Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold141
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: 2772588
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 118404 characters in sequence are not A, C, G, or T
File 9 of 18
Found at i:1495807 original size:20 final size:20
Alignment explanation
Indices: 1495778--1495854 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
1495768 GCAAAATGAT
*
1495778 AGAATATATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
1495798 AGAATGTATCGATACATTTA
1 AGAATGTATCGATACATTGA
* *
1495818 A-ACATGTATTGATAGATTGA
1 AGA-ATGTATCGATACATTGA
* *
1495838 AAAATGTATCAATACAT
1 AGAATGTATCGATACAT
1495855 CTGGGTACTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1496487 original size:28 final size:28
Alignment explanation
Indices: 1496405--1497285 Score: 645
Period size: 32 Copynumber: 29.5 Consensus size: 28
1496395 CACGGACTCA
* * *
1496405 TGTGGGCTTTGAAAAGAGTTACCACTAGCT
1 TGTGGGCTTTG-AAAG-GGTGCCACTAACT
* *
1496435 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTAACT
1496464 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* *
1496492 TGTGGGCTTTGAAAGGATGTCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* **
1496520 TATGGGCTTTGAAAAAAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTAACT
1496549 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* *
1496577 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * * * *
1496605 TATGGGATTTGAAAAGAGTGTCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTAACT
* * **
1496634 TGTGGGCTTTGAAAAGAGTTGGCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTAACT
* *
1496664 CGTGGGCTTTGAAATGGGTTGCCACCAACT
1 TGTGGGCTTTGAAA-GGG-TGCCACTAACT
* *
1496694 TGTACAGGCTTTGAAATGGGTTGCCACCAACTT
1 TGT--GGGCTTTGAAA-GGG-TGCCACTAAC-T
*
1496727 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTAAC-T
* * *
1496759 GTGTGGGCTTTAAAATGAGTTGCCACTGACTT
1 -TGTGGGCTTTGAAA-G-GGTGCCACTAAC-T
1496791 GTGTGGGCTTTGAAATGGGTTGCCAGC-AACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCA-CTAAC-T
** *
1496823 GTGTGGGCTTCAAAATGAGTTGCCA-TCAACTT
1 -TGTGGGCTTTGAAA-G-GGTGCCACT-AAC-T
* *
1496855 GTGTGGGCTTTGAAATGATGCCACTAACTT
1 -TGTGGGCTTTGAAAGGGTGCCACTAAC-T
* * **
1496885 GTGTGGGCTTTCAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-G-GGTGCCACTAAC-T
* * * *
1496917 GTGTGGGCTTTGAAAAGATGCCATTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTAACT
* * **
1496946 TGTGAGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTAACT
*
1496976 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
*
1497004 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
*
1497032 TGTGGGCTTCT-AAAGGATGCCACTAACT
1 TGTGGGCTT-TGAAAGGGTGCCACTAACT
* *
1497060 TGCGCGGGCTTTGAAATGGGTTCC-CATCAACTT
1 T--GTGGGCTTTGAAA-GGGTGCCAC-T-AAC-T
1497093 GTGTGGGCTTTGAAATGGGTGCCACTAACT
1 -TGTGGGCTTTGAAA-GGGTGCCACTAACT
*
1497123 TCTGGGCTTTGAAAGGGTGCCACTAACTT
1 TGTGGGCTTTGAAAGGGTGCCACTAAC-T
* * *
1497152 GTGTGGGCTTTCAAATGAGTTGCCACTGACTT
1 -TGTGGGCTTTGAAA-G-GGTGCCACTAAC-T
* * *
1497184 GTGTGGGCTTTCAAATGTGTTGCCACTGACT
1 -TGTGGGCTTTGAAA-G-GGTGCCACTAACT
* * *
1497215 TGTGCGGGCTTTGAAATGATGCCACTGACT
1 TGT--GGGCTTTGAAAGGGTGCCACTAACT
1497245 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
1497273 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
1497286 GAGATGAACA
Statistics
Matches: 727, Mismatches: 88, Indels: 74
0.82 0.10 0.08
Matches are distributed among these distances:
28 223 0.31
29 98 0.13
30 143 0.20
31 13 0.02
32 240 0.33
33 6 0.01
34 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTAACT
Found at i:1498548 original size:18 final size:19
Alignment explanation
Indices: 1498500--1498591 Score: 95
Period size: 20 Copynumber: 4.8 Consensus size: 19
1498490 CCTAGACCCC
1498500 TTTC-TGTTTTTTTGCTATTT
1 TTTCTTGTTTTTTTG-T-TTT
1498520 TTTCTTGGTTTTTTTGTTTT
1 TTTCTT-GTTTTTTTGTTTT
1498540 TTT-TTG-TTTTTTGTTGTT
1 TTTCTTGTTTTTTTGTT-TT
1498558 TTT-TTGGTTTTTTCTGTTTT
1 TTTCTT-GTTTTTT-TGTTTT
1498578 TTTCTT-TTTTTTTG
1 TTTCTTGTTTTTTTG
1498592 GGTATAAAGG
Statistics
Matches: 65, Mismatches: 0, Indels: 16
0.80 0.00 0.20
Matches are distributed among these distances:
17 9 0.14
18 10 0.15
19 9 0.14
20 20 0.31
21 8 0.12
22 9 0.14
ACGTcount: A:0.01, C:0.05, G:0.13, T:0.80
Consensus pattern (19 bp):
TTTCTTGTTTTTTTGTTTT
Found at i:1498581 original size:10 final size:10
Alignment explanation
Indices: 1498500--1498589 Score: 75
Period size: 10 Copynumber: 9.3 Consensus size: 10
1498490 CCTAGACCCC
1498500 TTTCTGTTTT
1 TTTCTGTTTT
*
1498510 TTTGCT-ATTT
1 TTT-CTGTTTT
*
1498520 TTTCTTGGTTT
1 TTTC-TGTTTT
1498531 TTT-TGTTTT
1 TTTCTGTTTT
*
1498540 TTTTTGTTTT
1 TTTCTGTTTT
1498550 TTGT-TG-TTT
1 TT-TCTGTTTT
*
1498559 TTT-TGGTTT
1 TTTCTGTTTT
1498568 TTTCTGTTTT
1 TTTCTGTTTT
1498578 TTTCT-TTTT
1 TTTCTGTTTT
1498587 TTT
1 TTT
1498590 TGGGTATAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
8 3 0.04
9 27 0.39
10 30 0.43
11 9 0.13
ACGTcount: A:0.01, C:0.06, G:0.12, T:0.81
Consensus pattern (10 bp):
TTTCTGTTTT
Found at i:1498586 original size:9 final size:9
Alignment explanation
Indices: 1498500--1498589 Score: 51
Period size: 9 Copynumber: 9.3 Consensus size: 9
1498490 CCTAGACCCC
1498500 TTTCTGTTTT
1 TTTCT-TTTT
*
1498510 TTTGCTATTT
1 TTT-CTTTTT
1498520 TTTCTTGGTTT
1 TTTCTT--TTT
1498531 TTT-TGTTTT
1 TTTCT-TTTT
1498540 TTT-TTGTTT
1 TTTCTT-TTT
*
1498549 TTTGTTGTTT
1 TTTCTT-TTT
*
1498559 TTT-TGGTTT
1 TTTCT-TTTT
1498568 TTTCTGTTTT
1 TTTCT-TTTT
1498578 TTTCTTTTT
1 TTTCTTTTT
1498587 TTT
1 TTT
1498590 TGGGTATAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 17
0.76 0.04 0.19
Matches are distributed among these distances:
8 1 0.01
9 29 0.43
10 29 0.43
11 9 0.13
ACGTcount: A:0.01, C:0.06, G:0.12, T:0.81
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:1498587 original size:28 final size:26
Alignment explanation
Indices: 1498528--1498592 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
1498518 TTTTTCTTGG
* *
1498528 TTTTTTTGTTTTTTTTTGTTTTTTGTT
1 TTTTTTTGGTTTTTTTGGTTTTTT-TT
*
1498555 GTTTTTTTGGTTTTTTCTGTTTTTTTCTT
1 -TTTTTTTGGTTTTTT-TGGTTTTTT-TT
1498584 TTTTTTTGG
1 TTTTTTTGG
1498593 GTATAAAGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 23 0.72
29 9 0.28
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (26 bp):
TTTTTTTGGTTTTTTTGGTTTTTTTT
Found at i:1498590 original size:10 final size:9
Alignment explanation
Indices: 1498517--1498591 Score: 80
Period size: 9 Copynumber: 8.0 Consensus size: 9
1498507 TTTTTTGCTA
1498517 TTTTTTCTTG
1 TTTTTT-TTG
*
1498527 GTTTTTTTG
1 TTTTTTTTG
1498536 TTTTTTTTTG
1 -TTTTTTTTG
1498546 TTTTTTGTTG
1 TTTTTT-TTG
*
1498556 TTTTTTTGG
1 TTTTTTTTG
*
1498565 TTTTTTCTG
1 TTTTTTTTG
1498574 TTTTTTTCT-
1 TTTTTTT-TG
1498583 TTTTTTTTG
1 TTTTTTTTG
1498592 GGTATAAAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
8 1 0.02
9 31 0.56
10 23 0.42
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.83
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1510210 original size:20 final size:20
Alignment explanation
Indices: 1510185--1510309 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
1510175 TTTTAACTAG
1510185 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
1510205 ATGTATCGACACATCTGGACAAAA
1 ATGTATCGATACAT-T-G--AAAA
**
1510229 GGATAGAATGTATCGATACATTGACGA
1 --AT-G--T--ATCGATACATTGAAAA
* * *
1510256 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
1510276 ATGTATTGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
1510296 ATGTATCGATACAT
1 ATGTATCGATACAT
1510310 CTAGGTGCTT
Statistics
Matches: 81, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
20 54 0.67
21 1 0.01
22 2 0.02
24 5 0.06
25 2 0.02
26 2 0.02
27 3 0.04
29 2 0.02
30 1 0.01
31 9 0.11
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:1513664 original size:20 final size:20
Alignment explanation
Indices: 1513641--1513694 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
1513631 CATTATTCAA
1513641 TGTATCGATACATCGATCTT
1 TGTATCGATACATCGATCTT
1513661 TGTATCGATACATCGATCTT
1 TGTATCGATACATCGATCTT
1513681 TGTATCGATACATC
1 TGTATCGATACATC
1513695 TAGGAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATCGATCTT
Found at i:1513737 original size:20 final size:20
Alignment explanation
Indices: 1513712--1513810 Score: 92
Period size: 20 Copynumber: 4.7 Consensus size: 20
1513702 TTTACCCAGA
1513712 TGTATCGATACATTTAGCAT
1 TGTATCGATACATTTAGCAT
***
1513732 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTTAGCAT
*
1513752 TGTATCGATACATTACATTGCTCAT
1 TGTATCGATACATT---TAG--CAT
*
1513777 TGTATCGATACATCTTA-CAA
1 TGTATCGATACAT-TTAGCAT
1513797 TGTATCGATACATT
1 TGTATCGATACATT
1513811 CAGGCATTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.02
20 46 0.71
23 1 0.02
25 16 0.25
26 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTAGCAT
Found at i:1513768 original size:25 final size:25
Alignment explanation
Indices: 1513740--1513789 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1513730 ATTGTATCGA
1513740 TACATTGCTCATTGTATCGATACAT
1 TACATTGCTCATTGTATCGATACAT
1513765 TACATTGCTCATTGTATCGATACAT
1 TACATTGCTCATTGTATCGATACAT
1513790 CTTACAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (25 bp):
TACATTGCTCATTGTATCGATACAT
Found at i:1516161 original size:51 final size:51
Alignment explanation
Indices: 1516086--1516260 Score: 194
Period size: 51 Copynumber: 3.5 Consensus size: 51
1516076 AAATTTCTAT
* * * *
1516086 ATTTTTCAT-CTC-GGGAATACTCCAA-TCCCGGTTTCATTTCCAAAACATCA
1 ATTTTTCATAATCAGGG-ATACTCCAACT-CCGATTTTATTTCCAAAACACCA
* * * *
1516136 ATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCC
1 ATTTTTCATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
* * *
1516187 ATTTTCCATAATCAGGGATACTCCAACTCTGATTTTATTTCCAAAACACCG
1 ATTTTTCATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
* *
1516238 ACTTTTCGTAATCAGGGATACTC
1 ATTTTTCATAATCAGGGATACTC
1516261 TAACCCCGTT
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 8 0.08
51 94 0.89
52 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.35
Consensus pattern (51 bp):
ATTTTTCATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
Found at i:1516300 original size:79 final size:79
Alignment explanation
Indices: 1516201--1516431 Score: 293
Period size: 79 Copynumber: 2.9 Consensus size: 79
1516191 TCCATAATCA
* * * * * *
1516201 GGGATACTCCAACTCTGATTTTATTTCCAAAACACCGACTTTTCGTAATCAGGGATACTCTAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAACTTTTCATAATCAGGGATACTCCAACC
1516266 CCGTTATTTTCGAG
66 CCGTTATTTTCGAG
* * * *
1516280 GGGATACTTCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAACTTTTCATAATCAGGGATACTCCAACC
1516345 CCGTTATTTTCGAG
66 CCGTTATTTTCGAG
* * * * *
1516359 GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAA-TTCTCCACAATTAGGGATATTCCAAC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAACTT-TTCATAATCAGGGATACTCCAAC
* *
1516423 TCCGATATT
65 CCCGTTATT
1516432 ATTTCCAAAA
Statistics
Matches: 131, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
78 2 0.02
79 129 0.98
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAACTTTTCATAATCAGGGATACTCCAACC
CCGTTATTTTCGAG
Found at i:1516414 original size:130 final size:130
Alignment explanation
Indices: 1516280--1516528 Score: 367
Period size: 130 Copynumber: 1.9 Consensus size: 130
1516270 TATTTTCGAG
* * * *
1516280 GGGATACTT-CAACCCCGATTTTATTTCTAAAACA-TCAATTTTTCATAATCGGGGATACTCCAA
1 GGGATA-TTCCAACCCCGATATTATTTCCAAAACACT-AACTTTTCACAATCGGGGATACTCCAA
* * *
1516343 CCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAAT
64 CCCCGTTATTTTCGAGGAGACACTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCACAAT
1516408 TA
129 TA
* *
1516410 GGGATATTCCAACTCCGATATTATTTCCAAAACACTGACTTTTCACAATCGGGGATACTCCAACC
1 GGGATATTCCAACCCCGATATTATTTCCAAAACACTAACTTTTCACAATCGGGGATACTCCAACC
* *
1516475 CCGTTATTTTCGAGGAGACACTCTAACCCCAGTTTTATTTCTAAAACATCAATT
66 CCGTTATTTTCGAGGAGACACTCCAACCCCAGTTTTATTTCTAAAACACCAATT
1516529 TTTCATCGGG
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
129 2 0.02
130 103 0.97
131 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (130 bp):
GGGATATTCCAACCCCGATATTATTTCCAAAACACTAACTTTTCACAATCGGGGATACTCCAACC
CCGTTATTTTCGAGGAGACACTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCACAATTA
Found at i:1516513 original size:209 final size:206
Alignment explanation
Indices: 1516149--1516581 Score: 645
Period size: 209 Copynumber: 2.1 Consensus size: 206
1516139 TTTCTTAATC
* * * *
1516149 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCACAATCAGGGATACTCCAAC
* * ** *
1516214 TCTGATTTTATTTCCAAAACACCGACTTTTCGTAATCAGGGATACTCTAACCCCGTTATTTTCGA
66 TCCGATATTATTTCCAAAACACCGACTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTCGA
* *
1516279 GGGGATACTTCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
131 GGAGACACTTCAACCCCGATTTTATTTCTAAAACATCAATTTTTC---ATCGGGGATACTCCAAC
1516344 CCCGTTATTTTCGA
193 CCCGTTATTTTCGA
* * *
1516358 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATTAGGGATATTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCACAATCAGGGATACTCCAAC
* *
1516423 TCCGATATTATTTCCAAAACACTGACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGA
66 TCCGATATTATTTCCAAAACACCGACTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTCGA
*
1516488 GGAGACAC-TCTAACCCC-AGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAATC
131 GGAGACACTTC-AACCCCGA-TTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACC
*
1516551 CTGTTATTTTCGA
194 CCGTTATTTTCGA
1516564 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1516582 TTATTTTCGA
Statistics
Matches: 204, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
206 47 0.23
208 3 0.01
209 154 0.75
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (206 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCACAATCAGGGATACTCCAAC
TCCGATATTATTTCCAAAACACCGACTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTCGA
GGAGACACTTCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
GTTATTTTCGA
Found at i:1516568 original size:28 final size:28
Alignment explanation
Indices: 1516536--1516606 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
1516526 ATTTTTCATC
* *
1516536 GGGGATACTCCAATCCTGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTTCGA
1516564 GGGGATACTCCAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTTCGA
*
1516592 GGGGATACCCCAACC
1 GGGGATACTCCAACC
1516607 TCGGCTTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTCGA
Found at i:1516699 original size:79 final size:78
Alignment explanation
Indices: 1516564--1516876 Score: 315
Period size: 79 Copynumber: 3.9 Consensus size: 78
1516554 TTATTTTCGA
* * * *
1516564 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACCCCAACCTCGGCTTCT-TTTCTAAAATAT
1 GGGGATACTCCAACCCCGTTATTTCCAAGGGGATACACCAACC-CGG-TTTTATTTCTAAAATAT
*
1516628 TAATTTCTCATAATC
64 CAATTTCTCATAATC
* *
1516643 GGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACACCGGTTTTATTTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTCCAAGGGGATACACCAAC-CCGGTTTTATTTCTAAAATATC
* * * *
1516708 AATTTTTTATAGTT
65 AATTTCTCATAATC
* * * *
1516722 GGGGATACTCCAACCCCGTTATTTCCATGGGGATGCACCAATCCCGATTTTATTTC-CAAATCAT
1 GGGGATACTCCAACCCCGTTATTTCCAAGGGGATACACCAA-CCCGGTTTTATTTCTAAAAT-AT
* * * *
1516786 CGATTTTTCACAACC
64 CAATTTCTCATAATC
* * * * * *
1516801 GGGGATACTCCAACCCCATTATTTTCAAGGGGATACGCCAACCCCGTTATTATCTCCAAAATATT
1 GGGGATACTCCAACCCCGTTATTTCCAAGGGGATACACCAACCCGGTT-TTATTTCTAAAATA-T
*
1516866 AAATTTCTCAT
64 CAATTTCTCAT
1516877 CGGGAAATGT
Statistics
Matches: 192, Mismatches: 35, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
78 11 0.06
79 167 0.87
80 14 0.07
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGTTATTTCCAAGGGGATACACCAACCCGGTTTTATTTCTAAAATATCA
ATTTCTCATAATC
Found at i:1530535 original size:20 final size:20
Alignment explanation
Indices: 1530510--1530565 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
1530500 TACAAGCCAA
1530510 TGTATCGATACAATGTTTTG
1 TGTATCGATACAATGTTTTG
**
1530530 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATGTTTTG
1530549 TGTATCGATACAA-GTTT
1 TGTATCGATACAATGTTT
1530566 GGCTACTGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (20 bp):
TGTATCGATACAATGTTTTG
Found at i:1531225 original size:18 final size:18
Alignment explanation
Indices: 1531202--1531237 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1531192 AATCAAAATA
1531202 ATTTTAACAAATTCGTAC
1 ATTTTAACAAATTCGTAC
1531220 ATTTTAACAAATTCGTAC
1 ATTTTAACAAATTCGTAC
1531238 TTTCTCCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (18 bp):
ATTTTAACAAATTCGTAC
Found at i:1533135 original size:13 final size:13
Alignment explanation
Indices: 1533117--1533152 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1533107 ATAATCCCCC
1533117 TGTATCGATACAG
1 TGTATCGATACAG
*
1533130 TGTATCGATACAT
1 TGTATCGATACAG
1533143 TGTATCGATA
1 TGTATCGATA
1533153 GAAAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1535249 original size:15 final size:15
Alignment explanation
Indices: 1535229--1535259 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1535219 ATTTCGTTTG
*
1535229 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1535244 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1535259 G
1 G
1535260 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1540358 original size:26 final size:26
Alignment explanation
Indices: 1540327--1540469 Score: 85
Period size: 26 Copynumber: 5.3 Consensus size: 26
1540317 GTTGGTGGCA
1540327 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * ** *
1540353 CCTTTCAAAG-CCTATACAAGTTGGTGG-CA
1 CCTTTC--AGTCCT-CA-AAG-AGCAGGACG
1540382 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
1540408 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
1540437 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
1540463 CCTTTCA
1 CCTTTCA
1540470 AAGCCCACAC
Statistics
Matches: 83, Mismatches: 22, Indels: 24
0.64 0.17 0.19
Matches are distributed among these distances:
25 6 0.07
26 27 0.33
27 12 0.14
28 12 0.14
29 20 0.24
30 6 0.07
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:1540383 original size:55 final size:55
Alignment explanation
Indices: 1540299--1540600 Score: 509
Period size: 55 Copynumber: 5.5 Consensus size: 55
1540289 ATGTCTTTTT
1540299 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
* *
1540354 CTTTCAAAGCCTATACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
1540409 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
* *
1540464 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGC
* * *
1540519 CTTT-AAAGCCCACATAAGTTGGTGGCACCCTTCAGTCCTCAAAGAGCAGGATGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
*
1540573 CTTTCAAAGCCCACACAAGTTGGGGGCA
1 CTTTCAAAGCCCACACAAGTTGGTGGCA
1540601 TTTTTTTTTA
Statistics
Matches: 233, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
54 51 0.22
55 182 0.78
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (55 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
Found at i:1540584 original size:109 final size:109
Alignment explanation
Indices: 1540267--1540604 Score: 525
Period size: 110 Copynumber: 3.0 Consensus size: 109
1540257 CTCCTTTCAC
1540267 TTTTCAGTCCTCAAAGAGCAGGATGTCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 TTTTCAGTCCTCAAAGAGCAGGATG-C-----CTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* *
1540332 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTATACAAGTTGGTGGCA
60 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1540382 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1540447 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
65 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1540492 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTT-AAAGCCCACATAAGTTGGTGGCACCCTTCAGTC
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* *
1540556 CTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGGGGCA
65 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1540601 TTTT
1 TTTT
1540605 TTTTTAGTCC
Statistics
Matches: 211, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
109 81 0.38
110 106 0.50
115 1 0.00
116 23 0.11
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (109 bp):
TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1540843 original size:154 final size:155
Alignment explanation
Indices: 1540552--1540941 Score: 559
Period size: 154 Copynumber: 2.5 Consensus size: 155
1540542 GGCACCCTTC
* * ** *
1540552 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGGGGCATTTTTTTTTAGTCCTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA---TCCTTCAGTCCTC
* * *
1540617 AAAGGGCAGGATGCTTTCTCCTTTTAAAGTCCACACAAGTTGGTGGAACTTCCTAGTCCTCAAAA
63 AAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGAACTTCCTAGTCCTCAAAA
* * **
1540682 AGTAGGACGCTCTCTCTTTTTTCCTTTT
128 AGCAGGACGCTCTCTCCTTTCGCCTTTT
* *
1540710 TGTCCTCAAAGAGTAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTTCAGTCCTCAAA
* * *
1540774 GAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGC
66 GAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGAACTTCCTAGTCCTCAAAAAGC
*
1540839 AGGACGTTCTCTCCTTTCGCCTTTT
131 AGGACGCTCTCTCCTTTCGCCTTTT
* *
1540864 AGTCCTCAAAGAGCAGGATGCC-TTTAAAGCCCACACAAGTTTGTGGCACCCTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTTCAGTCCTCAAA
1540928 GAGCAGGATGCCTT
66 GAGCAGGATGCCTT
1540942 TCAAAGCCCA
Statistics
Matches: 209, Mismatches: 22, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
153 25 0.12
154 139 0.67
158 45 0.22
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (155 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTTCAGTCCTCAAA
GAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGAACTTCCTAGTCCTCAAAAAGC
AGGACGCTCTCTCCTTTCGCCTTTT
Found at i:1541140 original size:74 final size:74
Alignment explanation
Indices: 1541001--1541149 Score: 244
Period size: 74 Copynumber: 2.0 Consensus size: 74
1540991 GGATACTATC
* * *
1541001 TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCATGACGTTCTTTCCT
1 TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAAGACGCTCTCTCCT
1541066 TACGCCTTT
66 TACGCCTTT
* *
1541075 TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAAGATGCTCTCTCCT
1 TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAAGACGCTCTCTCCT
*
1541140 TTCGCCTTT
66 TACGCCTTT
1541149 T
1 T
1541150 TGTCCTCAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.32
Consensus pattern (74 bp):
TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAAGACGCTCTCTCCT
TACGCCTTT
Found at i:1541358 original size:118 final size:112
Alignment explanation
Indices: 1541145--1541400 Score: 320
Period size: 118 Copynumber: 2.2 Consensus size: 112
1541135 CTCCTTTCGC
1541145 CTTTTT-GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCC
1 CTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAA---GGTGGCACCTTCAGTCC
* * *
1541209 TCAAAGAGTAAGACGCCTTCTCCTTTTAAAGCCCACATAAGTTGGTGGCA
63 TCAAAGAGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1541259 CTTTTTAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAA-GTGGCACCTTCCA
1 CTTTTTAGTCCTCAAAGAGCAGGATGC---C-TTTT--AAAGCCCACACAAGGTGGCACCTT-CA
* * *
1541323 GTCCTCAAAGGGCAAGACACCTT-TTCTTTTCAAAGCCCACACGAGTTGGTGGCA
59 GTCCTCAAAGAGCAAGACACCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* *
1541377 CTTTTCAGTCCTCAAAGAGTAGGA
1 CTTTTTAGTCCTCAAAGAGCAGGA
1541401 CACACTTCTT
Statistics
Matches: 125, Mismatches: 8, Indels: 14
0.85 0.05 0.10
Matches are distributed among these distances:
114 6 0.05
115 20 0.16
117 16 0.13
118 66 0.53
119 4 0.03
121 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (112 bp):
CTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGGTGGCACCTTCAGTCCTCA
AAGAGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1541403 original size:61 final size:60
Alignment explanation
Indices: 1541171--1541395 Score: 230
Period size: 61 Copynumber: 3.8 Consensus size: 60
1541161 AGCAGGATGC
* * * * *
1541171 CTTTTAAAGCCCACACAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGTAAGACGCCTTCTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGACACCTT-TT
* * * **
1541231 CTTTTAAAGCCCACATAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA-TGC-TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGACACCTTTT
* * *
1541289 CTTTTTGCAAAGCCCACACAA----GTGGCACCTTCCAGTCCTCAAAGGGCAAGACACCTTTT
1 C-TTTT--AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGACACCTTTT
*
1541348 CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAG
1 CTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAG
1541396 TAGGACACAC
Statistics
Matches: 134, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
57 38 0.28
58 7 0.05
59 9 0.07
60 28 0.21
61 52 0.39
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (60 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGACACCTTTT
Found at i:1541508 original size:42 final size:42
Alignment explanation
Indices: 1541384--1541489 Score: 117
Period size: 45 Copynumber: 2.5 Consensus size: 42
1541374 GCACTTTTCA
* *
1541384 GTCCTCAAAGAGTAGGACACACTTCT-TTC-CCTTCTATTCTCTTTT
1 GTCCTCAAAGAGCAGGACGCACTT-TATTCTCC-T-T-TT-TCTTTT
*
1541429 GTCCTCAAAGAGCAGGATGCACTTTATTCTCCTTTTTCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTCTCCTTTTTCTTTT
*
1541471 GTCCTCAGAGAGCAGGACG
1 GTCCTCAAAGAGCAGGACG
1541490 TATTTCGTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
42 23 0.43
43 2 0.04
44 2 0.04
45 25 0.46
46 2 0.04
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTCTCCTTTTTCTTTT
Found at i:1542389 original size:13 final size:13
Alignment explanation
Indices: 1542371--1542396 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1542361 CATTATTCAA
1542371 TGTATCGATACAT
1 TGTATCGATACAT
1542384 TGTATCGATACAT
1 TGTATCGATACAT
1542397 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1544816 original size:51 final size:51
Alignment explanation
Indices: 1544741--1544923 Score: 210
Period size: 51 Copynumber: 3.6 Consensus size: 51
1544731 AAATTTCTAT
* * * * *
1544741 ATTTTTCAT-CTCGGGAATACTCCAATCCTGGTTTCATTTCCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAATCCTGATTTTATTTCCAAAACACCA
* * *
1544791 ATTTTTCTTAATCGGGGATACTCCAA-CTCTGATTTTATTTCTAAAACACCC
1 ATTTTTCATAATCGGGGATACTCCAATC-CTGATTTTATTTCCAAAACACCA
* *
1544842 ATTTTCCATAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAACACCG
1 ATTTTTCATAATCGGGGATACTCCAA-TCCTGATTTTATTTCCAAAACACCA
* * *
1544893 ACTTTTCACAATCGGGGATACTCCAACCCTG
1 ATTTTTCATAATCGGGGATACTCCAATCCTG
1544924 TTATTTTTGA
Statistics
Matches: 112, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
50 11 0.10
51 99 0.88
52 1 0.01
53 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAATCCTGATTTTATTTCCAAAACACCA
Found at i:1545037 original size:130 final size:130
Alignment explanation
Indices: 1544823--1545124 Score: 421
Period size: 130 Copynumber: 2.3 Consensus size: 130
1544813 CCAACTCTGA
* * *
1544823 TTTTATTTCTAAAACACCCATTTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA
1 TTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA
* * * ** *
1544888 CACCGACTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTTGAGGGGATACTCTTACCCCGG
66 CACCAACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGACACTCCAACCCCAG
* * * *
1544953 TTTTATTTCTAAAACACCAATTCTCCGCAATTGGGGATATTCCAACTCTGATTTTATTTCCAAAA
1 TTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA
* *
1545018 CACCAACTTTTCACAATCGGGGATACTTCAACCCCGTTATTTTTGAGGGGACAGTCCAACCCCAG
66 CACCAACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGACACTCCAACCCCAG
* **
1545083 TTTTATTTCTAAAACATCAATT-T-TTCAA-CGGGGATACTCCAA
1 TTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCCAA
1545125 TCCCGTTATT
Statistics
Matches: 152, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
127 12 0.08
128 3 0.02
129 1 0.01
130 136 0.89
