Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_pilon, whole genome shotgun sequence
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: 3296903
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 19
Found at i:1889408 original size:33 final size:33
Alignment explanation
Indices: 1889371--1889450 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
1889361 AGAGCGAGAA
1889371 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1889404 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
1889437 AAACCAAAATCGCA
1 AAATGAAAATCGCA
1889451 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:1889468 original size:19 final size:19
Alignment explanation
Indices: 1889446--1889573 Score: 69
Period size: 19 Copynumber: 7.1 Consensus size: 19
1889436 GAAACCAAAA
*
1889446 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1889465 TCGCGTTGCGA----C-TC
1 TCGCGTTGCGATTTTCATT
*
1889479 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1889498 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
1889512 TCTCGTTGTGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
1889532 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
1889552 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1889572 TC
1 TC
1889574 AACCAAAAGA
Statistics
Matches: 83, Mismatches: 14, Indels: 24
0.69 0.12 0.20
Matches are distributed among these distances:
14 20 0.24
15 1 0.01
16 3 0.04
17 3 0.04
18 1 0.01
19 23 0.28
20 19 0.23
21 13 0.16
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1889493 original size:33 final size:33
Alignment explanation
Indices: 1889451--1889573 Score: 147
Period size: 33 Copynumber: 3.5 Consensus size: 33
1889441 CAAAATCGCA
1889451 TTGCGATTTTCATTTCGCGTTGCGACTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGACTCTCTCG
*
1889484 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGACTCTCTCG
* *
1889517 TTGTGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTTGCG--A--C--TCTCTCG
1889558 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1889574 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
33 43 0.56
34 2 0.03
35 9 0.12
37 1 0.01
39 2 0.03
40 2 0.03
41 18 0.23
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGACTCTCTCG
Found at i:1889535 original size:21 final size:21
Alignment explanation
Indices: 1889509--1889573 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
1889499 CGCGTTGCGA
*
1889509 TTCTCTCGTTGTGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
1889530 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
1889550 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
1889571 TTC
1 TTC
1889574 AACCAAAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 17 0.47
21 19 0.53
ACGTcount: A:0.11, C:0.25, G:0.15, T:0.49
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1891502 original size:14 final size:14
Alignment explanation
Indices: 1891483--1891539 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1891473 CAAAACTTAA
1891483 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1891497 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
1891516 AATCGCAACGACAG
1 AATCGCAACGAGAG
1891530 AATCGCAACG
1 AATCGCAACG
1891540 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1891520 original size:33 final size:33
Alignment explanation
Indices: 1891481--1891588 Score: 180
Period size: 33 Copynumber: 3.3 Consensus size: 33
1891471 CACAAAACTT
* **
1891481 AAAATCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGACAGAATCGCAACGCGAAACC
1891514 AAAATCGCAACGACAGAATCGCAACGCGAAACC
1 AAAATCGCAACGACAGAATCGCAACGCGAAACC
*
1891547 AAAATCGCAACGACAAAATCGCAACGCGAAACC
1 AAAATCGCAACGACAGAATCGCAACGCGAAACC
1891580 AAAATCGCA
1 AAAATCGCA
1891589 TTGCGATTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.47, C:0.27, G:0.19, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGACAGAATCGCAACGCGAAACC
Found at i:1891521 original size:19 final size:18
Alignment explanation
Indices: 1891497--1891588 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
1891487 GCAACGAGAG
1891497 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
1891516 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
1891530 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
1891549 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
1891563 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
1891582 AATCGCA
1 AATCGCA
1891589 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:1891565 original size:14 final size:14
Alignment explanation
Indices: 1891514--1891572 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
1891504 ACGCGAAATG
1891514 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1891528 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
