AGT
1 GCCAGCTAATGTGGGCTTAACT-TAAAT
* * * *
1646404 GCTAGTTAATGTGGGCTT-ACTCAGAT
1 GCCAGCTAATGTGGGCTTAACTTAAAT
* *
1646430 GCTAGCTAATGTGGGCTTCAA-TGCAAAT
1 GCCAGCTAATGTGGGCTT-AACT-TAAAT
*
1646458 GCCAACTAATGT
1 GCCAGCTAATGT
1646470 AAACTTCAAC
Statistics
Matches: 130, Mismatches: 37, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
26 39 0.30
27 8 0.06
28 79 0.61
29 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (27 bp):
GCCAGCTAATGTGGGCTTAACTTAAAT
Found at i:1646417 original size:26 final size:26
Alignment explanation
Indices: 1646381--1646447 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
1646371 TATAAATACC
1646381 AGCTAATGTGGGCTTACTCTAG-TGCT
1 AGCTAATGTGGGCTTACTC-AGATGCT
*
1646407 AGTTAATGTGGGCTTACTCAGATGCT
1 AGCTAATGTGGGCTTACTCAGATGCT
1646433 AGCTAATGTGGGCTT
1 AGCTAATGTGGGCTT
1646448 CAATGCAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 2 0.05
26 36 0.95
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.34
Consensus pattern (26 bp):
AGCTAATGTGGGCTTACTCAGATGCT
Found at i:1646631 original size:82 final size:81
Alignment explanation
Indices: 1646545--1646800 Score: 282
Period size: 82 Copynumber: 3.1 Consensus size: 81
1646535 CACAAATGTT
* * * * * * *
1646545 AGCTAATGTAGACCTCGACTTGTTTGCTAACTAGTATGGGCTTACTTATGTGCCAACTATTGTGG
1 AGCTAATGTAGGCTTC-ACTTGTATGCTAGCTAGTATGGGCTTACTCATGTGCCAACTACTGTAG
1646610 GCTTTAACGTGAATGCC
65 GCTTTAACGTGAATGCC
* * *
1646627 AGCTAATGTAGGCTTCAATTCGTGTGCTAGCTAGTATAGGCTTACTCATGTGCCAACTACTGTCA
1 AGCTAATGTAGGCTTCACTT-GTATGCTAGCTAGTATGGGCTTACTCATGTGCCAACTACTGT-A
* *
1646692 -GCTTTAATGTGAATGCT
64 GGCTTTAACGTGAATGCC
* * * * * *
1646709 AG-TAAATGTGGGCTTTAACTCGTATGCCAGCTAGTGTGGGATTACTCATGTGCCAACTACTGTA
1 AGCT-AATGTAGGC-TTCACTTGTATGCTAGCTAGTATGGGCTTACTCATGTGCCAACTACTGTA
*
1646773 GGCTTTAACGTGAAAGCC
64 GGCTTTAACGTGAATGCC
1646791 AGCTAATGTA
1 AGCTAATGTA
1646801 AACTTTAACT
Statistics
Matches: 144, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
81 5 0.03
82 134 0.93
83 5 0.03
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (81 bp):
AGCTAATGTAGGCTTCACTTGTATGCTAGCTAGTATGGGCTTACTCATGTGCCAACTACTGTAGG
CTTTAACGTGAATGCC
Found at i:1646819 original size:82 final size:82
Alignment explanation
Indices: 1646575--1646819 Score: 305
Period size: 82 Copynumber: 3.0 Consensus size: 82
1646565 TGTTTGCTAA
* * *
1646575 CTAGTATGGGCTTACTTATGTGCCAACTATTGTGGGCTTTAACGTGAATGCCAGCTAATGTAGGC
1 CTAGTATGGGCTTACTCATGTGCCAACTACTGTAGGCTTTAACGTGAATGCCAGCTAATGTAGGC
* * *
1646640 TTCAATTCGTGTGCTAG
66 TTTAACTCGTGTGCCAG
* * * *
1646657 CTAGTATAGGCTTACTCATGTGCCAACTACTGTCA-GCTTTAATGTGAATGCTAG-TAAATGTGG
1 CTAGTATGGGCTTACTCATGTGCCAACTACTGT-AGGCTTTAACGTGAATGCCAGCT-AATGTAG
*
1646720 GCTTTAACTCGTATGCCAG
64 GCTTTAACTCGTGTGCCAG
* * * **
1646739 CTAGTGTGGGATTACTCATGTGCCAACTACTGTAGGCTTTAACGTGAAAGCCAGCTAATGTAAAC
1 CTAGTATGGGCTTACTCATGTGCCAACTACTGTAGGCTTTAACGTGAATGCCAGCTAATGTAGGC
*
1646804 TTTAACTCATGTGCCA
66 TTTAACTCGTGTGCCA
1646820 ACTAAAGTAG
Statistics
Matches: 137, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
81 2 0.01
82 134 0.98
83 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (82 bp):
CTAGTATGGGCTTACTCATGTGCCAACTACTGTAGGCTTTAACGTGAATGCCAGCTAATGTAGGC
TTTAACTCGTGTGCCAG
Found at i:1646834 original size:28 final size:28
Alignment explanation
Indices: 1646592--1646920 Score: 99
Period size: 28 Copynumber: 11.9 Consensus size: 28
1646582 GGGCTTACTT
* * *
1646592 ATGTGCCAACTATTGTGGGCTTTAACGTG
1 ATGTGCCAACTAATGTAGGCTTTAAC-TC
* * * *
1646621 A-ATGCCAGCTAATGTAGGCTTCAATTC
1 ATGTGCCAACTAATGTAGGCTTTAACTC
* * * * *
1646648 GTGTGCTAGCTAGTATAGGC-TT-ACTC
1 ATGTGCCAACTAATGTAGGCTTTAACTC
*
1646674 ATGTGCCAACTACTGTCA-GCTTTAA-T-
1 ATGTGCCAACTAATGT-AGGCTTTAACTC
* * * *
1646700 GTGAATG-CTAGTAAATGTGGGCTTTAACTC
1 ATG--TGCCAACT-AATGTAGGCTTTAACTC
* * * * **
1646730 GTATGCCAGCTAGTGT-GGGATT-ACTC
1 ATGTGCCAACTAATGTAGGCTTTAACTC
* *
1646756 ATGTGCCAACTACTGTAGGCTTTAACGTG
1 ATGTGCCAACTAATGTAGGCTTTAAC-TC
** * **
1646785 A-AAGCCAGCTAATGTAAACTTTAACTC
1 ATGTGCCAACTAATGTAGGCTTTAACTC
*
1646812 ATGTGCCAACTAAAGTAGGCTTTAA-T-
1 ATGTGCCAACTAATGTAGGCTTTAACTC
* * **
1646838 ATGAATGCCAACTAATGTGGGCTTCGATTTC
1 ATG--TGCCAACTAATGTAGGCTT-TAACTC
* * * * *
1646869 -TATGCCAACCAATGTGGGCTTCAATTC
1 ATGTGCCAACTAATGTAGGCTTTAACTC
* * *
1646896 ATGTGCCAGCCAATATAGGCTTTAA
1 ATGTGCCAACTAATGTAGGCTTTAA
1646921 TGTGAATGCT
Statistics
Matches: 215, Mismatches: 64, Indels: 43
0.67 0.20 0.13
Matches are distributed among these distances:
26 37 0.17
27 24 0.11
28 143 0.67
29 7 0.03
30 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (28 bp):
ATGTGCCAACTAATGTAGGCTTTAACTC
Found at i:1646939 original size:56 final size:56
Alignment explanation
Indices: 1646870--1647030 Score: 164
Period size: 56 Copynumber: 2.9 Consensus size: 56
1646860 TTCGATTTCT
* * * **
1646870 ATGCCAACCAATGTGGGCTTCAATTCATGTGCCAGCCAATATAGGCTTTAATGTGA
1 ATGCCAACTAATGTGGGCTTCAATTCATGTGCCAGCTAATATGGGCTTTAACATGA
*** * *
1646926 ATGCTGGCTAATGTGAGCTTCAACTT-ATGTTCCAAG-TAATATGGGCTTTAACATGA
1 ATGCCAACTAATGTGGGCTTCAA-TTCATGTGCC-AGCTAATATGGGCTTTAACATGA
* * * *
1646982 ATGCCAACTAATGTAGGCTTCGACTCATGTGCTAGCTAATATGGGCTTT
1 ATGCCAACTAATGTGGGCTTCAATTCATGTGCCAGCTAATATGGGCTTT
1647031 CTTTTAATGA
Statistics
Matches: 82, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
55 3 0.04
56 75 0.91
57 4 0.05
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (56 bp):
ATGCCAACTAATGTGGGCTTCAATTCATGTGCCAGCTAATATGGGCTTTAACATGA
Found at i:1648458 original size:14 final size:14
Alignment explanation
Indices: 1648439--1648475 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
1648429 TGCCATCCAA
1648439 GTTTTTTTGTTTTT
1 GTTTTTTTGTTTTT
1648453 GTTTTTTTGTTTTT
1 GTTTTTTTGTTTTT
1648467 -TTTCTTTTG
1 GTTT-TTTTG
1648476 AAGATCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.84
Consensus pattern (14 bp):
GTTTTTTTGTTTTT
Found at i:1652214 original size:20 final size:20
Alignment explanation
Indices: 1652189--1652245 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
1652179 TAATGATACA
* *
1652189 ATAAGTTAATGTATTGATAT
1 ATAAGTAAATGTATCGATAT
1652209 ATAAGTAAATGTATCGATAT
1 ATAAGTAAATGTATCGATAT
*
1652229 ATAAGTGAATGTATCGA
1 ATAAGTAAATGTATCGA
1652246 CACCTGCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.37
Consensus pattern (20 bp):
ATAAGTAAATGTATCGATAT
Found at i:1653537 original size:18 final size:19
Alignment explanation
Indices: 1653514--1653566 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
1653504 CGTTCATTTA
*
1653514 ATTAAAATAATT-TTAAAT
1 ATTAAAATAATTAATAAAT
1653532 ATT-AAATAATTAATAAAT
1 ATTAAAATAATTAATAAAT
1653550 ATTATAAATAATTAATA
1 ATTA-AAATAATTAATA
1653567 CAAATATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 8 0.26
18 11 0.35
20 12 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTAAAATAATTAATAAAT
Found at i:1653563 original size:10 final size:10
Alignment explanation
Indices: 1653512--1653563 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 10
1653502 TTCGTTCATT
1653512 TAATTA-AAA
1 TAATTATAAA
*
1653521 TAATTTTAAA
1 TAATTATAAA
1653531 T-A-T-TAAA
1 TAATTATAAA
1653538 TAATTAATAAA
1 TAATT-ATAAA
1653549 T-ATTATAAA
1 TAATTATAAA
1653558 TAATTA
1 TAATTA
1653564 ATACAAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
7 5 0.14
8 2 0.06
9 13 0.36
10 11 0.31
11 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATTATAAA
Found at i:1656159 original size:22 final size:22
Alignment explanation
Indices: 1656133--1656175 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1656123 GACTTAAAGA
*
1656133 TTGAGCATACAAAACTGAAAAC
1 TTGAGAATACAAAACTGAAAAC
1656155 TTGAGAATACAAAACTGAAAA
1 TTGAGAATACAAAACTGAAAA
1656176 ATATCTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.19
Consensus pattern (22 bp):
TTGAGAATACAAAACTGAAAAC
Found at i:1658269 original size:15 final size:15
Alignment explanation
Indices: 1658252--1658280 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1658242 AAATTTATTT
1658252 TTTTAAA-ATAATAA
1 TTTTAAATATAATAA
1658266 TTTTAAATATAATAA
1 TTTTAAATATAATAA
1658281 AAATATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTTAAATATAATAA
Found at i:1661669 original size:13 final size:13
Alignment explanation
Indices: 1661651--1661675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1661641 CATAAAGTGT
1661651 TGTATCGATACAA
1 TGTATCGATACAA
1661664 TGTATCGATACA
1 TGTATCGATACA
1661676 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1661673 original size:33 final size:33
Alignment explanation
Indices: 1661631--1661697 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1661621 TTCAACGATT
1661631 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1661664 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1661697 T
1 T
1661698 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1661758 original size:13 final size:13
Alignment explanation
Indices: 1661740--1661764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1661730 ATTACTCAAA
1661740 TGTATCGATACAT
1 TGTATCGATACAT
1661753 TGTATCGATACA
1 TGTATCGATACA
1661765 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1661829 original size:52 final size:52
Alignment explanation
Indices: 1661773--1661897 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
1661763 CACTGATCTT
*
1661773 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1661825 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1661877 TGTATCAATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1661898 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1667933 original size:20 final size:20
Alignment explanation
Indices: 1667896--1667973 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
1667886 GTAAAAAGAC
* * *
1667896 AGAATATATTGATGCATTGA
1 AGAATGTATCGATACATTGA
*
1667916 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* * *
1667936 TA-CACGTATCCATACATTGA
1 -AGAATGTATCGATACATTGA
*
1667956 AAAATGTATCGATACATT
1 AGAATGTATCGATACATT
1667974 TGGGTACTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1668964 original size:28 final size:28
Alignment explanation
Indices: 1668877--1669440 Score: 570
Period size: 28 Copynumber: 19.5 Consensus size: 28
1668867 CATTAACTTG
* *
1668877 TGTGGGCTTTGAAAAGAGTTGCCACTAACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
*
1668907 CGTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1668938 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1668966 TGTGGGCTTTGAAAGGATGCTAGTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
**
1668994 TGTGGGCTTTGAAAAGAATGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * **
1669023 TATGGTCTTTGAAAATGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1669051 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1669079 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1669107 TATGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * * *
1669137 CGTGAGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1669165 TGTGGGCTTTGAAAAAAGTTACCACCGACT
1 TGTGGGCTTTG--AAAGGGTGCCACTGACT
* *
1669195 TGTGTAGACTTTGAAAAGAGTGCCACTGACT
1 TGTG--GGCTTTG-AAAGGGTGCCACTGACT
*
1669226 TGTGGGCTTTGAAAAAGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1669255 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1669283 TATGGGCTTTGAAAGGATACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1669311 TGTGAGCTTTGAAAAGAGTTGCCACTGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * *
1669341 CGTATGGGCTTTGAAAAGAGTGCCACTAACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
1669372 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1669400 TGTGGGCTTTGAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1669428 TGTAGGCTTTGAA
1 TGTGGGCTTTGAA
1669441 GAGATGAACG
Statistics
Matches: 450, Mismatches: 71, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
28 244 0.54
29 88 0.20
30 45 0.10
31 37 0.08
32 36 0.08
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:1669009 original size:85 final size:85
Alignment explanation
Indices: 1668877--1669440 Score: 623
Period size: 85 Copynumber: 6.5 Consensus size: 85
1668867 CATTAACTTG
* * *
1668877 TGTGGGCTTTGAAAAGAGTTGCCACTAACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT--TGTGGGCTTTGAAAAGAGTGCCACTGACTTATG
