Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold148
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: 1464219
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.32
Warning! 85296 characters in sequence are not A, C, G, or T
File 9 of 9
Found at i:1313656 original size:75 final size:75
Alignment explanation
Indices: 1313514--1313664 Score: 275
Period size: 75 Copynumber: 2.0 Consensus size: 75
1313504 CTCAAATTTA
* *
1313514 AAGTAAATGCAAGTTGATGAAGGTGAAATAGGGTGGGGTTTTATGTTTTAAGGTTAAAAATTAAA
1 AAGTAAATGCAAGTTGATGAAGGTGAAATAAGGTGGGGTTTTATGTTTTAAGGTTAAAAAATAAA
1313579 AAATAAAACT
66 AAATAAAACT
1313589 AAGTAAATGCAAGTTGATGAAGGTGAAATAAGGTGGGGTTTTTATGTTTTAAGGTTAAAAAATAA
1 AAGTAAATGCAAGTTGATGAAGGTGAAATAAGGTGGGG-TTTTATGTTTTAAGGTTAAAAAATAA
1313654 AAAATAAAACT
65 AAAATAAAACT
1313665 TAGGGTTGAA
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 37 0.51
76 36 0.49
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (75 bp):
AAGTAAATGCAAGTTGATGAAGGTGAAATAAGGTGGGGTTTTATGTTTTAAGGTTAAAAAATAAA
AAATAAAACT
Found at i:1313706 original size:16 final size:15
Alignment explanation
Indices: 1313673--1313708 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
1313663 CTTAGGGTTG
*
1313673 AAAATAAAAATAATA
1 AAAATAAAAATAAAA
1313688 AAAATAAATAATAAAA
1 AAAATAAA-AATAAAA
1313704 AAAAT
1 AAAAT
1313709 TAATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAAAAATAAAA
Found at i:1313712 original size:13 final size:12
Alignment explanation
Indices: 1313678--1313708 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
1313668 GGTTGAAAAT
1313678 AAAAATAATAAA
1 AAAAATAATAAA
1313690 AATAAATAATAAA
1 AA-AAATAATAAA
1313703 AAAAAT
1 AAAAAT
1313709 TAATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAAATAATAAA
Found at i:1318475 original size:10 final size:10
Alignment explanation
Indices: 1318452--1318558 Score: 67
Period size: 10 Copynumber: 10.4 Consensus size: 10
1318442 AATCTCATTT
*
1318452 TCACTGTTCG
1 TCACTGTTCA
*
1318462 TCACTATTCA
1 TCACTGTTCA
1318472 TCACTGTTCA
1 TCACTGTTCA
* *
1318482 TGTA-TCGATACA
1 T-CACT-G-TTCA
1318494 TCACTGTTCA
1 TCACTGTTCA
* *
1318504 TGTA-TCGATACA
1 T-CACT-G-TTCA
1318516 TCACTGTTCA
1 TCACTGTTCA
*
1318526 TCACTATTCA
1 TCACTGTTCA
1318536 TCACTGTTCA
1 TCACTGTTCA
*
1318546 -CACTATTCA
1 TCACTGTTCA
1318555 TCAC
1 TCAC
1318559 AGTATCGATA
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
9 8 0.11
10 48 0.65
11 8 0.11
12 10 0.14
ACGTcount: A:0.25, C:0.28, G:0.09, T:0.37
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1318498 original size:22 final size:22
Alignment explanation
Indices: 1318470--1318526 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
1318460 CGTCACTATT
1318470 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1318492 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1318514 CATCACTGTTCAT
1 CATCACTGTTCAT
1318527 CACTATTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:1318551 original size:19 final size:20
Alignment explanation
Indices: 1318452--1318558 Score: 108
Period size: 22 Copynumber: 5.2 Consensus size: 20
1318442 AATCTCATTT
*
1318452 TCACTGTTCGTCACTATTCA
1 TCACTGTTCATCACTATTCA
* * *
1318472 TCACTGTTCATGTATCGATACA
1 TCACTGTTCAT-CA-CTATTCA
* * *
1318494 TCACTGTTCATGTATCGATACA
1 TCACTGTTCAT-CA-CTATTCA
1318516 TCACTGTTCATCACTATTCA
1 TCACTGTTCATCACTATTCA
1318536 TCACTGTTCA-CACTATTCA
1 TCACTGTTCATCACTATTCA
1318555 TCAC
1 TCAC
1318559 AGTATCGATA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
19 13 0.17
20 25 0.32
21 2 0.03
22 38 0.49
ACGTcount: A:0.25, C:0.28, G:0.09, T:0.37
Consensus pattern (20 bp):
TCACTGTTCATCACTATTCA
Found at i:1318588 original size:22 final size:22
Alignment explanation
Indices: 1318560--1318602 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1318550 ATTCATCACA
1318560 GTATCGATACATCACTGTTCAT
1 GTATCGATACATCACTGTTCAT
1318582 GTATCGATACATCACTGTTCA
1 GTATCGATACATCACTGTTCA
1318603 CACTATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (22 bp):
GTATCGATACATCACTGTTCAT
Found at i:1318707 original size:20 final size:20
Alignment explanation
Indices: 1318644--1318698 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
1318634 TTCAAATGCA
1318644 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
1318664 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
1318684 TGTATCGATACATTA
1 TGTATCGATACATTA
1318699 GAGCGTGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTATGAAT
Found at i:1320703 original size:21 final size:21
Alignment explanation
Indices: 1320679--1320722 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1320669 TAATATTCTT
* *
1320679 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
1320700 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
1320721 GA
1 GA
1320723 GGATAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.20
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:1323293 original size:32 final size:33
Alignment explanation
Indices: 1323235--1323297 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1323225 TACAAGCCAA
**
1323235 TGTATCGATACAATTTTTGGTCTATCGATACGT
1 TGTATCGATACAATACTTGGTCTATCGATACGT
*
1323268 TGTATCGATAC-ATACTTGGTGTATCGATAC
1 TGTATCGATACAATACTTGGTCTATCGATAC
1323298 AAGTTTGGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTCTATCGATACGT
Found at i:1325543 original size:13 final size:13
Alignment explanation
Indices: 1325525--1325563 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1325515 ATAATCACCC
1325525 TGTATCGATACAA
1 TGTATCGATACAA
1325538 TGTATCGATACAA
1 TGTATCGATACAA
1325551 TGTATCGATACAA
1 TGTATCGATACAA
1325564 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1327665 original size:15 final size:15
Alignment explanation
Indices: 1327645--1327675 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1327635 ATTTCGTTTG
*
1327645 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1327660 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1327675 G
1 G
1327676 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:1329501 original size:21 final size:23
Alignment explanation
Indices: 1329475--1329523 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
1329465 ATGCAAGTTT
1329475 TTATTTTTC-TTAGCTAA-TTCA
1 TTATTTTTCATTAGCTAAGTTCA
*
1329496 TTA-TTTTCATTAGCTAAGTTCT
1 TTATTTTTCATTAGCTAAGTTCA
1329518 TTATTT
1 TTATTT
1329524 CAACTTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 5 0.21
21 11 0.46
22 6 0.25
23 2 0.08
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (23 bp):
TTATTTTTCATTAGCTAAGTTCA
Found at i:1329525 original size:21 final size:21
Alignment explanation
Indices: 1329479--1329523 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
1329469 AAGTTTTTAT
1329479 TTTTC-TTAGCTAATTCATTA
1 TTTTCATTAGCTAATTCATTA
*
1329499 TTTTCATTAGCTAAGTTCTTTA
1 TTTTCATTAGCTAA-TTCATTA
1329521 TTT
1 TTT
1329524 CAACTTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 8 0.36
22 9 0.41
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.58
Consensus pattern (21 bp):
TTTTCATTAGCTAATTCATTA
Found at i:1330931 original size:13 final size:13
Alignment explanation
Indices: 1330913--1330938 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1330903 CAATTTTTGG
1330913 TGTATCGATACAT
1 TGTATCGATACAT
1330926 TGTATCGATACAT
1 TGTATCGATACAT
1330939 ACTTGGTGTA
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:1330950 original size:32 final size:33
Alignment explanation
Indices: 1330893--1330956 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1330883 TACAAGCCAA
**
1330893 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1330926 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1330957 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1330963 original size:19 final size:18
Alignment explanation
Indices: 1330893--1330963 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
1330883 TACAAGCCAA
1330893 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
1330913 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
1330926 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1330945 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1330964 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1332004 original size:21 final size:21
Alignment explanation
Indices: 1331979--1332019 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1331969 TTGTATAAAT
1331979 TTTGTATTAAAGGGAAGAACA
1 TTTGTATTAAAGGGAAGAACA
* *
1332000 TTTGTATTAAGGGGGAGAAC
1 TTTGTATTAAAGGGAAGAAC
1332020 TTGCATAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.29, T:0.29
Consensus pattern (21 bp):
TTTGTATTAAAGGGAAGAACA
Found at i:1332937 original size:22 final size:22
Alignment explanation
Indices: 1332909--1332951 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1332899 ATTCATCACA
*
1332909 GTATCGATACATTACTGTTCAT
1 GTATCGATACATCACTGTTCAT
1332931 GTATCGATACATCACTGTTCA
1 GTATCGATACATCACTGTTCA
1332952 CACTATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (22 bp):
GTATCGATACATCACTGTTCAT
Found at i:1334241 original size:13 final size:13
Alignment explanation
Indices: 1334223--1334248 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1334213 CAATTTTTTG
1334223 TGTATCGATACAT
1 TGTATCGATACAT
1334236 TGTATCGATACAT
1 TGTATCGATACAT
1334249 ACTTTGGTGT
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:1334245 original size:33 final size:33
Alignment explanation
Indices: 1334203--1334267 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1334193 TACAAGCCAA
* *
1334203 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
1334236 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
1334268 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:1335065 original size:5 final size:5
Alignment explanation
Indices: 1335057--1335081 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1335047 TTAAATTACT
1335057 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
1335082 TTTTTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:1338676 original size:20 final size:19
Alignment explanation
Indices: 1338647--1338721 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
1338637 AAAAAAACAT
1338647 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
1338666 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
1338687 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
1338707 AATGTATCGATACAT
1 AATGTATCGATACAT
1338722 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:1338704 original size:40 final size:39
Alignment explanation
Indices: 1338644--1338721 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
1338634 GGTAAAAAAA
*
1338644 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1338683 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1338722 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1339353 original size:28 final size:28
Alignment explanation
Indices: 1339313--1340630 Score: 704
Period size: 28 Copynumber: 46.2 Consensus size: 28
1339303 CTTCTATGAG
*
1339313 CTTT-AAAGAGATGCCACTGACTTGTTGA
1 CTTTGAAAG-GATGCCACTGACTTGTGGA
*
1339341 CTTTGAAAGGATGCCACTGACTTGTGGG
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * * *
1339369 CTTTGGAAGGATGCCACTAACTCGTGGG
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * * * *
1339397 CTTTGAAAAGTTGCCACTAACTCGTGGG
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * * * *
1339425 CTTTGAAAAGTTACCACTAACTTGTGGG
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * * * * *
1339453 CTTGGAAAAGATACCATTGACTCGTGGG