1891547 AAAATCGCAACGAC
1 AAAATCGCAACGAC
1891561 AAAATCGCAACG
1 AAAATCGCAACG
1891573 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1891606 original size:19 final size:19
Alignment explanation
Indices: 1891584--1891740 Score: 157
Period size: 19 Copynumber: 8.6 Consensus size: 19
1891574 GAAACCAAAA
*
1891584 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1891603 TCGCGTTGCGATTTT-ATT
1 TCGCGTTGCGATTTTCATT
* *
1891621 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1891637 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1891654 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
1891673 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
1891692 T-TCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
1891710 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1891730 TCGTGTTGCGA
1 TCGCGTTGCGA
1891741 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
14 7 0.06
16 7 0.06
17 2 0.02
18 27 0.23
19 60 0.52
20 12 0.10
ACGTcount: A:0.11, C:0.18, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1891733 original size:37 final size:35
Alignment explanation
Indices: 1891589--1891725 Score: 131
Period size: 37 Copynumber: 3.9 Consensus size: 35
1891579 CAAAATCGCA
1891589 TTGCGATTTTCATTTCGCGTTGCGATTTTATTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTATTTCG
*
1891624 CATTGCGA--TTC-TGT--CGTTGCGATTTTCATTTCGCG
1 --TTGCGATTTTCATTTCGCGTTGCGATTTT-ATTT--CG
** *
1891659 TTGCGATTTTGGTTTCGCGTTGCGATTTTGGTTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTT--ATTTCG
*
1891696 TTGCGATTCTCATTTCGCGTTGCGATTTTA
1 TTGCGATTTTCATTTCGCGTTGCGATTTTA
1891726 AGTTTCGTGT
Statistics
Matches: 82, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
32 12 0.15
33 10 0.12
34 2 0.02
35 7 0.09
36 2 0.02
37 34 0.41
38 12 0.15
39 3 0.04
ACGTcount: A:0.10, C:0.18, G:0.23, T:0.48
Consensus pattern (35 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTATTTCG
Found at i:1893661 original size:14 final size:14
Alignment explanation
Indices: 1893642--1893677 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1893632 ATTGTTTAAT
1893642 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1893656 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1893670 TGATTTGT
1 TGATTTGT
1893678 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1893800 original size:19 final size:19
Alignment explanation
Indices: 1893784--1893878 Score: 116
Period size: 19 Copynumber: 5.4 Consensus size: 19
1893774 AAAAATGACT
1893784 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1893803 ATCGCAATGCG-AATGAAA
1 ATCGCAATGCGAAATGAAA
1893821 ATCGCAA--CG--A-G--A
1 ATCGCAATGCGAAATGAAA
*
1893833 ATCGCAATGCGAAACGAAA
1 ATCGCAATGCGAAATGAAA
1893852 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1893872 ATCGCAA
1 ATCGCAA
1893879 CGAGAGAATC
Statistics
Matches: 67, Mismatches: 1, Indels: 15
0.81 0.01 0.18
Matches are distributed among these distances:
12 8 0.12
14 3 0.04
15 1 0.01
16 3 0.04
17 1 0.01
18 14 0.21
19 22 0.33
20 15 0.22
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1893856 original size:49 final size:52
Alignment explanation
Indices: 1893784--1893897 Score: 189
Period size: 49 Copynumber: 2.2 Consensus size: 52
1893774 AAAAATGACT
*
1893784 ATCGCAATGCGAAATGAAAATCGCAATGC-G-AATGAAAATCGCAAC-GAGA
1 ATCGCAATGCGAAACGAAAATCGCAATGCGGAAATGAAAATCGCAACAGAGA
1893833 ATCGCAATGCGAAACGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAACGAAAATCGCAATGCGGAAATGAAAATCGCAAC-AGAGA
1893886 ATCGCAATGCGA
1 ATCGCAATGCGA
1893898 TTTTCATTTC
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
49 28 0.47
50 1 0.02
51 15 0.25
53 16 0.27
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (52 bp):
ATCGCAATGCGAAACGAAAATCGCAATGCGGAAATGAAAATCGCAACAGAGA
Found at i:1893915 original size:19 final size:19
Alignment explanation
Indices: 1893887--1894043 Score: 199
Period size: 19 Copynumber: 8.7 Consensus size: 19
1893877 AACGAGAGAA
*
1893887 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1893906 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1893925 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
1893942 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1893959 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1893978 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1893994 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1894011 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1894030 TCCGCATTGCGATT
1 T-CGCATTGCGATT
1894044 CTCTCGTTGC
Statistics
Matches: 121, Mismatches: 5, Indels: 23
0.81 0.03 0.15
Matches are distributed among these distances:
14 12 0.10
16 12 0.10
17 13 0.11
18 3 0.02
19 59 0.49
20 22 0.18