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (130 bp):
TTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA
CACCAACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGACACTCCAACCCCAG
Found at i:1545148 original size:28 final size:28
Alignment explanation
Indices: 1545116--1545185 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
1545106 TTCAACGGGG
1545116 ATACTCCAATCC-CGTTATTTTCGAGGGA
1 ATACTCCAA-CCTCGTTATTTTCGAGGGA
*
1545144 ATACTCCAACCTCGTTATTTTCGAGGGG
1 ATACTCCAACCTCGTTATTTTCGAGGGA
1545172 ATAC-CTCAACCTCG
1 ATACTC-CAACCTCG
1545186 GCTTTATTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 3 0.08
28 36 0.92
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (28 bp):
ATACTCCAACCTCGTTATTTTCGAGGGA
Found at i:1545152 original size:76 final size:79
Alignment explanation
Indices: 1545004--1545154 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 79
1544994 CCAACTCTGA
* * *
1545004 TTTTATTTCCAAAACACCAACTTTTCACAATCGGGGATACTTCAACCCCGTTATTTTTGAGGGGA
1 TTTTATTTCCAAAACACCAACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGAA
*
1545069 CAGTCCAACCCCAG
66 CACTCCAACCCCAG
* * * *
1545083 TTTTATTTCTAAAACATCAA-TTTT-TCAA-CGGGGATACTCCAATCCCGTTATTTTCGAGGGAA
1 TTTTATTTCCAAAACACCAACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGAA
*
1545145 TACTCCAACC
66 CACTCCAACC
1545155 TCGTTATTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
76 38 0.60
77 3 0.05
78 4 0.06
79 18 0.29
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
TTTTATTTCCAAAACACCAACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGAA
CACTCCAACCCCAG
Found at i:1545262 original size:107 final size:104
Alignment explanation
Indices: 1545036--1545264 Score: 282
Period size: 104 Copynumber: 2.2 Consensus size: 104
1545026 TTTCACAATC
* * * * *
1545036 GGGGATACTTCAACCCCGTTATTTTTGAGGGGACAGTCCAACCCCAGTTTTATTTCTAAAACATC
1 GGGGATACTCCAACCTCGTTATTTTCGAGGGGACACTCCAACCCCAGCTTTATTTCTAAAACATC
* *
1545101 AATTTTTCAACGGGGATACTCCAATCCCGTTATTTTCGA
66 AATTTCTCAACGGGGATACTCCAATCCCGTTATTTCCGA
* * * * *
1545140 GGGAATACTCCAACCTCGTTATTTTCGAGGGGATAC-CTCAACCTCGGCTTTATTTCTAAAATAT
1 GGGGATACTCCAACCTCGTTATTTTCGAGGGGACACTC-CAACCCCAGCTTTATTTCTAAAACAT
*
1545204 TAATTTCTCATAATCGGGGATACTCCAA-CCCTGTTATTTCCGA
65 CAATTTCTC--AA-CGGGGATACTCCAATCCC-GTTATTTCCGA
1545247 GGGGATACTCCAACCTCG
1 GGGGATACTCCAACCTCG
1545265 GTTTTATTTC
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
103 1 0.01
104 59 0.56
106 5 0.05
107 41 0.39
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (104 bp):
GGGGATACTCCAACCTCGTTATTTTCGAGGGGACACTCCAACCCCAGCTTTATTTCTAAAACATC
AATTTCTCAACGGGGATACTCCAATCCCGTTATTTCCGA
Found at i:1545275 original size:79 final size:77
Alignment explanation
Indices: 1545144--1545451 Score: 287
Period size: 79 Copynumber: 3.9 Consensus size: 77
1545134 TTTCGAGGGA
* * * *
1545144 ATACTCCAACCTCGTTATTTTCGAGGGGATACCTCAACCTCGGCTTTATTTCTAAAATATTAATT
1 ATACTCCAACCCCGTTATTTCCGAGGGGATACC-CAACC-CGGTTTTATTTCTAAAATATCAATT
1545209 TCTCATAATCGGGG
64 TCTCATAATCGGGG
* *
1545223 ATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATT
1 ATACTCCAACCCCGTTATTTCCGAGGGGATAC-CCAACC-CGGTTTTATTTCTAAAATATCAATT
* * * *
1545288 TTTTATAGTTGGGG
64 TCTCATAATCGGGG
* * * * *
1545302 ATACTCCAACCCCGTTATTTCGGAGGGGATGCACCAATCCCGATTTTATTTC-CAAATCATCGAT
1 ATACTCCAACCCCGTTATTTCCGAGGGGATAC-CCAA-CCCGGTTTTATTTCTAAAAT-ATCAAT
* * *
1545366 TTTTC-CAACCGGGG
63 TTCTCATAATCGGGG
* * * * * * *
1545380 ATACTCCAACCCCATTATTTTCAAGGGGATACGCCAACCCCGTTATTATCTCCAAAATATTAAAT
1 ATACTCCAACCCCGTTATTTCCGAGGGGATAC-CCAACCCGGTT-TTATTTCTAAAATA-TCAAT
1545445 TTCTCAT
63 TTCTCAT
1545452 CGAGAAATGT
Statistics
Matches: 185, Mismatches: 37, Indels: 13
0.79 0.16 0.06
Matches are distributed among these distances:
77 5 0.03
78 46 0.25
79 131 0.71
80 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (77 bp):
ATACTCCAACCCCGTTATTTCCGAGGGGATACCCAACCCGGTTTTATTTCTAAAATATCAATTTC
TCATAATCGGGG
Found at i:1547764 original size:80 final size:80
Alignment explanation
Indices: 1547668--1548164 Score: 402
Period size: 80 Copynumber: 6.3 Consensus size: 80
1547658 AACATTAAAA
* * * *
1547668 GGGATACATCAAACCTCATTTTTACTTCCAAAATATCGAATTTTTCACCATCGATGAAACTCCAA
1 GGGATAC-TCCAACCTCATTTTTACTTCCAAAATATCGAATTTTTCACCATCAAGGATACTCCAA
*
1547733 CCCCATCATTACCAAG
65 CCCCATCATTTCCAAG
** * * **
1547749 GGGATACTCTGACCTC-GTTTTACTTCCAAAAGTTTTAAATTTTTCACCATCAAGGATACTCCAA
1 GGGATACTCCAACCTCATTTTTACTTCCAAAA-TATCGAATTTTTCACCATCAAGGATACTCCAA
* * *
1547813 CCCTATCATTCCCTAG
65 CCCCATCATTTCCAAG
* * ** * * *
1547829 GGGATACTCCAACCT--TGTTTATTTTGAAAATATCG-ATTTTTCACTATCAAGGATACTCTAAT
1 GGGATACTCCAACCTCATTTTTACTTCCAAAATATCGAATTTTTCACCATCAAGGATACTCCAAC
**
1547891 CCCATCATTTCTGAG
66 CCCATCATTTCCAAG
* * * ** * * * * *
1547906 GGGATACTCCAACCTCGTTTTTACTTCCAAAATTTTGAATTTTTGTCTATTAGGGATATTCCATC
1 GGGATACTCCAACCTCATTTTTACTTCCAAAATATCGAATTTTTCACCATCAAGGATACTCCAAC
**
1547971 CCCATCATTTTTGAA-
66 CCCATCA-TTTCCAAG
* * * * *
1547986 GGAATACTCCAACCCCATTTTTATTTCCAAAGTATCG-ATTTTTCACCATCGAA-GATACTCTAA
1 GGGATACTCCAACCTCATTTTTACTTCCAAAATATCGAATTTTTCACCATC-AAGGATACTCCAA
**
1548049 CCCCATCATTTTTAAG
65 CCCCATCATTTCCAAG
* * ** * * *
1548065 GGGATACTCCAACCCCATTTTTACTTCTAAAATATTAAAATTTTCATC-T-TAGAGATA-TCCAA
1 GGGATACTCCAACCTCATTTTTACTTCCAAAATATCGAATTTTTCACCATCAAG-GATACTCCAA
* * *
1548127 CCCCACCATATCCGAG
65 CCCCATCATTTCCAAG
1548143 GGGATACTCCAACCTCGATTTT
1 GGGATACTCCAACCTC-ATTTT
1548165 CACTAAAAAA
Statistics
Matches: 327, Mismatches: 78, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
77 51 0.16
78 38 0.12
79 103 0.31
80 124 0.38
81 11 0.03
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (80 bp):
GGGATACTCCAACCTCATTTTTACTTCCAAAATATCGAATTTTTCACCATCAAGGATACTCCAAC
CCCATCATTTCCAAG
Found at i:1547993 original size:157 final size:157
Alignment explanation
Indices: 1547679--1548110 Score: 458
Period size: 157 Copynumber: 2.7 Consensus size: 157
1547669 GGATACATCA
* * * * *
1547679 AACCTCATTTTTACTTCCAAAATATCGAATTTTTCACCATCGATGAAACTCCAACCCCATCATTA
1 AACC-CATTTTTATTTCCAAAATATCG-ATTTTTCACCATC-AAGATACTCTAACCCCATCATTT
* **
1547744 CCAAGGGGATACTCTGACCTCG-TTTTACTTCCAAAAGTTTTAAATTTTTCACCATCAAGGATAC
63 CTAAGGGGATACTCCAACCTCGTTTTTACTTCCAAAA-TTTTAAATTTTTCACCATCAAGGATAC
* * *
1547808 TCCAACCCTATCATTCCCTAGGGGATACTCC
127 TCCAACCCCATCATTCCCTAAGGAATACTCC
** * *
1547839 AA-CC-TTGTTTATTTTGAAAATATCGATTTTTCACTATCAAGGATACTCTAATCCCATCATTTC
1 AACCCATT-TTTATTTCCAAAATATCGATTTTTCACCATCAA-GATACTCTAACCCCATCATTTC
* * ** * * * *
1547902 TGAGGGGATACTCCAACCTCGTTTTTACTTCCAAAATTTTGAATTTTTGTCTATTAGGGATATTC
64 TAAGGGGATACTCCAACCTCGTTTTTACTTCCAAAATTTTAAATTTTTCACCATCAAGGATACTC
* **
1547967 CATCCCCATCATT-TTTGAAGGAATACTCC
129 CAACCCCATCATTCCCT-AAGGAATACTCC
* *
1547996 AACCCCATTTTTATTTCCAAAGTATCGATTTTTCACCATCGAAGATACTCTAACCCCATCATTTT
1 AA-CCCATTTTTATTTCCAAAATATCGATTTTTCACCATC-AAGATACTCTAACCCCATCATTTC
* * * * *
1548061 TAAGGGGATACTCCAACCCCATTTTTACTTCTAAAATATTAAAATTTTCA
64 TAAGGGGATACTCCAACCTCGTTTTTACTTCCAAAATTTTAAATTTTTCA
1548111 TCTTAGAGAT
Statistics
Matches: 223, Mismatches: 41, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
156 2 0.01
157 94 0.42
158 30 0.13
159 91 0.41
160 6 0.03
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.36
Consensus pattern (157 bp):
AACCCATTTTTATTTCCAAAATATCGATTTTTCACCATCAAGATACTCTAACCCCATCATTTCTA
AGGGGATACTCCAACCTCGTTTTTACTTCCAAAATTTTAAATTTTTCACCATCAAGGATACTCCA
ACCCCATCATTCCCTAAGGAATACTCC
Found at i:1549871 original size:41 final size:41
Alignment explanation
Indices: 1549826--1549960 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
1549816 TCGAACGCTG
* *
1549826 CTAAATTTTTCCTATTAGCGGC-ATTTATAATTTAAACACCT
1 CTAAATTTTTCCTATTAGAGGCGTTTTA-AATTTAAACACCT
* **
1549867 CTAAATTTTTCCTATTAGTGGCGTTTTAAATTTAAATGCCAT
1 CTAAATTTTTCCTATTAGAGGCGTTTTAAATTTAAACACC-T
* * * * *
1549909 -TAAATTTTTCCAACTAGAGGTGTTTTAAATTTAAACATCG
1 CTAAATTTTTCCTATTAGAGGCGTTTTAAATTTAAACACCT
1549949 CTAAATTTTTCC
1 CTAAATTTTTCC
1549961 AACTAGCAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
41 74 0.94
42 5 0.06
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (41 bp):
CTAAATTTTTCCTATTAGAGGCGTTTTAAATTTAAACACCT
Found at i:1550921 original size:3 final size:3
Alignment explanation
Indices: 1550913--1550951 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
1550903 TCAGGGAACC
* * *
1550913 AAT AAT AAT AAT AAT AAT AAT AAT GAT GAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1550952 TCTAATGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1555371 original size:30 final size:30
Alignment explanation
Indices: 1555292--1555375 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
1555282 AAATACTTTT
* * *
1555292 TAAAGTCCACGACTTAGTGGCATCCTTTTCT
1 TAAAGTCCACGACTCAGTGGCAT-CTTGTCC
* *
1555323 TCAAAGCCCACGAATCAGTGGCAT-TTCGTCC
1 T-AAAGTCCACGACTCAGTGGCATCTT-GTCC
1555354 TAAAGTCCACGACTCAGTGGCA
1 TAAAGTCCACGACTCAGTGGCA
1555376 ATCTCTTCTC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
30 21 0.48
31 4 0.09
32 19 0.43
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (30 bp):
TAAAGTCCACGACTCAGTGGCATCTTGTCC
Found at i:1555450 original size:27 final size:27
Alignment explanation
Indices: 1555415--1555527 Score: 100
Period size: 27 Copynumber: 4.0 Consensus size: 27
1555405 CACTCTTTTT
* *
1555415 CCTTCTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
* *
1555442 CCGTTTAAGCCCACAACTACGTGGCACTC
1 CCTTTTAAGCCCACAACTCCGTGGCA--C
* *
1555471 TTTTCCTTTTAAGTCCACAACTCTGTGGCAC
1 ----CCTTTTAAGCCCACAACTCCGTGGCAC
* *
1555502 CATTTTAAGCCCATAACTCCGTGGCA
1 CCTTTTAAGCCCACAACTCCGTGGCA
1555528 TCTTTTTCCT
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
27 44 0.65
29 1 0.01
31 1 0.01
33 22 0.32
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.27
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:1555489 original size:33 final size:32
Alignment explanation
Indices: 1555387--1555582 Score: 169
Period size: 33 Copynumber: 6.3 Consensus size: 32
1555377 TCTCTTCTCA
*
1555387 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCA-TC-TTTTCCTTTT
* *
1555421 AAGTCCACAACTCCGTGGCA-C----CCGTTT
1 AAGCCCACAACTCCGTGGCATCTTTTCCTTTT
*
1555448 AAGCCCACAACTACGTGGCACTCTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-TCTTTTCCTTTT
* * *
1555481 AAGTCCACAACTCTGTGGCA-C----CATTTT
1 AAGCCCACAACTCCGTGGCATCTTTTCCTTTT
* *
1555508 AAGCCCATAACTCCGTGGCATCTTTTTCCTTTA
1 AAGCCCACAACTCCGTGGCATC-TTTTCCTTTT
* * *
1555541 AAGCCCACAACTACGTGGCACTCTTTTCCTCTA
1 AAGCCCACAACTCCGTGGCA-TCTTTTCCTTTT
1555574 AAGCCCACA
1 AAGCCCACA
1555583 CAAGTCGATG
Statistics
Matches: 131, Mismatches: 18, Indels: 27
0.74 0.10 0.15
Matches are distributed among these distances:
27 44 0.34
28 1 0.01
29 1 0.01
31 1 0.01
32 1 0.01
33 62 0.47
34 21 0.16
ACGTcount: A:0.23, C:0.35, G:0.13, T:0.29
Consensus pattern (32 bp):
AAGCCCACAACTCCGTGGCATCTTTTCCTTTT
Found at i:1555499 original size:60 final size:60
Alignment explanation
Indices: 1555387--1555561 Score: 246
Period size: 60 Copynumber: 2.9 Consensus size: 60
1555377 TCTCTTCTCA
* *
1555387 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCGTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACT-CGTGGCACCAGTTT
* *
1555448 AAGCCCACAACTACGTGGCACTC-TTTTCCTTTTAAGTCCACAACTCTGTGGCACCATTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTC-GTGGCACCAGTTT
* * *
1555508 AAGCCCATAACTCCGTGGCA-TCTTTTTCCTTTAAAGCCCACAACTACGTGGCAC
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACT-CGTGGCAC
1555562 TCTTTTCCTC
Statistics
Matches: 103, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
59 3 0.03
60 77 0.75
61 23 0.22
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (60 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCGTGGCACCAGTTT
Found at i:1555610 original size:33 final size:33
Alignment explanation
Indices: 1555573--1555664 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
1555563 CTTTTCCTCT
* *
1555573 AAAGCCCACACAAGTCGATGGCAACC-TTCTTCC
1 AAAGCCCACACAAGTCGGTGGCAACCACTC-TCC
*
1555606 AAAGCCCACACAAGTCGGTGGCAACCACTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCACTCTCC
1555639 AAAGCCCACACAAGTCGGTGGCAACC
1 AAAGCCCACACAAGTCGGTGGCAACC
1555665 CTTTTGAGCC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.32, C:0.36, G:0.18, T:0.14
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCAACCACTCTCC
Found at i:1555727 original size:49 final size:49
Alignment explanation
Indices: 1555674--1556374 Score: 870
Period size: 49 Copynumber: 14.6 Consensus size: 49
1555664 CCTTTTGAGC
* * *
1555674 CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGT
* * * *
1555723 CCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCT-CCATTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-TATCTTTAAGT
* * *
1555772 CCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTTATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGT
* *
1555821 CTAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---A---TTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGT
* *
1555864 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGT
* * * *
1555913 CCAATGTAGCTGGCCTT-AACTCAGCACATTGTCACCTTCACCATTAAGT
1 CCAATGTAGCTGGCCTTGAA-TCAGCACATTGGCACCTTTATCTTTAAGT
* *
1555962 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGT
* * *
1556011 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCT-CCATTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-TATCTTTAAGT
* *
1556060 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACATTTATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGT
*
1556109 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---A---TTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGT
* * *
1556152 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGT
* * *
1556201 CCAATGTAACTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGT
*
1556249 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---A---TTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGT
* *
1556292 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--ATCTTTAAGT
*
1556344 TCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CCAATGTAGCTGGCCTTGAATCAGCACATTG
1556375 ACATCCTGTT
Statistics
Matches: 566, Mismatches: 59, Indels: 51
0.84 0.09 0.08
Matches are distributed among these distances:
43 116 0.20
46 5 0.01
48 49 0.09
49 358 0.63
50 4 0.01
52 34 0.06
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGT
Found at i:1555843 original size:98 final size:98
Alignment explanation
Indices: 1555674--1556374 Score: 1008
Period size: 98 Copynumber: 7.3 Consensus size: 98
1555664 CCTTTTGAGC
* *
1555674 CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGTTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
1555739 TGACTCAGCACATTGGCACCTTCTCCATTAAGT
66 TGACTCAGCACATTGGCACCTTCTCCATTAAGT
* *
1555772 CCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTTATCTTTAAGTCTAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
1555837 TGACTCAGCACATTGGCA------CCATTAAGT
66 TGACTCAGCACATTGGCACCTTCTCCATTAAGT
1555864 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
* * *
1555929 TAACTCAGCACATTGTCACCTTCACCATTAAGT
66 TGACTCAGCACATTGGCACCTTCTCCATTAAGT
1555962 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
1556027 TGACTCAGCACATTGGCACCTTCTCCATTAAGT
66 TGACTCAGCACATTGGCACCTTCTCCATTAAGT
* * * *
1556060 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACATTTATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
1556125 TGACTCAGCACATTGGCA------CCATTAAGT
66 TGACTCAGCACATTGGCACCTTCTCCATTAAGT
* *
1556152 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAACTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
* * *
1556217 TGAATCAGCACATTGGCACC-TCACCTTTAAGT
66 TGACTCAGCACATTGGCACCTTCTCCATTAAGT
* * * *
1556249 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---A---TTAAGTCCAATATAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
* * *
1556308 TGAATCAGCATATTGGCACCTTTTCCATCTTTAAGT
66 TGACTCAGCACATTGGCACCTTCTCCA---TTAAGT
* * *
1556344 TCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CCAATATAGCTGGCCTTGAATCAGCATATTG
1556375 ACATCCTGTT
Statistics
Matches: 554, Mismatches: 34, Indels: 33
0.89 0.05 0.05
Matches are distributed among these distances:
91 39 0.07
92 176 0.32
94 1 0.00
95 35 0.06
97 41 0.07
98 262 0.47
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (98 bp):
CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
TGACTCAGCACATTGGCACCTTCTCCATTAAGT
Found at i:1555997 original size:190 final size:191
Alignment explanation
Indices: 1555674--1556374 Score: 962
Period size: 190 Copynumber: 3.7 Consensus size: 191
1555664 CCTTTTGAGC
* * *
1555674 CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGTTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
* * *
1555739 TGACTCAGCACATTGGCACCTTCTCCATTAAGTCCAATATAGCTGGCCCTGAATCAGCATATTGG
66 TAACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
*
1555804 CACCTTTATCTTTAAGTCTAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CCATTAAGT
131 CACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCCATTAAGT
*
1555864 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
*
1555929 TAACTCAGCACATTGTCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
66 TAACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1555994 CACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCTCCATTAAG
131 CACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C-CCATTAAG
1556059 T
191 T
* * *
1556060 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACATTTATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
*
1556125 TGACTCAGCACATTGG------CACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
66 TAACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* * *
1556184 CACCTTCATCTTTAAGTCCAATGTAACTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGT
131 CACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-CA---TTAAGT
* * *
1556249 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---A---TTAAGTCCAATATAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
* * * * * *
1556308 TGAA-TCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACA
66 T-AACTCAGCACATTGGCACC--TT-CACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
1556372 TTG
127 TTG
1556375 ACATCCTGTT
Statistics
Matches: 466, Mismatches: 25, Indels: 38
0.88 0.05 0.07
Matches are distributed among these distances:
183 33 0.07
184 1 0.00
185 1 0.00
186 4 0.01
189 41 0.09
190 265 0.57
192 37 0.08
196 84 0.18
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (191 bp):
CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
TAACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
CACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCCATTAAGT
Found at i:1556364 original size:52 final size:55
Alignment explanation
Indices: 1556286--1556393 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 55
1556276 ATTGGCACCA
* *
1556286 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCT-TTTC-CATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTGTTTCTCATCT
* *
1556338 TTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTGTTTCTCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTGTTTCTCATCT
1556393 T
1 T
1556394 CAATCCCAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
52 36 0.73
53 3 0.06
54 4 0.08
55 6 0.12
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (55 bp):
TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTGTTTCTCATCT
Found at i:1557329 original size:13 final size:13
Alignment explanation
Indices: 1557311--1557335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1557301 CATAAAATGT
1557311 TGTATCGATACAA
1 TGTATCGATACAA
1557324 TGTATCGATACA
1 TGTATCGATACA
1557336 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:1557333 original size:33 final size:33
Alignment explanation
Indices: 1557291--1557355 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1557281 TTCAACAATT
1557291 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1557324 TGTATCGATACATATTTTTTTGTATCGATACA
1 TGTATCGATACATAAAATGTTGTATCGATACA
1557356 TTTTAAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1557416 original size:13 final size:13
Alignment explanation
Indices: 1557398--1557425 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1557388 ATTACTCAAA
1557398 TGTATCGATACAT
1 TGTATCGATACAT
1557411 TGTATCGATACAT
1 TGTATCGATACAT
1557424 TG
1 TG
1557426 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:1557487 original size:52 final size:52
Alignment explanation
Indices: 1557431--1557551 Score: 197
Period size: 52 Copynumber: 2.3 Consensus size: 52
1557421 CATTGATCTT
* * *
1557431 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTTTCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTCGCCCAGATGTATCGATACACTATAAAA
* *
1557483 TGTATCGATACATGCAAGCAAATTCGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTCGCCCAGATGTATCGATACACTATAAAA
1557535 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1557552 ATAAATTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTCGCCCAGATGTATCGATACACTATAAAA
Found at i:1561255 original size:24 final size:23
Alignment explanation
Indices: 1561185--1561255 Score: 65
Period size: 24 Copynumber: 3.1 Consensus size: 23
1561175 GGCTCTCGTT
*
1561185 AAAAAATTTC--CCCTTTGATAA
1 AAAAAATTTCTTCCCCTTGATAA
* *
1561206 AAAAAATTTCTCCCCCTTGGTTAA
1 AAAAAATTTCTTCCCCTT-GATAA
** *
1561230 AACGATTTTCTTCCCCTTGATAA
1 AAAAAATTTCTTCCCCTTGATAA
1561253 AAA
1 AAA
1561256 TTTATTTTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 10 0.26
23 11 0.28
24 18 0.46
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (23 bp):
AAAAAATTTCTTCCCCTTGATAA
Found at i:1562511 original size:13 final size:13
Alignment explanation
Indices: 1562493--1562517 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1562483 CATAAAGTGT
1562493 TGTATCGATACAA
1 TGTATCGATACAA
1562506 TGTATCGATACA
1 TGTATCGATACA
1562518 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:1562515 original size:33 final size:33
Alignment explanation
Indices: 1562473--1562539 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1562463 TTCAACGATT
1562473 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1562506 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1562539 T
1 T
1562540 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:1562598 original size:13 final size:13
Alignment explanation
Indices: 1562580--1562607 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1562570 ATTACTCAAA
1562580 TGTATCGATACAT
1 TGTATCGATACAT
1562593 TGTATCGATACAT
1 TGTATCGATACAT
1562606 TG
1 TG
1562608 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:1562657 original size:52 final size:52
Alignment explanation
Indices: 1562613--1562732 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
1562603 CATTGATCTT
* *
1562613 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
1562665 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1562717 TGTATCGATACATGCA
1 TGTATCGATACATGCA
1562733 AGCAACTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:1570766 original size:16 final size:17
Alignment explanation
Indices: 1570741--1570778 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1570731 TTGTGCTGTA
* *
1570741 ATCATGACATC-ATGAC
1 ATCATAACATCAATAAC
1570757 ATCATAACATCAATAAC
1 ATCATAACATCAATAAC
1570774 ATCAT
1 ATCAT
1570779 TATTTGCATC
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:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (17 bp):
ATCATAACATCAATAAC
Found at i:1570981 original size:30 final size:30
Alignment explanation
Indices: 1570881--1571028 Score: 163
Period size: 32 Copynumber: 4.8 Consensus size: 30
1570871 AAATCTCTTC
* * *
1570881 TCAAAGCCCACCACTCCGTGGCATCTTTTCTT
1 TCAAAGTCCACGACTCAGTGGCAT-TTTTC-T
**
1570913 TTTAAGTCCACGACTCAGTGGCATCCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCAT--TTTTCT
1570945 TCAAAGTCCACGACTCAGTGGCATTTTGTC-
1 TCAAAGTCCACGACTCAGTGGCATTTT-TCT
1570975 TCAAAGTCCACGACTCAGTGGCATTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCA-TTTTTCT
* * *
1571006 TCAAAGCCCACAACTCCGTGGCA
1 TCAAAGTCCACGACTCAGTGGCA
1571029 CCCTTTTAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
30 28 0.27
31 26 0.25
32 42 0.41
33 6 0.06
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.30
Consensus pattern (30 bp):
TCAAAGTCCACGACTCAGTGGCATTTTTCT
Found at i:1571078 original size:34 final size:32
Alignment explanation
Indices: 1570884--1571537 Score: 366
Period size: 34 Copynumber: 20.7 Consensus size: 32
1570874 TCTCTTCTCA
* *
1570884 AAGCCCACCACTCCGTGGCA-TCTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTC-TTTT
* * * * **
1570916 AAGTCCACGACTCAGTGGCA-TCCTTTTCTTCA
1 AAGCCCACAACTCCGTGGCACT-TTTTTCTTTT
* * * * **
1570948 AAGTCCACGACTCAGTGGCA-TTTTGTC-TCA
1 AAGCCCACAACTCCGTGGCACTTTTTTCTTTT
* * * **
1570978 AAGTCCACGACTCAGTGGCA-TTTTTTCTTCA
1 AAGCCCACAACTCCGTGGCACTTTTTTCTTTT
*
1571009 AAGCCCACAACTCCGTGGCAC-----CCTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTTTT
1571036 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTC-T-TTT
* *
1571070 AAGTCCACAACTCCGTGGCAC-----CCTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTTTT
*
1571097 AAGCCCACAACTTCGTGGCACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTC-T-TTT
* * *
1571131 AAGTCCACAACTCCGTGCCAC-----CCTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTTTT
*
1571158 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTC-TTTT
* * *
1571191 AAAGCCCACAACTCTGTGGCACCTTTTTCCTTTA
1 -AAGCCCACAACTCCGTGGCA-CTTTTTTCTTTT
* *
1571225 AAGCCCACAACTACGTGGCACTCTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACT-TTTTTCTTTT
* *
1571258 AAGTCCACAACTCTGTGGCAC------CATTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTC-TTTT
*
1571285 AAGCCCACAACTCCGTGGCATCTTTTTCCTTTTT
1 AAGCCCACAACTCCGTGGCA-CTTTTTTC-TTTT
* *
1571319 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCT
1 -AAGCCCACAACTCCGTGGCACT-TTTTT-CTTTT
* *
1571354 AAGTCCACAACTCTGTGGCAC------CATTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTC-TTTT
* * *
1571381 AAGCCCACAAATCCGTGGCATCTCTTTCCTTTTT
1 AAGCCCACAACTCCGTGGCA-CTTTTTTC-TTTT
* *
1571415 AAAGCCCACAACTCTGTGGCACCTTTTTCTTTTCT
1 -AAGCCCACAACTCCGTGGCACTTTTTTC-TTT-T
* * * * **
1571450 AAGTCCACGACTCCGTGGCACCTTCTT-TTCA
1 AAGCCCACAACTCCGTGGCACTTTTTTCTTTT
*
1571481 AAGCCCACAACTTCGTGGCACTTTTTTTCCCTTTT
1 AAGCCCACAACTCCGTGGCAC-TTTTTT--CTTTT
* *
1571516 AAAGTCCACAACTTCGTGGCAC
1 -AAGCCCACAACTCCGTGGCAC
1571538 CTTGTTCCTT
Statistics
Matches: 502, Mismatches: 68, Indels: 100
0.75 0.10 0.15
Matches are distributed among these distances:
26 2 0.00
27 110 0.22
28 4 0.01
29 2 0.00
30 29 0.06
31 42 0.08
32 52 0.10
33 57 0.11
34 130 0.26
35 53 0.11
36 21 0.04
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (32 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCTTTT
Found at i:1571078 original size:61 final size:60
Alignment explanation
Indices: 1570982--1571538 Score: 432
Period size: 61 Copynumber: 8.8 Consensus size: 60
1570972 GTCTCAAAGT
* * ** *
1570982 CCACGACTCAGTGGCA-TTTTTTCT-TCAAAGCCCACAACTCCGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
1571040 CCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
* *
1571101 CCACAACTTCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGCCACCCTTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
* * * * *
1571162 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCTTTTTCCTTTAAA
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGTCCACAACTCCGTGGCA-C-----CCTTTTAA
1571227 GC
59 GC
* * * *
1571229 CCACAACTACGTGGCACTCTTTTC-CTTTTAAGTCCACAACTCTGTGGCACCATTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
* * * * *
1571289 CCACAACTCCGTGGCATCTTTTTCCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCT
1 CCACAACTCCGTGGCA-CTTTTTTCTCTTT-AAGTCCACAACTCCGTGGCA--C-----CCTTTT