*
1668942 GGCTTTGAAAGGGTGCCATTGACT
62 GGCTTTGAAAGGGTGCCACTGACT
* * * * *
1668966 TGTGGGCTTTGAAAGGATGCTAGTAACTTGTGGGCTTTGAAAAGAATGCCACTGACTTATGGTCT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCT
**
1669031 TTGAAAATGTGCCACTGACT
66 TTGAAAGGGTGCCACTGACT
* * * *
1669051 TGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTATGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCT
* *
1669115 TTGAAAAGAGTTGCCACCGACT
66 TTG-AAAG-GGTGCCACTGACT
* * * * * * *
1669137 CGTGAGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAAAAGTTACCACCGACTTGTGTAG
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTATG--G
* *
1669202 ACTTTGAAAAGAGTGCCACTGACT
63 GCTTTG-AAAGGGTGCCACTGACT
*
1669226 TGTGGGCTTTGAAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTATGGG
1 TGTGGGCTTTG--AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGG
* *
1669289 CTTTGAAAGGATACCACTGACT
64 CTTTGAAAGGGTGCCACTGACT
* * * * *
1669311 TGTGAGCTTTGAAAAGAGTTGCCACTGACTCGTATGGGCTTTGAAAAGAGTGCCACTAACTTGTG
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT--TGTGGGCTTTGAAAAGAGTGCCACTGACTTATG
1669376 GGCTTTGAAAGGGTGCCACTGACT
62 GGCTTTGAAAGGGTGCCACTGACT
* *
1669400 TGTGGGCTTTGAAA-GAGTGCCACTAACTTGTAGGCTTTGAA
1 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAA
1669441 GAGATGAACG
Statistics
Matches: 404, Mismatches: 57, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
84 25 0.06
85 130 0.32
86 68 0.17
87 20 0.05
88 45 0.11
89 75 0.19
90 36 0.09
91 5 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (85 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCT
TTGAAAGGGTGCCACTGACT
Found at i:1670706 original size:18 final size:18
Alignment explanation
Indices: 1670662--1670719 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
1670652 CCCCTTTCTG
*
1670662 TTTT-TTTTTTAATTTTT
1 TTTTGTTTTTTCATTTTT
* **
1670679 TCCTTGGTTTTTTTGTTTTT
1 T--TTTGTTTTTTCATTTTT
1670699 TTTTGTTTTTTCATTTTT
1 TTTTGTTTTTTCATTTTT
1670717 TTT
1 TTT
1670720 GGTATGAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 1 0.03
18 17 0.53
19 2 0.06
20 12 0.38
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.83
Consensus pattern (18 bp):
TTTTGTTTTTTCATTTTT
Found at i:1683607 original size:13 final size:13
Alignment explanation
Indices: 1683589--1683646 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
1683579 ATATAAATGT
1683589 TGTATCGATACAA
1 TGTATCGATACAA
1683602 TGTATCGATACATAA
1 TGTATCGATAC--AA
1683617 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
1683634 TGTATCGCTACAA
1 TGTATCGATACAA
1683647 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1683609 original size:32 final size:32
Alignment explanation
Indices: 1683568--1683645 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
1683558 ACAAACAGTA
*
1683568 AATGTATCGATATATAAATGTTGTATCGATAC
1 AATGTATCGATACATAAATGTTGTATCGATAC
*
1683600 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAATGTTGTATCGATAC
*
1683632 AATGTATCGCTACA
1 AATGTATCGATACA
1683646 AAGCTACTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAATGTTGTATCGATAC
Found at i:1683626 original size:19 final size:18
Alignment explanation
Indices: 1683570--1683632 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1683560 AAACAGTAAA
*
1683570 TGTATCGATATATAAATGT
1 TGTATCGATACAT-AATGT
1683589 TGTATCGATAC--AA---
1 TGTATCGATACATAATGT
1683602 TGTATCGATACATAAGTGT
1 TGTATCGATACATAA-TGT
1683621 TGTATCGATACA
1 TGTATCGATACA
1683633 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
16 2 0.05
19 22 0.59
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAATGT
Found at i:1683702 original size:13 final size:13
Alignment explanation
Indices: 1683684--1683711 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1683674 CATTATTCAA
1683684 TGTATCGATACAT
1 TGTATCGATACAT
1683697 TGTATCGATACAT
1 TGTATCGATACAT
1683710 TG
1 TG
1683712 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1683707 original size:33 final size:33
Alignment explanation
Indices: 1683664--1683729 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1683654 GCCAAGGAAA
*
1683664 TGTATTGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
1683697 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
1683730 CTAAGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:1689862 original size:17 final size:16
Alignment explanation
Indices: 1689842--1689881 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
1689832 GAAAAAGTAA
1689842 AAAAAAAAACAAAAAAC
1 AAAAAAAAAC-AAAAAC
1689859 AAAAAAAAACAAAAAC
1 AAAAAAAAACAAAAAC
1689875 AAAAAAA
1 AAAAAAA
1689882 CACACACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACAAAAAC
Found at i:1689894 original size:16 final size:14
Alignment explanation
Indices: 1689844--1689897 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1689834 AAAAGTAAAA
*
1689844 AAAAAAACAAAAAAC
1 AAAAAAA-AACAAAC
1689859 AAAAAAAAACAAA-
1 AAAAAAAAACAAAC
1689872 AACAAAAAAACACACAC
1 AA-AAAAAAACA-A-AC
1689889 AAAAAAAAA
1 AAAAAAAAA
1689898 GTACAATGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
13 2 0.06
14 14 0.41
15 8 0.24
16 8 0.24
17 2 0.06
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACAAAC
Found at i:1691189 original size:31 final size:31
Alignment explanation
Indices: 1691154--1692025 Score: 286
Period size: 33 Copynumber: 28.8 Consensus size: 31
1691144 CAAATCTCTC
**
1691154 TTCTTCAAAGTCCATGACTCAGTGGCATCTT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
**
1691185 TTCTTCAAAGTCCATGACTCAGTGGCATCTCT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCT-T
* *
1691217 TTC--CAAAGTCCACGACTCAATGGCATCTT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
* * *
1691246 TTCTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
* * *
1691277 TTCTTCAAAGCCCACAACTCCGTGGCACCTAT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCT-T
* * * *
1691309 TTCTTTTCAAAGCCCACCACTCCGTGGCACCTTT
1 TTC--TTCAAAGTCCACAACTCAGTGGCATC-TT
* *
1691343 TTCTTTTCAAAGTCCACAACTCTGTGGCA-CTC
1 TTC--TTCAAAGTCCACAACTCAGTGGCATCTT
* * **
1691375 TT-TT-AAAGCCCACAACTCTGTGGCA-CCC
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
* * **
1691403 TT-TT-AAAGCCCACAACTCCGTGGCA-CCC
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
* * * **
1691431 TT-TT-AGAGCCCACAACTCCGTGGCA-CCC
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
*
1691459 TT-TT--AAGTCCACAACTTC-GTGGCACCTT
1 TTCTTCAAAGTCCACAAC-TCAGTGGCATCTT
**
1691487 GTTCCTTTTAAGTCCACAACTCCA-TGGCATCTTT
1 -TT-CTTCAAAGTCCACAACT-CAGTGGCATC-TT
** * *
1691521 TTCCTTTTAAGTCCACAACTCTGTGGCACCTT
1 TT-CTTCAAAGTCCACAACTCAGTGGCATCTT
** * *
1691553 GTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
1 -TT-CTTCAAAGTCCACAACTCAGTGGCATCTT
** * **
1691586 GTTCCTTTTAAGTCCACAACTCCGTGGCA-CCC
1 -TT-CTTCAAAGTCCACAACTCAGTGGCATCTT
* * *
1691618 TT-TT--AAGCCCACAACTCCGTGGCATC-C
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
* **
1691645 TT-TT--AAGTCCACAACTCCGTGGCA-CCC
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
*
1691672 TT-TT--AAGCCCACAACTCCA-TGGCATTCTTT
1 TTCTTCAAAGTCCACAACT-CAGTGGCA-TC-TT
** * *
1691702 TTCCTTTTAAGTCCACAACTCCGTGGCA-CTC
1 TT-CTTCAAAGTCCACAACTCAGTGGCATCTT
* * *
1691733 TT-TT-AAAGCCCACAAATTC-GTGGCATC-C
1 TTCTTCAAAGTCCAC-AACTCAGTGGCATCTT
* * **
1691761 TT-TT-AAAGCCCACAACTCCGTGGCA-CCC
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
* * * *
1691789 TT-TT-AGAGCCCACAACTCCGTGGCA-CCT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
**
1691817 TT-TT--AAGTCCACAACTTC-GTGGCA-CCC
1 TTCTTCAAAGTCCACAAC-TCAGTGGCATCTT
*
1691844 TT-TT--AAGTCCACAACTTC-GTGGCACCTT
1 TTCTTCAAAGTCCACAAC-TCAGTGGCATCTT
** *
1691872 GTTCCTTTTAAGTCCACAACTCCGTGGCATCTTT
1 -TT-CTTCAAAGTCCACAACTCAGTGGCATC-TT
** * *
1691906 TTCCTTTTAAGTCCACAACTCCGTGGCACCTT
1 TT-CTTCAAAGTCCACAACTCAGTGGCATCTT
** * *
1691938 GTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
1 -TT-CTTCAAAGTCCACAACTCAGTGGCATCTT
** * *
1691971 GTTCCTTTTAAGTCCACAACTCTGTGGCATC-C
1 -TT-CTTCAAAGTCCACAACTCAGTGGCATCTT
*
1692003 TT-TT--AAGTCCACAACTCCGTGGC
1 TTCTTCAAAGTCCACAACTCAGTGGC
1692026 GCCCTTTTAA
Statistics
Matches: 745, Mismatches: 52, Indels: 92
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.00
27 143 0.19
28 152 0.20
29 22 0.03
30 25 0.03
31 92 0.12
32 23 0.03
33 214 0.29
34 72 0.10
35 1 0.00
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.31
Consensus pattern (31 bp):
TTCTTCAAAGTCCACAACTCAGTGGCATCTT
Found at i:1691226 original size:30 final size:29
Alignment explanation
Indices: 1691159--1691248 Score: 135
Period size: 31 Copynumber: 3.0 Consensus size: 29
1691149 CTCTCTTCTT
1691159 CAAAGTCCATGACTCAGTGGCATCTTTTC
1 CAAAGTCCATGACTCAGTGGCATCTTTTC
1691188 TTCAAAGTCCATGACTCAGTGGCATCTCTTTC
1 --CAAAGTCCATGACTCAGTGGCATCT-TTTC
* *
1691220 CAAAGTCCACGACTCAATGGCATCTTTTC
1 CAAAGTCCATGACTCAGTGGCATCTTTTC
1691249 TTCAAAGCCC
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
29 4 0.07
30 23 0.41
31 25 0.45
32 4 0.07
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (29 bp):
CAAAGTCCATGACTCAGTGGCATCTTTTC
Found at i:1691387 original size:28 final size:27
Alignment explanation
Indices: 1691253--1692046 Score: 480
Period size: 33 Copynumber: 26.5 Consensus size: 27
1691243 CTTTTCTTCA
*
1691253 AAGCCCACAACTCCGTGGCACCTTTTCTT
1 AAGCCCACAACTCCGTGGCA-CTCTT-TT
1691282 CAAAGCCCACAACTCCGTGGCACCTATTTCTTTT
1 --AAGCCCACAACTCCGTGGCA-C----TCTTTT
*
1691316 CAAAGCCCACCACTCCGTGGCACCTTTTTCTTTT
1 --AAGCCCACAACTCCGTGGCA-C----TCTTTT
* *
1691350 CAAAGTCCACAACTCTGTGGCACTCTTTT
1 --AAGCCCACAACTCCGTGGCACTCTTTT
* *
1691379 AAAGCCCACAACTCTGTGGCACCCTTTT
1 -AAGCCCACAACTCCGTGGCACTCTTTT
*
1691407 AAAGCCCACAACTCCGTGGCACCCTTTT
1 -AAGCCCACAACTCCGTGGCACTCTTTT
*
1691435 AGAGCCCACAACTCCGTGGCACCCTTTT
1 A-AGCCCACAACTCCGTGGCACTCTTTT
* *
1691463 AAGTCCACAACTTCGTGGCACCTTGTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-C----T-CTTTT
* *
1691496 AAGTCCACAACTCCATGGCATCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-C----T-CTTTT
* *
1691529 AAGTCCACAACTCTGTGGCACCTTGTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-C----T-CTTTT
*
1691562 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-C----T-CTTTT
* *
1691595 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTT
1691622 AAGCCCACAACTCCGTGGCA-TCCTTTT
1 AAGCCCACAACTCCGTGGCACT-CTTTT
* *
1691649 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTT
*
1691676 AAGCCCACAACTCCATGGCATTCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCA--C----T-CTTTT
*
1691710 AAGTCCACAACTCCGTGGCACTCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTT
* *
1691737 AAAGCCCACAAATTCGTGGCA-TCCTTTT
1 -AAGCCCACAACTCCGTGGCACT-CTTTT
*
1691765 AAAGCCCACAACTCCGTGGCACCCTTTT
1 -AAGCCCACAACTCCGTGGCACTCTTTT
1691793 AGAGCCCACAACTCCGTGGCAC-CTTTTT
1 A-AGCCCACAACTCCGTGGCACTC-TTTT
* * *
1691821 AAGTCCACAACTTCGTGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTT
* *
1691848 AAGTCCACAACTTCGTGGCACCTTGTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-C----T-CTTTT
*
1691881 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-C----T-CTTTT
*
1691914 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-C----T-CTTTT
*
1691947 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-C----T-CTTTT
* *
1691980 AAGTCCACAACTCTGTGGCA-TCCTTTT
1 AAGCCCACAACTCCGTGGCACT-CTTTT
* * *
1692007 AAGTCCACAACTCCGTGGCGCCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTT
1692034 AAGCCCACAACTC
1 AAGCCCACAACTC
1692047 TGTGTCATTC
Statistics
Matches: 680, Mismatches: 50, Indels: 70
0.85 0.06 0.09
Matches are distributed among these distances:
27 181 0.27
28 155 0.23
29 7 0.01
31 22 0.03
32 2 0.00
33 234 0.34
34 76 0.11
35 3 0.00
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.30
Consensus pattern (27 bp):
AAGCCCACAACTCCGTGGCACTCTTTT
Found at i:1691499 original size:33 final size:28
Alignment explanation
Indices: 1691352--1692112 Score: 643
Period size: 33 Copynumber: 25.6 Consensus size: 28
1691342 TTTCTTTTCA
*
1691352 AAGTCCACAACTCTGTGGCACT-CTTTT
1 AAGTCCACAACTCCGTGGCACTCCTTTT
* *
1691379 AAAGCCCACAACTCTGTGGCAC-CCTTTT
1 -AAGTCCACAACTCCGTGGCACTCCTTTT
*
1691407 AAAGCCCACAACTCCGTGGCAC-CCTTTT
1 -AAGTCCACAACTCCGTGGCACTCCTTTT
*
1691435 AGAGCCCACAACTCCGTGGCAC-CCTTTT