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1894005 original size:52 final size:53
Alignment explanation
Indices: 1893893--1894065 Score: 339
Period size: 53 Copynumber: 3.3 Consensus size: 53
1893883 AGAATCGCAA
1893893 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1893946 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1893998 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1894051 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
1894066 CGTGTTGCGA
Statistics
Matches: 119, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
52 52 0.44
53 67 0.56
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:1896548 original size:24 final size:24
Alignment explanation
Indices: 1896514--1896560 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1896504 CTGAAACATC
**
1896514 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGAATATTGACCAAT
*
1896538 ATCAAAGTCCGAATATTGACCAA
1 ATCAAAATCCGAATATTGACCAA
1896561 GACCAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGAATATTGACCAAT
Found at i:1896567 original size:24 final size:24
Alignment explanation
Indices: 1896527--1896581 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
1896517 AAAATCCGTG
* *
1896527 TATTGACCAATATCAAAGTCCGAA
1 TATTGACCAAGACCAAAGTCCGAA
* *
1896551 TATTGACCAAGACCAAATTTCGAA
1 TATTGACCAAGACCAAAGTCCGAA
*
1896575 TACTGAC
1 TATTGAC
1896582 TAGTACTCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (24 bp):
TATTGACCAAGACCAAAGTCCGAA
Found at i:1897277 original size:20 final size:20
Alignment explanation
Indices: 1897249--1897477 Score: 203
Period size: 20 Copynumber: 11.4 Consensus size: 20
1897239 AAATTTCAGT
* *
1897249 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
1897269 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
1897289 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
1897309 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
1897329 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
1897349 GTTGCGATATACGGATATGT-
1 GTTGCGATTTACGGAT-TCTC
* * *
1897369 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
1897389 GTTGCTATTTACGGATACAT-
1 GTTGCGATTTACGGATTC-TC
* * *
1897409 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
1897429 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
1897449 GTTGCGATTTTCATATTCAC
1 GTTGCGATTTACGGATTCTC
1897469 GTTGCGATT
1 GTTGCGATT
1897478 CTCATATTCA
Statistics
Matches: 170, Mismatches: 33, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
20 169 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:1897309 original size:40 final size:40
Alignment explanation
Indices: 1897249--1897439 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
1897239 AAATTTCAGT
* * *
1897249 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTATC
* *
1897289 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTATC
* *
1897329 GTTGCGATTTACGGATACGCGTTGCGATATACGGA-TAT-
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTATC
* * *
1897367 GTATTGCGATTTACGGATACGCGTTGCTATTTACGGATACAT-
1 G--TTGCGATTTACAGATACGCGTTGCGATTTACGGAT-TATC
* *
1897409 GTTGCGGTTTACGGATACGCGTTGCGATTTA
1 GTTGCGATTTACAGATACGCGTTGCGATTTA
1897440 TGTGTTCGCG
Statistics
Matches: 137, Mismatches: 10, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 3 0.02
40 130 0.95
42 3 0.02
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (40 bp):
GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTATC
Found at i:1897482 original size:20 final size:20
Alignment explanation
Indices: 1897448--1897499 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1897438 TATGTGTTCG
*
1897448 CGTTGCGATTTTCATATTCA
1 CGTTGCGATTCTCATATTCA
1897468 CGTTGCGATTCTCATATTCA
1 CGTTGCGATTCTCATATTCA
1897488 CGTTGCGATTCT
1 CGTTGCGATTCT
1897500 TGAAAATCGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (20 bp):
CGTTGCGATTCTCATATTCA
Found at i:1898100 original size:15 final size:16
Alignment explanation
Indices: 1898080--1898114 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
1898070 TATATATTTT
1898080 ATTTAAAAAATTTA-A
1 ATTTAAAAAATTTATA
1898095 ATTTAAAAAATTTATA
1 ATTTAAAAAATTTATA
1898111 ATTT
1 ATTT
1898115 TTTTTACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTAAAAAATTTATA
Found at i:1898140 original size:36 final size:37
Alignment explanation
Indices: 1898062--1898140 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
1898052 TACAAGTTGG
* * *
1898062 AAAATATTTATATATTTTATTTAAAAAATTTAAATTT
1 AAAAAATTTATATATTTTATTTAAAAAATTAAAATAT
* *
1898099 AAAAAATTTATA-ATTTTTTTTACAAAATTGAAAATAT
1 AAAAAATTTATATATTTTATTTAAAAAATT-AAAATAT
1898136 AAAAA
1 AAAAA
1898141 GGTTTAATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 15 0.42
37 21 0.58