*
1571354 AAGT
57 AAGC
* * *
1571358 CCACAACTCTGTGGCAC------CAT-TTTAAGCCCACAAATCCGTGGCATCTCTTTCCTTTTTA
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGTCCACAACTCCGTGGCA---C---CC-TTTT-
1571416 AAGC
57 AAGC
* * * *
1571420 CCACAACTCTGTGGCACCTTTTTCTTTTCTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTT-TAAGTCCACAACTCCGTGGCACC--CTTTT--AAGC
* * *
1571485 CCACAACTTCGTGGCACTTTTTTTCCCTTTTAAAGTCCACAACTTCGTGGCACC
1 CCACAACTCCGTGGCAC-TTTTTTCTC-TTT-AAGTCCACAACTCCGTGGCACC
1571539 TTGTTCCTTC
Statistics
Matches: 416, Mismatches: 44, Indels: 69
0.79 0.08 0.13
Matches are distributed among these distances:
58 14 0.03
59 7 0.02
60 33 0.08
61 159 0.38
62 47 0.11
63 2 0.00
64 5 0.01
65 22 0.05
66 27 0.06
67 56 0.13
68 4 0.01
69 40 0.10
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (60 bp):
CCACAACTCCGTGGCACTTTTTTCTCTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
Found at i:1571120 original size:25 final size:26
Alignment explanation
Indices: 1571067--1571122 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
1571057 TTTTTTCATC
*
1571067 TTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAGCCCACAACTCCGTGGCA-CCT
* *
1571094 TTTAAGCCCACAACTTCGTGGCACTT
1 TTTAAGCCCACAACTCCGTGGCACCT
1571120 TTT
1 TTT
1571123 TCATCTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.32
Consensus pattern (26 bp):
TTTAAGCCCACAACTCCGTGGCACCT
Found at i:1571374 original size:96 final size:96
Alignment explanation
Indices: 1571032--1571551 Score: 511
Period size: 96 Copynumber: 5.4 Consensus size: 96
1571022 CGTGGCACCC
* *
1571032 TTTT-AAGCCCACAACTCCGTGGCACT-TTTTTCATCTT-TAAGTCCACAACTCCGTGGCACCCT
1 TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC--CTTCTAAGTCCACAACTCCGTGGCACCAT
* *
1571094 TTTAAGCCCACAACTTCGTGGCA-CTTTTTTCAT
64 TTTAAGCCCACAACTCCGTGGCATC-TTTTTCCT
* * * * * *
1571127 CTTT-AAGTCCACAACTCCGT-GC-CAC-----CCTTTTAAGCCCACAACTCCGTGGCACCTTTT
1 TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCA-C----
* * *
1571184 TCTTTTTAAAGCCCACAACTCTGTGGCACCTTTTTCC-
61 -CATTTT-AAGCCCACAACTCCGTGGCATCTTTTTCCT
* *
1571221 -TTTAAAGCCCACAACTAC-GTGGCACTC-TTTTCCTTTTAAGTCCACAACTCTGTGGCACCATT
1 TTTTAAAGCCCACAACT-CTGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCATT
1571283 TTAAGCCCACAACTCCGTGGCATCTTTTTCCT
65 TTAAGCCCACAACTCCGTGGCATCTTTTTCCT
*
1571315 TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCATTT
1 TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCATTT
* *
1571380 TAAGCCCACAAATCCGTGGCATCTCTTTCCT
66 TAAGCCCACAACTCCGTGGCATCTTTTTCCT
* * *
1571411 TTTTAAAGCCCACAACTCTGTGGCAC-CTTTTTCTTTTCTAAGTCCACGACTCCGTGGCACCTTC
1 TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC-CTTCTAAGTCCACAACTCCGTGGCACC--A
* * *
1571475 TTTTCAAAGCCCACAACTTCGTGGCACTTTTTTTCCC
63 TTTT--AAGCCCACAACTCCGTGGCA-TCTTTTTCCT
* *
1571512 TTTTAAAGTCCACAACT-TCGTGGCAC-CTTGTTCCTTCTAA
1 TTTTAAAGCCCACAACTCT-GTGGCACTCTTTTTCCTTCTAA
1571552 AGCCCACACA
Statistics
Matches: 366, Mismatches: 30, Indels: 53
0.82 0.07 0.12
Matches are distributed among these distances:
87 3 0.01
88 20 0.05
89 2 0.01
93 31 0.08
94 26 0.07
95 77 0.21
96 117 0.32
98 4 0.01
99 1 0.00
100 49 0.13
101 36 0.10
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (96 bp):
TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCATTT
TAAGCCCACAACTCCGTGGCATCTTTTTCCT
Found at i:1571381 original size:62 final size:62
Alignment explanation
Indices: 1571315--1571442 Score: 170
Period size: 62 Copynumber: 2.1 Consensus size: 62
1571305 TCTTTTTCCT
* * * *
1571315 TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC-TTCT-AAGTCCACAACTCTGTGGCACCA
1 TTTT-AAGCCCACAAATCCGTGGCA-TCTCTTTCCTTTCTAAAGCCCACAACTCTGTGGCACCA
* *
1571377 TTTTAAGCCCACAAATCCGTGGCATCTCTTTCCTTTTTAAAGCCCACAACTCTGTGGCACCT
1 TTTTAAGCCCACAAATCCGTGGCATCTCTTTCCTTTCTAAAGCCCACAACTCTGTGGCACCA
1571439 TTTT
1 TTTT
1571443 CTTTTCTAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
60 8 0.14
61 21 0.36
62 29 0.50
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.34
Consensus pattern (62 bp):
TTTTAAGCCCACAAATCCGTGGCATCTCTTTCCTTTCTAAAGCCCACAACTCTGTGGCACCA
Found at i:1571491 original size:223 final size:220
Alignment explanation
Indices: 1571093--1571501 Score: 569
Period size: 223 Copynumber: 1.8 Consensus size: 220
1571083 CGTGGCACCC
*
1571093 TTTTAAGCCCACAACTTCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGCCACCCTTTT
1 TTTTAAGCCCACAACTTCGTGGCACTTTTTTCA-CTTTAAGTCCACAACTCCGTGCCACCATTTT
* *
1571158 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCTTTTTCCTT
65 AAGCCCACAAATCCGTGGCACCTTTTCCTTTTTAAAGCCCACAACTCTGTGGCACCTTTTTCCTT
*
1571223 TAAAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGTCCACAAC-TCTGTGGCACCATTTTAA
130 TAAAGCCCACAACTACGTGGCACTC-TTTCCTTTTAAGCCCACAACTTC-GTGGCACCATTTTAA
1571287 GCCCACAACTCCGTGGCATCTTTTTCCT
193 GCCCACAACTCCGTGGCATCTTTTTCCT
* *
1571315 TTTTAAAGCCCACAAC-TCTGTGGCACTCTTTTTC-CTTCTAAGTCCACAACTCTGTGGCACCAT
1 TTTT-AAGCCCACAACTTC-GTGGCACT-TTTTTCACTT-TAAGTCCACAACTCCGTGCCACCAT
*
1571378 TTTAAGCCCACAAATCCGTGGCATCTCTTTCCTTTTTAAAGCCCACAACTCTGTGGCACCTTTTT
62 TTTAAGCCCACAAATCCGTGGCACCT-TTTCCTTTTTAAAGCCCACAACTCTGTGGCACCTTTTT
* * * * *
1571443 CTTTTCTAAGTCCACGACTCCGTGGCAC-C-TT-CTTTTCAAAGCCCACAACTTCGTGGCAC
126 CCTTT-AAAGCCCACAACTACGTGGCACTCTTTCCTTTT--AAGCCCACAACTTCGTGGCAC
1571502 TTTTTTTCCC
Statistics
Matches: 166, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
221 5 0.03
222 11 0.07
223 82 0.49
224 50 0.30
225 18 0.11
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (220 bp):
TTTTAAGCCCACAACTTCGTGGCACTTTTTTCACTTTAAGTCCACAACTCCGTGCCACCATTTTA
AGCCCACAAATCCGTGGCACCTTTTCCTTTTTAAAGCCCACAACTCTGTGGCACCTTTTTCCTTT
AAAGCCCACAACTACGTGGCACTCTTTCCTTTTAAGCCCACAACTTCGTGGCACCATTTTAAGCC
CACAACTCCGTGGCATCTTTTTCCT
Found at i:1571559 original size:34 final size:34
Alignment explanation
Indices: 1571381--1571559 Score: 152
Period size: 34 Copynumber: 5.3 Consensus size: 34
1571371 GCACCATTTT
* * * * *
1571381 AAGCCCACAAATCCGTGGCATCTCTTTCCTTTTTA
1 AAGCCCACAACTTCGTGGCACCTTTTTCC-TTCTA
*
1571416 AAGCCCACAAC-TCTGTGGCACCTTTTTCTTTTCT-
1 AAGCCCACAACTTC-GTGGCACCTTTTTC-CTTCTA
* * * *
1571450 AAGTCCACGACTCCGTGGCACCTTCTT--TTC-A
1 AAGCCCACAACTTCGTGGCACCTTTTTCCTTCTA
* *
1571481 AAGCCCACAACTTCGTGGCACTTTTTTTCCCTTTTA
1 AAGCCCACAACTTCGTGGCAC-CTTTTT-CCTTCTA
* *
1571517 AAGTCCACAACTTCGTGGCACCTTGTTCCTTCTA
1 AAGCCCACAACTTCGTGGCACCTTTTTCCTTCTA
1571551 AAGCCCACA
1 AAGCCCACA
1571560 CAAGTCGATG
Statistics
Matches: 114, Mismatches: 21, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
31 21 0.18
32 4 0.04
34 36 0.32
35 32 0.28
36 21 0.18
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (34 bp):
AAGCCCACAACTTCGTGGCACCTTTTTCCTTCTA
Found at i:1571589 original size:33 final size:33
Alignment explanation
Indices: 1571547--1571712 Score: 271
Period size: 33 Copynumber: 5.0 Consensus size: 33
1571537 CCTTGTTCCT
*
1571547 TCTAAAGCCCACACAAGTCGATGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
*
1571580 TCTAAAGCCCACAAAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
*
1571613 TCTAAAGCCCACACAAGTCGGTGGTAA-CCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
*
1571645 TTCTAAAGCCCACACAAGTCGGTGGCAACCATTC
1 -TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
*
1571679 TCTAAAGCTCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
1571712 T
1 T
1571713 AAGCCCAATA
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
32 5 0.04
33 114 0.93
34 4 0.03
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.20
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
Found at i:1571770 original size:49 final size:49
Alignment explanation
Indices: 1571712--1572041 Score: 333
Period size: 43 Copynumber: 6.8 Consensus size: 49
1571702 GCAACCCTTC
*
1571712 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
1571761 TAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
1571804 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
1571853 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
1571896 TAAGTCCAATATAGCTGGCCTTGAATCGGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * * *
1571948 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCATCTT
* * * * *
1572003 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1572042 TCTTTATCAC
Statistics
Matches: 236, Mismatches: 26, Indels: 32
0.80 0.09 0.11
Matches are distributed among these distances:
43 78 0.33
45 2 0.01
47 1 0.00
49 75 0.32
50 1 0.00
52 37 0.16
53 2 0.01
55 39 0.17
56 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:1571874 original size:92 final size:92
Alignment explanation
Indices: 1571707--1571992 Score: 455
Period size: 92 Copynumber: 3.1 Consensus size: 92
1571697 CGGTGGCAAC
* *
1571707 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
*
1571772 TAGCTAGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
1571800 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1571865 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
1571892 CCTTTAAGTCCAATATAGCTGGCCTTGAATCGGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAA
*
1571957 TGTAGCTGGCCTTGAATCAGCACATTGACA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
1571987 TCCTTT
1 -CCTTT
1571993 TTCTCATCTT
Statistics
Matches: 180, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
92 126 0.70
93 4 0.02
94 3 0.02
95 42 0.23
96 5 0.03
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1571971 original size:52 final size:55
Alignment explanation
Indices: 1571893--1572113 Score: 180
Period size: 52 Copynumber: 3.9 Consensus size: 55
1571883 ACATTGGCAC
* * *
1571893 CTTTAAGTCCAATATAGCTGGCCTTGAATCGGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* *
1571945 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * * * * *
1572000 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-C-TTT-T--TC-TC
1572065 AT
54 AT
* * *
1572067 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1572114 ATCTTTAAGT
Statistics
Matches: 134, Mismatches: 20, Indels: 24
0.75 0.11 0.13
Matches are distributed among these distances:
52 37 0.28
53 2 0.01
54 5 0.04
55 33 0.25
56 1 0.01
57 1 0.01
58 4 0.03
59 1 0.01
60 1 0.01
61 4 0.03
62 1 0.01
63 3 0.02
64 2 0.01
66 3 0.02
67 36 0.27
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.36
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:1572856 original size:20 final size:20
Alignment explanation
Indices: 1572831--1572896 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1572821 TTTCAACGAT
1572831 TTGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
1572851 TTGTATCGATAC---AA---
1 TTGTATCGATACATAAAGTG
1572865 -TGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
1572884 TTGTATCGATACA
1 TTGTATCGATACA
1572897 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 24 0.62
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATAAAGTG
Found at i:1572870 original size:13 final size:13
Alignment explanation
Indices: 1572852--1572909 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
1572842 CATAAAGTGT
1572852 TGTATCGATACAA
1 TGTATCGATACAA
1572865 TGTATCGATACATAAA
1 TGTATCGATAC---AA
1572881 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1572898 TGTATCGATACA
1 TGTATCGATACA
1572910 TATTTTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
16 2 0.05
17 2 0.05
20 11 0.29
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1572874 original size:33 final size:33
Alignment explanation
Indices: 1572832--1572931 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
1572822 TTCAACGATT
1572832 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1572865 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1572898 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1572931 T
1 T
1572932 TTAAGCTACT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1573049 original size:52 final size:51
Alignment explanation
Indices: 1572985--1573124 Score: 190
Period size: 52 Copynumber: 2.7 Consensus size: 51
1572975 ATCAATACAT
** * * *
1572985 TGTATCGATACATTGATATTTGTATCGATACATGGATGCAAATTTGCCCAGA
1 TGTATCGATACATT-ATAAATGTATCGATACATGCAGGAAAATTTGCCCAGA
*
1573037 TGTATCGATACATTATAAAATGTATCGACACATGCAGGAAAATTTGCCCAGA
1 TGTATCGATACATTAT-AAATGTATCGATACATGCAGGAAAATTTGCCCAGA
*
1573089 TGTATCGATACACTATTAAATGTATCGATACATGCA
1 TGTATCGATACATTA-TAAATGTATCGATACATGCA
1573125 AGCAACTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.03
52 75 0.96
53 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.31
Consensus pattern (51 bp):
TGTATCGATACATTATAAATGTATCGATACATGCAGGAAAATTTGCCCAGA
Found at i:1580918 original size:49 final size:50
Alignment explanation
Indices: 1580806--1580939 Score: 198
Period size: 49 Copynumber: 2.7 Consensus size: 50
1580796 TATCACAATT
* * * *
1580806 TGTATTGATAGATTGTTCATTGTATCGATACATTTTGGGTTTTACCCAGA
1 TGTATAGATACATTATTCATTGTATCGATACATTCTGGGTTTTACCCAGA
1580856 TGTATAGATACATTATTCATTGTATCGATACATTCTGGG-TTTACCCAGA
1 TGTATAGATACATTATTCATTGTATCGATACATTCTGGGTTTTACCCAGA
* * *
1580905 TGTATCGATACATTTTTCAATGTATCGATACATTC
1 TGTATAGATACATTATTCATTGTATCGATACATTC
1580940 AGGCATTTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 42 0.55
50 35 0.45
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (50 bp):
TGTATAGATACATTATTCATTGTATCGATACATTCTGGGTTTTACCCAGA
Found at i:1583345 original size:79 final size:79
Alignment explanation
Indices: 1583214--1583757 Score: 304
Period size: 79 Copynumber: 6.9 Consensus size: 79
1583204 TTTTCATCTC
* * *
1583214 GGGGATACTCCAACCCTGATTTTATTCCCAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
*
1583279 CCCGTCATTTCCGA
66 CCCGTTATTTCCGA
* * *
1583293 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGAGAATCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
*
1583358 TCCGATTTTATTTCC-A
66 CCCG---TTATTTCCGA
* * * * * ** * ** ** *
1583374 ----AAACACCAATTTTTCACAATTGGGGA-TACTCCAAC-CCCGTTATTT--C-ATTGGGGATA