1 A-AGTCCACAACTCCGTGGCACTCCTTTT
*
1691463 AAGTCCACAACTTCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-C----TCCTTTT
*
1691496 AAGTCCACAACTCCATGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-C----TCCTTTT
*
1691529 AAGTCCACAACTCTGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-C----TCCTTTT
1691562 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-C----TCCTTTT
1691595 AAGTCCACAACTCCGTGGCAC-CCTTTT
1 AAGTCCACAACTCCGTGGCACTCCTTTT
*
1691622 AAGCCCACAACTCCGTGGCA-TCCTTTT
1 AAGTCCACAACTCCGTGGCACTCCTTTT
1691649 AAGTCCACAACTCCGTGGCAC-CCTTTT
1 AAGTCCACAACTCCGTGGCACTCCTTTT
* *
1691676 AAGCCCACAACTCCATGGCATTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA--C----TCCTTTT
1691710 AAGTCCACAACTCCGTGGCACT-CTTTT
1 AAGTCCACAACTCCGTGGCACTCCTTTT
* * *
1691737 AAAGCCCACAAATTCGTGGCA-TCCTTTT
1 -AAGTCCACAACTCCGTGGCACTCCTTTT
*
1691765 AAAGCCCACAACTCCGTGGCAC-CCTTTT
1 -AAGTCCACAACTCCGTGGCACTCCTTTT
* *
1691793 AGAGCCCACAACTCCGTGGCAC-CTTTTT
1 A-AGTCCACAACTCCGTGGCACTCCTTTT
*
1691821 AAGTCCACAACTTCGTGGCAC-CCTTTT
1 AAGTCCACAACTCCGTGGCACTCCTTTT
*
1691848 AAGTCCACAACTTCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-C----TCCTTTT
1691881 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-C----TCCTTTT
1691914 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-C----TCCTTTT
1691947 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-C----TCCTTTT
*
1691980 AAGTCCACAACTCTGTGGCA-TCCTTTT
1 AAGTCCACAACTCCGTGGCACTCCTTTT
*
1692007 AAGTCCACAACTCCGTGGCGC-CCTTTT
1 AAGTCCACAACTCCGTGGCACTCCTTTT
* * *
1692034 AAGCCCACAACTCTGTGTCATTCGTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA--C----TCCTTTT
* *
1692068 AAGTCCACAACTCCGTGGTAC-ACTTTT
1 AAGTCCACAACTCCGTGGCACTCCTTTT
* *
1692095 AAGTCCATAACTCTGTGG
1 AAGTCCACAACTCCGTGG
1692113 TATCTTTCTC
Statistics
Matches: 651, Mismatches: 47, Indels: 71
0.85 0.06 0.09
Matches are distributed among these distances:
27 210 0.32
28 155 0.24
29 2 0.00
32 3 0.00
33 235 0.36
34 46 0.07
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.31
Consensus pattern (28 bp):
AAGTCCACAACTCCGTGGCACTCCTTTT
Found at i:1691980 original size:358 final size:354
Alignment explanation
Indices: 1691253--1692112 Score: 1221
Period size: 358 Copynumber: 2.4 Consensus size: 354
1691243 CTTTTCTTCA
*
1691253 AAGCCCACAACTCCGTGGCA-CCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTATTTCTTTTC
1 AAGCCCACAACTCCGTGGCATCC--TT-TT--AAGTCCACAACTCCGTGGCACC-----CTTTT-
* * *
1691317 AAAGCCCACCACTCCGTGGCA-CCTTTTT-CTTTTCAAAGTCCACAACTCTGTGGCACTCTTTTA
55 -AAGCCCACAACTCCGTGGCATTCTTTTTCCTTTT--AAGTCCACAACTCCGTGGCACTCTTTTA
1691380 AAGCCCACAACTCTGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAGAGCCCACA
117 AAGCCCACAACTCTGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAGAGCCCACA
1691445 ACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCC
182 ACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACC----TCCTTTTAAGTCCACAACTCC
* * *
1691510 ATGGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTGTTCCTTTTAAGTCCACAACTC
243 ATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTC
1691575 CGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
308 CGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1691622 AAGCCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAAC
1 AAGCCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAAC
* *
1691687 TCCATGGCATTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGCCCACAAAT-T
66 TCCGTGGCATTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGCCCACAACTCT
*
1691751 CGTGGCATCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAGAGCCCACAACTCCGTGGCACC
131 -GTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAGAGCCCACAACTCCGTGGCACC
* * *
1691816 TTTTTAAGTCCACAACTTCGTGGCA-C-CCTTTTAAGTCCACAACTTCGTGGCACCTTGTTCCTT
195 CTTTTAAGTCCACAACTTCGTGGCACCTCCTTTTAAGTCCACAACTCCATGGCACCTTGTTCCTT
* *
1691879 TTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCT
260 TTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCT
1691944 TTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
325 TTTAAGTCCACAACTCCGTGGCA-C-----CCTTTT
* * *
1691980 AAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCGCCCTTTTAAGCCCACAAC
1 AAGCCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAAC
* * * * * * *
1692045 TCTGTGTCATTCGTTTTCCTTTTAAGTCCACAACTCCGTGGTACACTTTT-AAGTCCATAACTCT
66 TCCGTGGCATTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGCCCACAACTCT
1692109 GTGG
131 GTGG
1692113 TATCTTTCTC
Statistics
Matches: 453, Mismatches: 27, Indels: 34
0.88 0.05 0.07
Matches are distributed among these distances:
352 118 0.26
353 1 0.00
357 15 0.03
358 256 0.57
359 6 0.01
360 10 0.02
365 21 0.05
367 2 0.00
368 2 0.00
369 20 0.04
370 2 0.00
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.31
Consensus pattern (354 bp):
AAGCCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAAC
TCCGTGGCATTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGCCCACAACTCT
GTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAGAGCCCACAACTCCGTGGCACCC
TTTTAAGTCCACAACTTCGTGGCACCTCCTTTTAAGTCCACAACTCCATGGCACCTTGTTCCTTT
TAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTT
TTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:1692096 original size:385 final size:382
Alignment explanation
Indices: 1691356--1692211 Score: 1166
Period size: 385 Copynumber: 2.2 Consensus size: 382
1691346 TTTTCAAAGT
*
1691356 CCACAACTCTGTGGCACTCTTTTAAAGCCCACAACTCTGTGGCACCCTTTTAAAGCCCACAACTC
1 CCACAACTCTGTGGCACTCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTC
1691421 CGTGGCACCCTTTTAGAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCT
66 CGTGGCACCCTTTTAGAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCT
*
1691486 TGTTCCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACC
131 TGTTCCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC
1691551 TTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC
196 TTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC
* *
1691616 CCTTTTAAGCCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCC
261 CCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCC
* *
1691681 CACAACTCCATGGCATTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTTT-AAAGC
326 CACAACTCCATGG-ATAC----TACTTTTAAGTCCACAACTCCGTGGCACTCTTTTCAAAGC
* *
1691742 CCACAAAT-TCGTGGCA-TCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAGAGCCCACAAC
1 CCACAACTCT-GTGGCACT-CTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAAGCCCACAAC
* * *
1691805 TCCGTGGCACCTTTTTA-AGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCAC
64 TCCGTGGCACCCTTTTAGAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCAC
*
1691869 CTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
129 CTTGTTCCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
*
1691934 CCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGC
194 CCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGC
* * * * *
1691999 ATCCTTTTAAGTCCACAACTCCGTGGCGCCCTTTTAAGCCCACAACTCTGTGTCATTCGTTTTCC
259 ACCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCA--C-----CC
* * * * * *
1692064 TTTTAAGTCCACAACTCCGTGG-TAC-ACTTTTAAGTCCATAACTCTGTGGTATCTTTCTCTTTT
317 TTTTAAGCCCACAACTCCATGGATACTACTTTTAAGTCCACAACTCCGTGGCA-C--TCT-TTTC
* *
1692127 TAGGC
378 AAAGC
* * * * * *
1692132 CCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCCACAA
1 CCACAACTCTGTGGCACTCTTTT--AAAGCCCACAACTCCGTGGCA-CCCTTTTAAAGCCCACAA
* * *
1692197 GTCAGTGGCAACCTT
63 CTCCGTGGCACCCTT
1692212 CCAAAGCACA
Statistics
Matches: 415, Mismatches: 36, Indels: 31
0.86 0.07 0.06
Matches are distributed among these distances:
385 244 0.59
386 73 0.18
387 1 0.00
388 3 0.01
389 3 0.01
390 23 0.06
392 41 0.10
393 27 0.07
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.31
Consensus pattern (382 bp):
CCACAACTCTGTGGCACTCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTC
CGTGGCACCCTTTTAGAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCT
TGTTCCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC
TTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC
CCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCC
CACAACTCCATGGATACTACTTTTAAGTCCACAACTCCGTGGCACTCTTTTCAAAGC
Found at i:1692113 original size:27 final size:27
Alignment explanation
Indices: 1692063--1692114 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1692053 ATTCGTTTTC
1692063 CTTTTAAGTCCACAACTCCGTGGTACA
1 CTTTTAAGTCCACAACTCCGTGGTACA
* *
1692090 CTTTTAAGTCCATAACTCTGTGGTA
1 CTTTTAAGTCCACAACTCCGTGGTA
1692115 TCTTTCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGTACA
Found at i:1692152 original size:60 final size:61
Alignment explanation
Indices: 1692000--1692154 Score: 172
Period size: 61 Copynumber: 2.6 Consensus size: 61
1691990 CTCTGTGGCA
* * *
1692000 TCCTTTTAAGTCCACAACTCCGTGGCGCCCTTTTAAGCCCACAACTCTGTGTCATTCGTTT
1 TCCTTTTAAGCCCACAACTCCGTGGCACACTTTTAAGCCCACAACTCTGTGTCATTCGTTT
* * * *
1692061 TCCTTTTAAGTCCACAACTCCGTGGTACACTTTTAAGTCCATAACTCTGTGGT-A-TC-TTT
1 TCCTTTTAAGCCCACAACTCCGTGGCACACTTTTAAGCCCACAACTCTGT-GTCATTCGTTT
* * * *
1692120 CTCTTTTTAGGCCCACAAGTCAGTGGCACACTTTT
1 -TCCTTTTAAGCCCACAACTCCGTGGCACACTTTT
1692155 CAAAAGCCCA
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
59 3 0.04
60 30 0.37
61 46 0.57
62 2 0.02
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (61 bp):
TCCTTTTAAGCCCACAACTCCGTGGCACACTTTTAAGCCCACAACTCTGTGTCATTCGTTT
Found at i:1692164 original size:30 final size:29
Alignment explanation
Indices: 1692130--1692218 Score: 126
Period size: 30 Copynumber: 3.1 Consensus size: 29
1692120 CTCTTTTTAG
*
1692130 GCCCACAAGTCAGTGGCACACTTTTCAAAA
1 GCCCACAAGTCAGTGGCACACCTTTC-AAA
* *
1692160 GCCCACAAGTCGGTGGCACCCCTTTCAAA
1 GCCCACAAGTCAGTGGCACACCTTTCAAA
*
1692189 GCCCACAAGTCAGTGGCA-ACCTTCCAAA
1 GCCCACAAGTCAGTGGCACACCTTTCAAA
1692217 GC
1 GC
1692219 ACATAAGTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 10 0.19
29 20 0.38
30 23 0.43
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.17
Consensus pattern (29 bp):
GCCCACAAGTCAGTGGCACACCTTTCAAA
Found at i:1692199 original size:29 final size:30
Alignment explanation
Indices: 1692130--1692264 Score: 127
Period size: 29 Copynumber: 4.6 Consensus size: 30
1692120 CTCTTTTTAG
* *
1692130 GCCCACAAGTCAGTGGCACACTTTTCAAAA
1 GCCCACAAGTCGGTGGCACACCTTTCAAAA
*
1692160 GCCCACAAGTCGGTGGCACCCCTTTC-AAA
1 GCCCACAAGTCGGTGGCACACCTTTCAAAA
* *
1692189 GCCCACAAGTCAGTGGCA-ACC-TTCCAAA
1 GCCCACAAGTCGGTGGCACACCTTTCAAAA
* * *
1692217 GCACATAAGTTGGT-GCA-ACCCTTTCAAAA
1 GCCCACAAGTCGGTGGCACA-CCTTTCAAAA
*
1692246 GACCACACAAGTTGGTGGC
1 G-CC-CACAAGTCGGTGGC
1692265 GTCTTTTTCT
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
27 7 0.08
28 17 0.20
29 27 0.31
30 24 0.28
31 10 0.11
32 2 0.02
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (30 bp):
GCCCACAAGTCGGTGGCACACCTTTCAAAA
Found at i:1692444 original size:48 final size:47
Alignment explanation
Indices: 1692285--1692859 Score: 453
Period size: 48 Copynumber: 12.6 Consensus size: 47
1692275 AAGTCTAATA
* * * *
1692285 TCGCTAGCCTTGAATTAGCATATTGGTACCTTCATCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC-TTAAGACCAATG
* * * * * *
1692334 TCGCTGGCCTTGATTCAGCACATTGGCATCTTCATCTTTAAAACCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC-TTAAGACCAATG
*
1692383 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTCAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCT-TAAGACCAATG
* *
1692431 TCGCTCGCCTTGAATCAGCACT-TTGGCA--------TAAG-CCTAATA
1 TCGCTGGCCTTGAATCAGCA-TATTGGCACCTTGTCTTAAGACC-AATG
1692470 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCT-TAAGACCAATG
* * *
1692518 TCGCTGGCCTTGAATCAGCACATTGGCA--------TAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACCAATG
*
1692557 TCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCT-TAAGACCAATG
* * *
1692605 TCGCTGGCCTTGAATCAGCACATTGGCA--------TAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACCAATG
* *
1692644 TCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC-TTAAGACCAATG
* *
1692692 TCGCTGGCCTTGAATCAGCATATTGGCA--------TAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACCAATG
* * *