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (37 bp):
AAAAAATTTATATATTTTATTTAAAAAATTAAAATAT
Found at i:1898542 original size:20 final size:20
Alignment explanation
Indices: 1898517--1898573 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
1898507 CACACTCACA
1898517 GAATGTAAGATTACCAGTGG
1 GAATGTAAGATTACCAGTGG
1898537 GAATGTAAGATTACCAGTGG
1 GAATGTAAGATTACCAGTGG
1898557 GAATGTAAGATTACCAG
1 GAATGTAAGATTACCAG
1898574 AGAATAGGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.25
Consensus pattern (20 bp):
GAATGTAAGATTACCAGTGG
Found at i:1899434 original size:35 final size:35
Alignment explanation
Indices: 1899388--1899464 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
1899378 TACACATTAA
*
1899388 TCAATTACATTCTAAACCCCGAATTCCAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATACT
** *
1899423 TCAATTACATTCTAAACTTCAAATTCCAAAATATT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATACT
1899458 TCAATTA
1 TCAATTA
1899465 TATGCCCAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATACT
Found at i:1901962 original size:3 final size:3
Alignment explanation
Indices: 1901949--1902004 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
1901939 TTTTTTATCG
1901949 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
*
1901993 TTA TTA ATA TTA
1 TTA TTA TTA TTA
1902005 CATTTTACAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 4 0.08
3 41 0.85
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1902057 original size:11 final size:11
Alignment explanation
Indices: 1902041--1902072 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
1902031 CCCAATACAA
1902041 CAAGGCCCAAC
1 CAAGGCCCAAC
1902052 CAAGGCCCAAC
1 CAAGGCCCAAC
1902063 CAAGGCCCAA
1 CAAGGCCCAA
1902073 ACACGAGCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.44, G:0.19, T:0.00
Consensus pattern (11 bp):
CAAGGCCCAAC
Found at i:1902346 original size:25 final size:25
Alignment explanation
Indices: 1902318--1902367 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1902308 CATTAAAATA
*
1902318 GTCCTAAATTCCTAAATATTCGGCT
1 GTCCTAAATCCCTAAATATTCGGCT
1902343 GTCCTAAATCCCTAAATATTCGGCT
1 GTCCTAAATCCCTAAATATTCGGCT
1902368 TTTGGTACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (25 bp):
GTCCTAAATCCCTAAATATTCGGCT
Found at i:1907373 original size:143 final size:145
Alignment explanation
Indices: 1907197--1907484 Score: 546
Period size: 144 Copynumber: 2.0 Consensus size: 145
1907187 AAACATTCCC
1907197 TCTCTTTGAGACCTTGAATATTCTTTCCACCTTGAAACACTGTA-TTATTTTTTAAGACACAAAA
1 TCTCTTTGAGACCTTGAATATTCTTTCCACCTTGAAACACTGTATTTATTTTTTAAGACACAAAA
1907261 GTCATACCCGTACCTTTCTTTGAGCCAATAAAGTCATCATCGTCTTC-TAGACGTAAAACCAACA
66 GTCATACCCGTACCTTTCTTTGAGCCAATAAAGTCATCATCGTCTTCTTAGACGTAAAACCAACA
1907325 TTTT-TACCAATAAA
131 TTTTCTACCAATAAA
1907339 TCTCTTTGAGACCTTGAAATATTCTTTCCACCTTGAAACACTGTATTTATTTTTTAAGACACAAA
1 TCTCTTTGAGACCTTG-AATATTCTTTCCACCTTGAAACACTGTATTTATTTTTTAAGACACAAA
1907404 AGTCATACCCGTACCTTTCTTTGAGCCAATAAAGTCATCATCGTCTTCTTAGACGTAAAACCAAC
65 AGTCATACCCGTACCTTTCTTTGAGCCAATAAAGTCATCATCGTCTTCTTAGACGTAAAACCAAC
1907469 ATTTTCTACCAATAAA
130 ATTTTCTACCAATAAA
1907485 ACCTACAGAC
Statistics
Matches: 142, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
142 16 0.11
143 28 0.20
144 67 0.47
145 21 0.15
146 10 0.07
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (145 bp):
TCTCTTTGAGACCTTGAATATTCTTTCCACCTTGAAACACTGTATTTATTTTTTAAGACACAAAA
GTCATACCCGTACCTTTCTTTGAGCCAATAAAGTCATCATCGTCTTCTTAGACGTAAAACCAACA
TTTTCTACCAATAAA
Found at i:1908014 original size:11 final size:11
Alignment explanation
Indices: 1907982--1908023 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
1907972 AAACAAAGAG
1907982 CAAAGAGAAAAT
1 CAAAGA-AAAAT
1907994 CAAAGCAAAAAT
1 CAAAG-AAAAAT
*
1908006 CAAAGAAAAAG
1 CAAAGAAAAAT
1908017 CAAAGAA
1 CAAAGAA
1908024 CAAAAGAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 12 0.43
12 15 0.54
13 1 0.04
ACGTcount: A:0.69, C:0.12, G:0.14, T:0.05
Consensus pattern (11 bp):
CAAAGAAAAAT
Found at i:1909199 original size:4 final size:4
Alignment explanation
Indices: 1909190--1909241 Score: 77
Period size: 4 Copynumber: 13.0 Consensus size: 4
1909180 AAAAGTATAC
* * *
1909190 ACAT ACAT ACAA ACTT ACAT ACAT ACAT ACAT ACAT ACAC ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1909238 ACAT
1 ACAT
1909242 GATACATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:1909829 original size:106 final size:102
Alignment explanation
Indices: 1909715--1909942 Score: 271
Period size: 106 Copynumber: 2.2 Consensus size: 102
1909705 AACAAATTGC
* *
1909715 GTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTAAATTTGATTCAC-TAAAAACAAAAT
1 GTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCAAATTTGATTCACAT-AAAACAAAAT