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* *
1339481 CTTTGAAAAGATGCCACCGACTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * *
1339509 CATTGAAAAGATGCCACTGACTTGTGGG
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* *
1339537 CTTTGAAAGGGTGCCACTGACTTGTGGG
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * *
1339565 CTTTGAAAAGATGCCACCGACTTGTGTGGG
1 CTTTGAAAGGATGCCACTGAC-T-TGTGGA
** ** *
1339595 CTTTGAAATAGTTTGCCACCAACTTGTGTGGG
1 CTTTG-AA-AGGATGCCACTGAC-T-TGTGGA
* * * *
1339627 CTTTGAAATGAGTTACCACCGACTTGTGTGGG
1 CTTTGAAA-G-GATGCCACTGAC-T-TGTGGA
* * ** *
1339659 CTTTCAAATGGGTTGCCACCAACTTGTGTGGG
1 CTTTGAAA--GGATGCCACTGAC-T-TGTGGA
* * *
1339691 CTTTGAAATAGGTTGCCAC-CAGCTTGTGTGGG
1 CTTTG-AA-AGGATGCCACTGA-C-T-TGTGGA
* ** *
1339723 CTTTGAAATGGGTTGCCACCAACTTGTGTCGG
1 CTTTGAAA--GGATGCCACTGACTTGTG--GA
* * * *
1339755 CTTTCAAATGAGTTGCCACCGACTTGTGTGGG
1 CTTTGAAA-G-GATGCCACTGAC-T-TGTGGA
* * *
1339787 CTTTGAAAGGGTGCCACCGACTTGTGTGGG
1 CTTTGAAAGGATGCCACTGAC-T-TGTGGA
* * ** *
1339817 CTTTGAAAAGATACCACCAACTAT-TGGG
1 CTTTGAAAGGATGCCACTGACT-TGTGGA
* * *
1339845 CTTTGAAATGGGCTGCCACCGACTTGTGTGGG
1 CTTTGAAA--GGATGCCACTGAC-T-TGTGGA
* *
1339877 CTTTG-AAGTGATGCCACTAACTTGTGGG
1 CTTTGAAAG-GATGCCACTGACTTGTGGA
*
1339905 CTTTGAAAGGATGCCACTGACTTGTGGG
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* *
1339933 CTTTAAAATGG-TGCCACTGACTTGTGGG
1 CTTTGAAA-GGATGCCACTGACTTGTGGA
*
1339961 CTTTGAAAGGATGCCACTGACTTGTGGG
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * *
1339989 CTTTGAAAAGATGCCACTGACTTATGGG
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* *
1340017 CTTTGAGAAGGTTGCCACTGACTTGTGGG
1 CTTTGA-AAGGATGCCACTGACTTGTGGA
* *
1340046 CTTTGAAAGG-TGCCACGGATTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * *
1340073 C-TTAAAAGGATGCCACAGAGTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * * *
1340100 -TTTCAAAAGAGTGCCACAGAGTTGTGGA
1 CTTTGAAAGGA-TGCCACTGACTTGTGGA
* * * *
1340128 C-TTAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
** * *
1340155 CTTAAAAAGG-TGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * * *
1340182 C-TTAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * *
1340209 CTTT-AAAGGGTGCCACAGAGTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* *
1340236 CTTT-AAAGGGTGCCACGGAGC-TGTGGA
1 CTTTGAAAGGATGCCACTGA-CTTGTGGA
* * * *
1340263 CTTTAAAAGGATGCCACGGAGTTGTAGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * * *
1340291 C-TTAAAAGGATGCCACAGAGTTGTAGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * * *
1340318 CTTTAAAAAGTAATGCCACTGAATCGTGGA
1 CTTT-GAAAG-GATGCCACTGACTTGTGGA
* *
1340348 CTTT-AAAAGAGTGCCA-TGAAGTTGTGGA
1 CTTTGAAAGGA-TGCCACTG-ACTTGTGGA
* * * *
1340376 C-TTAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
** *
1340403 CTTAAAAAGG-TGCCAC-GAAGTTGTGGA
1 CTTTGAAAGGATGCCACTG-ACTTGTGGA
* * * *
1340430 C-TTAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * *
1340457 CTTT-AAAGGGTGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * *
1340484 CTTTAAAAGGATGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * *
1340512 C-TTAAAAGGATGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * *
1340539 CTTTAAAAGGATGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * *
1340567 C-TTAAAAGGATGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGA
* * * *
1340594 CTTTAAAAAGAAATGCCACTGAATCGTGGA
1 CTTT-GAAAG-GATGCCACTGACTTGTGGA
1340624 CTTTGAA
1 CTTTGAA
1340631 GAGGTCACAG
Statistics
Matches: 1124, Mismatches: 111, Indels: 109
0.84 0.08 0.08
Matches are distributed among these distances:
26 22 0.02
27 301 0.27
28 472 0.42
29 51 0.05
30 109 0.10
31 15 0.01
32 144 0.13
33 5 0.00
34 5 0.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (28 bp):
CTTTGAAAGGATGCCACTGACTTGTGGA
Found at i:1339620 original size:32 final size:31
Alignment explanation
Indices: 1339392--1339912 Score: 392
Period size: 32 Copynumber: 17.4 Consensus size: 31
1339382 CCACTAACTC
* *
1339392 GTGGGCTTTGAAA-AGTTGCCACTAAC-T-C
1 GTGGGCTTTGAAATAGTTGCCACCAACTTGT
* *
1339420 GTGGGCTTTGAAA-AGTTACCACTAAC-T-T
1 GTGGGCTTTGAAATAGTTGCCACCAACTTGT
* * * *** *
1339448 GTGGGCTTGGAAA-AGATACCATTGAC-T-C
1 GTGGGCTTTGAAATAGTTGCCACCAACTTGT
* *
1339476 GTGGGCTTTGAAA-AGATGCCACCGAC-T-T
1 GTGGGCTTTGAAATAGTTGCCACCAACTTGT
* * * **
1339504 GTGGACATTGAAA-AGATGCCACTGAC-T-T
1 GTGGGCTTTGAAATAGTTGCCACCAACTTGT
* * **
1339532 GTGGGCTTTGAAA-GGGTGCCACTGAC-T-T
1 GTGGGCTTTGAAATAGTTGCCACCAACTTGT
* *
1339560 GTGGGCTTTGAAA-AGATGCCACCGACTTGT
1 GTGGGCTTTGAAATAGTTGCCACCAACTTGT
1339590 GTGGGCTTTGAAATAGTTTGCCACCAACTTGT
1 GTGGGCTTTGAAATAG-TTGCCACCAACTTGT
* *
1339622 GTGGGCTTTGAAATGAGTTACCACCGACTTGT
1 GTGGGCTTTGAAAT-AGTTGCCACCAACTTGT
* *
1339654 GTGGGCTTTCAAATGGGTTGCCACCAACTTGT
1 GTGGGCTTTGAAAT-AGTTGCCACCAACTTGT
*
1339686 GTGGGCTTTGAAATAGGTTGCCACCAGCTTGT
1 GTGGGCTTTGAAATA-GTTGCCACCAACTTGT
*
1339718 GTGGGCTTTGAAATGGGTTGCCACCAACTTGT
1 GTGGGCTTTGAAAT-AGTTGCCACCAACTTGT
* * *
1339750 GTCGGCTTTCAAATGAGTTGCCACCGACTTGT
1 GTGGGCTTTGAAAT-AGTTGCCACCAACTTGT
* * *
1339782 GTGGGCTTTGAAA-GGGTGCCACCGACTTGT
1 GTGGGCTTTGAAATAGTTGCCACCAACTTGT
* * *
1339812 GTGGGCTTTGAAA-AGATACCACCAAC-TAT
1 GTGGGCTTTGAAATAGTTGCCACCAACTTGT
* * *
1339841 -TGGGCTTTGAAATGGGCTGCCACCGACTTGT
1 GTGGGCTTTGAAAT-AGTTGCCACCAACTTGT
* * *
1339872 GTGGGCTTTGAAGT-GATGCCACTAAC-T-T
1 GTGGGCTTTGAAATAGTTGCCACCAACTTGT
1339900 GTGGGCTTTGAAA
1 GTGGGCTTTGAAA
1339913 GGATGCCACT
Statistics
Matches: 424, Mismatches: 58, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
28 169 0.40
29 4 0.01
30 69 0.16
31 4 0.01
32 176 0.42
33 2 0.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (31 bp):
GTGGGCTTTGAAATAGTTGCCACCAACTTGT
Found at i:1339655 original size:64 final size:63
Alignment explanation
Indices: 1339511--1340053 Score: 472
Period size: 64 Copynumber: 9.1 Consensus size: 63
1339501 CTTGTGGACA
* * **
1339511 TTGAAA-AGATGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCT
1 TTGAAATAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCT
* * *
1339567 TTGAAA-AGATGCCACCGACTTGTGTGGGCTTTGAAATAGTTTGCCACCAACTTGTGTGGGCT
1 TTGAAATAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCT
* *
1339629 TTGAAATGAGTTACCACCGACTTGTGTGGGCTTTCAAATGGGTTGCCACCAACTTGTGTGGGCT
1 TTGAAAT-AGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCT
*
1339693 TTGAAATAGGTTGCCACC-AGCTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTCGGCT
1 TTGAAATA-GTTGCCACCGA-CTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCT
* *
1339757 TTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAA-GGG-TGCCACCGACTTGTGTGGGCT
1 TTGAAAT-AGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCT
* * * * * *
1339819 TTGAAA-AGATACCACCAAC-TAT-TGGGCTTTGAAATGGGCTGCCACCGACTTGTGTGGGCT
1 TTGAAATAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCT
* * ** * **
1339879 TTGAAGT-GATGCCACTAAC-T-TGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCT
1 TTGAAATAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCT
* * * * **
1339935 TTAAAAT-GGTGCCACTGAC-T-TGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCT
1 TTGAAATAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCT
* * * **
1339991 TTGAAA-AGATGCCACTGAC-T-TATGGGCTTTGAGAA--GGTTGCCACTGAC-T-TGTGGGCT
1 TTGAAATAGTTGCCACCGACTTGTGTGGGCTTTGA-AATGGGTTGCCACCAACTTGTGTGGGCT
1340048 TTGAAA
1 TTGAAA
1340054 GGTGCCACGG
Statistics
Matches: 435, Mismatches: 34, Indels: 35
0.86 0.07 0.07
Matches are distributed among these distances:
56 106 0.24
57 31 0.07
58 37 0.09
59 7 0.02
60 67 0.15
61 1 0.00
62 38 0.09
63 5 0.01
64 141 0.32
65 2 0.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (63 bp):
TTGAAATAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCT
Found at i:1339689 original size:96 final size:94
Alignment explanation
Indices: 1339576--1340053 Score: 455
Period size: 96 Copynumber: 5.3 Consensus size: 94
1339566 TTTGAAAAGA
* *
1339576 TGCCACCGACTTGTGTGGGCTTTGAAATAGTTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTT
1 TGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTGAAA-GAGAT
*
1339641 ACCACCGACTTGTGTGGGCTTTCAAATGGGT
65 ACCACCAAC-TGTGTGGGCTTTCAAATGGGT
* * * *
1339672 TGCCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACCAGCTTGTGTGGGCTTTGAAATGGGTT
1 TGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTGAAA-GAGAT
* * *
1339737 GCCACCAACTTGTGTCGGCTTTCAAATGAGT
65 ACCACCAAC-TGTGTGGGCTTTCAAATGGGT
* *
1339768 TGCCACCGACTTGTGTGGGCTTTG-AA-AGGGTGCCACCGACTTGTGTGGGCTTTGAAA-AGATA
1 TGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTGAAAGAGATA
* * *
1339830 CCACCAACTAT-TGGGCTTTGAAATGGGC
66 CCACCAACTGTGTGGGCTTTCAAATGGGT
* * * *
1339858 TGCCACCGACTTGTGTGGGCTTTGAAGT--GATGCCACTAAC-T-TGTGGGCTTTGAAAG-GATG
1 TGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTGAAAGAGATA
** *
1339918 CCACTGACT-TGTGGGCTTTAAAAT-GG-
66 CCACCAACTGTGTGGGCTTTCAAATGGGT
* * ** *
1339944 TGCCACTGAC-T-TGTGGGCTTTG-AA-AGGATGCCACTGAC-T-TGTGGGCTTTGAAA-AGATG
1 TGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTGAAAGAGATA
** * *
1340002 CCACTGACT-TATGGGCTTTGAGAA--GGT
66 CCACCAACTGTGTGGGCTTTCA-AATGGGT
*
1340029 TGCCACTGAC-T-TGTGGGCTTTGAAA
1 TGCCACCGACTTGTGTGGGCTTTGAAA
1340054 GGTGCCACGG
Statistics
Matches: 339, Mismatches: 33, Indels: 30
0.84 0.08 0.07
Matches are distributed among these distances:
83 1 0.00
84 62 0.18
85 25 0.07
86 11 0.03
87 3 0.01
88 36 0.11
89 1 0.00
90 46 0.14
91 3 0.01
92 10 0.03
94 28 0.08
95 2 0.01
96 111 0.33
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (94 bp):
TGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTGAAAGAGATA
CCACCAACTGTGTGGGCTTTCAAATGGGT
Found at i:1340125 original size:55 final size:53
Alignment explanation
Indices: 1339910--1340601 Score: 704
Period size: 55 Copynumber: 12.6 Consensus size: 53
1339900 GTGGGCTTTG
* * * * * * *
1339910 AAAGGATGCCACTGACTTGTGGGCTTTAAAATGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACGGAGTTGT-GGATTTAAAA-GGTGCCACGGAGTTGTGGAC-TTA
* * * * * * * *
1339966 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTTGA
1 AAAGGATGCCACGGAGTTGT-GGATTT-AAAAGGTGCCACGGAGTTGTGGAC-TT-A
* * * * * * *
1340023 GAAGGTTGCCACTGACTTGTGGGCTTTGAAAGGTGCCACGGATTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGT-GGATTTAAAAGGTGCCACGGAGTTGTGGACTTA
* *
1340077 AAAGGATGCCACAGAGTTGTGGATTTCAAAAGAGTGCCACAGAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGATTT-AAAAG-GTGCCACGGAGTTGTGGACTTA
* *
1340132 AAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGA-TTTAAAAGGTGCCACGGAGTTGTGGACTTA
* * * *
1340186 AAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGTGGACTTT
1 AAAGGATGCCACGGAGTTGTGGA-TTTAAAAGGTGCCACGGAGTTGTGGACTTA
* * *
1340240 AAAGGGTGCCACGGAGCTGTGGACTTTAAAAGGATGCCACGGAGTTGTAGACTTA
1 AAAGGATGCCACGGAGTTGTGGA-TTTAAAAGG-TGCCACGGAGTTGTGGACTTA
* * * * * *
1340295 AAAGGATGCCACAGAGTTGTAGACTTTAAAAAGTAATGCCACTGAATCGTGGACTTTA
1 AAAGGATGCCACGGAGTTGTGGA-TTT-AAAAG--GTGCCACGGAGTTGTGGAC-TTA
* * *
1340353 AAA-GAGTGCCATGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
1 AAAGGA-TGCCACGGAGTTGTGGATTTAAAA-GGTGCCACGGAGTTGTGGACTT-A
* * *
1340408 AAAGG-TGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAGGATGCCACGGAGTTGTGGATTTAAAA-GGTGCCACGGAGTTGTGGACTTA
*
1340461 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGA-TTTAAAAGG-TGCCACGGAGTTGTGGACTTA
1340516 AAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGA-TTTAAAAGG-TGCCACGGAGTTGTGGACTTA
1340571 AAAGGATGCCACGGAGTTGTGGACTTTAAAA
1 AAAGGATGCCACGGAGTTGTGGA-TTTAAAA
1340602 AGAAATGCCA
Statistics
Matches: 563, Mismatches: 56, Indels: 35