1 GGGGATACTCCAA----CCCCGATT--TTATTTCTAAAACACCAATT-TTTCACAATCGGGGATA
1583430 CTCCAACCCCGTTATTTCCGA
59 CTCCAACCCCGTTATTTCCGA
* ** *** * *** * *
1583451 GGGGATACTCCAAACTTGGCATTATTTCTAAAATATTGATTTCTCACAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
** *
1583516 CCCGTTATTTTGGC
66 CCCGTTATTTCCGA
* *** * * * * *
1583530 GGGGATACTCCAACCCTGGCCTTATTTCTAAAGCATCGATTTTTCACGATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
* *
1583595 CCCATTATTTTCGA
66 CCCGTTATTTCCGA
* * * * *
1583609 GGGGATACTCCAACCTCGATTTTATTT-TCAAAACACTAATTTTT-ATAATCAGGGATACTTCAA
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAACACCAATTTTTCACAATCGGGGATACTCCAA
* **
1583672 CCCTGTTATTTTTGA
65 CCCCGTTATTTCCGA
* * * * * * * * * *
1583687 GAGGATATTCCAATCTCGATTTTATTTCCAAAACACCGA-TTTTCTATAATCAGGGATACTCTAG
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTC-ACAATCGGGGATACTCCAA
1583751 CCCCGTT
65 CCCCGTT
1583758 GTTATCCCCA
Statistics
Matches: 353, Mismatches: 88, Indels: 48
0.72 0.18 0.10
Matches are distributed among these distances:
75 1 0.00
76 15 0.04
77 15 0.04
78 60 0.17
79 228 0.65
80 1 0.00
81 16 0.05
82 16 0.05
83 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTCCGA
Found at i:1583369 original size:51 final size:51
Alignment explanation
Indices: 1583301--1583412 Score: 170
Period size: 51 Copynumber: 2.2 Consensus size: 51
1583291 GAGGGGATAC
* *
1583301 TCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGAGAA
1 TCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGAGAA
* * * *
1583352 TCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATTGGGGATAC
1 TCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGAGAA
1583403 TCCAACCCCG
1 TCCAACCCCG
1583413 TTATTTCATT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (51 bp):
TCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGAGAA
Found at i:1583424 original size:28 final size:28
Alignment explanation
Indices: 1583392--1583463 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
1583382 ATTTTTCACA
1583392 ATTGGGGATACTCCAACCCCGTTATTTC
1 ATTGGGGATACTCCAACCCCGTTATTTC
1583420 ATTGGGGATACTCCAACCCCGTTATTTC
1 ATTGGGGATACTCCAACCCCGTTATTTC
***
1583448 CGAGGGGATACTCCAA
1 ATTGGGGATACTCCAA
1583464 ACTTGGCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (28 bp):
ATTGGGGATACTCCAACCCCGTTATTTC
Found at i:1583705 original size:78 final size:79
Alignment explanation
Indices: 1583582--1583747 Score: 228
Period size: 78 Copynumber: 2.1 Consensus size: 79
1583572 TTCACGATCG
* * *
1583582 GGGATACTCCAATCCCATTATTTTCGAGGGGATACTCCAACCTCGATTTTATTTTCAAAACACTA
1 GGGATACTCCAATCCCATTATTTTCGAGAGGATACTCCAACCTCGATTTTATTTCCAAAACACCA
1583647 ATTTT-TATAATCA
66 ATTTTCTATAATCA
* * * * *
1583660 GGGATACTTCAA-CCCTGTTATTTTTGAGAGGATATTCCAATCTCGATTTTATTTCCAAAACACC
1 GGGATACTCCAATCCC-ATTATTTTCGAGAGGATACTCCAACCTCGATTTTATTTCCAAAACACC
*
1583724 GATTTTCTATAATCA
65 AATTTTCTATAATCA
1583739 GGGATACTC
1 GGGATACTC
1583748 TAGCCCCGTT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
77 3 0.04
78 57 0.75
79 16 0.21
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (79 bp):
GGGATACTCCAATCCCATTATTTTCGAGAGGATACTCCAACCTCGATTTTATTTCCAAAACACCA
ATTTTCTATAATCA
Found at i:1586584 original size:13 final size:13
Alignment explanation
Indices: 1586566--1586591 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1586556 AACTTCCTAG
1586566 ATGTATCGATACA
1 ATGTATCGATACA
1586579 ATGTATCGATACA
1 ATGTATCGATACA
1586592 CAAAATATAT
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:1586664 original size:19 final size:20
Alignment explanation
Indices: 1586640--1586693 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
1586630 AGCGATACAT
*
1586640 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
**
1586659 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
1586680 TGTATCGATACAAA
1 TGTATCGATACAAA
1586694 TTATTGGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:1587618 original size:29 final size:29
Alignment explanation
Indices: 1587537--1587618 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 29
1587527 GACTGGAAAA
*
1587537 TGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TGCCACCAATTTGTGTGGGCTTTGAAAGG
** ** *
1587566 TGTCCTGCTCTTTG-G-GGAC--TGAAAGG
1 TG-CCACCAATTTGTGTGGGCTTTGAAAGG
1587592 TGCCACCAATTTGTGTGGGCTTTGAAA
1 TGCCACCAATTTGTGTGGGCTTTGAAA
1587619 AGAAAAAGCA
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
25 7 0.19
26 10 0.27
27 3 0.08
28 3 0.08
29 8 0.22
30 6 0.16
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (29 bp):
TGCCACCAATTTGTGTGGGCTTTGAAAGG
Found at i:1587667 original size:61 final size:60
Alignment explanation
Indices: 1587348--1588697 Score: 1478
Period size: 55 Copynumber: 23.4 Consensus size: 60
1587338 ATAAAGTGCA
* * **
1587348 TCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
1587403 TCCTGCTGTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** *
1587458 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
1587513 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * *
1587568 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
*
1587629 TCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGT-GGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * *
1587688 TCCTGCACTTTGAGGACTGAAAA-ATGCCACCAACTTGTGTGGGCTTGGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTT-TAAAAGAAAAGGCG
* *
1587749 TCCTGCACTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
1587808 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTT----G-AAAGGCA
1 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
1587863 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTAT-GGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
1587922 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
1587981 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGT-GGCTTT----G-AAAGGCA
1 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
1588035 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGACTTTGAAAGGAGAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
*
1588096 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
1588151 TCCTACTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTG
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
* * *
1588212 TCCTACTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * *
1588273 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
1588332 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAATGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
1588391 TCCTGTTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGT-GGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
1588445 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----CAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** * * *
1588500 TCCTATTCTTTGAGGATTGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTG
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
* *
1588561 TCCTGCTCTTTGAGGACTGAAAGGTCCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
1588616 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCTACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
1588677 TCCTGCTCTTTGAGGACTAAA
1 TCCTGCTCTTTGAGGACTAAA
1588698 GGGCGAAAGG
Statistics
Matches: 1131, Mismatches: 91, Indels: 140
0.83 0.07 0.10
Matches are distributed among these distances:
52 8 0.01
53 4 0.00
54 85 0.08
55 379 0.34
56 12 0.01
57 5 0.00
58 18 0.02
59 228 0.20
60 121 0.11
61 256 0.23
62 15 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:1588185 original size:116 final size:114
Alignment explanation
Indices: 1587348--1588699 Score: 1546
Period size: 116 Copynumber: 11.7 Consensus size: 114
1587338 ATAAAGTGCA
* * **
1587348 TCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTT---GA-AAGGCGTCCTGC
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGCGTCCTGC
* *
1587409 TGTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
66 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
1587458 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT--A-AG-AGGTGTCCTGC
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGCGTCCTGC
* *
1587519 TCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
66 TCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * * *
1587568 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT--AAAGAGAAGGCGTCCT
* *
1587633 GCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGT-GGCTTTAAAAGAAAAGGCG
64 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * * * * *
1587688 TCCTGCACTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTGGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTT--TAAAGAGAAGGCGTCCT
*
1587753 GCACTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
64 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
*
1587808 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT---GA-AAGGCATCCTG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGCGTCCTG
* *
1587868 CTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTAT-GGCTTTAAAAGAAAAGGCG
65 CTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* *
1587922 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGAGAAGGCGTCCTG
* *
1587986 CTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGT-GGCTTTGAAAGGCA
65 CTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1588035 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGACTTTGAAAGGAGAAGGTGTCC
1 TCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTT-AAA-GAGAAGGCGTCC
1588099 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
63 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1588151 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAGAAGGCGTCCT
* * *
1588216 ACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
64 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* * * *
1588273 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGAGCTTTAAAAGAAAAGGTGTCCTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGAGAAGGCGTCCTG
*
1588337 CTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAATGAAAAGGCA
65 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TT---TG-AAAGGCG
*
1588391 TCCTGTTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGT-GGCTTT---GA-AAGGCGTCCTG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGCGTCCTG
* *
1588450 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTCAAAGGCG
65 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
** * *
1588500 TCCTATTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAGAAGGCGTCCT
*
1588565 GCTCTTTGAGGACTGAAAGGTCCCACCAACTTGTGTGGGCTTTGAAAGGCG
64 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1588616 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCTACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAGAAGGCGTCCT
1588681 GCTCTTTGAGGACT-AAAGG
64 GCTCTTTGAGGACTGAAAGG
1588700 GCGAAAGGAG
Statistics
Matches: 1108, Mismatches: 77, Indels: 109
0.86 0.06 0.08
Matches are distributed among these distances:
108 5 0.00
109 38 0.03
110 142 0.13
111 6 0.01
112 2 0.00
113 75 0.07
114 117 0.11
115 76 0.07
116 274 0.25
117 14 0.01
118 77 0.07
119 59 0.05
120 162 0.15
121 34 0.03
122 20 0.02
123 7 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (114 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGCGTCCTGC
TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1600151 original size:13 final size:13
Alignment explanation
Indices: 1600133--1600157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1600123 CATAAAATGT
1600133 TGTATCGATACAA
1 TGTATCGATACAA
1600146 TGTATCGATACA
1 TGTATCGATACA
1600158 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:1600155 original size:33 final size:33
Alignment explanation
Indices: 1600113--1600177 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1600103 TTCAACAATT
1600113 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1600146 TGTATCGATACATATTTTTTTGTATCGATACA
1 TGTATCGATACATAAAATGTTGTATCGATACA
1600178 TTTTAAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1600238 original size:13 final size:13
Alignment explanation
Indices: 1600220--1600247 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1600210 ATTACTCAAA
1600220 TGTATCGATACAT
1 TGTATCGATACAT
1600233 TGTATCGATACAT
1 TGTATCGATACAT
1600246 TG
1 TG
1600248 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:1608558 original size:30 final size:31
Alignment explanation
Indices: 1608521--1608605 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 31
1608511 CAAATACCTT
1608521 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
* *
1608552 -TCAAAGTCCACGACTTAGTGGCATTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
* * * *
1608582 TTTAAAGCCCACAACTCTGTGGCA
1 TTCAAAGTCCACGACTCAGTGGCA
1608606 CACTTTTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
30 28 0.61
31 18 0.39
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCATTTTGTC
Found at i:1608614 original size:33 final size:33
Alignment explanation
Indices: 1608569--1609014 Score: 413
Period size: 33 Copynumber: 13.4 Consensus size: 33
1608559 CCACGACTTA
*
1608569 GTGGCA-T-TTTTTCTTTAAAGCCCACAACTCT
1 GTGGCACTCTTTTTCTTTAAAGCCCACAACTCC
* **
1608600 GTGGCACACTTTTTCTTTTTAAAGCCCACAACTTT
1 GTGGCACTCTTTTTC--TTTAAAGCCCACAACTCC
1608635 GTGGCACTCTTTTTCCCTTTTCAAAGCCCA-AACTCC
1 GTGGCACTCTTTTT--C-TTT-AAAGCCCACAACTCC
*
1608671 GTGGCAC-CTTTTTCTTTTTACAGCCCACAACTCC
1 GTGGCACTCTTTTTC--TTTAAAGCCCACAACTCC
*
1608705 ATGGCACTCTTTTTCCCTTGTTAAAGCCCACAACTCC
1 GTGGCACTCTTTTT--C-T-TTAAAGCCCACAACTCC
*
1608742 GTGGCAC-CTTCTT-TTTAAAGCCCACAACTCC
1 GTGGCACTCTTTTTCTTTAAAGCCCACAACTCC
* * * *
1608773 GTGGCAC-C-----CTTTTAAGTCCACGACTAC
1 GTGGCACTCTTTTTCTTTAAAGCCCACAACTCC
* *
1608800 GTGGCACTCTTTTCCTTTAAAGCCCACAACTAC
1 GTGGCACTCTTTTTCTTTAAAGCCCACAACTCC
*
1608833 GTGGCACTCTTTTCCTTCT-AAGCCCACAACTCC
1 GTGGCACTCTTTTTCTT-TAAAGCCCACAACTCC
1608866 GTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCC
1 GTGGCACTCTTTTT-CTT-TAAAGCCCACAACTCC