* * *
1909779 TAATCTCACCTT-AGATTGTTGTTTCTATCAAAACCAAATTTT
65 TAATCTCA-CTTGAGATCG-T-TTTC--TCAAAAACAAACTTT
* * * * * *
1909821 GTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTT
1 GTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCAAATTTGATTCACATAAAACAAAATT
*
1909886 GATCTCACTTGAGATCGTTTTCTCAAAAACAAACTTT
66 AATCTCACTTGAGATCGTTTTCTCAAAAACAAACTTT
*
1909923 GTCTCGCTTGAGACAATTTC
1 GTCTCGCTTGAGACATTTTC
1909943 TCTAAAAACA
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
102 31 0.29
104 4 0.04
105 4 0.04
106 66 0.62
107 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
GTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCAAATTTGATTCACATAAAACAAAATT
AATCTCACTTGAGATCGTTTTCTCAAAAACAAACTTT
Found at i:1909933 original size:36 final size:36
Alignment explanation
Indices: 1909888--1910007 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
1909878 ACAAAGTTGA
**
1909888 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
1909924 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
1909960 TCTCATTTGAGACTATATCT-T-AAAGCAAA-TTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTT-G
*
1909994 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
1910008 TCATTTTCTC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
33 3 0.04
34 19 0.27
35 8 0.11
36 40 0.57
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:1910296 original size:29 final size:29
Alignment explanation
Indices: 1910254--1910338 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
1910244 TTTCTCTTGA
*
1910254 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTCGTTCCTTTTGAAT
* *
1910283 AAAAATCTTGGAGTTGGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTCGTTCCTTTTGAAT
* *
1910312 AAATATCTTTGAG-TCGTTTCTTTTGAA
1 AAAAATCTTTGAGTTCGTTCCTTTTGAA
1910339 AAACTTTGAG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 12 0.24
29 38 0.76
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (29 bp):
AAAAATCTTTGAGTTCGTTCCTTTTGAAT
Found at i:1910350 original size:24 final size:25
Alignment explanation
Indices: 1910318--1910364 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1910308 GAATAAATAT
* *
1910318 CTTTGAGTC-GTTTCTTTTGAAAAA
1 CTTTGAGTCTATTTATTTTGAAAAA
1910342 CTTTGAGTCTATTTATTTTGAAA
1 CTTTGAGTCTATTTATTTTGAAA
1910365 CAAAGTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.49
Consensus pattern (25 bp):
CTTTGAGTCTATTTATTTTGAAAAA
Found at i:1910515 original size:37 final size:35
Alignment explanation
Indices: 1910465--1910585 Score: 119
Period size: 30 Copynumber: 3.5 Consensus size: 35
1910455 CTTTGAGTTT
*
1910465 GTTTCTTTGGAAACAAAATTCTTTCTCTCTTAAGATA
1 GTTTCTTTTGAAACAAAA-T-TTTCTCTCTTAAGATA
* * * *
1910502 GTTTCTTTTGAAACAAAA----ATCT-TTGAGTTT
1 GTTTCTTTTGAAACAAAATTTTCTCTCTTAAGATA
1910532 GTTTCTTTTGAAACAAAATTTGTCTCTCTTAAGATA
1 GTTTCTTTTGAAACAAAATTT-TCTCTCTTAAGATA
*
1910568 ATTTCTTTTG-AACAAAAT
1 GTTTCTTTTGAAACAAAAT
1910586 CTTTGAATCT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
30 23 0.34
31 3 0.04
35 11 0.16
36 14 0.21
37 17 0.25
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (35 bp):
GTTTCTTTTGAAACAAAATTTTCTCTCTTAAGATA
Found at i:1910524 original size:67 final size:65
Alignment explanation
Indices: 1910449--1910601 Score: 236
Period size: 67 Copynumber: 2.3 Consensus size: 65
1910439 ATTTTGCGAA
* *
1910449 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTCTTTCTCTCTTAAGATAGTTTCTTTTGAA
1 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATT-TGTCTCTCTTAAGATAATTTCTTTTG-A
1910514 AC
64 AC
*
1910516 AAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTGTCTCTCTTAAGATAATTTCTTTTGAAC
1 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTGTCTCTCTTAAGATAATTTCTTTTGAAC
* *
1910581 -AAAATCTTTGAATCTGTTTCT
1 AAAAATCTTTGAGTTTGTTTCT
1910602 CTTAAATTGA
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
64 19 0.23
65 3 0.04
66 24 0.30
67 35 0.43
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (65 bp):
AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTGTCTCTCTTAAGATAATTTCTTTTGAAC
Found at i:1911116 original size:15 final size:15
Alignment explanation
Indices: 1911093--1911136 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
1911083 TTTTGAGTCG
*
1911093 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
1911108 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
1911123 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
1911137 AGATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:1911817 original size:43 final size:43
Alignment explanation
Indices: 1911686--1911832 Score: 149
Period size: 40 Copynumber: 3.4 Consensus size: 43
1911676 GCCGTCCTCG
* * *