0.86 0.09 0.05
Matches are distributed among these distances:
53 10 0.02
54 189 0.34
55 219 0.39
56 78 0.14
57 48 0.09
58 19 0.03
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (53 bp):
AAAGGATGCCACGGAGTTGTGGATTTAAAAGGTGCCACGGAGTTGTGGACTTA
Found at i:1340140 original size:82 final size:81
Alignment explanation
Indices: 1340054--1340601 Score: 717
Period size: 82 Copynumber: 6.7 Consensus size: 81
1340044 GGCTTTGAAA
* * *
1340054 GGTGCCACGGATTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGATTTCAAAAGAGTGCCACAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGATTT-AAAAGAGTGCCACGG
1340119 AGTTGTGGACTTAAAAG
65 AGTTGTGGACTTAAAAG
* *
1340136 GGTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGTGCCACGGAGTTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGATTTAAAAGAGTGCCACGG
*
1340200 AGTTGTGGACTTTAAAG
65 AGTTGTGGACTTAAAAG
* * * *
1340217 GGTGCCACAGAGTTGTGGACTTTAAAGGGTGCCACGGAGCTGTGGACTTTAAAAG-GATGCCACG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA-TTTAAAAGAG-TGCCACG
*
1340281 GAGTTGTAGACTTAAAAG
64 GAGTTGTGGACTTAAAAG
* * * * * * *
1340299 GATGCCACAGAGTTGTAGACTTTAAAAAGTAATGCCACTGAATCGTGGACTTTAAAAGAGTGCCA
1 GGTGCCACGGAGTTGTGGAC-TT-AAAAG-GATGCCACGGAGTTGTGGA-TTTAAAAGAGTGCCA
* *
1340364 TGAAGTTGTGGACTTAAAAG
62 CGGAGTTGTGGACTTAAAAG
* * *
1340384 GGTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGTGCCACGGAGTTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGATTTAAAAGAGTGCCACGG
*
1340448 AGTTGTGGACTTTAAAG
65 AGTTGTGGACTTAAAAG
*
1340465 GGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAG-GATGCCACG
1 GGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGATTTAAAAGAG-TGCCACG
1340529 GAGTTGTGGACTTTAAAAG
64 GAGTTGTGGAC-TTAAAAG
*
1340548 GATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA-TTTAAAA
1340602 AGAAATGCCA
Statistics
Matches: 412, Mismatches: 41, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
80 5 0.01
81 124 0.30
82 170 0.41
83 39 0.09
84 12 0.03
85 61 0.15
86 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (81 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGATTTAAAAGAGTGCCACGGA
GTTGTGGACTTAAAAG
Found at i:1340625 original size:248 final size:247
Alignment explanation
Indices: 1339926--1340626 Score: 930
Period size: 248 Copynumber: 2.8 Consensus size: 247
1339916 TGCCACTGAC
* * * * * * * * *
1339926 TTGTGGGCTTTAAAATGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTT-AAAGGGTGCCACAGAGTTGTGGACT
* * * * * * * * * *
1339991 TTGAAAA-GATGCCACTGACTTATGGGCTTTGAGAAGGTTGCCACTGACTTGTGGGCTTTGAAAG
64 TT-AAAAGGATGCCACGGAGTTGTGGACTTT-AAAAGGATGCCACGGAGTTGTGGACTTTAAAAG
* *
1340055 G-TGCCACGGATTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGA-TTTCAAAAGAGTGCCACA
127 GATGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTT-AAAAGAGTGCCACT
* *
1340118 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAG
191 GAATTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGAAG
1340175 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGTGGACTTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGTGGACTTT
* * *
1340240 -AAAGGGTGCCACGGAGCTGTGGACTTTAAAAGGATGCCACGGAGTTGTAGAC-TTAAAAGGATG
66 AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATG
* * * * * *
1340303 CCACAGAGTTGTAGACTTTAAAAAGTAATGCCACTGAATCGTGGACTTTAAAAGAGTGCCA-TGA
131 CCACGGAGTTGTGGAC-TT-AAAAG-GATGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACTGA
1340367 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGAAG
193 A-TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGAAG
*
1340423 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGACTTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGTGGACTTT
1340488 AAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATG
66 AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATG
* *
1340552 CCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAAGAAATGCCACTGAA
131 CCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTT-AAAAG-AGTGCCACTGAA
*
1340617 TCGTGGACTT
194 TTGTGGACTT
1340627 TGAAGAGGTC
Statistics
Matches: 396, Mismatches: 44, Indels: 25
0.85 0.09 0.05
Matches are distributed among these distances:
244 7 0.02
245 37 0.09
246 38 0.10
247 40 0.10
248 213 0.54
249 61 0.15
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.25
Consensus pattern (247 bp):
TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGTGGACTTT
AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATG
CCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACTGAATT
GTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGAAG
Found at i:1341980 original size:16 final size:16
Alignment explanation
Indices: 1341940--1341981 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1341930 CCTTTTTTTA
1341940 TTTTGCTTTTGCACTT
1 TTTTGCTTTTGCACTT
* *
1341956 TTTTACTTTT-CATTT
1 TTTTGCTTTTGCACTT
1341971 TTTGTGCTTTT
1 TTT-TGCTTTT
1341982 TCTTTTGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.07, C:0.14, G:0.10, T:0.69
Consensus pattern (16 bp):
TTTTGCTTTTGCACTT
Found at i:1349045 original size:20 final size:19
Alignment explanation
Indices: 1349016--1349090 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
1349006 AAAAAAACAT
1349016 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
1349035 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
1349056 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
1349076 AATGTATCGATACAT
1 AATGTATCGATACAT
1349091 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:1349073 original size:40 final size:39
Alignment explanation
Indices: 1349013--1349090 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
1349003 GGTAAAAAAA
*
1349013 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1349052 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1349091 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1349824 original size:9 final size:9
Alignment explanation
Indices: 1349812--1349850 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
1349802 TTTTCCTAAT
1349812 TTTTCTTTC
1 TTTTCTTTC
*
1349821 TTTTTCTTTTT
1 -TTTTC-TTTC
1349832 TTTTCTTTC
1 TTTTCTTTC
1349841 TTTTCTTTC
1 TTTTCTTTC
1349850 T
1 T
1349851 CTCTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 13 0.50
10 10 0.38
11 3 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:1349825 original size:11 final size:11
Alignment explanation
Indices: 1349811--1349869 Score: 68
Period size: 10 Copynumber: 5.4 Consensus size: 11
1349801 TTTTTCCTAA
1349811 TTTTTCTTTC-
1 TTTTTCTTTCT
1349821 TTTTTCTTT-T
1 TTTTTCTTTCT
1349831 TTTTTCTTTCTT
1 TTTTTCTTTC-T
*
1349843 TTCTTTCTCTCT
1 TT-TTTCTTTCT
*
1349855 TTTTTCTCTCT
1 TTTTTCTTTCT
1349866 TTTT
1 TTTT
1349870 CAGCTAAAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
10 18 0.41
11 13 0.30
12 6 0.14
13 7 0.16
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTCTTTCT
Found at i:1349826 original size:20 final size:20
Alignment explanation
Indices: 1349801--1349844 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1349791 AGCTAGTTAA
1349801 TTTTTCCTAATTTTTCTTTC
1 TTTTTCCTAATTTTTCTTTC
* **
1349821 TTTTTCTTTTTTTTTCTTTC
1 TTTTTCCTAATTTTTCTTTC
1349841 TTTT
1 TTTT
1349845 CTTTCTCTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTCCTAATTTTTCTTTC
Found at i:1349857 original size:24 final size:22
Alignment explanation
Indices: 1349811--1349869 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 22
1349801 TTTTTCCTAA
*
1349811 TTTTTCTTTC--TTTTTCTTTT
1 TTTTTCTTTCTTTTTTTCTTCT
1349831 TTTTTCTTTCTTTTCTTTCTCTCT
1 TTTTTCTTTCTTTT-TTTCT-TCT
*
1349855 TTTTTCTCTCTTTTT
1 TTTTTCTTTCTTTTT
1349870 CAGCTAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 10 0.30
22 2 0.06
23 6 0.18
24 15 0.45
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTCTTTCTTTTTTTCTTCT
Found at i:1349864 original size:13 final size:12
Alignment explanation
Indices: 1349815--1349869 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
1349805 TCCTAATTTT
1349815 TCTTTCTTTT-TC
1 TCTTT-TTTTCTC
* *
1349827 TTTTTTTTTCTT
1 TCTTTTTTTCTC
1349839 TCTTTTCTTTCTC
1 TCTTTT-TTTCTC
1349852 TC-TTTTTTCTC
1 TCTTTTTTTCTC
1349863 TCTTTTT
1 TCTTTTT
1349870 CAGCTAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 12 0.33
12 17 0.47
13 7 0.19
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TCTTTTTTTCTC
Found at i:1353508 original size:27 final size:27
Alignment explanation
Indices: 1353463--1353527 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
1353453 TTATTTATTG
* *
1353463 GGATACTCCAACCCTATTCTTCTAAGA
1 GGATACTCCAACCCCATTCTTCCAAGA
* *
1353490 GGATACTCCAGCCCCATTCTTCCGAGA
1 GGATACTCCAACCCCATTCTTCCAAGA
*
1353517 GGCTACTCCAA
1 GGATACTCCAA
1353528 TCCTATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.25
Consensus pattern (27 bp):
GGATACTCCAACCCCATTCTTCCAAGA
Found at i:1354357 original size:28 final size:28
Alignment explanation
Indices: 1354317--1354371 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
1354307 AAATGATCGG
**
1354317 TGGTGACTTTGAAAATTCGTTCACTTCA
1 TGGTGACCCTGAAAATTCGTTCACTTCA
*
1354345 TGGTGACCCTGAAACTTCGTTCACTTC
1 TGGTGACCCTGAAAATTCGTTCACTTC
1354372 GTAGTGACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (28 bp):
TGGTGACCCTGAAAATTCGTTCACTTCA
Found at i:1354378 original size:28 final size:28
Alignment explanation
Indices: 1354326--1354379 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
1354316 GTGGTGACTT
*
1354326 TGAAAATTCGTTCACTTCATGGTGACCC
1 TGAAAATTCGTTCACTTCATAGTGACCC
* *
1354354 TGAAACTTCGTTCACTTCGTAGTGAC
1 TGAAAATTCGTTCACTTCATAGTGAC
1354380 TGTCAAGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (28 bp):
TGAAAATTCGTTCACTTCATAGTGACCC
Found at i:1360951 original size:18 final size:18
Alignment explanation
Indices: 1360924--1360960 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1360914 ATAATACTAA
1360924 AAATACAAAATAAAATTT
1 AAATACAAAATAAAATTT
*
1360942 AAATATAAAATAAAATTT
1 AAATACAAAATAAAATTT
1360960 A
1 A
1360961 CAATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATACAAAATAAAATTT
Found at i:1362879 original size:15 final size:15
Alignment explanation
Indices: 1362859--1362888 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1362849 ATAAAGAGTC
1362859 AAAAATAATTACAAA
1 AAAAATAATTACAAA
1362874 AAAAATAATTACAAA
1 AAAAATAATTACAAA
1362889 GAGGATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAATAATTACAAA
Found at i:1365771 original size:18 final size:18
Alignment explanation
Indices: 1365748--1365782 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1365738 ATAATAAAAT
1365748 GCCAAAAATATAAATATG
1 GCCAAAAATATAAATATG
*
1365766 GCCAAAAATATATATAT
1 GCCAAAAATATAAATAT
1365783 ATATATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (18 bp):
GCCAAAAATATAAATATG
Found at i:1366638 original size:16 final size:17
Alignment explanation
Indices: 1366598--1366630 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1366588 CACCTAAATT
*
1366598 CTATATTAAAGATAATA
1 CTATAATAAAGATAATA
1366615 CTATAATAAA-ATAATA
1 CTATAATAAAGATAATA
1366631 ACATAATACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (17 bp):
CTATAATAAAGATAATA
Found at i:1370095 original size:79 final size:79
Alignment explanation
Indices: 1369866--1370192 Score: 380
Period size: 78 Copynumber: 4.2 Consensus size: 79
1369856 CTATAATCAG
* * *
1369866 GGATACTCAAACCTCATTATTTCTGAGGGGATACTCCAACCCCGGTCTTATTTCTAAAAACATCA
1 GGATACTCCAACCTCATTATTTCTGAGAGGATACTCCAACCCCGGT-TTATTTCTAAAAACATCG
1369931 ATTTTTCACAATCG-
65 ATTTTTCACAATCGA
* * * * *