1692731 TCGCTGGCCTTGAATCAGCATATTGGAACCTTCGTCATCTTTAAAACCGATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTT-G---TC-TTAAGACCAATG
* * * * *
1692783 TTGCTGGCCTTGAATCAGCACATTGGCACCTTCATTCTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTT--GTCTTAAGACCAATG
* *
1692832 TCGTTGGCCTTGAATCAGCGTATTGGCA
1 TCGCTGGCCTTGAATCAGCATATTGGCA
1692860 TCTTTAACAT
Statistics
Matches: 422, Mismatches: 58, Indels: 92
0.74 0.10 0.16
Matches are distributed among these distances:
38 3 0.01
39 136 0.32
47 1 0.00
48 139 0.33
49 105 0.25
50 2 0.00
52 36 0.09
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (47 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACCAATG
Found at i:1692485 original size:39 final size:38
Alignment explanation
Indices: 1692425--1692756 Score: 252
Period size: 39 Copynumber: 7.8 Consensus size: 38
1692415 GTCTCTCAGA
* *
1692425 CCAATGTCGCTCGCCTTGAATCAGCACT-TTGGCATAAG
1 CCAATATCGCTGGCCTTGAATCAGCA-TATTGGCATAAG
1692463 CCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAG
1 CC-AATATCGCTGGCCTTGAATCAGCATATTGGCA---------TAAG
* *
1692511 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAG
1 -CCAATATCGCTGGCCTTGAATCAGCATATTGGCATAAG
*
1692550 CCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAG
1 -CCAATATCGCTGGCCTTGAATCAGCATATTGGCA---------TAAG
* *
1692598 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAG
1 -CCAATATCGCTGGCCTTGAATCAGCATATTGGCATAAG
* *
1692637 CCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAA
1 -CCAATATCGCTGGCCTTGAATCAGCATATTGGCA---------T-AAG
*
1692686 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATAAG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATAAG
1692724 CCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 -CCAATATCGCTGGCCTTGAATCAGCATATTGG
1692757 AACCTTCGTC
Statistics
Matches: 241, Mismatches: 21, Indels: 63
0.74 0.06 0.19
Matches are distributed among these distances:
38 5 0.02
39 130 0.54
48 102 0.42
49 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (38 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCATAAG
Found at i:1692528 original size:87 final size:87
Alignment explanation
Indices: 1692377--1692810 Score: 715
Period size: 87 Copynumber: 4.9 Consensus size: 87
1692367 ATCTTTAAAA
* *
1692377 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTCAGACCAATGTCGCTCGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
*
1692442 GAATCAGCACTTTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
*
1692464 CTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1692529 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
*
1692551 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1692616 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
1692638 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
*
1692703 GAATCAGCATATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * * *
1692725 CCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTCGTCATCTTTAAAACCGATGTTGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC-TC--TAAGACCAATGTCGCTGG
1692790 CCTTGAATCAGCACATTGGCA
62 CCTTGAATCAGCACATTGGCA
1692811 CCTTCATTCT
Statistics
Matches: 328, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
87 288 0.88
88 3 0.01
89 1 0.00
91 36 0.11
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCATAAGC
Found at i:1692858 original size:49 final size:49
Alignment explanation
Indices: 1692720--1692955 Score: 165
Period size: 52 Copynumber: 4.7 Consensus size: 49
1692710 CATATTGGCA
* *
1692720 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTCGTCATCTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT--TC-T
** * * * *
1692772 TAAAACCGATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATTCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTCT
* * * * *
1692821 TAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATTCC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTT--CATTCT
* * * *
1692873 TAAGCCCAATGTCGTTGGCCTT-ATCTCAGCACATTGGCA--TTC-TTCT
1 TAAGCCCAATATCGCTGGCCTTGA-ATCAGCATATTGGCACCTTCATTCT
* * * * * *
1692919 TCAAGTCTAATGTCACTGGCCATGAATCAGCACATTG
1 T-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTG
1692956 TCATTCTTCA
Statistics
Matches: 148, Mismatches: 30, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
46 4 0.03
47 28 0.19
48 1 0.01
49 34 0.23
50 5 0.03
51 1 0.01
52 75 0.51
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTCT
Found at i:1693827 original size:13 final size:13
Alignment explanation
Indices: 1693809--1693836 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1693799 CATTATTCAA
1693809 TGTATCGATACAT
1 TGTATCGATACAT
1693822 TGTATCGATACAT
1 TGTATCGATACAT
1693835 TG
1 TG
1693837 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1697767 original size:20 final size:19
Alignment explanation
Indices: 1697742--1697815 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1697732 TTTTAACTAG
*
1697742 ATGTATCAATACATTGAAGA
1 ATGTATCGATACATTGAA-A
* *
1697762 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGA-AA
*
1697782 ATGTATCGATACATAGAAAA
1 ATGTATCGATACATTG-AAA
1697802 ATGTATCGATACAT
1 ATGTATCGATACAT
1697816 CTGGGTACTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACATTGAAA
Found at i:1700324 original size:28 final size:29
Alignment explanation
Indices: 1700274--1700355 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 29
1700264 AGTAATAAAT
* **
1700274 AAGAAAGATC-AAGAAAGTGAAATCAA-C
1 AAGAAATATCAAAGAAAAAGAAATCAAGC
*
1700301 GAGAAATAT-AAATGAAAATA-AAAT-AAGC
1 AAGAAATATCAAA-GAAAA-AGAAATCAAGC
1700329 AAGAAATATCAAAGAAAAAGAAATCAA
1 AAGAAATATCAAAGAAAAAGAAATCAA
1700356 TGAAAAGGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
27 12 0.28
28 26 0.60
29 5 0.12
ACGTcount: A:0.65, C:0.07, G:0.15, T:0.13
Consensus pattern (29 bp):
AAGAAATATCAAAGAAAAAGAAATCAAGC
Found at i:1700398 original size:63 final size:64
Alignment explanation
Indices: 1700329--1700456 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 64
1700319 TAAAATAAGC
* *
1700329 AAGAAATAT-CAAAGAAAAAGAAATCAATGAAAAGGAACAAATAATTTTTTGGAAGTTATAAAT
1 AAGAAATATAAAAAAAAAAAGAAATCAATGAAAAGGAACAAATAATTTTTTGGAAGTTATAAAT
* * *
1700392 AAGAAATATAAAAAAAAAAAGAAATCAATGAAGATGAACAAATAATTTTTTGTAAGTTATAAAT
1 AAGAAATATAAAAAAAAAAAGAAATCAATGAAAAGGAACAAATAATTTTTTGGAAGTTATAAAT
1700456 A
1 A
1700457 TGAAGCTCTA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
63 9 0.15
64 50 0.85
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.25
Consensus pattern (64 bp):
AAGAAATATAAAAAAAAAAAGAAATCAATGAAAAGGAACAAATAATTTTTTGGAAGTTATAAAT
Found at i:1702064 original size:97 final size:97
Alignment explanation
Indices: 1701898--1702138 Score: 392
Period size: 97 Copynumber: 2.5 Consensus size: 97
1701888 ATGGAAAAAC
* *
1701898 GGGGTTGGAGTATCCCCTCGGAGGAATAAGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAA
1 GGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTAGAGTGTCCCCGATGATGACAATTTAAGTGAA
1701963 AATAAAATTTAAACTTTGATGCATTTAAAAGT
66 AATAAAATTTAAACTTTGATGCATTTAAAAGT
* * * *
1701995 GGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTAAAGTGTCCCCGATGATGATAATTTAAGTGAG
1 GGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTAGAGTGTCCCCGATGATGACAATTTAAGTGAA
* **
1702060 AATAAGATTTAAACTTTGATGTGTTTAAAAGT
66 AATAAAATTTAAACTTTGATGCATTTAAAAGT
*
1702092 GGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTAGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTAGAGTGTCCCCGAT
1702139 AAATAAAATT
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 132 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (97 bp):
GGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTAGAGTGTCCCCGATGATGACAATTTAAGTGAA
AATAAAATTTAAACTTTGATGCATTTAAAAGT
Found at i:1705105 original size:28 final size:28
Alignment explanation
Indices: 1705065--1705669 Score: 446
Period size: 28 Copynumber: 20.8 Consensus size: 28
1705055 CATCGACTTA
** *
1705065 TGTGGGCTTTGAAAGGATATCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
1705093 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
1705122 TGTGGGCTTTGAAAAGGATGCTACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
1705151 TGTGGGCTTTTGAAAGGATACCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * ** *
1705180 TGTGGGCTTTAAAAAGATGTTACTGTCT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
1705208 TGTGGTTTTTGAAAAGG-TGCCAATGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
1705236 TGTGGGCTTTGAAAGGCTATGCCACTGATT
1 TGTGGGCTTTGAAAGG--ATGCCACTGACT
* * *
1705266 TATGGACTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1705294 TGTGAGATTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1705322 TGGGGGCTTTGAAATGGGTTGCCACCGACT
1 TGTGGGCTTTGAAA--GGATGCCACTGACT
*
1705352 TGAGTGGGCTTTGAAATGGGTTGCCAGC-GACTT
1 T--GTGGGCTTTGAAA--GGATGCCA-CTGAC-T
* **
1705385 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* * *
1705417 GTGTGGGCTTTCAAATGAGTTGCCACCGACT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGACT
* *
1705448 TGTATGGGCTTTGAAATGAATTGCCACCGACT
1 TG--TGGGCTTTGAAA-GGA-TGCCACTGACT
*
1705480 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1705508 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1705536 TGTGGGCTTTGAAATGATACCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1705564 TGTGGGCTTTAAAAAGG-TGCCACAGAGT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * * * *
1705592 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1705619 TATGGACTTTAAAAAGG-TGCCACGGAGT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * *
1705647 TGTGGACTTTAAAAGGGTGCCAC
1 TGTGGGCTTTGAAAGGATGCCAC
1705670 GGAGTCCCCA
Statistics
Matches: 485, Mismatches: 69, Indels: 46
0.81 0.12 0.08
Matches are distributed among these distances:
26 6 0.01
27 29 0.06
28 204 0.42
29 84 0.17
30 53 0.11
31 3 0.01
32 103 0.21
33 2 0.00
34 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:1705261 original size:86 final size:85
Alignment explanation
Indices: 1705003--1705669 Score: 374
Period size: 86 Copynumber: 7.6 Consensus size: 85
1704993 CACCGACTTA
* * * * **
1705003 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTAGGTTTTGAAAAAAGA-GTTATCATCGACTTATG
1 TGTGGGCTTTAAAAAGATGCCACTGACTTGT-GGATTTG-AAAAGGATGCCA-C-T-GAC-T-TG
*
1705067 TGGGCTTTGAAAGGATAT--CACTAACT
59 TGGGCTTTGAAAGG-TATGCCACTGACT
* * * *
1705093 TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCTACTAACTTGTGGGC
1 TGTGGGCTTT-AAAAAGATGCCACTGACTTGT-GGATTTGAAAAGGATGCCACTGACTTGTGGGC
*
1705158 TTTTGAAAGG-ATACCACTGACT
64 -TTTGAAAGGTATGCCACTGACT
** * * *
1705180 TGTGGGCTTTAAAAAGATGTTACTGTCTTGTGGTTTTTGAAAAGG-TGCCAATGACTTGTGGGCT
1 TGTGGGCTTTAAAAAGATGCCACTGACTTGTGG-ATTTGAAAAGGATGCCACTGACTTGTGGGCT
*
1705244 TTGAAAGGCTATGCCACTGATT
65 TTGAAAGG-TATGCCACTGACT
* * * * *
1705266 TATGGACTTTGAAATGATGCCACTGACTTGTGAGATTT-AAAAGGATGCCACTGACTTGGGGGCT
1 TGTGGGCTTTAAAAAGATGCCACTGACTTGTG-GATTTGAAAAGGATGCCACTGACTTGTGGGCT
*
1705330 TTGAAATGGGT-TGCCACCGACT
65 TTGAAA--GGTATGCCACTGACT
** * * * * **
1705352 TGAGTGGGCTTTGAAATGGGTTGCCAGC-GACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACT
1 T--GTGGGCTTT-AAA-AAGATGCCA-CTGAC-T-TGT-GGATTTGAAA-AGGATGCCACTGAC-
* *
1705416 TGTGTGGGCTTTCAAATGAGT-TGCCACCGACT
56 T-TGTGGGCTTTGAAA-G-GTATGCCACTGACT
* * * * *
1705448 TGTATGGGCTTTGAAATGAATTGCCACCGACTTGTGGGCTTTG-AAATGATGCCACTGACTTGTG
1 TG--TGGGCTTTAAAAAG-A-TGCCACTGACTTGT-GGATTTGAAAAGGATGCCACTGACTTGTG
*
1705512 GGCTTTAAAAGG-ATGCCACTGACT
61 GGCTTTGAAAGGTATGCCACTGACT
* * * * * * * * *
1705536 TGTGGGCTTTGAAATGATACCACTAACTTGTGGGCTTTAAAAAGG-TGCCACAGAGTTGTGGAC-
1 TGTGGGCTTTAAAAAGATGCCACTGACTTGT-GGATTTGAAAAGGATGCCACTGACTTGTGGGCT
* * * *
1705599 TTAAAAGG-GTGCCACGGAGT
65 TTGAAAGGTATGCCACTGACT
* * * * * *
1705619 TATGGACTTTAAAAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGGTGCCAC
1 TGTGGGCTTTAAAAAGATGCCACTGACTTGTGGA-TTTGAAAAGGATGCCAC
1705670 GGAGTCCCCA
Statistics
Matches: 468, Mismatches: 75, Indels: 75
0.76 0.12 0.12
Matches are distributed among these distances:
82 8 0.02
83 48 0.10
84 42 0.09
85 30 0.06
86 119 0.25
87 29 0.06
88 24 0.05
89 4 0.01
90 39 0.08
91 32 0.07
92 16 0.03
93 6 0.01
94 23 0.05
95 6 0.01
96 42 0.09
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (85 bp):
TGTGGGCTTTAAAAAGATGCCACTGACTTGTGGATTTGAAAAGGATGCCACTGACTTGTGGGCTT