1911686 TCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 TCACGTAGGAGCCGTG---TCACCTTTAGACGACCAGAACTCTTCA
* ***
1911732 TCACGTATGAGCCGTGTCA---TTCCCCGACCAGAACTCTTCA
1 TCACGTAGGAGCCGTGTCACCTTTAGACGACCAGAACTCTTCA
1911772 TCACGTAGGAGCCGTGTCACCTTTAGACGACCCA-AACTCTTCA
1 TCACGTAGGAGCCGTGTCACCTTTAGACGA-CCAGAACTCTTCA
* *
1911815 TCACGTATGAGCAGTGTC
1 TCACGTAGGAGCCGTGTC
1911833 GTCCCCAACA
Statistics
Matches: 84, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
40 34 0.40
43 33 0.39
44 3 0.04
46 14 0.17
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (43 bp):
TCACGTAGGAGCCGTGTCACCTTTAGACGACCAGAACTCTTCA
Found at i:1911999 original size:3 final size:3
Alignment explanation
Indices: 1911986--1912031 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
1911976 TTTTTTATCG
1911986 TTA TT- TTA TTA TTA TTA TTA TTA TTA TT- TTA TT- TATA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
1912028 TTA T
1 TTA T
1912032 AATATTACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 7 0.18
3 30 0.79
4 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1912006 original size:23 final size:23
Alignment explanation
Indices: 1911980--1912026 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1911970 TCCGGGTTTT
*
1911980 TTATCGTTATTTTA-TTATTATTA
1 TTATCATTATTTTATTTA-TATTA
*
1912003 TTATTATTATTTTATTTATATTA
1 TTATCATTATTTTATTTATATTA
1912026 T
1 T
1912027 ATTATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
TTATCATTATTTTATTTATATTA
Found at i:1916447 original size:64 final size:64
Alignment explanation
Indices: 1916387--1916507 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
1916377 TAAAATCGGA
*
1916387 TACAAGTCA-AGTCAGGTAAATTTGACACCAGATCCATATCGGGTTCAGGTCAGGTCAAATCAG
1 TACAAGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCAAATCAG
* * * ** **
1916450 TTCAGGTTATTTTCAGGTTGATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCA
1 TACAAGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCA
1916508 TTTTCAGTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
63 6 0.12
64 43 0.88
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (64 bp):
TACAAGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCAAATCAG
Found at i:1917206 original size:216 final size:216
Alignment explanation
Indices: 1916826--1917220 Score: 702
Period size: 216 Copynumber: 1.8 Consensus size: 216
1916816 ATTTAAGAAT
1916826 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* * *
1916891 GGATCAAATTGAAATAATTTTAAATTTTGAGGTTGAAATTAATATAAAAAAGTACTAAATTATAT
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAT
* *
1916956 CCCTTTAAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAATAAGTATAGATCAATTTCATA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATAGATCAATTTCATA
1917021 TGCAAATAAAATTTGGAGTAC
196 TGCAAATAAAATTTGGAGTAC
1917042 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
1917107 GGATCAAATCGAAATGATTTTAAATTGTGAGGTTGAAATTAATACAAAAATGTACTAAATTATA-
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAT
*
1917171 CTCATTTAAAAAGTTATGGGCCAATTAATAAATAGAAATAAGTAATAAGT
131 C-CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGT
1917221 TGAGAAAAAA
Statistics
Matches: 170, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
215 1 0.01
216 169 0.99
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (216 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAT
CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATAGATCAATTTCATA
TGCAAATAAAATTTGGAGTAC
Found at i:1917433 original size:17 final size:15
Alignment explanation
Indices: 1917409--1917454 Score: 67
Period size: 14 Copynumber: 3.0 Consensus size: 15
1917399 GTTTTTTCGG
1917409 TTCGGTTCGGGTTTT
1 TTCGGTTCGGGTTTT
1917424 TTAACGGTTCGGG-TTT
1 TT--CGGTTCGGGTTTT
1917440 TTCGGTTCGGGTTTT
1 TTCGGTTCGGGTTTT
1917455 CGGGTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 9 0.32
15 5 0.18
16 5 0.18
17 9 0.32
ACGTcount: A:0.04, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTCGGTTCGGGTTTT
Found at i:1917932 original size:22 final size:20
Alignment explanation
Indices: 1917896--1917956 Score: 72
Period size: 19 Copynumber: 3.0 Consensus size: 20
1917886 TAATATATTG
1917896 TATAAATT-TATAGTTTATTAA
1 TATAAATTATATAGTTTA-T-A
1917917 TATAAATTATATAGTTTATA
1 TATAAATTATATAGTTTATA
* *
1917937 TATATA-TATATAGTATATA
1 TATAAATTATATAGTTTATA
1917956 T
1 T
1917957 GATTTAGGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.35
20 6 0.16
21 9 0.24
22 9 0.24
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
TATAAATTATATAGTTTATA
Found at i:1918056 original size:16 final size:16
Alignment explanation
Indices: 1918037--1918100 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
1918027 TTTTATACTA
*
1918037 TTTATATAAACTATAG
1 TTTATATGAACTATAG