1608900 GTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCC
1 GTGGCACTCTTTTT-CTT-TAAAGCCCACAACTCC
1608934 GTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCC
1 GTGGCACTC-TTTTT--C-TTTAAAGCCCACAACTCC
* * * *
1608971 GTGGCAC-CTTGTTCTTTTTAAGTCCACAACTTC
1 GTGGCACTCTTTTTC-TTTAAAGCCCACAACTCC
1609004 GTGGCAC-CTTT
1 GTGGCACTCTTT
1609015 CACCCTTTCT
Statistics
Matches: 365, Mismatches: 24, Indels: 50
0.83 0.05 0.11
Matches are distributed among these distances:
27 21 0.06
28 1 0.00
31 31 0.08
32 1 0.00
33 100 0.27
34 79 0.22
35 51 0.14
36 26 0.07
37 55 0.15
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.34
Consensus pattern (33 bp):
GTGGCACTCTTTTTCTTTAAAGCCCACAACTCC
Found at i:1608689 original size:70 final size:69
Alignment explanation
Indices: 1608582--1609014 Score: 465
Period size: 70 Copynumber: 6.4 Consensus size: 69
1608572 GCATTTTTTC
* **
1608582 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTTTGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1608647 TTCCCT
65 TT-CCT
* *
1608653 TTTCAAAGCCCA-AACTCCGTGGCACCTTTTTCTTTTTACAGCCCACAACTCCATGGCACTCTTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1608717 TTCCCT
65 TT-CCT
1608723 TGTTAAAGCCCACAACTCCGTGGCACC---TTCTTTTTAAAGCCCACAACTCCGTGGCA--C---
1 T-TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1608780 --CCT
65 TTCCT
* * * * *
1608783 TTT-AAGTCCACGACTACGTGGCA-CTCTTTTC-CTTTAAAGCCCACAACTACGTGGCACTC-TT
1 TTTAAAGCCCACAACTCCGTGGCACCT-TTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1608844 TTCCT
65 TTCCT
* * *
1608849 TCT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1608912 TTCCT
65 TTCCT
* *
1608917 TCT-AAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCAC-CT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTTTT-CTTTTTAAAGCCCACAACTCCGTGGCACTCT
*
1608980 TGTT-CT
63 TTTTCCT
* * *
1608986 TTTTAAGTCCACAACTTCGTGGCACCTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTT
1609015 CACCCTTTCT
Statistics
Matches: 317, Mismatches: 24, Indels: 45
0.82 0.06 0.12
Matches are distributed among these distances:
57 1 0.00
58 17 0.05
59 2 0.01
60 27 0.09
61 3 0.01
62 1 0.00
66 23 0.07
67 27 0.09
68 67 0.21
69 10 0.03
70 79 0.25
71 52 0.16
72 8 0.03
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (69 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
TCCT
Found at i:1608710 original size:34 final size:34
Alignment explanation
Indices: 1608582--1609014 Score: 416
Period size: 34 Copynumber: 12.9 Consensus size: 34
1608572 GCATTTTTTC
*
1608582 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTT
**
1608617 TTTAAAGCCCACAACTTTGTGGCACTCTTTTTCCCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
*
1608654 TTCAAAGCCCA-AACTCCGTGGCACCTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* *
1608687 TTTACAGCCCACAACTCCATGGCACTCTTTTTCCCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
*
1608724 GTTAAAGCCCACAACTCCGTGGCACC---TTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
1608755 TTTAAAGCCCACAACTCCGTGGCACC-----C-T
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* * * *
1608783 TTT-AAGTCCACGACTACGTGGCA-CTCTTTTC-C
1 TTTAAAGCCCACAACTCCGTGGCACCT-TTTTCTT
* *
1608815 TTTAAAGCCCACAACTACGTGGCA-CTCTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACCT-TTTTCTT
* *
1608849 TCT-AAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTT
* *
1608883 TCT-AAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTT
* *
1608917 TCT-AAGCCCACAACTCCGTGGCACTCTTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTTTT-CTT
*
1608953 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* *
1608987 TTT-AAGTCCACAACTTCGTGGCACCTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTT
1609015 CACCCTTTCT
Statistics
Matches: 352, Mismatches: 27, Indels: 40
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.00
27 17 0.05
28 4 0.01
29 1 0.00
31 28 0.08
32 4 0.01
33 81 0.23
34 86 0.24
35 53 0.15
36 18 0.05
37 59 0.17
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
Found at i:1608802 original size:27 final size:28
Alignment explanation
Indices: 1608719--1608845 Score: 112
Period size: 31 Copynumber: 4.2 Consensus size: 28
1608709 CACTCTTTTT
*
1608719 CCCTTGTTAAAGCCCACAACTCCGTGGCA
1 CCCTT-TTAAAGCCCACAACTACGTGGCA
*
1608748 CCTTCTTTTTAAAGCCCACAACTCCGTGGCA
1 CC--C-TTTTAAAGCCCACAACTACGTGGCA
* *
1608779 CCCTTTT-AAGTCCACGACTACGTGGCA
1 CCCTTTTAAAGCCCACAACTACGTGGCA
*
1608806 CTCTTTTCCTTTAAAGCCCACAACTACGTGGCA
1 C-C----CTTTTAAAGCCCACAACTACGTGGCA
*
1608839 CTCTTTT
1 CCCTTTT
1608846 CCTTCTAAGC
Statistics
Matches: 81, Mismatches: 8, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
27 18 0.22
28 9 0.11
29 3 0.04
31 26 0.32
32 6 0.07
33 19 0.23
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.29
Consensus pattern (28 bp):
CCCTTTTAAAGCCCACAACTACGTGGCA
Found at i:1609059 original size:33 final size:33
Alignment explanation
Indices: 1609018--1609253 Score: 320
Period size: 33 Copynumber: 7.2 Consensus size: 33
1609008 CACCTTTCAC
1609018 CCTT-TCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1609050 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
1609083 CCCTTCTCTAAATCCCACACAAGTCGGTGGC-AA
1 -CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
1609116 CCTTCCTCTAAAGCCCACACAAGTTGGTGGCAATC
1 CCTT-CTCTAAAGCCCACACAAGTCGGTGGCAA-A
* *
1609151 CCTTC-CCAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
1609183 CCTTC-CCAAAGCCCACACAAGTTGGTGGC-AA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
1609214 CCATTCTCTAAAGCCCACACAAGTCAGTGGCAAC
1 CC-TTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1609248 CCTTCT
1 CCTTCT
1609254 AAGCCCAATA
Statistics
Matches: 184, Mismatches: 12, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
31 3 0.02
32 40 0.22
33 103 0.56
34 34 0.18
35 4 0.02
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:1609108 original size:67 final size:67
Alignment explanation
Indices: 1609016--1609253 Score: 351
Period size: 67 Copynumber: 3.6 Consensus size: 67
1609006 GGCACCTTTC
*
1609016 ACCCTT-TCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTTGGTGGC
1609080 AA
66 AA
*
1609082 ACCCTTCTCTAAATCCCACACAAGTCGGTGGC-AACCTTCCTCTAAAGCCCACACAAGTTGGTGG
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTT-CTCTAAAGCCCACACAAGTTGGTGG
1609146 CAA
65 CAA
* * * *
1609149 TCCCTTC-CCAAAGCCCACACAAGTCGGTGGCAACCCTTC-CCAAAGCCCACACAAGTTGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTTGGTGGC
1609212 -A
66 AA
* * *
1609213 ACCATTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCT
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCT
1609254 AAGCCCAATA
Statistics
Matches: 156, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
64 6 0.04
65 53 0.34
66 35 0.22
67 62 0.40
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.19
Consensus pattern (67 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTTGGTGGC
AA
Found at i:1609311 original size:49 final size:49
Alignment explanation
Indices: 1609253--1609874 Score: 839
Period size: 49 Copynumber: 12.7 Consensus size: 49
1609243 GCAACCCTTC
* * *
1609253 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1609302 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1609350 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1609393 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * * *
1609445 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1609494 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1609543 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1609592 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1609641 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTT
* *
1609690 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1609738 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1609787 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
1609839 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
1609875 ACATCATTTT
Statistics
Matches: 502, Mismatches: 56, Indels: 27
0.86 0.10 0.05
Matches are distributed among these distances:
43 40 0.08
45 1 0.00
48 84 0.17
49 293 0.58
50 3 0.01
51 2 0.00
52 79 0.16
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1609582 original size:98 final size:98
Alignment explanation
Indices: 1609253--1609874 Score: 965
Period size: 98 Copynumber: 6.4 Consensus size: 98
1609243 GCAACCCTTC
* * * * * * *
1609253 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
* * *
1609318 GGCCTTGAATCAGCACATTGGCACC-TCACCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
1609350 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T-----TTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1609409 GGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
66 GGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
1609445 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1609510 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
1609543 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
*
1609608 GGCCTTGAATCAGCATATTGGCACTTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
1609641 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCATTAAGTCC-ATATAGC
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT-CACCATTAAGTCCAATATAGC
1609704 TGGCCTTGAATCAGCATATTGGCACCTTTATCTT
65 TGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
1609738 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
*
1609803 GGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
66 GGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* *
1609839 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
1609875 ACATCATTTT
Statistics
Matches: 494, Mismatches: 15, Indels: 28
0.92 0.03 0.05
Matches are distributed among these distances:
91 41 0.08
93 1 0.00
95 44 0.09
96 2 0.00
97 130 0.26
98 189 0.38
99 3 0.01
100 3 0.01
101 81 0.16
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (98 bp):
TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:1609755 original size:195 final size:196
Alignment explanation
Indices: 1609253--1609874 Score: 992
Period size: 195 Copynumber: 3.2 Consensus size: 196
1609243 GCAACCCTTC
* * * * * *
1609253 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
* * * *
1609318 GGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
1609382 ATTGGCACC-T---TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
131 ATTGGCACCTTCACTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATC
1609443 TT
195 TT
*
1609445 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1609510 GGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
1609575 ATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTT-AT
131 ATTGGCACCTTCA-C-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCAT
1609638 CTT
194 CTT
*
1609641 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCATTAAGTCC-ATATAGC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-CACCATTAAGTCCAATATAGC
1609704 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
65 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
*
1609769 CATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCC
130 CATTGGCACCTTCA-C-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-C
1609834 ATCTT
192 ATCTT
*
1609839 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1609875 ACATCATTTT
Statistics
Matches: 403, Mismatches: 16, Indels: 16
0.93 0.04 0.04
Matches are distributed among these distances:
192 82 0.20
193 45 0.11
194 1 0.00
195 129 0.32
196 62 0.15
198 44 0.11
199 40 0.10
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (196 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
ATTGGCACCTTCACTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCT
T
Found at i:1612529 original size:13 final size:13
Alignment explanation
Indices: 1612511--1612535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1612501 CATAAAATGT
1612511 TGTATCGATACAA
1 TGTATCGATACAA
1612524 TGTATCGATACA
1 TGTATCGATACA
1612536 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:1612533 original size:33 final size:33
Alignment explanation
Indices: 1612491--1612555 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1612481 TTCAACAATT
1612491 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1612524 TGTATCGATACATATTTTTTTGTATCGATACA
1 TGTATCGATACATAAAATGTTGTATCGATACA
1612556 TTTTAAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1612616 original size:13 final size:13
Alignment explanation
Indices: 1612598--1612625 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1612588 ATTACTCAAA
1612598 TGTATCGATACAT
1 TGTATCGATACAT
1612611 TGTATCGATACAT
1 TGTATCGATACAT
1612624 TG
1 TG
1612626 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:1615945 original size:4 final size:4
Alignment explanation
Indices: 1615938--1615962 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1615928 AAACAAACAG
1615938 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
1615963 CACCTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:1618201 original size:106 final size:107
Alignment explanation
Indices: 1618043--1618242 Score: 237
Period size: 106 Copynumber: 1.9 Consensus size: 107
1618033 ATAATAACAA
** * *
1618043 GGTTGGAGTATCCCTTTGAAAATAATAGGGTTAGAGTATCCCTGGTTGTGAAAAATCGATG-ATT
1 GGTTGGAGTATCCCGATGAAAATAATAGGGTTAGAGTATCCCTGATTATGAAAAATCGATGTATT
1618107 AGGAAATAAAATCGAAATTGGAGTATCCCTCGGAGGTAACGG
66 AGGAAATAAAATCGAAATTGGAGTATCCCTCGGAGGTAACGG
* * * *
1618149 GGTTGGAGTATCCCCGATG-AAATAAT-GAGGTTGGAGTAT-CCTCGATTATGAAAAGTTGGTGT
1 GGTTGGAGTAT-CCCGATGAAAATAATAG-GGTTAGAGTATCCCT-GATTATGAAAAATCGATGT
* * * *
1618211 TTTTGGAAATAAAATCGGAGTTGGAGTATCCC
63 ATTAGGAAATAAAATCGAAATTGGAGTATCCC
1618243 CGATTAAAGG
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
105 4 0.05
106 41 0.53
107 33 0.42
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (107 bp):
GGTTGGAGTATCCCGATGAAAATAATAGGGTTAGAGTATCCCTGATTATGAAAAATCGATGTATT