TGAAAGGTATGCCACTGACT
Found at i:1705277 original size:114 final size:115
Alignment explanation
Indices: 1705091--1705367 Score: 299
Period size: 114 Copynumber: 2.4 Consensus size: 115
1705081 ATATCACTAA
* * *
1705091 CTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCTACTAACTTGTGG
1 CTTGTGGGCTTTGAAAAGGATGCCAATGACTTGTGGGCTTTGAAAAGGATGCCACTAACTTATGG
* * *
1705156 GCTTTTGAAAGGATACCACTGACTTGTGGGCTTTAAAAAGATGTTACTGT
66 ACTTTTGAAAGGATACCACTGACTTGTGAGATTTAAAAAGATGTTACTGT
** * *
1705206 CTTGTGGTTTTTGAAAAGG-TGCCAATGACTTGTGGGCTTTG-AAAGGCTATGCCACTGATTTAT
1 CTTGTGGGCTTTGAAAAGGATGCCAATGACTTGTGGGCTTTGAAAAGG--ATGCCACTAACTTAT
* * * ** *
1705269 GGAC-TTTGAAATGATGCCACTGACTTGTGAGATTTAAAAGGATGCCACTGA
64 GGACTTTTGAAAGGATACCACTGACTTGTGAGATTTAAAAAGATGTTACTGT
* * * **
1705320 CTTGGGGGCTTTGAAATGGGTTGCCACCGACTTGAGTGGGCTTTGAAA
1 CTTGTGGGCTTTGAAA-AGGATGCCAATGACTT--GTGGGCTTTGAAA
1705368 TGGGTTGCCA
Statistics
Matches: 133, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
113 5 0.04
114 73 0.55
115 33 0.25
116 10 0.08
118 10 0.08
119 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.32
Consensus pattern (115 bp):
CTTGTGGGCTTTGAAAAGGATGCCAATGACTTGTGGGCTTTGAAAAGGATGCCACTAACTTATGG
ACTTTTGAAAGGATACCACTGACTTGTGAGATTTAAAAAGATGTTACTGT
Found at i:1705366 original size:32 final size:31
Alignment explanation
Indices: 1705311--1705551 Score: 273
Period size: 32 Copynumber: 7.9 Consensus size: 31
1705301 TTTAAAAGGA
*
1705311 TGCCACTGACTTGG-GGGCTTTGAAATGGGT
1 TGCCACCGACTTGGTGGGCTTTGAAATGGGT
1705341 TGCCACCGACTTGAGTGGGCTTTGAAATGGGT
1 TGCCACCGACTTG-GTGGGCTTTGAAATGGGT
*
1705373 TGCCAGCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACCGACTTG-GTGGGCTTTGAAATGGGT
* * *
1705405 TGCCACCAACTTGTGTGGGCTTTCAAATGAGT
1 TGCCACCGACTTG-GTGGGCTTTGAAATGGGT
* **
1705437 TGCCACCGACTTGTATGGGCTTTGAAATGAAT
1 TGCCACCGACTTG-GTGGGCTTTGAAATGGGT
*
1705469 TGCCACCGACTT-GTGGGCTTTGAAAT--GA
1 TGCCACCGACTTGGTGGGCTTTGAAATGGGT
* * *
1705497 TGCCACTGACTT-GTGGGCTTT-AAA-AGGA
1 TGCCACCGACTTGGTGGGCTTTGAAATGGGT
*
1705525 TGCCACTGACTT-GTGGGCTTTGAAATG
1 TGCCACCGACTTGGTGGGCTTTGAAATG
1705552 ATACCACTAA
Statistics
Matches: 189, Mismatches: 16, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
27 3 0.02
28 43 0.23
29 3 0.02
30 25 0.13
31 1 0.01
32 114 0.60
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (31 bp):
TGCCACCGACTTGGTGGGCTTTGAAATGGGT
Found at i:1705410 original size:64 final size:60
Alignment explanation
Indices: 1705232--1705551 Score: 279
Period size: 64 Copynumber: 5.3 Consensus size: 60
1705222 AGGTGCCAAT
* * * *
1705232 GACTTGTGGGCTTTGAAA-GGCTATGCCACTGA-TT-TATGGACTTTGAAAT--GATGCCACT
1 GACTTGTGGGCTTTGAAATGG-T-TGCCAC-GACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * * *
1705290 GACTTGTGAGATTT-AAAAGGATGCCACTGACTTG-G-GGGCTTTGAAATGGGTTGCCACC
1 GACTTGTGGGCTTTGAAATGGTTGCCAC-GACTTGTGTGGGCTTTGAAATGGGTTGCCACC
1705348 GACTTGAGTGGGCTTTGAAATGGGTTGCCAGCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
1 GACTT--GTGGGCTTTGAAAT-GGTTGCCA-CGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * * **
1705412 AACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTATGGGCTTTGAAATGAATTGCCACC
1 GAC-T-TGTGGGCTTTGAAATG-GTTGCCA-CGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * * *
1705476 GACTTGTGGGCTTTGAAAT-GATGCCACTGAC-T-TGTGGGCTTT-AAA-AGGATGCCACT
1 GACTTGTGGGCTTTGAAATGGTTGCCAC-GACTTGTGTGGGCTTTGAAATGGGTTGCCACC
1705532 GACTTGTGGGCTTTGAAATG
1 GACTTGTGGGCTTTGAAATG
1705552 ATACCACTAA
Statistics
Matches: 219, Mismatches: 26, Indels: 35
0.78 0.09 0.12
Matches are distributed among these distances:
56 45 0.21
57 8 0.04
58 35 0.16
59 2 0.01
60 16 0.07
61 3 0.01
62 27 0.12
63 4 0.02
64 77 0.35
65 1 0.00
66 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (60 bp):
GACTTGTGGGCTTTGAAATGGTTGCCACGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
Found at i:1705635 original size:55 final size:54
Alignment explanation
Indices: 1705563--1706301 Score: 808
Period size: 55 Copynumber: 13.3 Consensus size: 54
1705553 TACCACTAAC
*
1705563 TTGTGGGCTTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTT-AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
1705618 TTATGGACTTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTCCCCACAG
1 TTGTGGACTTT-AAAAGGTGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCAC---G--------G
1705683 AG
53 AG
* * ** *
1705685 TTGTGGACTTTAAAAGGGTGCTACGGAGTTGTGGACTTAAAAGGGCCCCACAGAG
1 TTGTGGACTTTAAAA-GGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1705740 TTG-GGACTTTAAAAGGATGCCACA-ACGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGG-TGCCACAGA-GTTGTGGACTTAAAAGGGTGCCACGGAG
* * * *
1705794 TTGTGGAC-TTAAATGGATGCCACAGAGTTATGGACTTTAAAAGAGTGCCACAGAG
1 TTGTGGACTTTAAAAGG-TGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * * * *
1705849 TTGTGGACTTTAAAGGGTGCTACAGAGTTGTGAACTTTAAAAGGATGCCATGGAG
1 TTGTGGACTTTAAAAGGTGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * *
1705904 TTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
1705958 TTGTGGAC-TTAAAAGGTTGCCACAGAGTTGTGGACTTAAAAGGTTGCCACGGAG
1 TTGTGGACTTTAAAAGG-TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * *
1706012 TTGTGGAC-TTAAAAGGTTGCCACAAAGTTGTGGACTTTAAAAAGGTGTCACGGAG
1 TTGTGGACTTTAAAAGG-TGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * * *
1706067 TTGTGGACTTTAAAAGGTGCCACAAAATTGTGGACTTAAAAGGTTGCCACAGAG
1 TTGTGGACTTTAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * * * *
1706121 TTGTGGACTTTAAATGGGTGCCACAGAGTTATGGACTTTAAAAGGTTGACACGAAG
1 TTGTGGACTTTAAA-AGGTGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * *
1706177 TTATGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGTTGCCACGAAG
1 TTGTGGACTTTAAAA-GGTGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * * *
1706233 CTGTGGAC-TTAAAAGTGTGCCACAAAGTTGT-GACTTAAAAGGGAGTCACGGAG
1 TTGTGGACTTTAAAAG-GTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
1706286 TTGTGGACTTAAAAAG
1 TTGTGGACTTTAAAAG
1706302 AATACCATGG
Statistics
Matches: 594, Mismatches: 63, Indels: 55
0.83 0.09 0.08
Matches are distributed among these distances:
53 32 0.05
54 201 0.34
55 208 0.35
56 103 0.17
59 1 0.00
66 17 0.03
67 32 0.05
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (54 bp):
TTGTGGACTTTAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:1705670 original size:28 final size:28
Alignment explanation
Indices: 1705090--1706255 Score: 318
Period size: 28 Copynumber: 40.9 Consensus size: 28
1705080 GATATCACTA
* *
1705090 ACTTGTGGGCTTTGAAAAGGATGCCACTG
1 ACTTGTGGGCTTT-AAAAGGGTGCCACGG
* * **
1705119 ACTTGTGGGCTTTGAAAAGGATGCTACTA
1 ACTTGTGGGCTTT-AAAAGGGTGCCACGG
* * * *
1705148 ACTTGTGGGCTTTTGAAAGGATACCACTG
1 ACTTGTGGGC-TTTAAAAGGGTGCCACGG
* * ** *
1705177 ACTTGTGGGCTTTAAAAAGATGTTACTG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* ** **
1705205 TCTTGTGGTTTTTGAAAA-GGTGCCAATG
1 ACTTGTGGGCTTT-AAAAGGGTGCCACGG
* * *
1705233 ACTTGTGGGCTTTGAAAGGCTATGCCACTG
1 ACTTGTGGGCTTTAAAAGG--GTGCCACGG
* * * * * * *
1705263 ATTTATGGACTTTGAAATGATGCCACTG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * *
1705291 ACTTGTGAGATTTAAAAGGATGCCACTG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * *
1705319 ACTTGGGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGGGCTTT-AAAAGGG-TGCCACGG
*
1705349 ACTTGAGTGGGCTTTGAAATGGGTTGCCA-GCG
1 ACTT--GTGGGCTTT-AAAAGGG-TGCCACG-G
* **
1705381 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCA
1 AC-T-TGTGGGCTTT-AAAAGGG-TGCCACGG
* * *
1705413 ACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
1 AC-T-TGTGGGCTTT-AAAAG-GGTGCCACGG
* ** *
1705445 ACTTGTATGGGCTTTGAAATGAATTGCCACCG
1 ACTTG--TGGGCTTT-AAAAG-GGTGCCACGG
* * * *
1705477 ACTTGTGGGCTTTGAAATGATGCCACTG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* *
1705505 ACTTGTGGGCTTTAAAAGGATGCCACTG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * * **
1705533 ACTTGTGGGCTTTGAAATGATACCACTA
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* *
1705561 ACTTGTGGGCTTTAAAAAGGTGCCACAG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* *
1705589 AGTTGTGGAC-TTAAAAGGGTGCCACGG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * *
1705616 AGTTATGGACTTTAAAAAGGTGCCACGG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* *
1705644 AGTTGTGGACTTTAAAAGGGTGCCACGG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
*** * * * *
1705672 A---GT---CCCCACAGAGTTGTGGACTTTAAAAGG
1 ACTTGTGGGCTTTA-AAAG-GGT-G-C----CACGG
* * *
1705702 --GTGCTACGGAG-TTGTGGACTTAAAAGG-GCC-C-C
1 ACTTG-T--GG-GCTT-T--A---AAAGGGTGCCACGG
** * *
1705734 ACAGAGTTGGGACTTTAAAAGGATGCCAC-A
1 AC-TTG-TGGG-CTTTAAAAGGGTGCCACGG
*
1705764 ACGTTGTGGAC-TTAAAAGGGTGCCACGG
1 AC-TTGTGGGCTTTAAAAGGGTGCCACGG
* * * * *
1705792 AGTTGTGGAC-TTAAATGGATGCCACAG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * * *
1705819 AGTTATGGACTTTAAAAGAGTGCCACAG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * *
1705847 AGTTGTGGACTTT-AAAGGGTGCTACAG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* ** * *
1705874 AGTTGTGAACTTTAAAAGGATGCCATGG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * *
1705902 AGTTGTGGAC-TTAAAAAGGTGCCACGG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * *
1705929 AGTTGTGGAC-TTAAAAGGATGCCACGG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * *
1705956 AGTTGTGGAC-TTAAAAGGTTGCCACAG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * *
1705983 AGTTGTGGAC-TTAAAAGGTTGCCACGG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * **
1706010 AGTTGTGGAC-TTAAAAGGTTGCCACAA
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * *
1706037 AGTTGTGGACTTTAAAAAGGTGTCACGG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * **
1706065 AGTTGTGGACTTTAAAA-GGTGCCACAA
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * *
1706092 AATTGTGGAC-TTAAAAGGTTGCCACAG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * *
1706119 AGTTGTGGACTTTAAATGGGTGCCACAG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * * * *
1706147 AGTTATGGACTTTAAAAGGTTGACACGA
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * *
1706175 AGTTATGGACTTTAAAAGGGTGCCACAG
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* * * *
1706203 AGTTGTGGACTTTAAAAGGTTGCCACGA
1 ACTTGTGGGCTTTAAAAGGGTGCCACGG
* *
1706231 AGC-TGTGGAC-TTAAAAGTGTGCCAC
1 A-CTTGTGGGCTTTAAAAGGGTGCCAC
1706256 AAAGTTGTGA
Statistics
Matches: 922, Mismatches: 162, Indels: 108
0.77 0.14 0.09
Matches are distributed among these distances:
22 2 0.00
23 3 0.00
24 2 0.00
25 3 0.00
26 7 0.01
27 267 0.29
28 383 0.42
29 75 0.08
30 53 0.06
31 3 0.00
32 107 0.12
33 5 0.01
34 3 0.00
35 3 0.00
38 1 0.00
39 1 0.00
40 1 0.00
41 1 0.00
42 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (28 bp):
ACTTGTGGGCTTTAAAAGGGTGCCACGG
Found at i:1705697 original size:39 final size:39
Alignment explanation
Indices: 1705638--1705713 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
1705628 TAAAAAGGTG
*
1705638 CCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTCC
1 CCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTCC
*
1705677 CCACAGAGTTGTGGACTTTAAAAGGGTGCTACGGAGT
1 CCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGT
1705714 TGTGGACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (39 bp):
CCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTCC
Found at i:1705740 original size:27 final size:27
Alignment explanation
Indices: 1705677--1706299 Score: 700
Period size: 27 Copynumber: 22.8 Consensus size: 27
1705667 CACGGAGTCC
1705677 CCACAGAGTTGTGGACTTTAAAAGGGTG
1 CCACAGAGTTGTGGAC-TTAAAAGGGTG
* * **
1705705 CTACGGAGTTGTGGACTTAAAAGGGCC
1 CCACAGAGTTGTGGACTTAAAAGGGTG
*
1705732 CCACAGAGTTG-GGACTTTAAAAGGATG
1 CCACAGAGTTGTGGAC-TTAAAAGGGTG
1705759 CCACA-ACGTTGTGGACTTAAAAGGGTG
1 CCACAGA-GTTGTGGACTTAAAAGGGTG
* * *
1705786 CCACGGAGTTGTGGACTTAAATGGATG
1 CCACAGAGTTGTGGACTTAAAAGGGTG
* *
1705813 CCACAGAGTTATGGACTTTAAAAGAGTG
1 CCACAGAGTTGTGGAC-TTAAAAGGGTG
*
1705841 CCACAGAGTTGTGGACTTTAAAGGGTG
1 CCACAGAGTTGTGGACTTAAAAGGGTG
* * *
1705868 CTACAGAGTTGTGAACTTTAAAAGGATG
1 CCACAGAGTTGTGGAC-TTAAAAGGGTG
** *
1705896 CCATGGAGTTGTGGACTTAAAAAGGTG
1 CCACAGAGTTGTGGACTTAAAAGGGTG
* *
1705923 CCACGGAGTTGTGGACTTAAAAGGATG