** *
1918053 TTTATATTTA-TATAC
1 TTTATATGAACTATAG
1918068 TATATATATGAACTATAG
1 T-T-TATATGAACTATAG
*
1918086 TTTACATGAACTATA
1 TTTATATGAACTATA
1918101 TATATAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
15 5 0.13
16 21 0.55
17 7 0.18
18 5 0.13
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTATATGAACTATAG
Found at i:1918069 original size:20 final size:20
Alignment explanation
Indices: 1917999--1918071 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
1917989 TATAAACTAC
*
1917999 ATACTATAATTTATACTTAT
1 ATACTATAATTTATATTTAT
* *
1918019 ATATTATATTTTATACTATTTAT
1 ATACTATA-ATT-TA-TATTTAT
*
1918042 ATAAACTATAGTTTATATTTAT
1 AT--ACTATAATTTATATTTAT
1918064 ATACTATA
1 ATACTATA
1918072 TATATGAACT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
20 13 0.30
21 2 0.05
22 11 0.26
23 10 0.23
24 2 0.05
25 5 0.12
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (20 bp):
ATACTATAATTTATATTTAT
Found at i:1918070 original size:33 final size:32
Alignment explanation
Indices: 1918022--1918112 Score: 109
Period size: 33 Copynumber: 2.9 Consensus size: 32
1918012 TACTTATATA
*
1918022 TTATATTTTATACTATTTATATAAACTATAGT
1 TTATATTTTATACTATATATATAAACTATAGT
*
1918054 TTATATTTATATACTATATATATGAACTATAGT
1 TTATATTT-TATACTATATATATAAACTATAGT
* *
1918087 TTACA--TGA-ACTATATATATAAA-TATA
1 TTATATTTTATACTATATATATAAACTATA
1918113 TACTGAGGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 4 0.08
29 13 0.25
30 1 0.02
31 1 0.02
32 8 0.15
33 26 0.49
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (32 bp):
TTATATTTTATACTATATATATAAACTATAGT
Found at i:1918148 original size:18 final size:18
Alignment explanation
Indices: 1918127--1918338 Score: 94
Period size: 18 Copynumber: 11.9 Consensus size: 18
1918117 GAGGTTGATA
1918127 TTTATATATGAACTATAG
1 TTTATATATGAACTATAG
*
1918145 TTTACATATGAACTATA-
1 TTTATATATGAACTATAG
1918162 --TATATA--AA-TATA-
1 TTTATATATGAACTATAG
* * **
1918174 TATATACTAAG-GTTGATA-
1 TTTATA-TATGAACT-ATAG
*
1918192 TTTATATATTAACTATAG
1 TTTATATATGAACTATAG
* *
1918210 TTTACATATAAACTATATAG
1 TTTATATATGAAC--TATAG
1918230 TTTATATACT-AACTATAG
1 TTTATATA-TGAACTATAG
* *
1918248 TTTACATATAAACTATAG
1 TTTATATATGAACTATAG
*
1918266 TTGATATTACATATGAACTATAA
1 TT--TA-T--ATATGAACTATAG
*
1918289 TTTACATATGAACTATA-
1 TTTATATATGAACTATAG
1918306 --TATATA--AACTATATAG
1 TTTATATATGAAC--TATAG
*
1918322 TTTACATATGAACTATA
1 TTTATATATGAACTATA
1918339 TATAGTTTAT
Statistics
Matches: 151, Mismatches: 18, Indels: 50
0.69 0.08 0.23
Matches are distributed among these distances:
12 4 0.03
13 5 0.03
14 4 0.03
15 16 0.11
17 7 0.05
18 79 0.52
20 20 0.13
21 3 0.02
23 13 0.09
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (18 bp):
TTTATATATGAACTATAG
Found at i:1918196 original size:65 final size:61
Alignment explanation
Indices: 1918070--1918228 Score: 241
Period size: 65 Copynumber: 2.6 Consensus size: 61
1918060 TTATATACTA
*
1918070 TATATATGAACTATAGTTTAC--ATGAACTATATATATAAATATATACTGAGGTTGATATT
1 TATATATGAACTATAGTTTACATATGAACTATATATATAAATATATACTAAGGTTGATATT
1918129 TATATATGAACTATAGTTTACATATGAACTATATATATAAATATATATATACTAAGGTTGATATT
1 TATATATGAACTATAGTTTACATATGAACTATATATAT--A-A-ATATATACTAAGGTTGATATT
* *
1918194 TATATATTAACTATAGTTTACATATAAACTATATA
1 TATATATGAACTATAGTTTACATATGAACTATATA
1918229 GTTTATATAC
Statistics
Matches: 91, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
59 21 0.23
61 15 0.16
63 1 0.01
64 1 0.01
65 53 0.58
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.42
Consensus pattern (61 bp):
TATATATGAACTATAGTTTACATATGAACTATATATATAAATATATACTAAGGTTGATATT
Found at i:1918234 original size:38 final size:38
Alignment explanation
Indices: 1918192--1918340 Score: 157
Period size: 38 Copynumber: 4.0 Consensus size: 38
1918182 AAGGTTGATA
*
1918192 TTTATATATTAACTATAGTTTACATATAAACTATATAG
1 TTTATATACTAACTATAGTTTACATATAAACTATATAG
*
1918230 TTTATATACTAACTATAGTTTACATATAAACTATAGTTG
1 TTTATATACTAACTATAGTTTACATATAAACTATA-TAG
* * *
1918269 ATATTACATA-TGAACTATAATTTACATATGAACTATATA-
1 -T-TTATATACT-AACTATAGTTTACATATAAACTATATAG
* *
1918308 --TATAAACT-A-TATAGTTTACATATGAACTATATA
1 TTTATATACTAACTATAGTTTACATATAAACTATATA
1918341 TAGTTTATTA
Statistics
Matches: 97, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
33 23 0.24
34 1 0.01
35 4 0.04
36 1 0.01
38 34 0.35
39 2 0.02
40 3 0.03
41 29 0.30
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (38 bp):
TTTATATACTAACTATAGTTTACATATAAACTATATAG
Found at i:1918316 original size:31 final size:33
Alignment explanation
Indices: 1918276--1918342 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
1918266 TTGATATTAC
*
1918276 ATATGAACTATA-A-TTTACATATGAACTATAT
1 ATATAAACTATATAGTTTACATATGAACTATAT
1918307 ATATAAACTATATAGTTTACATATGAACTATAT