AGGAAATAAAATCGAAATTGGAGTATCCCTCGGAGGTAACGG
Found at i:1618240 original size:52 final size:50
Alignment explanation
Indices: 1618178--1618573 Score: 223
Period size: 52 Copynumber: 7.6 Consensus size: 50
1618168 AAATAATGAG
*
1618178 GTTGGAGTATCCTCGATTATGAAAAGTTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAA-TTGGTG-TTTTGGAAATAAAATCGGA
* * *
1618230 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAA-CCGA
1 GTTGGAGTATCCCCGATT--ATGAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * *
1618281 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAACCGGG
1 -GTTGGAGTATCCCCGATTAT-GAAAATTGGTGTTTTGGAAAT-AAAATCGGA
* * *** * ** *
1618334 GTTGGAGTTTCCCCCATTATGAGAAATCAATATTTTGGAAATAAAGCCGGG
1 GTTGGAGTATCCCCGATTATGA-AAATTGGTGTTTTGGAAATAAAATCGGA
* * ** *
1618385 GTTGGAGTGTCCCC--TCA-GAAATAACGG-G-GTTGGAGTATCCCCGATGAGATAA-C-GA
1 GTTGGAGTATCCCCGATTATGAAA-ATTGGTGTTTTGGA--A------AT-A-A-AATCGGA
* * * *
1618440 GGTTAGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAGA
1 -GTTGGAGTATCCCCGATTATG-AAAATTGGTG-TTTTGGAAATAAAATCGGA
* * *
1618493 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATT--ATGAAAATTGGTGTTTTGGAAATAAAATCGGA
*
1618545 GTTGGTGTATCCCCGATTATGAACAATTG
1 GTTGGAGTATCCCCGATTATGAA-AATTG
1618574 AGAAACTTAA
Statistics
Matches: 267, Mismatches: 45, Indels: 65
0.71 0.12 0.17
Matches are distributed among these distances:
46 5 0.02
47 2 0.01
48 5 0.02
49 2 0.01
50 4 0.01
51 51 0.19
52 135 0.51
53 21 0.08
54 11 0.04
55 2 0.01
56 13 0.05
57 1 0.00
58 1 0.00
59 4 0.01
60 5 0.02
62 5 0.02
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:1618436 original size:28 final size:28
Alignment explanation
Indices: 1618381--1618457 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
1618371 GAAATAAAGC
* *
1618381 CGGGGTTGGAGTGTCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
1618409 CGGGGTTGGAGTATCCCCGATGAGATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* * *
1618437 CGAGGTTAGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1618458 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.98
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1626422 original size:52 final size:52
Alignment explanation
Indices: 1626281--1626429 Score: 223
Period size: 52 Copynumber: 2.9 Consensus size: 52
1626271 CGAAATATGA
*
1626281 AAATTTGCCTGCATGTATCGATACATTTA-ATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAGATAGTGTATCGATACATCTGGGC
*
1626333 AAATTTGCCTGCATGTATCGATACACTT-GATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAGATAGTGTATCGATACATCTGGGC
*
1626385 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTAGAT-AGTGTATCGATACA
1626430 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
51 3 0.03
52 86 0.97
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTAGATAGTGTATCGATACATCTGGGC
Found at i:1626436 original size:13 final size:13
Alignment explanation
Indices: 1626418--1626442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1626408 CAAAGATCAG
1626418 TGTATCGATACAA
1 TGTATCGATACAA
1626431 TGTATCGATACA
1 TGTATCGATACA
1626443 TTTGAGTAAT
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:1626523 original size:13 final size:13
Alignment explanation
Indices: 1626505--1626529 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1626495 CAAAAAAATA
1626505 TGTATCGATACAT
1 TGTATCGATACAT
1626518 TGTATCGATACA
1 TGTATCGATACA
1626530 AATCGTTGAA
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:1627817 original size:97 final size:97
Alignment explanation
Indices: 1627585--1627787 Score: 246
Period size: 97 Copynumber: 2.1 Consensus size: 97
1627575 GGGATGCACT
* * * * * ** *
1627585 AACCCCATTCTTCTAAAAGAATACTCTAACCCTATTTTTAAACTCGTCAAGATTTAAATTTTATT
1 AACCCCATTATTCCAAGAGGATACTCCAACCCCGTTTTTAAACTCGTCAAGATTTAAATCTTATT
* * * * * *
1627650 TTTGCTTAAATTTTCATCATCAGGGATACTCT
66 TTCGCCTAAACTGTCATCATCAGGGACACTCC
1627682 AACCCCATTATTCCAAGAGGATACTCCAACCCCGTTTTTAAACTCGTCAAGATTTAAATCTTATT
1 AACCCCATTATTCCAAGAGGATACTCCAACCCCGTTTTTAAACTCGTCAAGATTTAAATCTTATT
* *
1627747 TTCGCCTAAACTGTCATTAT-TGAGGACACTCC
66 TTCGCCTAAACTGTCATCATCAG-GGACACTCC
1627779 AACCCCATT
1 AACCCCATT
1627788 TTTCTTAGGG
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
96 1 0.01
97 88 0.99
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (97 bp):
AACCCCATTATTCCAAGAGGATACTCCAACCCCGTTTTTAAACTCGTCAAGATTTAAATCTTATT
TTCGCCTAAACTGTCATCATCAGGGACACTCC
Found at i:1629284 original size:20 final size:20
Alignment explanation
Indices: 1629238--1629320 Score: 69
Period size: 20 Copynumber: 4.1 Consensus size: 20
1629228 TATTAATTAT
* *
1629238 ATAATTCTTTTAACAGAA-TG
1 ATAATT-TTTAAAAAGAATTG
* *
1629258 ATCATTTTTAAGAAGAATTG
1 ATAATTTTTAAAAAGAATTG
* *
1629278 ATAATTTTTAAAAAGGATAG
1 ATAATTTTTAAAAAGAATTG
* *
1629298 ATTATTTTTTAAAAATAATTG
1 A-TAATTTTTAAAAAGAATTG
1629319 AT
1 AT
1629321 CCTTTCAATT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
19 8 0.16
20 25 0.51
21 16 0.33
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (20 bp):
ATAATTTTTAAAAAGAATTG
Found at i:1632355 original size:10 final size:10
Alignment explanation
Indices: 1632309--1632357 Score: 55
Period size: 10 Copynumber: 4.7 Consensus size: 10
1632299 CCATTTCATA
1632309 TTTT-TTTCT
1 TTTTCTTTCT
*
1632318 TTTTTTTTCT
1 TTTTCTTTCT
1632328 TTTTCTTCTACT
1 TTTTCTT-T-CT
1632340 TCTTTCTTTCT
1 T-TTTCTTTCT
1632351 TTTTCTT
1 TTTTCTT
1632358 CTTCCTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
9 4 0.11
10 17 0.49
11 4 0.11
12 4 0.11
13 6 0.17
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:1633293 original size:18 final size:17
Alignment explanation
Indices: 1633260--1633293 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1633250 TTAGGTAATT
1633260 TTTATGTTTGTATTGTA
1 TTTATGTTTGTATTGTA
*
1633277 TTTATGTATTTTATTGT
1 TTTATGT-TTGTATTGT
1633294 GTTATAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.68
Consensus pattern (17 bp):
TTTATGTTTGTATTGTA
Found at i:1635154 original size:3 final size:3
Alignment explanation
Indices: 1635139--1635170 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1635129 ATGTAGGGTT
*
1635139 TTA TTA TTC TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1635171 GAGCAGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1635591 original size:17 final size:17
Alignment explanation
Indices: 1635569--1635606 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
1635559 TTTTAACACA
1635569 CATTTTGCATCCAGAAT
1 CATTTTGCATCCAGAAT
1635586 CATTTTGCATCCAGAAT
1 CATTTTGCATCCAGAAT
1635603 CATT
1 CATT
1635607 AGAAATCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (17 bp):
CATTTTGCATCCAGAAT
Found at i:1637850 original size:51 final size:52
Alignment explanation
Indices: 1637793--1637909 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 52
1637783 ATTTTTCTGA
* * *
1637793 GAGGATACTCCAACCT-CGGTTTTATTTCTAAAACACCAATTCTCCATAATC
1 GAGGATACTCCAACCTCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
* * * * *
1637844 GGGGATACTCGAA-CTCCGATTTTATTTCCAAAACACTAATTTTTCACAATC
1 GAGGATACTCCAACCTCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
1637895 GAGGATACTCCAACC
1 GAGGATACTCCAACC
1637910 CCGTTATTTC
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
50 2 0.04
51 51 0.94
52 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (52 bp):
GAGGATACTCCAACCTCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
Found at i:1637928 original size:28 final size:28
Alignment explanation
Indices: 1637892--1637968 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
1637882 ATTTTTCACA
1637892 ATCGAGGATACTCCAACCCCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
1637920 ATCGGGGATACTCCAACCCCGTTATTT-
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
1637947 -TCGAGCGAATACTCCAAACCCG
1 ATCGAG-G-ATACTCCAACCCCG
1637969 GCTTTATATC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 39 0.89
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:1638041 original size:28 final size:28
Alignment explanation
Indices: 1638002--1638087 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
1637992 TTTTTTCATA
* *
1638002 ATCGGGGGTACTCTAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
* *
1638030 ATCGGGGATACTCCAATCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
***
1638058 CGAGGGGATACTCCAACCCCGATTTATTTC
1 ATCGGGGATACTCCAACCCCG--TTATTTC
1638088 TAAAATACCA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 40 0.85
30 7 0.15
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:1638159 original size:51 final size:51
Alignment explanation
Indices: 1638061--1638311 Score: 247
Period size: 51 Copynumber: 4.9 Consensus size: 51
1638051 TTATTTCCGA
* * *
1638061 GGGGATACTCCAACCCCGA-TTTATTTCTAAAATACCAATTTTCCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATCAATTTTTCATAATC
* * ** *
1638111 GGGGATACTCCAACTCCGATTTTATTTCCAAAATGTTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATCAATTTTTCATAATC
* ** * * *
1638162 GGGGATACTTCAACCCCGGCTTTATTT-CTAAATCATCGATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAT-ATCAATTTTTCATAATC
* * * * *
1638213 GGGGATACTCCAACCTCAATTTTATTTCCAGAACATAAATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATCAATTTTTCATAATC
* * * *
1638264 GGGGATACTCTAGCCCCG-TTGTTATCTCCAAAATATTAAATTTTTCAT
1 GGGGATACTCCAACCCCGATT-TTATTTCCAAAATA-TCAATTTTTCAT
1638312 CGGAAGATGT
Statistics
Matches: 161, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
50 25 0.16
51 121 0.75
52 15 0.09
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAATATCAATTTTTCATAATC
Found at i:1644536 original size:61 final size:61
Alignment explanation
Indices: 1644435--1645064 Score: 765
Period size: 61 Copynumber: 10.3 Consensus size: 61
1644425 TTTTAGCCCT
* ** **
1644435 TTTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTTCAAGCCCACATGAGTTGGTGGCACAT
1 TTTAGTCCTCAAAGAGCAGGACG-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
* * * *
1644496 TTTAGTCCTCAAAGAGCAGGATGCTTTTTCCTTCTGAAGCCCACACAAGTTAGTGGCA-CC
1 TTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
* * *
1644556 TTCTAGTCCTCAAAGAGCAGGATGTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CT
1 TT-TAGTCCTCAAAGAGCAGGACG-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
* *
1644618 TTTGGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
* * * *
1644679 TTTAGTCCTCAAAGAGCAGGACGCCTTCTCC-TTTAGAGCCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
** * * * *
1644739 TCCAATCCTAAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CC
1 TTTAGTCCTCAAAGAGCAGGACG-C-TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
** *
1644801 TTTAGTCCTCAAAGAGTGGGACAAC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGAC-GCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
* ** * *
1644862 TTTAGTCCTCAAAAAGCAGGGTGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
* * *
1644923 TTTAGTCCTCAAAGAGCAGGACGCCTTCTCC-TTCAAAGCCCACA-AGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACA-AGTTGGTGGCACCC
* *
1644983 TCTAGTCCTCAAAGAGCAGGACGCTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CC
1 TTTAGTCCTCAAAGAGCAGGACGC--TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
*
1645045 TCCTAGTCCTCAAAGAGCAG
1 T-TTAGTCCTCAAAGAGCAG
1645065 AACACACTTT
Statistics
Matches: 495, Mismatches: 58, Indels: 30
0.85 0.10 0.05
Matches are distributed among these distances:
59 1 0.00
60 168 0.34
61 197 0.40
62 63 0.13
63 65 0.13
64 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (61 bp):
TTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
Found at i:1644896 original size:244 final size:243
Alignment explanation
Indices: 1644435--1645074 Score: 908
Period size: 244 Copynumber: 2.6 Consensus size: 243
1644425 TTTTAGCCCT
* * * ** *
1644435 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAGCCCACATGAGTTGGTGGCACATTTTA
1 TTTAGTCCTCAAAGAGCAGGACGCC-TTCTCCTTT-AAGCCCACAAGAGTTGGTGGCACCCTCTA
* * * *
1644500 GTCCTCAAAGAGCAGGATG-C-TTTTTCCTTCTGAAGCCCACACAAGTTAGTGGCACCTTCTAGT
64 GTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGT
*** * * *
1644563 CCTCAAAGAGCAGGATGTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTGGTCCTC
128 CCTCAAAGAGCAGGACAACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTC
*
1644628 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
193 AAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
* * *
1644679 TTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTAGAGCCCACACGAGTTGGTGGCACCCTCCAA
1 TTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTA-AGCCCACAAGAGTTGGTGGCACCCTCTAG
*
1644744 TCCTAAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
65 TCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
**
1644809 TCAAAGAGTGGGACAAC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCA
130 TCAAAGAGCAGGACAACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTCA
** *
1644873 AAAAGCAGGGTGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCC
194 AAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
*
1644923 TTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACAAGAGTTGGTGGCACCCTCTAG
1 TTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTT-TAAGCCCACAAGAGTTGGTGGCACCCTCTAG
* * *
1644988 TCCTCAAAGAGCAGGACGCTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTCCTAGTC
65 TCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT-TTAGTC
*
1645053 CTCAAAGAGCAGAACACACTTT
129 CTCAAAGAGCAGGACA-ACTTT
1645075 ATTTTCTGTT
Statistics
Matches: 352, Mismatches: 36, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
242 1 0.00
243 79 0.22
244 215 0.61
245 53 0.15
246 2 0.01
247 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (243 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTAAGCCCACAAGAGTTGGTGGCACCCTCTAGT
CCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCT
CAAAGAGCAGGACAACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAA
AAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
Done.