1 CCACAGAGTTGTGGACTTAAAAGGGTG
* *
1705950 CCACGGAGTTGTGGACTTAAAAGGTTG
1 CCACAGAGTTGTGGACTTAAAAGGGTG
*
1705977 CCACAGAGTTGTGGACTTAAAAGGTTG
1 CCACAGAGTTGTGGACTTAAAAGGGTG
* *
1706004 CCACGGAGTTGTGGACTTAAAAGGTTG
1 CCACAGAGTTGTGGACTTAAAAGGGTG
* *
1706031 CCACAAAGTTGTGGACTTTAAAAAGGTG
1 CCACAGAGTTGTGGAC-TTAAAAGGGTG
* *
1706059 TCACGGAGTTGTGGACTTTAAAA-GGTG
1 CCACAGAGTTGTGGAC-TTAAAAGGGTG
* * *
1706086 CCACAAAATTGTGGACTTAAAAGGTTG
1 CCACAGAGTTGTGGACTTAAAAGGGTG
*
1706113 CCACAGAGTTGTGGACTTTAAATGGGTG
1 CCACAGAGTTGTGGAC-TTAAAAGGGTG
* *
1706141 CCACAGAGTTATGGACTTTAAAAGGTTG
1 CCACAGAGTTGTGGAC-TTAAAAGGGTG
* *
1706169 ACAC-GAAGTTATGGACTTTAAAAGGGTG
1 CCACAG-AGTTGTGGAC-TTAAAAGGGTG
*
1706197 CCACAGAGTTGTGGACTTTAAAAGGTTG
1 CCACAGAGTTGTGGAC-TTAAAAGGGTG
* *
1706225 CCAC-GAAGCTGTGGACTTAAAAGTGTG
1 CCACAG-AGTTGTGGACTTAAAAGGGTG
* *
1706252 CCACAAAGTTGT-GACTTAAAAGGGAG
1 CCACAGAGTTGTGGACTTAAAAGGGTG
* *
1706278 TCACGGAGTTGTGGACTTAAAA
1 CCACAGAGTTGTGGACTTAAAA
1706300 AGAATACCAT
Statistics
Matches: 510, Mismatches: 71, Indels: 29
0.84 0.12 0.05
Matches are distributed among these distances:
26 32 0.06
27 291 0.57
28 186 0.36
29 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.25
Consensus pattern (27 bp):
CCACAGAGTTGTGGACTTAAAAGGGTG
Found at i:1705843 original size:82 final size:81
Alignment explanation
Indices: 1705677--1706301 Score: 710
Period size: 82 Copynumber: 7.6 Consensus size: 81
1705667 CACGGAGTCC
* * ***
1705677 CCACAGAGTTGTGGACTTTAAAAGGGTGCTACGGAGTTGTGGAC-TTAAAAGGGCCCCACAGAGT
1 CCACA-AGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGT
1705741 TG-GGACTTTAAAAGGATG
64 TGTGGACTTTAAAAGG-TG
* *
1705759 CCACAACGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAATGGATGCCACAGAGTT
1 CCACAA-GTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGTT
*
1705823 ATGGACTTTAAAAGAGTG
65 GTGGACTTTAAAAG-GTG
* * * **
1705841 CCACAGAGTTGTGGACTTTAAAGGGTGCTACAGAGTTGTGAACTTTAAAAGGATGCCATGGAGTT
1 CCACA-AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGTT
*
1705906 GTGGACTTAAAAAGGTG
65 GTGGACTTTAAAAGGTG
* * * *
1705923 CCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGTTGCCACAGAGTT
1 CCAC-AAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGTT
1705987 GTGGAC-TTAAAAGGTTG
65 GTGGACTTTAAAAGG-TG
* * * * *
1706004 CCACGGAGTTGTGGACTTAAAAGGTTGCCACAAAGTTGTGGACTTTAAAAAGG-TGTCACGGAGT
1 CCAC-AAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTT-AAAAGGATGCCACAGAGT
1706068 TGTGGACTTTAAAAGGTG
64 TGTGGACTTTAAAAGGTG
* * * *
1706086 CCACAAAATTGTGGACTTAAAAGGTTGCCACAGAGTTGTGGACTTTAAATGGGTGCCACAGAGTT
1 CCAC-AAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGTT
*
1706151 ATGGACTTTAAAAGGTTG
65 GTGGACTTTAAAAGG-TG
* * *
1706169 ACACGAAGTTATGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGTTGCCAC-GAAG
1 CCAC-AAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAG-AG
*
1706233 CTGTGGAC-TTAAAAGTGTG
63 TTGTGGACTTTAAAAG-GTG
* * * *
1706252 CCACAAAGTTGT-GACTTAAAAGGGAGTCACGGAGTTGTGGACTTAAAAAG
1 CCAC-AAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
1706302 AATACCATGG
Statistics
Matches: 474, Mismatches: 54, Indels: 31
0.85 0.10 0.06
Matches are distributed among these distances:
80 7 0.01
81 146 0.31
82 193 0.41
83 79 0.17
84 49 0.10
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (81 bp):
CCACAAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTG
TGGACTTTAAAAGGTG
Found at i:1707708 original size:23 final size:22
Alignment explanation
Indices: 1707659--1707701 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1707649 TTTTGCACTT
* *
1707659 TTTTTCTTTTCATTTTTGGTGC
1 TTTTGCTTTTCATTTTTCGTGC
1707681 TTTTGCTTTTCACTTTTTCGT
1 TTTTGCTTTTCA-TTTTTCGT
1707702 CATTTTGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.05, C:0.16, G:0.12, T:0.67
Consensus pattern (22 bp):
TTTTGCTTTTCATTTTTCGTGC
Found at i:1709907 original size:15 final size:15
Alignment explanation
Indices: 1709889--1709919 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1709879 AATATAGCTC
1709889 ATAAAAAAAAAGAAA
1 ATAAAAAAAAAGAAA
*
1709904 ATAAAAAAATAGAAA
1 ATAAAAAAAAAGAAA
1709919 A
1 A
1709920 ATTCAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (15 bp):
ATAAAAAAAAAGAAA
Found at i:1711709 original size:19 final size:19
Alignment explanation
Indices: 1711679--1711728 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 19
1711669 AATTTTTTTA
1711679 TTTTAAAAAT-AATATAAT
1 TTTTAAAAATAAATATAAT
1711697 TTTTAACAAATAAAATATAAT
1 TTTTAA-AAAT-AAATATAAT
*
1711718 TTTAAAAAATA
1 TTTTAAAAATA
1711729 TAAATATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 6 0.21
19 5 0.18
20 4 0.14
21 13 0.46
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TTTTAAAAATAAATATAAT
Found at i:1711715 original size:21 final size:21
Alignment explanation
Indices: 1711689--1711735 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
1711679 TTTTAAAAAT
*
1711689 AATATAATTTTTAACAAATA-A
1 AATATAA-TTTTAAAAAATATA
1711710 AATATAATTTTAAAAAATATA
1 AATATAATTTTAAAAAATATA
1711731 AATAT
1 AATAT
1711736 TAATATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AATATAATTTTAAAAAATATA
Found at i:1711744 original size:21 final size:20
Alignment explanation
Indices: 1711689--1711746 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
1711679 TTTTAAAAAT
* *
1711689 AATATAATTTTTAACAAATAA
1 AATATAA-TTATAAAAAATAA
*
1711710 AATATAATTTTAAAAAATATA
1 AATATAATTATAAAAAATA-A
1711731 AATATTAA-TATAAAAA
1 AATA-TAATTATAAAAA
1711747 TTTTTATCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.33
21 19 0.58
22 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AATATAATTATAAAAAATAA
Found at i:1711746 original size:22 final size:20
Alignment explanation
Indices: 1711704--1711746 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
1711694 AATTTTTAAC
* *
1711704 AAATAAAATATAATTTTAAA
1 AAATAAAATATAATATAAAA
1711724 AAATATAAATATTAATATAAAA
1 AAATA-AAATA-TAATATAAAA
1711746 A
1 A
1711747 TTTTTATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 5 0.26
22 9 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAAAATATAATATAAAA
Found at i:1712038 original size:2 final size:2
Alignment explanation
Indices: 1712031--1712075 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
1712021 AGACAGACAC
1712031 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A-
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1712072 AG AG
1 AG AG
1712076 GGAGGATGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1714668 original size:16 final size:16
Alignment explanation
Indices: 1714649--1714726 Score: 50
Period size: 16 Copynumber: 4.9 Consensus size: 16
1714639 GACCTGAATC
1714649 CGAAATGACCCAAACT
1 CGAAATGACCCAAACT
** * * *
1714665 CGAAACAACTCGAACC
1 CGAAATGACCCAAACT
*
1714681 CGAAATGACCTAAAC-
1 CGAAATGACCCAAACT
* * *
1714696 CAAAATGACTCGAACT
1 CGAAATGACCCAAACT
*
1714712 CGAAAATGATCCAAA
1 CG-AAATGACCCAAA
1714727 AATTTTAAAA
Statistics
Matches: 42, Mismatches: 18, Indels: 3
0.67 0.29 0.05
Matches are distributed among these distances:
15 11 0.26
16 22 0.52
17 9 0.21
ACGTcount: A:0.46, C:0.28, G:0.13, T:0.13
Consensus pattern (16 bp):
CGAAATGACCCAAACT
Found at i:1714710 original size:31 final size:32
Alignment explanation
Indices: 1714648--1714726 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
1714638 TGACCTGAAT
*
1714648 CCGAAATGACCCAAACTCGAAACAACTCGAAC
1 CCGAAATGACCCAAACTCAAAACAACTCGAAC
* **
1714680 CCGAAATGACCTAAAC-CAAAATGACTCGAAC
1 CCGAAATGACCCAAACTCAAAACAACTCGAAC
* *
1714711 TCGAAAATGATCCAAA
1 CCG-AAATGACCCAAA
1714727 AATTTTAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 14 0.36
32 25 0.64
ACGTcount: A:0.46, C:0.29, G:0.13, T:0.13
Consensus pattern (32 bp):
CCGAAATGACCCAAACTCAAAACAACTCGAAC
Found at i:1716390 original size:17 final size:18
Alignment explanation
Indices: 1716370--1716410 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
1716360 AATAAAATTA
*
1716370 TAAAATAAAAATCTTT-T
1 TAAAATAAAAATATTTAT
*
1716387 TAAAATAAAATTATTTAT
1 TAAAATAAAAATATTTAT
1716405 TAAAAT
1 TAAAAT
1716411 TATTTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAATAAAAATATTTAT
Found at i:1716409 original size:30 final size:30
Alignment explanation
Indices: 1716350--1716419 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
1716340 TAATGTATTA
1716350 ATTTTATATAAATAAAATTATAAAATAAAAAT
1 ATTTT-TA-AAATAAAATTATAAAATAAAAAT
* ** * *
1716382 CTTTTTAAAATAAAATTATTTATTAAAATT
1 ATTTTTAAAATAAAATTATAAAATAAAAAT
1716412 ATTTTTAA
1 ATTTTTAA
1716420 TTATTATCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 26 0.81
31 2 0.06
32 4 0.12
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (30 bp):
ATTTTTAAAATAAAATTATAAAATAAAAAT
Found at i:1726635 original size:15 final size:15
Alignment explanation
Indices: 1726615--1726676 Score: 56
Period size: 15 Copynumber: 4.0 Consensus size: 15
1726605 ATACTTGTTG
1726615 ATATATTAATATTTT
1 ATATATTAATATTTT
1726630 ATATA-TATATATTTT
1 ATATATTA-ATATTTT
* *
1726645 AT-TTTTAAGAGTTTT
1 ATATATTAATA-TTTT
1726660 ATCATTATTAATATTTT
1 AT-A-TATTAATATTTT
1726677 TTCATTTTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 5 0.14
15 22 0.59
17 4 0.11
18 6 0.16
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (15 bp):
ATATATTAATATTTT
Found at i:1730830 original size:41 final size:41
Alignment explanation
Indices: 1730719--1731208 Score: 163
Period size: 41 Copynumber: 12.1 Consensus size: 41
1730709 GAAACTTAAG
* * * * *
1730719 AGGTTAACCGAGATAAAACCACACGAGTCAATAAATAAGAA
1 AGGTTGACTGAGATGAAACCATACGAGTCAACAAATAAGAA
* ** * *
1730760 GGGTTGA-TCGAGACAAAACCACATGAGTCAACAAATAAGAA
1 AGGTTGACT-GAGATGAAACCATACGAGTCAACAAATAAGAA
* * * * *
1730801 AGGTTGATTGGGATGAAACCATACAAGTCAATAAGCTTAAG--
1 AGGTTGACTGAGATGAAACCATACGAGTCAACAA--ATAAGAA
* * * * * * *
1730842 GGGTTAACTAAGATGAAACAATA-AAGTCAACGAATGAGAA
1 AGGTTGACTGAGATGAAACCATACGAGTCAACAAATAAGAA
* * * * * **
1730882 GGGTTAACTGAGATGAAACCATGCAAGTCAACAAGT-CTAA
1 AGGTTGACTGAGATGAAACCATACGAGTCAACAAATAAGAA
* ** ** *
1730922 AGGTTGACT-AGGA-CAAAAGATACGAGTCAACGAGTTTA-AA
1 AGGTTGACTGA-GATGAAACCATACGAGTCAAC-AAATAAGAA
* *
1730962 AGG-T-ACTGGGATGAAA-CATATGAGTCAACAAATAA-AA
1 AGGTTGACTGAGATGAAACCATACGAGTCAACAAATAAGAA
* * *
1730999 AGGGTTGACTGAGATGAAAACATATGAGTCAACAAATGAGAA
1 A-GGTTGACTGAGATGAAACCATACGAGTCAACAAATAAGAA
* * * * * *
1731041 AGGTT-AATCAAGATTAAACCATATGAGTTAA-AGAATGAGAA
1 AGGTTGACT-GAGATGAAACCATACGAGTCAACA-AATAAGAA
* ** * * **
1731082 AGGTTGA-TCGGGACCAAACCATACAAGTCAACAAGT-TTAA
1 AGGTTGACT-GAGATGAAACCATACGAGTCAACAAATAAGAA
* * * * *
1731122 GGGTTGACT-AGGATGAAACCATAGGAATCAACAAGTTTA-AA
1 AGGTTGACTGA-GATGAAACCATACGAGTCAACAA-ATAAGAA
* * * * *
1731163 GGGTTGA-TCAGGACGAAACCATATGAGTTAACAAATAAGAA
1 AGGTTGACTGA-GATGAAACCATACGAGTCAACAAATAAGAA
*
1731204 GGGTT
1 AGGTT
1731209 AACCAGTATA
Statistics
Matches: 341, Mismatches: 81, Indels: 54
0.72 0.17 0.11
Matches are distributed among these distances:
37 6 0.02
38 21 0.06
39 19 0.06
40 89 0.26
41 196 0.57
42 6 0.02
43 4 0.01
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (41 bp):
AGGTTGACTGAGATGAAACCATACGAGTCAACAAATAAGAA
Found at i:1731247 original size:41 final size:41
Alignment explanation
Indices: 1731097--1731289 Score: 158
Period size: 41 Copynumber: 4.7 Consensus size: 41
1731087 GATCGGGACC
* *
1731097 AAACCATACAAGTCAACAAGTTT-AAGGGTTGACTAGGATG
1 AAACCATACAAGTCAACAAGTTTAAAGGGTTAACCAGGATG
* * * *
1731137 AAACCATAGGAA-TCAACAAGTTTAAAGGGTTGATCAGGACG
1 AAACCATA-CAAGTCAACAAGTTTAAAGGGTTAACCAGGATG
** * * * * *
1731178 AAACCATATGAGTTAACAA-ATAAGAAGGGTTAACCAGTATA
1 AAACCATACAAGTCAACAAGTTTA-AAGGGTTAACCAGGATG
* ***
1731219 AAACCATACAAGTCGACAAGTTTAAAGGGTTAATTGGGATG
1 AAACCATACAAGTCAACAAGTTTAAAGGGTTAACCAGGATG
* * * *
1731260 AAACCATAAAATTCAACATGTTTAAGGGGT
1 AAACCATACAAGTCAACAAGTTTAAAGGGT
1731290 AAAATAACAT
Statistics
Matches: 118, Mismatches: 30, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
40 22 0.19
41 94 0.80
42 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.23
Consensus pattern (41 bp):
AAACCATACAAGTCAACAAGTTTAAAGGGTTAACCAGGATG
Found at i:1731433 original size:17 final size:17
Alignment explanation
Indices: 1731408--1731448 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1731398 ACAAATTATT
*