1369945 GGAATACTCCAACCCCGTTATTTCTGAGGGGATACT-CAACCCCGATTTTATTTC-CAAAACATC
1 GG-ATACTCCAACCTCATTATTTCTGAGAGGATACTCCAACCCCG-GTTTATTTCTAAAAACATC
*
1370008 GATTTTTCACCATCGA
64 GATTTTTCACAATCGA
* *
1370024 GGATACTCCAACCTCGTTATTT-TCGAGAGGATACTCTAACCCCGGCTTTATTTCT-AAAACATC
1 GGATACTCCAACCTCATTATTTCT-GAGAGGATACTCCAACCCCGG-TTTATTTCTAAAAACATC
*
1370087 GATTTTTCACAATCGG
64 GATTTTTCACAATCGA
* * * * *
1370103 GGATACTCTAACC-CATTATTTCTAAGAGGATACTCCAACCTCGGTTTCTTT-TCAAAACATCGA
1 GGATACTCCAACCTCATTATTTCTGAGAGGATACTCCAACCCCGGTTTATTTCTAAAAACATCGA
* * *
1370166 TTTTCCACCATTGA
66 TTTTTCACAATCGA
1370180 GGATACTCCAACC
1 GGATACTCCAACC
1370193 CTATTTTTAT
Statistics
Matches: 215, Mismatches: 24, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
76 1 0.00
77 39 0.18
78 75 0.35
79 69 0.32
80 31 0.14
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (79 bp):
GGATACTCCAACCTCATTATTTCTGAGAGGATACTCCAACCCCGGTTTATTTCTAAAAACATCGA
TTTTTCACAATCGA
Found at i:1370188 original size:156 final size:158
Alignment explanation
Indices: 1369866--1370192 Score: 450
Period size: 156 Copynumber: 2.1 Consensus size: 158
1369856 CTATAATCAG
* *
1369866 GGATACTCAAACCTCATTATTTCTGAGGGGATACTCCAACCCCGGTCTTATTTCTAAAAACATCA
1 GGATACTCCAACCTCATTATTTCTGAGAGGATACTCCAACCCCGGTCTTATTTCTAAAAACATCA
* * *
1369931 ATTTTTCACAATCGGGAATACTCCAACCCCGTTATTTCTGAGGGGATACTCAACCCCGATTTTAT
66 ATTTTTCACAATCGGGAATACTCCAACCCCATTATTTCTAAGAGGATACTCAACCCCGATTTTAT
*
1369996 TTCCAAAACATCGATTTTTCACCATCGA
131 TTCCAAAACATCGATTTTCCACCATCGA
* *
1370024 GGATACTCCAACCTCGTTATTT-TCGAGAGGATACTCTAACCCCGG-CTTTATTTCT-AAAACAT
1 GGATACTCCAACCTCATTATTTCT-GAGAGGATACTCCAACCCCGGTC-TTATTTCTAAAAACAT
* * * * *
1370086 CGATTTTTCACAATCGGGGATACTCTAA-CCCATTATTTCTAAGAGGATACTCCAACCTCGGTTT
64 CAATTTTTCACAATCGGGAATACTCCAACCCCATTATTTCTAAGAGGATACT-CAACCCCGATTT
*
1370150 CT-TTT-CAAAACATCGATTTTCCACCATTGA
128 -TATTTCCAAAACATCGATTTTCCACCATCGA
1370180 GGATACTCCAACC
1 GGATACTCCAACC
1370193 CTATTTTTAT
Statistics
Matches: 151, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
156 56 0.37
157 47 0.31
158 48 0.32
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (158 bp):
GGATACTCCAACCTCATTATTTCTGAGAGGATACTCCAACCCCGGTCTTATTTCTAAAAACATCA
ATTTTTCACAATCGGGAATACTCCAACCCCATTATTTCTAAGAGGATACTCAACCCCGATTTTAT
TTCCAAAACATCGATTTTCCACCATCGA
Found at i:1372406 original size:20 final size:20
Alignment explanation
Indices: 1372381--1372537 Score: 100
Period size: 20 Copynumber: 7.8 Consensus size: 20
1372371 TTTTCACAAT
1372381 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
1372401 TTGTATCGATACATTTTGGGTTTACCCA
1 TTGTATCGATACA--TT--G-TT---CA
* *
1372429 GATATATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
1372450 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
1372470 TTGTATCGATACATTG--C-
1 TTGTATCGATACATTGTTCA
1372487 ----ATCGATACATTGCTT-A
1 TTGTATCGATACATTG-TTCA
1372503 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
1372523 ATGTATCGATACATT
1 TTGTATCGATACATT
1372538 CAGGCATTTT
Statistics
Matches: 110, Mismatches: 7, Indels: 40
0.70 0.04 0.25
Matches are distributed among these distances:
13 12 0.11
18 3 0.03
20 70 0.64
21 3 0.03
22 2 0.02
23 2 0.02
24 1 0.01
25 2 0.02
27 2 0.02
28 2 0.02
29 11 0.10
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:1372484 original size:13 final size:13
Alignment explanation
Indices: 1372468--1372499 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1372458 ATACATTGCT
*
1372468 CATTGTATCGATA
1 CATTGCATCGATA
1372481 CATTGCATCGATA
1 CATTGCATCGATA
1372494 CATTGC
1 CATTGC
1372500 TTATTGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (13 bp):
CATTGCATCGATA
Found at i:1372491 original size:33 final size:33
Alignment explanation
Indices: 1372448--1372517 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
1372438 ATACATTTTG
*
1372448 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGCATCGATACATTGCTCATTGTATCGATA
*
1372481 CATTGCATCGATACATTGCTTATTGTATCGATA
1 CATTGCATCGATACATTGCTCATTGTATCGATA
1372514 CATT
1 CATT
1372518 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (33 bp):
CATTGCATCGATACATTGCTCATTGTATCGATA
Found at i:1374885 original size:51 final size:51
Alignment explanation
Indices: 1374810--1374939 Score: 136
Period size: 51 Copynumber: 2.5 Consensus size: 51
1374800 TCATCTCGAG
** *****
1374810 GATACTCCAA-TCCCGATTCCATTTCCAAAACATCAATTTTTTTTAATCGGA
1 GATACTCCAACT-CCGATTTTATTTCCAAAACATCAATTTACCGCAATCGGA
* * * * *
1374861 GATACTCCAACTTCGATTTTATTTCTAAAGCATCGATTTACCGCAATCGGG
1 GATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTACCGCAATCGGA
1374912 GATACTCCAACTCCGATTTTATTTCCAA
1 GATACTCCAACTCCGATTTTATTTCCAA
1374940 GATACTAATT
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
51 63 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (51 bp):
GATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTACCGCAATCGGA
Found at i:1375148 original size:51 final size:51
Alignment explanation
Indices: 1375093--1375259 Score: 187
Period size: 51 Copynumber: 3.3 Consensus size: 51
1375083 TTATTTCCAA
1375093 GGGGATACTCCAACTCCGATTTTATTTCTAAAATACCAATTTTTCATAATC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAATACCAATTTTTCATAATC
* * * * * *
1375144 GGGGATACTCTAACTCCGACTTTATTTCCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAATACCAATTTTTCATAATC
* * *
1375195 GGGAATACTCCAATTCCGATTTTATTT-T-CAATACACTAA-TTTTCTATAATC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAATAC-C-AATTTTTC-ATAATC
* *
1375246 AGGGATACTTCAAC
1 GGGGATACTCCAAC
1375260 CCTGTTATTT
Statistics
Matches: 94, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
49 4 0.04
50 5 0.05
51 85 0.90
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGATTTTATTTCTAAAATACCAATTTTTCATAATC
Found at i:1375153 original size:106 final size:106
Alignment explanation
Indices: 1374967--1375157 Score: 276
Period size: 106 Copynumber: 1.8 Consensus size: 106
1374957 ACTGGGATAC
** * ***
1374967 TCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCGGTTTTATATCTAAAATATTGATTTTTC
1 TCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCGATTTTATATCTAAAATACCAATTTTTC
*
1375032 ATAATCGGGGGTACTCTAACCCTATTATGTCATCGGGGTAT
66 ATAATCGGGGATACTCTAACCCTATTATGTCATCGGGGTAT
* * *
1375073 TCCAATCCTGTTATTTCCAAGGGGATACTCCAA-CTCCGATTTTATTTCTAAAATACCAATTTTT
1 TCCAACCCCGTTATTTCCAAGGGGATACTCCAACCT-CGATTTTATATCTAAAATACCAATTTTT
1375137 CATAATCGGGGATACTCTAAC
65 CATAATCGGGGATACTCTAAC
1375158 TCCGACTTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
105 2 0.03
106 72 0.97
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (106 bp):
TCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCGATTTTATATCTAAAATACCAATTTTTC
ATAATCGGGGATACTCTAACCCTATTATGTCATCGGGGTAT
Found at i:1375346 original size:79 final size:79
Alignment explanation
Indices: 1375199--1375347 Score: 192
Period size: 79 Copynumber: 1.9 Consensus size: 79
1375189 ACAATCGGGA
* * * * * * *
1375199 ATACTCCAATTCCGATTTTATTTTCAATACACTAATTTTCTATAATCAGGGATACTTCAACCCTG
1 ATACTCCAACTCCGATTTTACTTTCAAAACACCAATTTTCCATAATCAGGGATACTCCAACCCCG
1375264 TTATTTTCGAGGGG
66 TTATTTTCGAGGGG
* **
1375278 ATACTCCAACTCCGATTTTACTTTCAAAACACCAATTTTCCATAAT-TGAGGATACTCCGGCCCC
1 ATACTCCAACTCCGATTTTACTTTCAAAACACCAATTTTCCATAATCAG-GGATACTCCAACCCC
1375342 GTTATT
65 GTTATT
1375348 ATCTCCAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
78 1 0.02
79 58 0.98
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.36
Consensus pattern (79 bp):
ATACTCCAACTCCGATTTTACTTTCAAAACACCAATTTTCCATAATCAGGGATACTCCAACCCCG
TTATTTTCGAGGGG
Found at i:1379227 original size:17 final size:16
Alignment explanation
Indices: 1379205--1379245 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
1379195 AAAGTGTTTG
*
1379205 AAAAAAAAAATTTGAA
1 AAAAAAAAAAATTGAA
1379221 AAAAAAAAAAATTGAA
1 AAAAAAAAAAATTGAA
1379237 AAAAAAAAA
1 AAAAAAAAA
1379246 TCCAAATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (16 bp):
AAAAAAAAAAATTGAA
Found at i:1379245 original size:14 final size:14
Alignment explanation
Indices: 1379202--1379246 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
1379192 GATAAAGTGT
*
1379202 TTGAAAAAAAAAAT
1 TTGAAAAAAAAAAA
1379216 TTGAAAAAAAAAAAAA
1 TTG--AAAAAAAAAAA
1379232 TTGAAAAAAAAAAA
1 TTGAAAAAAAAAAA
1379246 T
1 T
1379247 CCAAATGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 15 0.54
16 13 0.46
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.18
Consensus pattern (14 bp):
TTGAAAAAAAAAAA
Found at i:1379344 original size:19 final size:19
Alignment explanation
Indices: 1379320--1379387 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
1379310 AATTCAACAA
1379320 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1379339 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
1379354 --TGTATCAATACATAAGT
1 TTTGTATCGATACATAAGT
*
1379371 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1379388 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1379365 original size:32 final size:32
Alignment explanation
Indices: 1379322--1379384 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1379312 TTCAACAATT
* *
1379322 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCAATACATAAGTATTGTATCGATACAA
1379354 TGTATCAATACATAAGTATTGTATCGATACA
1 TGTATCAATACATAAGTATTGTATCGATACA
1379385 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCAATACATAAGTATTGTATCGATACAA
Found at i:1379445 original size:13 final size:13
Alignment explanation
Indices: 1379427--1379452 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1379417 CATTTTTCTG
1379427 TGTATCGATACAT
1 TGTATCGATACAT
1379440 TGTATCGATACAT
1 TGTATCGATACAT
1379453 GGATCTTTGT
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:1379449 original size:33 final size:33
Alignment explanation
Indices: 1379407--1379473 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1379397 GTCAAGGAAA
***
1379407 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1379440 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1379473 T
1 T
1379474 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1381985 original size:28 final size:27
Alignment explanation
Indices: 1381918--1381990 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
1381908 CTTCACAATC
* *
1381918 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
1381945 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
1381973 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1381991 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:1382035 original size:51 final size:51
Alignment explanation
Indices: 1381973--1382143 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1381963 TTATTTCTGA
* * *
1381973 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
1382024 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
1382077 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
1382129 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1382144 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:1382162 original size:28 final size:28
Alignment explanation
Indices: 1382126--1382207 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1382116 ATTTTTCACA
*
1382126 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
1382154 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
1382182 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
1382208 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:1390229 original size:10 final size:10
Alignment explanation
Indices: 1390216--1390271 Score: 89
Period size: 10 Copynumber: 5.7 Consensus size: 10
1390206 AAAAAAAAAC
1390216 ACAAAAACAA
1 ACAAAAACAA
1390226 ACAAAAACAA
1 ACAAAAACAA
1390236 ACAAAAACAA
1 ACAAAAACAA
1390246 AC-AAAACAA
1 ACAAAAACAA
1390255 ACAAAAA-AA
1 ACAAAAACAA
1390264 ACACAAAA
1 ACA-AAAA
1390272 AAAAAGAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.32
10 30 0.68
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (10 bp):
ACAAAAACAA
Found at i:1390281 original size:10 final size:10
Alignment explanation
Indices: 1390206--1390281 Score: 82
Period size: 10 Copynumber: 7.4 Consensus size: 10
1390196 GTCTTTCGTA
1390206 AAAAAAAAAC
1 AAAAAAAAAC
1390216 ACAAAAACAAAC
1 A-AAAAA-AAAC
*
1390228 AAAAACAAAC
1 AAAAAAAAAC
*
1390238 AAAAACAAAC
1 AAAAAAAAAC
*
1390248 -AAAACAAAC
1 AAAAAAAAAC
1390257 AAAAAAAACAC
1 AAAAAAAA-AC
*
1390268 AAAAAAAAAG
1 AAAAAAAAAC
1390278 AAAA
1 AAAA
1390282 TGAGGGGAGG
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
9 9 0.15
10 26 0.44
11 19 0.32
12 5 0.08
ACGTcount: A:0.83, C:0.16, G:0.01, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:1391737 original size:32 final size:32
Alignment explanation
Indices: 1391696--1391868 Score: 178
Period size: 32 Copynumber: 5.5 Consensus size: 32
1391686 AGTGGAGAAA
* *
1391696 CCTTCTTAAAGCCCACATAAGCTT-GTGACAAC
1 CCTTCTTAAAGCCCACACAAG-TTGGTGGCAAC
*
1391728 CCTTCTTAAAGCCTACACAAGTTGGTGGCAAC
1 CCTTCTTAAAGCCCACACAAGTTGGTGGCAAC
*
1391760 CCTT-TTCAAAGCCTACACAAGTTGGTGGCAAC
1 CCTTCTT-AAAGCCCACACAAGTTGGTGGCAAC
* * *
1391792 CCTTCTTAAAGCCCACATAAGTCGATGG---C
1 CCTTCTTAAAGCCCACACAAGTTGGTGGCAAC
* **
1391821 CCTTCTTAAAGTCCACACAAGTCAGTGGCAA-
1 CCTTCTTAAAGCCCACACAAGTTGGTGGCAAC
*
1391852 CCTTTTTCAAAGCCCAC
1 CCTTCTT-AAAGCCCAC
1391869 CTTCTTAAAG
Statistics
Matches: 121, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
29 25 0.21
31 10 0.08
32 84 0.69
33 2 0.02
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.25
Consensus pattern (32 bp):
CCTTCTTAAAGCCCACACAAGTTGGTGGCAAC
Found at i:1391890 original size:47 final size:47
Alignment explanation
Indices: 1391821--1391915 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
1391811 AGTCGATGGC
* *
1391821 CCTTCTTAAAGTCCACACAAGTCAGTGGCAAC-CTTTTTCAAAGCCCA
1 CCTTCTTAAAGCCCACACAAGTCAGTGGCAACTCTTCTT-AAAGCCCA
*
1391868 CCTTCTTAAAGCCCACACAAGTCGGTGGCAACTCTTCTTAAAGCCCA
1 CCTTCTTAAAGCCCACACAAGTCAGTGGCAACTCTTCTTAAAGCCCA
1391915 C
1 C
1391916 ACAAGTCGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 39 0.89
48 5 0.11
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (47 bp):
CCTTCTTAAAGCCCACACAAGTCAGTGGCAACTCTTCTTAAAGCCCA
Found at i:1391909 original size:32 final size:32
Alignment explanation
Indices: 1391868--1392324 Score: 483
Period size: 32 Copynumber: 14.3 Consensus size: 32
1391858 TCAAAGCCCA
1391868 CCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
*
1391900 TCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
* * *
1391932 CCTTCTTAAAGCCCACATAAGTGGGTGGCAAT
1 CCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
* * ***
1391964 TCTTCTTATAGCCCACACAAGTCGACAGCAAC
1 CCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
* * ** **
1391996 TCTTCTTAAAGCTCACGTAAGTCGGTGATAAC
1 CCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
* * *
1392028 CCTT-TTCAAAGCCCACATAAGTCGATAGCAAC
1 CCTTCTT-AAAGCCCACACAAGTCGGTGGCAAC
* *
1392060 CATTCTTAAAGCCCACACAAGTCAGTGGCAAC
1 CCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
** *
1392092 CCTT-TTCAAAGCCCACACAAGTTAGTGCCAAC
1 CCTTCTT-AAAGCCCACACAAGTCGGTGGCAAC
* * *
1392124 CCTTCTTAAAGCCTACACAAGTCGGTGGTAAT
1 CCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
* *
1392156 CCTTCTCAAAGCCCACACAAGTTGGTGGCAAC
1 CCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
*
1392188 CCTTCTTAAAGCCCACACAAGTCAGTGGCAAC
1 CCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
*
1392220 CCTT-TTCAAAGCCCACACAAGTCGATGGCAAC
1 CCTTCTT-AAAGCCCACACAAGTCGGTGGCAAC
* * * *
1392252 CCTTTTTTAAAGCCCACATAAGTTGGTGGC-AG
1 CC-TTCTTAAAGCCCACACAAGTCGGTGGCAAC
* * * * *
1392284 CCTACCCTAAAGCCCACAAAAATTGGTGGCAAC
1 CCT-TCTTAAAGCCCACACAAGTCGGTGGCAAC
1392317 CCTT-TTAA
1 CCTTCTTAA
1392325 GCTCAATGTT
Statistics
Matches: 351, Mismatches: 65, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
31 10 0.03
32 310 0.88
33 29 0.08
34 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (32 bp):
CCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
Found at i:1391928 original size:79 final size:76
Alignment explanation
Indices: 1391792--1391947 Score: 224
Period size: 79 Copynumber: 2.0 Consensus size: 76
1391782 TGGTGGCAAC
* *
1391792 CCTTCTTAAAGCCCACATAAGTCGATGGCCCTTCTTAAAGTCCACACAAGTCAGTGGCAA-CCTT
1 CCTTCTTAAAGCCCACACAAGTCGATGGCCCTTCTTAAAGCCCACACAAGTCAGTGGCAACCCTT
*
1391856 TTTCAAAGCCCA
66 CTT-AAAGCCCA
* *
1391868 CCTTCTTAAAGCCCACACAAGTCGGTGGCAACTCTTCTTAAAGCCCACACAAGTCGGTGGCAACC
1 CCTTCTTAAAGCCCACACAAGTCGATGGC--C-CTTCTTAAAGCCCACACAAGTCAGTGGCAACC
1391933 CTTCTTAAAGCCCA
63 CTTCTTAAAGCCCA
1391947 C
1 C
1391948 ATAAGTGGGT
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
76 27 0.38
78 1 0.01
79 37 0.52
80 6 0.08
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.23
Consensus pattern (76 bp):
CCTTCTTAAAGCCCACACAAGTCGATGGCCCTTCTTAAAGCCCACACAAGTCAGTGGCAACCCTT
CTTAAAGCCCA
Found at i:1392450 original size:49 final size:50
Alignment explanation
Indices: 1392388--1392676 Score: 245
Period size: 52 Copynumber: 5.6 Consensus size: 50
1392378 CTTCAAGCCT
* *
1392388 AATATCGATGGCCTTGAATCGGCATATTGGCACC-TTCATCTTTAAGTCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCC
* *
1392437 AATATCGCCGGCCTTGAATCAGCATATTGGCACCTTTACCATATTTAAGTCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT--CATCTTTAAGTCC
* * *
1392489 AATGTCGTTGGCCTTGAATCAGCATATTGGCGCCTTTATCATCTTTAAGTCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-TCATCTTTAAGTCC
* * * *
1392541 AATGTCGCTGACCTTGAATCAACACATTGGCA-----C--CTTTAAGTCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCC
* * *
1392584 AATATCGCTAGCATTGAATCAACATATTGGCACTATTATCATCTTTTTCATCTTTAAG-CTC
1 AATATCGCTGGCCTTGAATCAGCATATTGG--C----A-C--C--TTTCATCTTTAAGTC-C
1392645 AATATCGCTGGCCTTGAATCAGCATATTGGCA
1 AATATCGCTGGCCTTGAATCAGCATATTGGCA
1392677 TTTTTATCAC
Statistics
Matches: 194, Mismatches: 22, Indels: 42
0.75 0.09 0.16
Matches are distributed among these distances:
43 35 0.18
45 2 0.01
49 32 0.16
50 2 0.01
52 81 0.42
53 2 0.01
54 1 0.01
55 1 0.01
59 2 0.01
60 1 0.01
61 35 0.18
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (50 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCC
Found at i:1392505 original size:52 final size:51
Alignment explanation
Indices: 1392396--1392578 Score: 253
Period size: 52 Copynumber: 3.6 Consensus size: 51
1392386 CTAATATCGA
* *
1392396 TGGCCTTGAATCGGCATATTGGCACC-TT-CATCTTTAAGTCCAATATCGC
1 TGGCCTTGAATCAGCATATTGGCACCTTTACATCTTTAAGTCCAATGTCGC
* * *
1392445 CGGCCTTGAATCAGCATATTGGCACCTTTACCATATTTAAGTCCAATGTCGT
1 TGGCCTTGAATCAGCATATTGGCACCTTTA-CATCTTTAAGTCCAATGTCGC
*
1392497 TGGCCTTGAATCAGCATATTGGCGCCTTTATCATCTTTAAGTCCAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCACCTTTA-CATCTTTAAGTCCAATGTCGC
* * *
1392549 TGACCTTGAATCAACACATTGGCACCTTTA
1 TGGCCTTGAATCAGCATATTGGCACCTTTA
1392579 AGTCCAATAT
Statistics
Matches: 117, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
49 24 0.21
50 2 0.02
52 91 0.78
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (51 bp):
TGGCCTTGAATCAGCATATTGGCACCTTTACATCTTTAAGTCCAATGTCGC
Found at i:1392592 original size:43 final size:43
Alignment explanation
Indices: 1392531--1392616 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
1392521 CCTTTATCAT
* *
1392531 CTTTAAGTCCAATGTCGCT-GACCTTGAATCAACACATTGGCAC
1 CTTTAAGTCCAATATCGCTAG-CATTGAATCAACACATTGGCAC
*
1392574 CTTTAAGTCCAATATCGCTAGCATTGAATCAACATATTGGCAC
1 CTTTAAGTCCAATATCGCTAGCATTGAATCAACACATTGGCAC
1392617 TATTATCATC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (43 bp):
CTTTAAGTCCAATATCGCTAGCATTGAATCAACACATTGGCAC
Found at i:1392671 original size:61 final size:62
Alignment explanation
Indices: 1392574--1392690 Score: 166
Period size: 61 Copynumber: 1.9 Consensus size: 62
1392564 ACATTGGCAC
1392574 CTTTAAGTCCAATATCGCTAGCATTGAATCAACATATTGGCACTATTATCA-TCTTTTTCAT
1 CTTTAAGTCCAATATCGCTAGCATTGAATCAACATATTGGCACTATTATCACTCTTTTTCAT
* * * * *
1392635 CTTTAAG-CTCAATATCGCTGGCCTTGAATCAGCATATTGGCATTTTTATCACTCTT
1 CTTTAAGTC-CAATATCGCTAGCATTGAATCAACATATTGGCACTATTATCACTCTT
1392691 CTCATTTTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 1 0.02
61 44 0.90
62 4 0.08
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.39
Consensus pattern (62 bp):
CTTTAAGTCCAATATCGCTAGCATTGAATCAACATATTGGCACTATTATCACTCTTTTTCAT
Found at i:1407160 original size:12 final size:12
Alignment explanation
Indices: 1407128--1407160 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1407118 TAAAAAATAA
*
1407128 AAATATAAAATT
1 AAATATATAATT
1407140 AAATA-ATAATT
1 AAATATATAATT
1407151 AAATATATAA
1 AAATATATAA
1407161 ATAGATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATATATAATT
Found at i:1409555 original size:19 final size:19
Alignment explanation
Indices: 1409531--1409567 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1409521 GGTTCGAGCA
1409531 TGAAACAAAGCTGGAACAC
1 TGAAACAAAGCTGGAACAC
**
1409550 TGAAACAACTCTGGAACA
1 TGAAACAAAGCTGGAACA
1409568 GGCAGCAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.14
Consensus pattern (19 bp):
TGAAACAAAGCTGGAACAC
Found at i:1411209 original size:43 final size:42
Alignment explanation
Indices: 1411125--1411209 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
1411115 TCACCTATAA
* *
1411125 ATTTATAAAAATTTTTATAAATTAATATTTTATTTTCTTTAT
1 ATTTATAAAAATTTATATAAATTAATATTTTAATTTCTTTAT
*
1411167 ATTT-TAATAAATTTATATAATTATAATATATTTAATTT-TTTAT
1 ATTTATAA-AAATTTATATAAAT-TAATAT-TTTAATTTCTTTAT
1411210 TATATTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
41 3 0.08
42 16 0.43
43 11 0.30
44 7 0.19
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (42 bp):
ATTTATAAAAATTTATATAAATTAATATTTTAATTTCTTTAT
Found at i:1411228 original size:18 final size:18
Alignment explanation
Indices: 1411205--1411279 Score: 66
Period size: 18 Copynumber: 4.2 Consensus size: 18
1411195 TATTTAATTT
1411205 TTTATTATATTTTTATTA
1 TTTATTATATTTTTATTA
* *
1411223 TTTATTAAATTATT-TTA
1 TTTATTATATTTTTATTA
* *
1411240 -ATATTATATTTTAATTTA
1 TTTATTATATTTTTA-TTA
*
1411258 TTT-TTATATTTTATATAA
1 TTTATTATATTTT-TATTA
1411276 TTTA
1 TTTA
1411280 CCATAATATT
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
16 9 0.21
17 3 0.07
18 29 0.67
19 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTATATTTTTATTA
Found at i:1411234 original size:23 final size:21
Alignment explanation
Indices: 1411201--1411269 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 21
1411191 AATATATTTA
*
1411201 ATTTTTTATTATATTTTTATT
1 ATTTTTAATTATATTTTTATT
*
1411222 ATTTATTAAATTAT-TTTAATATT
1 ATTT-TT-AATTATATTT-TTATT
1411245 ATATTTTAATT-TATTTTTA-T
1 AT-TTTTAATTATATTTTTATT
1411265 ATTTT
1 ATTTT
1411270 ATATAATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 7 0.17
22 12 0.30
23 13 0.32
24 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTTAATTATATTTTTATT
Found at i:1411244 original size:46 final size:45
Alignment explanation
Indices: 1411145--1411277 Score: 116
Period size: 45 Copynumber: 3.0 Consensus size: 45
1411135 ATTTTTATAA
* * *
1411145 ATTAATATTTTATTTTCT-TTATATTTTAATAAATTTATATAATTAT
1 ATTAATA-TTTATTTTTTATTATATTTTTAT-TATTTATATAATTAT
*
1411191 AAT-ATATTTAATTTTTTATTATATTTTTATTATTTAT-TAAATTAT