1731408 GAATACAAATGCACCTA
1 GAATGCAAATGCACCTA
*
1731425 GAATGCAAATGCATCTA
1 GAATGCAAATGCACCTA
1731442 GAATGCA
1 GAATGCA
1731449 TATAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (17 bp):
GAATGCAAATGCACCTA
Found at i:1734630 original size:10 final size:9
Alignment explanation
Indices: 1734605--1734660 Score: 51
Period size: 10 Copynumber: 5.9 Consensus size: 9
1734595 ACCATCATCA
1734605 TTATTTTTT
1 TTATTTTTT
1734614 TCT-TTATTTT
1 T-TATT-TTTT
1734624 TTATTATTTT
1 TTATT-TTTT
1734634 TTGATTTTTT
1 TT-ATTTTTT
*
1734644 TGATTTTTT
1 TTATTTTTT
*
1734653 TGATTTTT
1 TTATTTTT
1734661 AATTTTTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
9 19 0.45
10 20 0.48
11 3 0.07
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.80
Consensus pattern (9 bp):
TTATTTTTT
Found at i:1734642 original size:18 final size:18
Alignment explanation
Indices: 1734605--1734669 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
1734595 ACCATCATCA
* *
1734605 TTATTTTTTTCTTTATTTT
1 TTATTATTTT-TTGATTTT
1734624 TTATTATTTTTTGATTTT
1 TTATTATTTTTTGATTTT
*
1734642 TT-TGATTTTTTTGATTTT
1 TTATTA-TTTTTTGATTTT
*
1734660 TAATT-TTTTT
1 TTATTATTTTT
1734670 GTGTCGAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 7 0.18
18 22 0.56
19 10 0.26
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (18 bp):
TTATTATTTTTTGATTTT
Found at i:1734650 original size:16 final size:17
Alignment explanation
Indices: 1734619--1734670 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 17
1734609 TTTTTTCTTT
*
1734619 ATTTTTTATTATTTTTTG
1 ATTTTTTAAT-TTTTTTG
*
1734637 ATTTTTTTGATTTTTTTG
1 A-TTTTTTAATTTTTTTG
1734655 A-TTTTTAATTTTTTTG
1 ATTTTTTAATTTTTTTG
1734671 TGTCGAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 14 0.47
18 9 0.30
19 7 0.23
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (17 bp):
ATTTTTTAATTTTTTTG
Found at i:1734669 original size:9 final size:9
Alignment explanation
Indices: 1734630--1734660 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
1734620 TTTTTTATTA
1734630 TTTTTTGAT
1 TTTTTTGAT
1734639 TTTTTTGAT
1 TTTTTTGAT
1734648 TTTTTTGAT
1 TTTTTTGAT
1734657 TTTT
1 TTTT
1734661 AATTTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.81
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:1735361 original size:43 final size:43
Alignment explanation
Indices: 1735297--1735442 Score: 157
Period size: 43 Copynumber: 3.2 Consensus size: 43
1735287 AGAAGAGTGA
* *
1735297 TAAAGATGCCAATATGCTGATTCTAGGCTAGCGATATTGGGCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCT
* * * *
1735340 TAAAGGTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCT
1735383 TAAAGATGATAGAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCT
1 TAAAG--G-T------GCCAATATGCTGATTCAAGGCTAGCGATATTGGGCT
1735435 TAAAGGTG
1 TAAAGGTG
1735443 TGAAAAATGT
Statistics
Matches: 84, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
43 43 0.51
45 1 0.01
46 1 0.01
49 1 0.01
50 1 0.01
52 37 0.44
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCT
Found at i:1735425 original size:52 final size:50
Alignment explanation
Indices: 1735346--1735785 Score: 260
Period size: 52 Copynumber: 8.8 Consensus size: 50
1735336 GGCTTAAAGG
* * * *
1735346 TGCCAATGTGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATGATAGAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-TA-AGA
* * * * * *
1735398 CGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAAAGGTGTGAAAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGT--AAGA
* * * * * * *
1735450 TGTCAATGTGCTGATTCTAGGCCAGTGACATTAGACTTGAAGATGAGAAGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-TAAG-A
* * * * * * **
1735502 TACTAATGTGTTGATTTAAGGCTAGCGACATTAGG-CTTAGGGATGTTAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATG-T-AAGA
* * * * *
1735554 TGCTAATATGCTGATTTAAGGCCAGCGATATCGAACTTTAAA-ATG-AATG-
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-TTAAAGATGTAA-GA
* * *
1735603 TGCCAATGA-GCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG-AAGT
1 TGCCAAT-ATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGTAAGA
* * * * *
1735652 TGCCAATGTGCTAATTCAAAGCTAGCGACATTGGACTTAAATATGGTAAAGGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-GT-AA-GA
* * *
1735705 -ACCAATATGCTAATTCAAGGCCAGCGATATTGGACTT-AA-A-G---G-
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGTAAGA
* *
1735747 TGCCAATGTGCTGATTCAAGGCCAGCGACACTGGACTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
1735786 GAAAGAGATG
Statistics
Matches: 302, Mismatches: 67, Indels: 46
0.73 0.16 0.11
Matches are distributed among these distances:
43 33 0.11
48 7 0.02
49 72 0.24
50 4 0.01
51 6 0.02
52 171 0.57
53 9 0.03
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (50 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGTAAGA
Found at i:1735905 original size:32 final size:32
Alignment explanation
Indices: 1735837--1736011 Score: 183
Period size: 32 Copynumber: 5.5 Consensus size: 32
1735827 CCAATGACAT
* * *
1735837 TGGGC-TTAGAAAGAGATGCCATCAACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCAACTTGTG
* * * *
1735868 TGGGCTTTTGAAATGGTTGCTACCAGCTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCAACTTGTG
* * *
1735900 CGGGCTTCAGAAAGGGTTGCCACTAACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCAACTTGTG
*
1735932 TGGGCTTTAGAAAGGGTCGCCACCAACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCAACTTGTG
* * * *
1735964 TGGGCTTT-GAAGATGGTTGCCACTAGCTTATG
1 TGGGCTTTAGAA-AGGGTTGCCACCAACTTGTG
1735996 TGGGCTTTAGAGAAGG
1 TGGGCTTTAGA-AAGG
1736012 TTCCTCCACT
Statistics
Matches: 116, Mismatches: 24, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
31 8 0.07
32 103 0.89
33 4 0.03
34 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (32 bp):
TGGGCTTTAGAAAGGGTTGCCACCAACTTGTG
Found at i:1736001 original size:96 final size:96
Alignment explanation
Indices: 1735837--1736011 Score: 239
Period size: 96 Copynumber: 1.8 Consensus size: 96
1735827 CCAATGACAT
* * *
1735837 TGGGCTTAGAAAGAGATGCCATCAACTTGTGTGGGCTTTTGAAATGGTTGCTACCAGCTTGTGCG
1 TGGGCTTAGAAAGAGATGCCACCAACTTGTGTGGGCTTTTGAAATGGTTGCCACCAGCTTATGCG
1735902 GGCTTCAGA-AAGGGTTGCCACTAACTTGTG
66 GGCTTCAGAGAAGGGTTGCCACTAACTTGTG
* *
1735932 TGGGCTTTAGAAAG-GGTCGCCACCAACTTGTGTGGGC-TTTGAAGATGGTTGCCACTAGCTTAT
1 TGGGC-TTAGAAAGAGAT-GCCACCAACTTGTGTGGGCTTTTGAA-ATGGTTGCCACCAGCTTAT
* *
1735995 GTGGGCTTTAGAGAAGG
63 GCGGGCTTCAGAGAAGG
1736012 TTCCTCCACT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
95 13 0.19
96 52 0.75
97 4 0.06
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (96 bp):
TGGGCTTAGAAAGAGATGCCACCAACTTGTGTGGGCTTTTGAAATGGTTGCCACCAGCTTATGCG
GGCTTCAGAGAAGGGTTGCCACTAACTTGTG
Found at i:1736233 original size:28 final size:28
Alignment explanation
Indices: 1736198--1736267 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
1736188 CCTCCGATTA
* *
1736198 TGGACTTCGAAAAGATGCCACTGATTTG
1 TGGACTTCGAAAAGATGCCACTGACTAG
*
1736226 TGGACTTC-AAAGAGGTGCCACTGACTAG
1 TGGACTTCGAAA-AGATGCCACTGACTAG
* *
1736254 TGGCCTTTGAAAAG
1 TGGACTTCGAAAAG
1736268 GGATTCGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.09
28 29 0.83
29 3 0.09
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (28 bp):
TGGACTTCGAAAAGATGCCACTGACTAG
Found at i:1736354 original size:14 final size:13
Alignment explanation
Indices: 1736286--1736355 Score: 52
Period size: 13 Copynumber: 5.3 Consensus size: 13
1736276 GTTGATAAAC
*
1736286 ATTTCTTGACGAA
1 ATTTCTTGACAAA
* *
1736299 GTTTC-TGACACA
1 ATTTCTTGACAAA
** *
1736311 CGTTCTCGACAAA
1 ATTTCTTGACAAA
*
1736324 AGTTCTTGACGAAA
1 ATTTCTTGAC-AAA
1736338 ATTTCTTGACAACA
1 ATTTCTTGACAA-A
1736352 ATTT
1 ATTT
1736356 TGTTGACGAT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
12 8 0.18
13 19 0.43
14 17 0.39
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (13 bp):
ATTTCTTGACAAA
Found at i:1737601 original size:11 final size:12
Alignment explanation
Indices: 1737594--1737661 Score: 79
Period size: 12 Copynumber: 5.7 Consensus size: 12
1737584 CCCTTTTCTT
1737594 TTTTTTTTTGTG
1 TTTTTTTTTGTG
1737606 TTTTTTGTTTGT-
1 TTTTTT-TTTGTG
*
1737618 TTTTTGTTTTAGTA
1 TTTTT-TTTT-GTG
1737632 TTTTTTTTTGTG
1 TTTTTTTTTGTG
1737644 --TTTTTTTGTG
1 TTTTTTTTTGTG
1737654 TTTTTTTT
1 TTTTTTTT
1737662 ATGAAGGATG
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
10 10 0.20
12 22 0.45
13 12 0.24
14 5 0.10
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTGTG
Found at i:1755002 original size:20 final size:19
Alignment explanation
Indices: 1754977--1755049 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 19
1754967 AAATTTCCAG
1754977 ATGTATCGATACAAAGATCA
1 ATGTATCGATACAAAGAT-A
1754997 ATGTATCGATACAAAGATTA
1 ATGTATCGATACAAAGA-TA
* **
1755017 ATGTATCGATAGATTGAATA
1 ATGTATCGATACAAAG-ATA
1755037 ATGTATCGATACA
1 ATGTATCGATACA
1755050 TTTCCTTGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 45 0.96
21 2 0.04
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.30
Consensus pattern (19 bp):
ATGTATCGATACAAAGATA
Found at i:1772435 original size:17 final size:18
Alignment explanation
Indices: 1772397--1772435 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1772387 ATATGTTTTT
*
1772397 TTTCTTTGTCTTCATTTC
1 TTTCTTTATCTTCATTTC
1772415 -TTCTTTATCTTC-TTTC
1 TTTCTTTATCTTCATTTC
1772431 TTTCT
1 TTTCT
1772436 CACCTATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTCTTTATCTTCATTTC
Found at i:1773241 original size:18 final size:18
Alignment explanation
Indices: 1773218--1773252 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1773208 GCCATTCATC
1773218 ATTTTTTTACTTTTTATT
1 ATTTTTTTACTTTTTATT
*
1773236 ATTTTTTTATTTTTTAT
1 ATTTTTTTACTTTTTAT
1773253 CTCTCTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (18 bp):
ATTTTTTTACTTTTTATT
Found at i:1786053 original size:20 final size:19
Alignment explanation
Indices: 1786026--1786101 Score: 98
Period size: 20 Copynumber: 3.9 Consensus size: 19
1786016 GTAAAAAGAC
1786026 AAAATGTATCGATACATTG
1 AAAATGTATCGATACATTG
*
1786045 AAGAATGTATCGATACATTC
1 AA-AATGTATCGATACATTG
* *
1786065 ATACAGGTATCGATACATTG
1 A-AAATGTATCGATACATTG
*
1786085 AAAATGTATCGACACAT
1 AAAATGTATCGATACAT
1786102 CTGGGTAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.31
20 32 0.67
21 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:1788250 original size:18 final size:20
Alignment explanation
Indices: 1788227--1788264 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
1788217 GATATTGCCT
1788227 TAATTTT-TTAAAAA-ATTA
1 TAATTTTATTAAAAATATTA
1788245 TAATTTTATTAAAAATATTA
1 TAATTTTATTAAAAATATTA
1788265 ATAGAGTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTTTATTAAAAATATTA
Found at i:1792965 original size:20 final size:20
Alignment explanation
Indices: 1792942--1793014 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1792932 ACAATTCAAA
1792942 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1792962 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1792983 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1793003 GTATCGATACAT
1 GTATCGATACAT
1793015 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1792993 original size:41 final size:42
Alignment explanation
Indices: 1792942--1793036 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1792932 ACAATTCAAA
*
1792942 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1792983 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1793025 GTATCGATACAT
1 GTATCGATACAT
1793037 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:1793093 original size:13 final size:13
Alignment explanation
Indices: 1793075--1793100 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1793065 TACAGCAAGT
1793075 ATGTATCGATACA
1 ATGTATCGATACA
1793088 ATGTATCGATACA
1 ATGTATCGATACA
1793101 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1797182 original size:15 final size:15
Alignment explanation
Indices: 1797162--1797192 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1797152 TAAAAATGTC
*
1797162 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1797177 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1797192 C
1 C
1797193 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1799285 original size:20 final size:21