1 ATTAATATTT-ATTTTTTATTATATTTTTATTATTTATAT-AATTAT
* *
1411236 TTTAATA-TTATATTTTAATT-TATTTTTA-TATTTTATATAATT
1 ATTAATATTTAT-TTTTTATTATATTTTTATTA-TTTATATAATT
1411278 TACCATAATA
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
43 2 0.03
44 23 0.32
45 32 0.44
46 16 0.22
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (45 bp):
ATTAATATTTATTTTTTATTATATTTTTATTATTTATATAATTAT
Found at i:1413949 original size:30 final size:30
Alignment explanation
Indices: 1413913--1413972 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1413903 AATTTTAACA
* *
1413913 ATATTAAATAA-TAATTATTTATTTAAATAT
1 ATATTAAAAAATTAA-TATATATTTAAATAT
*
1413943 ATATTAAAAAATTAATATATATTTATATAT
1 ATATTAAAAAATTAATATATATTTAAATAT
1413973 TAAAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
ATATTAAAAAATTAATATATATTTAAATAT
Found at i:1414554 original size:19 final size:18
Alignment explanation
Indices: 1414513--1414565 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
1414503 TATTTTAAAA
*
1414513 AAATAAAAATATAAA-ATT
1 AAATAATAAT-TAAATATT
1414531 AAATAATAATTAAATATGT
1 AAATAATAATTAAATAT-T
1414550 AAATAGAT-ATTAAATA
1 AAATA-ATAATTAAATA
1414566 ATATCGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 4 0.13
18 11 0.35
19 14 0.45
20 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (18 bp):
AAATAATAATTAAATATT
Found at i:1416611 original size:16 final size:16
Alignment explanation
Indices: 1416592--1416622 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1416582 TTTTTTACAA
1416592 ATCAAACAATCAATCG
1 ATCAAACAATCAATCG
*
1416608 ATCAATCAATCAATC
1 ATCAAACAATCAATC
1416623 TTTATTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.26, G:0.03, T:0.23
Consensus pattern (16 bp):
ATCAAACAATCAATCG
Found at i:1418032 original size:22 final size:22
Alignment explanation
Indices: 1417974--1418033 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
1417964 ACTTATAAAT
1417974 TTAT-ATAAATTTATA--TATA
1 TTATAATAAATTTATATTTATA
* **
1417993 TTAATATTTTATTT-TATTTATA
1 TT-ATAATAAATTTATATTTATA
1418015 TTATAATAAATTTATATTT
1 TTATAATAAATTTATATTT
1418034 TTATATTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 2 0.07
20 4 0.13
21 13 0.43
22 11 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATAATAAATTTATATTTATA
Found at i:1418074 original size:21 final size:21
Alignment explanation
Indices: 1418037--1418091 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
1418027 TATATTTTTA
*
1418037 TATTTTTATTATTTATC-AAAT
1 TATTTTTA-TATATATCTAAAT
*
1418058 TATTTTTATATCATATCTTAATT
1 TATTTTTATAT-ATATC-TAAAT
1418081 TATTTTTATAT
1 TATTTTTATAT
1418092 TTTACATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.10
21 12 0.41
23 14 0.48
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTTATATATATCTAAAT
Found at i:1421196 original size:34 final size:34
Alignment explanation
Indices: 1421150--1421266 Score: 189
Period size: 34 Copynumber: 3.4 Consensus size: 34
1421140 CTAACATATT
* *
1421150 ACCTAGCACACCTAACATTTTCACCAAATACATC
1 ACCTAACACACCTAACATTCTCACCAAATACATC
* * *
1421184 ACTTAACGCACCTAACATTCTCACCAAATACCTC
1 ACCTAACACACCTAACATTCTCACCAAATACATC
1421218 ACCTAACACACCTAACATTCTCACCAAATACATC
1 ACCTAACACACCTAACATTCTCACCAAATACATC
1421252 ACCTAACACACCTAA
1 ACCTAACACACCTAA
1421267 TATGCTTTAT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 75 1.00
ACGTcount: A:0.39, C:0.38, G:0.02, T:0.21
Consensus pattern (34 bp):
ACCTAACACACCTAACATTCTCACCAAATACATC
Found at i:1426046 original size:34 final size:34
Alignment explanation
Indices: 1425995--1426111 Score: 189
Period size: 34 Copynumber: 3.4 Consensus size: 34
1425985 CTAACATATT
* *
1425995 ACCTAACACACCTAACATTTTTACCAAATACATC
1 ACCTAACACACCTAACATTCTCACCAAATACATC
* *
1426029 ACTTAACGCACCTAACATTCTCACCAAATACATC
1 ACCTAACACACCTAACATTCTCACCAAATACATC
1426063 ACCTAACACACCTAACATTCTCACCAAATACATC
1 ACCTAACACACCTAACATTCTCACCAAATACATC
*
1426097 ACCTAACATACCTAA
1 ACCTAACACACCTAA
1426112 TATGCTTTAC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 76 1.00
ACGTcount: A:0.41, C:0.35, G:0.01, T:0.23
Consensus pattern (34 bp):
ACCTAACACACCTAACATTCTCACCAAATACATC
Found at i:1427304 original size:16 final size:16
Alignment explanation
Indices: 1427266--1427297 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1427256 CCAAGCTCAT
*
1427266 AAAAAAAATTAAAGGC
1 AAAATAAATTAAAGGC
1427282 AAAATAAATTAAAGGC
1 AAAATAAATTAAAGGC
1427298 CTAATAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.12, T:0.16
Consensus pattern (16 bp):
AAAATAAATTAAAGGC
Found at i:1430886 original size:50 final size:50
Alignment explanation
Indices: 1430817--1431025 Score: 330
Period size: 50 Copynumber: 4.2 Consensus size: 50
1430807 AGTTGTTGCC
* *
1430817 ATTGTTGACTATCCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
1430867 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* * *
1430917 ATTGTTGACGATGCTTCACCAACCTTTGGCAATAGA-AGGAGGTGACCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
* *
1430967 ATTGTTGACGATTCTTCACCAACCTTTGACAATCGAGGGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1431017 ATTGTTGAC
1 ATTGTTGAC
1431026 TCTAAGTATA
Statistics
Matches: 145, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
50 145 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:1435476 original size:50 final size:49
Alignment explanation
Indices: 1435407--1435565 Score: 255
Period size: 50 Copynumber: 3.2 Consensus size: 49
1435397 AGTTATTGCC
* *
1435407 ATTGTTGACTATCCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAG-GAGGTGGCCATA
* *
1435457 ATTGTTGACGATTTTTCACCAACCTTTGACAATAGAGGGAGGTGGCGATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-GGAGGTGGCCATA
1435507 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGAAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGG-AGGTGGCCATA
1435557 ATTGTTGAC
1 ATTGTTGAC
1435566 TCTAAGTATA
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
49 2 0.02
50 98 0.97
51 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (49 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGAGGTGGCCATA
Found at i:1438533 original size:16 final size:16
Alignment explanation
Indices: 1438514--1438554 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
1438504 TACAGGTGTA
*
1438514 CAAGTAAACTACCACT
1 CAAGTAAACTACCAAT
*
1438530 CAAGTAAACTACTAAT
1 CAAGTAAACTACCAAT
1438546 CAAGTAAAC
1 CAAGTAAAC
1438555 ATGGCTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (16 bp):
CAAGTAAACTACCAAT
Found at i:1440868 original size:78 final size:77
Alignment explanation
Indices: 1440775--1440966 Score: 192
Period size: 78 Copynumber: 2.5 Consensus size: 77
1440765 TGAAAAATTT
* * * * *
1440775 AATATTTTGGAAATAAAGACGGGGTTGGAATATCCCTC-ATAAATAACGGGGCTGGAATATC-TC
1 AATATTCTGAAAATAAA-ACAGGGTTGGAGTATCCCTCGA-AAATAACGAGGCTGGAATATCAT-
* * *
1440838 CGGTTATGGAAAGTC
63 CGATTATAGAAAATC
* * *
1440853 AATATTCTGAAAATAAAATTA-GGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCATC
1 AATATTCTGAAAATAAAA-CAGGGTTGGAGTAT-CCCTCGAAAATAACGAGGCTGGAATATCATC
1440917 GATTATAGAAAATC
64 GATTATAGAAAATC
* *
1440931 GATGTTCTGAAAATAAAATCAGGGTTGGAGTATCCC
1 AATATTCTGAAAATAAAA-CAGGGTTGGAGTATCCC
1440967 GATGGTGGAA
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
77 11 0.12
78 71 0.75
79 13 0.14
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (77 bp):
AATATTCTGAAAATAAAACAGGGTTGGAGTATCCCTCGAAAATAACGAGGCTGGAATATCATCGA
TTATAGAAAATC
Found at i:1440886 original size:77 final size:78
Alignment explanation
Indices: 1440796--1440966 Score: 204
Period size: 78 Copynumber: 2.2 Consensus size: 78
1440786 AATAAAGACG
* * * * *
1440796 GGGTTGGAATATCCCTC-ATAAATAACGGGGCTGGAATATC-TCCGGTTATGGAAAGTCAATATT
1 GGGTTGGAGTATCCCTCGA-AAATAACGAGGCTGGAATATCAT-CGATTATAGAAAATCAATATT
*
1440859 CTGAAAATAAAATTA
64 CTGAAAATAAAATCA
* * * *
1440874 -GGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCATCGATTATAGAAAATCGATGTTC
1 GGGTTGGAGTAT-CCCTCGAAAATAACGAGGCTGGAATATCATCGATTATAGAAAATCAATATTC
1440938 TGAAAATAAAATCA
65 TGAAAATAAAATCA
1440952 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
1440967 GATGGTGGAA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
77 10 0.13
78 56 0.71
79 13 0.16
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (78 bp):
GGGTTGGAGTATCCCTCGAAAATAACGAGGCTGGAATATCATCGATTATAGAAAATCAATATTCT
GAAAATAAAATCA
Found at i:1441058 original size:79 final size:78
Alignment explanation
Indices: 1440952--1441255 Score: 326
Period size: 79 Copynumber: 3.9 Consensus size: 78
1440942 AATAAAATCA
** ** * *
1440952 GGGTTGGAGTATCCCGATGGTGGAAAATT-AGTGTTTTGGAAATAAAATCGGGGTTAGAGTATCC
1 GGGTTGGAGTATCCCGATTATGGAAAATTGA-TGTTTTAAAAATAAAATCAGGATTAGAGTATCC
*
1441016 CCTTGAAAATAACG
65 CCTCGAAAATAACG
* * * * * *
1441030 GGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTGAAAATAAAACCAGGGTTGGAGCATCC
1 GGGTTGGAGTAT-CCCGATTATGGAAAATTGATGTTTTAAAAATAAAATCAGGATTAGAGTATCC
1441095 CCTCGAAAATAACG
65 CCTCGAAAATAACG
* ** * * * *
1441109 GGATTGGAGTATCCCTGATTATAAAAAATTGGTGTTTTAGAAATAAAATC-GGCATTTGAGTATT
1 GGGTTGGAGTATCCC-GATTATGGAAAATTGATGTTTTAAAAATAAAATCAGG-ATTAGAGTATC
* *
1441173 CCCTCAAAAATAATG
64 CCCTCGAAAATAACG
* * *
1441188 GGGTTGGAGTATCCCGATAATGAAAAATCGATGTTTTAAAAAT-AAATCAGGATTAGAGTATCCC
1 GGGTTGGAGTATCCCGATTATGGAAAATTGATGTTTTAAAAATAAAATCAGGATTAGAGTATCCC
1441252 CTCG
66 CTCG
1441256 GAAGTAAAAA
Statistics
Matches: 191, Mismatches: 30, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
77 19 0.10
78 42 0.22
79 129 0.68
80 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (78 bp):
GGGTTGGAGTATCCCGATTATGGAAAATTGATGTTTTAAAAATAAAATCAGGATTAGAGTATCCC
CTCGAAAATAACG
Found at i:1443954 original size:34 final size:34
Alignment explanation
Indices: 1443910--1443993 Score: 123
Period size: 34 Copynumber: 2.5 Consensus size: 34
1443900 CTTGCTTTTT
*
1443910 GAGGATAAAGGAAAAGGAGTACGTCCTGCTCTTC
1 GAGGATAAAGGAAAAGGAGTACGTCCTGCTCTTA
* * *
1443944 GAGGACAAAGGAAAAAGAGTATGTCCTGCTCTTA
1 GAGGATAAAGGAAAAGGAGTACGTCCTGCTCTTA
*
1443978 AAGGATAAAGGAAAAG
1 GAGGATAAAGGAAAAG
1443994 AGAATAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.18
Consensus pattern (34 bp):
GAGGATAAAGGAAAAGGAGTACGTCCTGCTCTTA
Found at i:1444028 original size:40 final size:42
Alignment explanation
Indices: 1443979--1444084 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 42
1443969 CTGCTCTTAA
*
1443979 AGGATAAAGGAAAAGA-G-AATAAAAT-TGGTCCTACTCCTTG
1 AGGACAAAGGAAAAGAGGAAATAAAATGT-GTCCTACTCCTTG
* * *
1444019 AGGACAAAGGAAAAAAAGGAAATAAAATGTGTCCTGCTCTTTG
1 AGGACAAAGG-AAAAGAGGAAATAAAATGTGTCCTACTCCTTG
*
1444062 AGGACTAAGGAAAAGAAGGAAAT
1 AGGACAAAGGAAAAG-AGGAAAT
1444085 TAAAGCGCGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
40 9 0.16
41 5 0.09
42 5 0.09
43 35 0.64
44 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.25, T:0.19
Consensus pattern (42 bp):
AGGACAAAGGAAAAGAGGAAATAAAATGTGTCCTACTCCTTG
Found at i:1444053 original size:43 final size:43
Alignment explanation
Indices: 1443996--1444084 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
1443986 AGGAAAAGAG
1443996 AATAAAATTGGTCCTACTCCTTGAGGACAAAGGAAAAAAAGGA
1 AATAAAATTGGTCCTACTCCTTGAGGACAAAGGAAAAAAAGGA
* * * *
1444039 AATAAAA-TGTGTCCTGCTCTTTGAGGACTAAGGAAAAGAAGGA
1 AATAAAATTG-GTCCTACTCCTTGAGGACAAAGGAAAAAAAGGA
1444082 AAT
1 AAT
1444085 TAAAGCGCGC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 2 0.05
43 39 0.95
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.21
Consensus pattern (43 bp):
AATAAAATTGGTCCTACTCCTTGAGGACAAAGGAAAAAAAGGA
Found at i:1444111 original size:44 final size:43
Alignment explanation
Indices: 1444016--1444112 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 43
1444006 GTCCTACTCC
* * * *
1444016 TTGAGGACAAAGGAAAAAAAGGAAATAAAATGTGTCCTGCTCT
1 TTGAGGACTAAGGAAAAAAAGGAAATAAAACGCGCCCTGCTCT
* *
1444059 TTGAGGACTAAGGAAAAGAAGGAAATTAAAGCGCGCCCTGCTCT
1 TTGAGGACTAAGGAAAAAAAGGAAA-TAAAACGCGCCCTGCTCT
*
1444103 TTGGGGACTA
1 TTGAGGACTA
1444113 GAAGGTGCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 23 0.50
44 23 0.50
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (43 bp):
TTGAGGACTAAGGAAAAAAAGGAAATAAAACGCGCCCTGCTCT
Found at i:1444413 original size:183 final size:183
Alignment explanation
Indices: 1444097--1444484 Score: 471
Period size: 183 Copynumber: 2.1 Consensus size: 183
1444087 AAGCGCGCCC
* **
1444097 TGCTCTTTGGGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCATCTTAC
1 TGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCTTAC
* * * * ** * *
1444161 TCTTTAAGGATGAAAAGGTGCCACCAGCTCGTGTGAGTTTTAAAAGGAAAAGGTATCCTGCTTTT
65 TCTTTAAGGATGAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAGAAAAAGACATCCTACTCTT
* * * *
1444226 TGAGGACTGAAAGATGCCACTAACTTGTGTGGGCTTTAAAAGGAAAATG-CGTCA
130 TGAGGACTAAAAGATGCCACCAACTTGTATGGGCTTTAAAA-GAAAAAGACGTCA
* * *
1444280 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAATGA-AAAGACGT-TCTC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAG-CATCT-TA
* * * * *
1444343 CTCTTTAAGGACT-AGAAGGTGCCACCAACTTATGTGGGCTTTAAAATAAAAAGACGTCCTACTC
64 CTCTTTAAGGA-TGAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAGAAAAAGACATCCTACTC
* *
1444407 TTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAAGACGTCC
128 TTTGAGGACTAAAAGATGCCACCAACTTGTATGGGCTTTAAAAGAAAAAGACGTCA
1444463 TGCTCTTTGAGGACTGAAAGGT
1 TGCTCTTTGAGGACTGAAAGGT
1444485 TAAAAGGTTT
Statistics
Matches: 175, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
182 11 0.06
183 162 0.93
184 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (183 bp):
TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCTTACT
CTTTAAGGATGAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAGAAAAAGACATCCTACTCTTT
GAGGACTAAAAGATGCCACCAACTTGTATGGGCTTTAAAAGAAAAAGACGTCA
Found at i:1444483 original size:61 final size:61
Alignment explanation
Indices: 1444095--1444484 Score: 423
Period size: 61 Copynumber: 6.4 Consensus size: 61
1444085 TAAAGCGCGC
* * * * *
1444095 CCTGCTCTTTGGGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAAG-CAT
1 CCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGACGT
* * * * * * * * ***
1444156 CTTACTCTTTAAGGA-TGAAAAGGTGCCACCAGCTCGTGTGAGTTTTAAAAGGAAAAGGTAT
1 CCTGCTCTTTGAGGACTG-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGACGT
* * * *
1444217 CCTGCTTTTTGAGGACTGAAAGATGCCACTAACTTGTGTGGGCTTTAAAAGGAAAATG-CGT
1 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGACGT
*
1444278 CATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAATG-AAAAGACGT
1 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGACGT
* * * * *
1444339 TCTCCTCTTTAAGGACT-AGAAGGTGCCACCAACTTATGTGGGCTTTAAAATAAAAAGACGT
1 CCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGACGT
* * *
1444400 CCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAAGACGT
1 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGACGT
1444461 CCTGCTCTTTGAGGACTGAAAGGT
1 CCTGCTCTTTGAGGACTGAAAGGT
1444485 TAAAAGGTTT
Statistics
Matches: 273, Mismatches: 47, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
60 13 0.05
61 251 0.92
62 9 0.03
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (61 bp):
CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGACGT
Found at i:1452163 original size:22 final size:23
Alignment explanation
Indices: 1452129--1452173 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
1452119 AAAAAAAAAA
1452129 AAAAAAAAAAAAG-GGGCTTTCC
1 AAAAAAAAAAAAGTGGGCTTTCC
** *
1452151 AAAAAAACCAAAGTGGGTTTTCC
1 AAAAAAAAAAAAGTGGGCTTTCC
1452174 GATTGAGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (23 bp):
AAAAAAAAAAAAGTGGGCTTTCC
Found at i:1452566 original size:11 final size:11
Alignment explanation
Indices: 1452528--1452568 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
1452518 AAATTTAGGT
1452528 AAAAAAGAAAG
1 AAAAAAGAAAG
*
1452539 AAAGAAGATGAAG
1 AAAAAAGA--AAG
1452552 AAAAAAGAAAG
1 AAAAAAGAAAG
1452563 AAAAAA
1 AAAAAA
1452569 AATATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:1452579 original size:17 final size:17
Alignment explanation
Indices: 1452559--1452594 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1452549 AAGAAAAAAG
1452559 AAAGAAAAAAAATATGA
1 AAAGAAAAAAAATATGA
1452576 AAAGAAAAAAAATATGA
1 AAAGAAAAAAAATATGA
1452593 AA
1 AA
1452595 TGGAGTGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAGAAAAAAAATATGA
Found at i:1452872 original size:10 final size:10
Alignment explanation
Indices: 1452857--1452885 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1452847 TTTTCGTAGG
1452857 TGTTTTTTTT
1 TGTTTTTTTT
1452867 TGTTTTTTTT
1 TGTTTTTTTT
1452877 T-TTTTTTTT
1 TGTTTTTTTT
1452886 CATGCTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TGTTTTTTTT
Found at i:1460402 original size:30 final size:31
Alignment explanation
Indices: 1460362--1460419 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
1460352 GTACTGTGAC
*
1460362 CTTTTCAAAGTCCACGACTCAGTGGCATTTT
1 CTTTTCAAAGTCCACAACTCAGTGGCATTTT
*
1460393 CTTTT-AAAGTCCACAACTCCGTGGCAT
1 CTTTTCAAAGTCCACAACTCAGTGGCAT
1460420 CCTTTTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (31 bp):
CTTTTCAAAGTCCACAACTCAGTGGCATTTT
Found at i:1460454 original size:46 final size:46
Alignment explanation
Indices: 1460387--1460643 Score: 176
Period size: 54 Copynumber: 5.0 Consensus size: 46
1460377 GACTCAGTGG
* *
1460387 CATTTTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTTCA
1 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1460433 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
** * *
1460479 CAACTCCGTGGCACCCTTTCAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 C-A-T---T---TTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
*
1460533 CAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCA
1 C-A-T---T----TTCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCA
**
1460588 CAACTCCGTGGCCCCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 C-A-T---T----TTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1460642 CA
1 CA
1460644 ACTCCGTGGC
Statistics
Matches: 189, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
46 45 0.24
47 1 0.01
48 1 0.01
51 1 0.01
53 1 0.01
54 82 0.43
55 58 0.31
ACGTcount: A:0.23, C:0.34, G:0.13, T:0.30
Consensus pattern (46 bp):
CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
Found at i:1460478 original size:27 final size:27
Alignment explanation
Indices: 1460439--1461886 Score: 2410
Period size: 27 Copynumber: 53.0 Consensus size: 27
1460429 TTCACATTTT
1460439 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1460467 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1460494 CTTTCAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1460521 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1460548 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1460576 CTTTTAAGTCCACAACTCCGTGGCCCC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1460603 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1460630 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1460658 CTTTTAAGTCCACAGCTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1460685 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1460713 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1460740 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1460767 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1460795 CTTTTAAGTTCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1460823 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1460850 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1460877 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1460905 CTTTTAAGTTCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1460932 CTTTTAGGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1460959 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1460986 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461013 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1461041 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461068 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461095 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461122 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1461149 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1461176 CTTTTAAAGTCCACAATTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1461204 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1461231 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1461259 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461286 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1461313 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461340 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461367 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1461394 CTTTTAAGTCCATAACTTCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1461422 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461449 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1461477 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461504 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1461531 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1461558 CTTTTAAGTCCATAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1461585 CTTTTAAGTCCACAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1461613 CTGTTTAAGACCACAACTCCGTGGCACC
1 CT-TTTAAGTCCACAACTCCGTGGCACC
* * **
1461641 CTTTTAAGTCCATAACTTCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461668 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1461695 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461722 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461749 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1461777 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1461805 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1461832 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1461859 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1461886 C
1 C
1461887 ATTTCAAAGC
Statistics
Matches: 1337, Mismatches: 70, Indels: 27
0.93 0.05 0.02
Matches are distributed among these distances:
27 969 0.72
28 347 0.26
29 21 0.02
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1460696 original size:191 final size:189
Alignment explanation
Indices: 1460439--1461886 Score: 2410
Period size: 191 Copynumber: 7.6 Consensus size: 189
1460429 TTCACATTTT
*
1460439 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTCAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
1460504 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
*
1460569 GGCATCCCTTTTAAGTCCACAACTCCGTGGCCCCCTTTTAAGTCCACAACTCCGTGGCACC
130 GGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1460630 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAGCTCCGTGGCATCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1460695 CACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
65 CACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
*
1460760 TGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTTCACAACTCCGTGGCATCC
129 TGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA-CC