Alignment explanation
Indices: 1799207--1799284 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
1799197 ATGTCCAAAA
*
1799207 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
1799227 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
1799251 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
1799272 TGTATCGATACAT
1 TGTATCGATACAT
1799285 TATATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:1799292 original size:13 final size:13
Alignment explanation
Indices: 1799274--1799309 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1799264 TTTTTTGTTG
*
1799274 TATCGATACATTA
1 TATCGATACACTA
*
1799287 TATCGATACACTG
1 TATCGATACACTA
1799300 TATCGATACA
1 TATCGATACA
1799310 GGGTGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (13 bp):
TATCGATACACTA
Found at i:1801177 original size:36 final size:36
Alignment explanation
Indices: 1801130--1801202 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
1801120 GGGGAGATTT
1801130 ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
1 ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
1801166 ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
1 ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
1801202 A
1 A
1801203 ATTACCTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.05, G:0.36, T:0.16
Consensus pattern (36 bp):
ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
Found at i:1801811 original size:20 final size:20
Alignment explanation
Indices: 1801788--1801860 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1801778 ACAATTCAAA
1801788 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1801808 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1801829 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1801849 GTATCGATACAT
1 GTATCGATACAT
1801861 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1801839 original size:41 final size:42
Alignment explanation
Indices: 1801788--1801882 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1801778 ACAATTCAAA
*
1801788 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1801829 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1801871 GTATCGATACAT
1 GTATCGATACAT
1801883 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:1801939 original size:13 final size:13
Alignment explanation
Indices: 1801921--1801946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1801911 TACAGCAAGT
1801921 ATGTATCGATACA
1 ATGTATCGATACA
1801934 ATGTATCGATACA
1 ATGTATCGATACA
1801947 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1803828 original size:32 final size:33
Alignment explanation
Indices: 1803767--1803831 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1803757 TACAAGCCAC
*
1803767 TGTATCGATACATTTTGAGATGTATCGATACAA
1 TGTATCGATACATATTGAGATGTATCGATACAA
* *
1803800 TGTATCGATATATATTGTG-TGTATCGATACAA
1 TGTATCGATACATATTGAGATGTATCGATACAA
1803832 ATTTGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATATTGAGATGTATCGATACAA
Found at i:1803911 original size:20 final size:21
Alignment explanation
Indices: 1803864--1803916 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1803854 CCTAATGACC
**
1803864 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
1803885 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
1803905 TGTATCGATACA
1 TGTATCGATACA
1803917 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:1803922 original size:13 final size:13
Alignment explanation
Indices: 1803904--1803928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1803894 ACATTTGGTC
1803904 ATGTATCGATACA
1 ATGTATCGATACA
1803917 ATGTATCGATAC
1 ATGTATCGATAC
1803929 TGTGCAATCT
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:1805929 original size:21 final size:21
Alignment explanation
Indices: 1805898--1805949 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
1805888 GCTACTAGTG
* *
1805898 TGGGGGCTGCCCGGTTGTGACC
1 TGGGGG-TGCCCGGTCGAGACC
1805920 TGGGGGTG-CCGGTCGAGACC
1 TGGGGGTGCCCGGTCGAGACC
1805940 TGGTGGGTGC
1 TGG-GGGTGC
1805950 TGCTTAGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.06, C:0.23, G:0.50, T:0.21
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCGAGACC
Found at i:1812648 original size:20 final size:21
Alignment explanation
Indices: 1812601--1812653 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1812591 CCCAATGACC
**
1812601 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
1812622 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
1812642 TGTATCGATACA
1 TGTATCGATACA
1812654 ATGTATTGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:1813306 original size:26 final size:26
Alignment explanation
Indices: 1813271--1813329 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
1813261 GAATTTAATT
* *
1813271 TTATTAATCTTGATTATAAGATTTGA
1 TTATTAATCTTGATAATAAGATTTAA
* *
1813297 TTATTGATCTTGATAATATGATTTAA
1 TTATTAATCTTGATAATAAGATTTAA
1813323 TTATTAA
1 TTATTAA
1813330 AATTAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (26 bp):
TTATTAATCTTGATAATAAGATTTAA
Found at i:1813538 original size:2 final size:2
Alignment explanation
Indices: 1813531--1813562 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1813521 AGTTATTTGA
1813531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1813563 TTAATATTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1814051 original size:5 final size:5
Alignment explanation
Indices: 1814036--1814105 Score: 63
Period size: 5 Copynumber: 13.8 Consensus size: 5
1814026 TTTTTTATTT
* * *
1814036 TTTTC TCTTTC TTTTC TTTTT TTTTC TTTTC -TTTA TTTTA TTTTCC TTTTC
1 TTTTC T-TTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT-C TTTTC
*
1814087 -TTTC TCTTTC TCTTC TTTT
1 TTTTC T-TTTC TTTTC TTTT
1814106 TTCCCTTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
4 7 0.13
5 33 0.61
6 14 0.26
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:1814056 original size:20 final size:22
Alignment explanation
Indices: 1814033--1814095 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 22
1814023 ATTTTTTTTA
1814033 TTTTTTTCTC-TTTCTTT-TCT
1 TTTTTTTCTCTTTTCTTTATCT
1814053 TTTTTTT-TCTTTTCTTTAT-T
1 TTTTTTTCTCTTTTCTTTATCT
* *
1814073 TTATTTTC-CTTTTCTTTCTCT
1 TTTTTTTCTCTTTTCTTTATCT
1814094 TT
1 TT
1814096 CTCTTCTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 2 0.05
20 31 0.84
21 4 0.11
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTTTCTCTTTTCTTTATCT
Found at i:1814104 original size:20 final size:19
Alignment explanation
Indices: 1814024--1814105 Score: 51
Period size: 20 Copynumber: 4.2 Consensus size: 19
1814014 CACACAAAAA
*
1814024 TTTTTTTTATTTT-T-TTC
1 TTTTCTTTATTTTATCTTC
* * *
1814041 TCTTTCTTTTCTTTTTTTTTC
1 T-TTTC-TTTATTTTATCTTC
*
1814062 TTTTCTTTATTTTATTTTCC
1 TTTTCTTTATTTTATCTT-C
* *
1814082 TTTTCTTTCTCTTTCTCTTC
1 TTTTCTTTAT-TTTATCTTC
1814102 TTTT
1 TTTT
1814106 TTCCCTTCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
17 1 0.02
18 3 0.06
19 18 0.35
20 20 0.38
21 10 0.19
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCTTTATTTTATCTTC
Found at i:1815422 original size:17 final size:18
Alignment explanation
Indices: 1815373--1815422 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
1815363 ATGAATTCGG
* *
1815373 ATTATTATGATTTAAATT
1 ATTATTATTATTTAAAAT
*
1815391 ATTATTATTA-ATAAAAT
1 ATTATTATTATTTAAAAT
1815408 ATTATT-TTATTTAAA
1 ATTATTATTATTTAAA
1815423 TTTAATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 3 0.11
17 15 0.56
18 9 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTATTATTATTTAAAAT
Found at i:1815460 original size:16 final size:17
Alignment explanation
Indices: 1815430--1815467 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
1815420 AAATTTAATT
1815430 ATAAAAATATATAAATA
1 ATAAAAATATATAAATA
*
1815447 TTAAAAATAT-TAAATA
1 ATAAAAATATATAAATA
1815463 ATAAA
1 ATAAA
1815468 TAAATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAATATATAAATA
Found at i:1817228 original size:23 final size:23
Alignment explanation
Indices: 1817186--1817233 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
1817176 TAAATTAAGC
1817186 TTCAAATTTCCTTTTAGTTTTATT
1 TTCAAATTTCCTTTTAG-TTTATT
1817210 TTCAAATTTCC-TTTAGTTTATT
1 TTCAAATTTCCTTTTAGTTTATT
1817232 TT
1 TT
1817234 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.33
23 5 0.21
24 11 0.46
ACGTcount: A:0.21, C:0.12, G:0.04, T:0.62
Consensus pattern (23 bp):
TTCAAATTTCCTTTTAGTTTATT
Found at i:1817874 original size:291 final size:291
Alignment explanation
Indices: 1817350--1817889 Score: 1071
Period size: 291 Copynumber: 1.9 Consensus size: 291
1817340 ACTTGTATAT
1817350 AGTTAGAAAACTTAACACGAAATTAAGTTAAACTCACACATAAGTTTAGACACCTTTTGTATAGG
1 AGTTAGAAAACTTAACACGAAATTAAGTTAAACTCACACATAAGTTTAGACACCTTTTGTATAGG
1817415 CCTTTATGAAAGCATCTTAAAGCAGCATCGAGGCTAAACATGCAAACACAGGTTCATTTTCTATC
66 CCTTTATGAAAGCATCTTAAAGCAGCATCGAGGCTAAACATGCAAACACAGGTTCATTTTCTATC
*
1817480 ATTCCTAGTTAAGGTAAGATGTTTAAAGAGCCAAAAAAAGTTAAATTCACATTTTTTATCAAATG
131 ATTCCTAGTTAAGGTAAGATGTTTAAAGAGCCAAAAAAAGTTAAATACACATTTTTTATCAAATG
1817545 CATTGATACATCGTCTTGTTGTATCGATATAGTAATTGCTACGTCACCAAACTTGTATAGGAAAA
196 CATTGATACATCGTCTTGTTGTATCGATATAGTAATTGCTACGTCACCAAACTTGTATAGGAAAA
1817610 CTTTTGTATAGGCCTTTTGTATAGACACTTA
261 CTTTTGTATAGGCCTTTTGTATAGACACTTA
1817641 AGTTAGAAAACTTAACACGAAATTAAGTTAAACTCACACATAAGTTTAGACACCTTTTGTATAGG
1 AGTTAGAAAACTTAACACGAAATTAAGTTAAACTCACACATAAGTTTAGACACCTTTTGTATAGG
1817706 CCTTTATGAAAGCATCTTAAAGCAGCATCGAGGCTAAACATGCAAACACAGGTTCATTTTCTATC
66 CCTTTATGAAAGCATCTTAAAGCAGCATCGAGGCTAAACATGCAAACACAGGTTCATTTTCTATC
1817771 ATTCCTAGTTAAGGTAAGATGTTTAAAGAGCCAAAAAAAGTTAAATACACATTTTTTATCAAATG
131 ATTCCTAGTTAAGGTAAGATGTTTAAAGAGCCAAAAAAAGTTAAATACACATTTTTTATCAAATG
1817836 CATTGATACATCGTCTTGTTGTATCGATATAGTAATTGCTACGTCACCAAACTT
196 CATTGATACATCGTCTTGTTGTATCGATATAGTAATTGCTACGTCACCAAACTT
1817890 AAAACCCAAG
Statistics
Matches: 248, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
291 248 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (291 bp):
AGTTAGAAAACTTAACACGAAATTAAGTTAAACTCACACATAAGTTTAGACACCTTTTGTATAGG
CCTTTATGAAAGCATCTTAAAGCAGCATCGAGGCTAAACATGCAAACACAGGTTCATTTTCTATC
ATTCCTAGTTAAGGTAAGATGTTTAAAGAGCCAAAAAAAGTTAAATACACATTTTTTATCAAATG
CATTGATACATCGTCTTGTTGTATCGATATAGTAATTGCTACGTCACCAAACTTGTATAGGAAAA
CTTTTGTATAGGCCTTTTGTATAGACACTTA
Found at i:1818583 original size:19 final size:19
Alignment explanation
Indices: 1818556--1818598 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1818546 GCACAAAAAC
* *
1818556 AAAAGGGAAAACACAAAG-T
1 AAAAAGGAAAA-AAAAAGAT
1818575 AAAAAGGAAAAAAAAAGAT
1 AAAAAGGAAAAAAAAAGAT
1818594 AAAAA
1 AAAAA
1818599 AAAAAGGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.74, C:0.05, G:0.16, T:0.05
Consensus pattern (19 bp):
AAAAAGGAAAAAAAAAGAT
Found at i:1824209 original size:13 final size:13
Alignment explanation
Indices: 1824191--1824217 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1824181 ACAAAGATCA
1824191 AATGTATCGATAC
1 AATGTATCGATAC
1824204 AATGTATCGATAC
1 AATGTATCGATAC
1824217 A
1 A
1824218 TTGAGTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1824279 original size:13 final size:13
Alignment explanation
Indices: 1824261--1824312 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1824251 AACTTCGTAG
1824261 CGATACATTGTAT
1 CGATACATTGTAT
1824274 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
1824293 CGATACATTGTAT
1 CGATACATTGTAT
1824306 CGATACA
1 CGATACA
1824313 AATTGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1825543 original size:10 final size:10
Alignment explanation
Indices: 1825528--1825557 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1825518 CAAACCATTA
1825528 AACTCAAGCC
1 AACTCAAGCC
1825538 AACTCAAGCC
1 AACTCAAGCC
*
1825548 AACCCAAGCC
1 AACTCAAGCC
1825558 TAAATACACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.43, G:0.10, T:0.07
Consensus pattern (10 bp):
AACTCAAGCC
Found at i:1835135 original size:13 final size:13
Alignment explanation
Indices: 1835117--1835141 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1835107 ACAGTGAACA
1835117 TGTATCGATACAT
1 TGTATCGATACAT
1835130 TGTATCGATACA
1 TGTATCGATACA
1835142 AAGCATAATG
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
Done.