1460823 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
1460888 ACAACTCCGTGGCATCCCTTTTAAGTTCACAACTCCGTGGCACCCTTTTAGGTCCACAACTCCGT
66 ACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
* *
1460953 GGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGTGGCACC
130 GGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1461013 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1461078 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
* *
1461143 GGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAATTCCGTGGCACC
130 GGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* * * *
1461204 CTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
1461269 CACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
1461334 GGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
130 GGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
1461394 CTTTTAAGTCCATAACTTCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
* *
1461459 CCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCG
64 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
* *
1461524 TGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCACC
129 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
1461585 CTTTTAAGTCCACAACTCTGTGGCATCTCTGTTTAAGACCACAACTCCGTGGCACCCTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCT-TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
* * ** *
1461650 CCATAACTTCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCG
64 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
1461715 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
129 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
1461777 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * *
1461842 CACAACTCCGTGGCATCCTTTTAAATCCACAACTCTGTGGCACCC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
1461887 ATTTCAAAGC
Statistics
Matches: 1183, Mismatches: 63, Indels: 22
0.93 0.05 0.02
Matches are distributed among these distances:
190 205 0.17
191 682 0.58
192 269 0.23
193 27 0.02
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (189 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTG
GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1461188 original size:218 final size:217
Alignment explanation
Indices: 1460439--1461901 Score: 2407
Period size: 218 Copynumber: 6.7 Consensus size: 217
1460429 TTCACATTTT
*
1460439 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTCAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
1460504 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-TCCTTTTAAGTCCACAACTCCG
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACT-CTTTTAAGTCCACAACTCTG
*
1460568 TGGCATCCCTTTT-AAGTCCACAACTCCGTGGCCCCCTTTTAAGTCCACAACTCCGTGGCACCCT
129 TGGCA-CCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCT
1460632 TTTAAGTCCACAACTCCGTGGCATCC
193 TTTAAGTCCACAACTCCGTGGCA-CC
* *
1460658 CTTTTAAGTCCACAGCTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* *
1460723 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGT
*
1460788 GGCATCCCTTTT-AAGTTCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCT
130 GGCA-CCCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCT
1460852 TTTAAGTCCACAACTCCGTGGCACC
193 TTTAAGTCCACAACTCCGTGGCACC
* *
1460877 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTTCACAACTCCGTGGCACCCTTTTAGGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1460942 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGT
1461007 GGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
130 GGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
1461072 TAAGTCCACAACTCCGTGGCACC
195 TAAGTCCACAACTCCGTGGCACC
1461095 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * * *
1461160 ACAACTCTGTGGCACCCTTTTAAAGTCCACAATTCCGTGGCACCCTTTTTAGTCCACAACTCTGT
66 ACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGT
* * *
1461225 GGCACCCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTT
130 GGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
1461290 TAAGTCCACAACTCCGTGGCACC
195 TAAGTCCACAACTCCGTGGCACC
*
1461313 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
1461378 ACAACTCCGTGGCACCCTTTTAAGTCCATAACTTCGTGGCATCTCTTTTAAGTCCACAACTCTGT
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CTCTTTTAAGTCCACAACTCTGT
* *
1461443 GGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTT
130 GGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
1461508 TAAGTCCACAACTCCGTGGCACC
195 TAAGTCCACAACTCCGTGGCACC
* *
1461531 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * * * *
1461596 ACAACTCTGTGGCATCTCTGTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCATAACT-TC
66 ACAACTCCGTGGCA-CCCT-TTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCT-
** *
1461660 GTGGCATTCTTTT-AAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCT
128 GTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCT
1461724 TTTAAGTCCACAACTCCGTGGCACC
193 TTTAAGTCCACAACTCCGTGGCACC
1461749 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
* *
1461814 CCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-TCCTTTTAAATCCACAACTCT
64 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACT-CTTTTAAGTCCACAACTCT
* *
1461878 GTGGCACCCATTTCAAAGCCCACA
128 GTGGCACCC-TTTTAAAGTCCACA
1461902 CAAGTTGGTG
Statistics
Matches: 1172, Mismatches: 56, Indels: 31
0.93 0.04 0.02
Matches are distributed among these distances:
217 75 0.06
218 667 0.57
219 296 0.25
220 134 0.11
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (217 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGTG
GCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
AAGTCCACAACTCCGTGGCACC
Found at i:1461927 original size:32 final size:32
Alignment explanation
Indices: 1461869--1463049 Score: 1758
Period size: 32 Copynumber: 37.8 Consensus size: 32
1461859 CTTTTAAATC
* *
1461869 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1461900 CACAAGTTGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1461932 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1461964 CACAAGTCGGTGGCAA-CCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1461995 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462027 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462059 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462091 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* ** * *
1462122 CATAAGTAAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462152 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462184 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1462216 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462248 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
1462279 CACAAGTAAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462309 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462341 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1462373 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462405 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462437 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1462468 CATAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462500 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462532 CACAAGTCGGTGGCAACCCATTTCAAAG--C-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * * *
1462561 CACAAGTTAGTGGC-A-TCTTTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1462591 CACAAGTTGGTGGC-ATCC-TTTCAAAGCCC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1462620 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1462648 CACAAGTCGGGTGGCAATCCATTTCAAAG-CC-
1 CACAAGTC-GGTGGCAACCCATTTCAAAGCCCA
** * *
1462679 CAC-AGTTAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462708 CACAAGTCGGTGGCAA-CCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462739 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1462771 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462803 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462835 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1462866 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462898 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1462930 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1462962 CACAAGTCGGTGGCGA-CCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1462993 CACAAGTCGG-GGCAACCCATTT-AAAGCTCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** ** *
1463023 TGCAAGTTAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
1463050 TCACCATTTT
Statistics
Matches: 1063, Mismatches: 64, Indels: 45
0.91 0.05 0.04
Matches are distributed among these distances:
27 18 0.02
28 14 0.01
29 50 0.05
30 106 0.10
31 245 0.23
32 630 0.59
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:1462111 original size:127 final size:127
Alignment explanation
Indices: 1461869--1463049 Score: 1748
Period size: 127 Copynumber: 9.5 Consensus size: 127
1461859 CTTTTAAATC
* * * *
1461869 CACAACTCTGTGGC-ACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
1461933 ACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
1461995 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1462060 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
* ** * *
1462122 CATAAGTAAGTGGC-A-TCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1462185 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
** * *
1462248 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCACACAAGTAAGTGGC-A-TCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1462310 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
*
1462373 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
1462438 ACAAGTCGGTGGC-ACCCATTTCAAAGCCCACATAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1462500 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAG--C-C
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
** * * * * *
1462562 ACAAGTTAGTGGC-A-TCTTTTCAAAGTCCACACAAGTTGGTGGCATCC-TTTCAAAGCCC-
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
* * *
1462620 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTCGGGTGGCAATCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTC-GGTGGCAACCCATTTCAAAGCCCA
** * * *
1462679 CAC-AGTTAGTGGC-A-TCATTCCAAAGCCCACACAAGTCGGTGGCAACCATTTCAAAGCCCA
65 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
*
1462739 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1462804 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
*
1462866 CATAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1462931 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCGA-CCTTTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
* ** ** *
1462993 CACAAGTCGG-GGCAACCCATTT-AAAGCTCATGCAAGTTAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
1463050 TCACCATTTT
Statistics
Matches: 969, Mismatches: 66, Indels: 41
0.90 0.06 0.04
Matches are distributed among these distances:
116 8 0.01
117 60 0.06
118 23 0.02
119 16 0.02
120 16 0.02
121 18 0.02
122 23 0.02
123 34 0.04
124 16 0.02
125 219 0.23
126 83 0.09
127 425 0.44
128 28 0.03
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (127 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
Found at i:1463917 original size:1 final size:1
Alignment explanation
Indices: 1463873--1463901 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
1463863 GGAGGGATCG
1463873 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1463902 GGGGCTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Done.