1 ATATAAACTATATAGTTTACATATGAACTATAT
1918340 ATA
1 ATA
1918343 GTTTATTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
31 11 0.33
32 1 0.03
33 21 0.64
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (33 bp):
ATATAAACTATATAGTTTACATATGAACTATAT
Found at i:1918339 original size:20 final size:20
Alignment explanation
Indices: 1918205--1918340 Score: 116
Period size: 18 Copynumber: 7.2 Consensus size: 20
1918195 ATATATTAAC
*
1918205 TATAGTTTACATATAAACTA
1 TATAGTTTACATATGAACTA
*
1918225 TATAGTTTATATACT-AAC--
1 TATAGTTTACATA-TGAACTA
*
1918243 TATAGTTTACATATAAACTA
1 TATAGTTTACATATGAACTA
*
1918263 TAGTTGATATTACATATGAACTA
1 TA-TAG-T-TTACATATGAACTA
1918286 TA-A-TTTACATATGAACTA
1 TATAGTTTACATATGAACTA
1918304 TATA---T--ATA--AACTA
1 TATAGTTTACATATGAACTA
1918317 TATAGTTTACATATGAACTA
1 TATAGTTTACATATGAACTA
1918337 TATA
1 TATA
1918341 TAGTTTATTA
Statistics
Matches: 96, Mismatches: 5, Indels: 30
0.73 0.04 0.23
Matches are distributed among these distances:
13 9 0.09
15 3 0.03
16 1 0.01
17 2 0.02
18 34 0.35
19 2 0.02
20 26 0.27
21 3 0.03
22 1 0.01
23 15 0.16
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (20 bp):
TATAGTTTACATATGAACTA
Found at i:1918355 original size:22 final size:21
Alignment explanation
Indices: 1918315--1918361 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
1918305 ATATATAAAC
1918315 TATATAGTTTACATATGAACTA
1 TATATAGTTTACATATGAA-TA
*
1918337 TATATAGTTTA-TTAGTGAATA
1 TATATAGTTTACATA-TGAATA
1918358 TATA
1 TATA
1918362 CTATTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (21 bp):
TATATAGTTTACATATGAATA
Found at i:1918417 original size:25 final size:25
Alignment explanation
Indices: 1918389--1918444 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
1918379 CTATATAAAA
1918389 ACTATAGTTTAT-TTATATACTACAT
1 ACTATAGTTTATATT-TATACTACAT
*
1918414 ACTATAGTTTATATTTATACTATAT
1 ACTATAGTTTATATTTATACTACAT
*
1918439 ATTATA
1 ACTATA
1918445 TATATAACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.50
Consensus pattern (25 bp):
ACTATAGTTTATATTTATACTACAT
Found at i:1918435 original size:18 final size:18
Alignment explanation
Indices: 1918412--1918468 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
1918402 TATATACTAC
*
1918412 ATACTATAGT-TTATATTT
1 ATACTATA-TATTATATAT
1918430 ATACTATATATTATATAT
1 ATACTATATATTATATAT
*
1918448 ATAACTATATACTATAGTAT
1 AT-ACTATATATTATA-TAT
1918468 A
1 A
1918469 ATTTACATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 17 0.50
19 12 0.35
20 4 0.12
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (18 bp):
ATACTATATATTATATAT
Found at i:1918551 original size:31 final size:31
Alignment explanation
Indices: 1918513--1918726 Score: 150
Period size: 31 Copynumber: 7.1 Consensus size: 31
1918503 CTAAACCCTA
*
1918513 AAACTATACATTATATAGTTTATTAGTATAT
1 AAACTATACATTATATAGTTCATTAGTATAT
* * *
1918544 AAACTATAGA-TATATAG-ACTATATGGTATAT
1 AAACTATACATTATATAGTTC-AT-TAGTATAT
* * *
1918575 AAAATATGCATTATATAGTTCACTAGTATATAT
1 AAACTATACATTATATAGTTCATTAG--TATAT
1918608 AAACTATAC--TATATAGTTCATTAGTATATAT
1 AAACTATACATTATATAGTTCATTAG--TATAT
* *
1918639 AAACTATA-TTTGTATAGTTCATTAGTATAT
1 AAACTATACATTATATAGTTCATTAGTATAT
* *
1918669 ATAACCTAT--A--GTATAG---A-TA-TATAC
1 A-AA-CTATACATTATATAGTTCATTAGTATAT
*
1918693 AAACTATATATTATATAGTTCATTAGTATAT
1 AAACTATACATTATATAGTTCATTAGTATAT
1918724 AAA
1 AAA
1918727 TTTATAGTAT
Statistics
Matches: 146, Mismatches: 18, Indels: 38
0.72 0.09 0.19
Matches are distributed among these distances:
22 4 0.03
23 2 0.01
24 6 0.04
25 2 0.01
26 6 0.04
29 7 0.05
30 17 0.12
31 63 0.43
32 26 0.18
33 13 0.09
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (31 bp):
AAACTATACATTATATAGTTCATTAGTATAT
Found at i:1918557 original size:15 final size:16
Alignment explanation
Indices: 1918539--1918577 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
1918529 AGTTTATTAG
1918539 TATATAAACTATA-GA
1 TATATAAACTATATGA
* *
1918554 TATATAGACTATATGG
1 TATATAAACTATATGA
1918570 TATATAAA
1 TATATAAA
1918578 ATATGCATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (16 bp):
TATATAAACTATATGA
Found at i:1918578 original size:63 final size:62
Alignment explanation
Indices: 1918511--1918741 Score: 191
Period size: 63 Copynumber: 3.8 Consensus size: 62
1918501 CCCTAAACCC
*
1918511 TAAAACTATACATTATATAGTTTATTAGTATATAAA-CTATAGATATATAGACTATATGGTATA
1 TAAAACTATACATTATATAGTTCATTAGTATATAAACCTATAGATATATAG-CTATAT-GTATA
* * * * *
1918574 TAAAA-TATGCATTATATAGTTCACTAGTATATATAAACTATA-CTATATAGTTCAT-TAGTATA
1 TAAAACTATACATTATATAGTTCATTAGTATATA-AACCTATAGATATATAGCT-ATAT-GTATA
* *
1918636 TATAAACTATA-TTTGTATAGTTCATTAGTATATATAACCTATAG---TATAG--ATA--TATA
1 TA-AAACTATACATTATATAGTTCATTAGTATATA-AACCTATAGATATATAGCTATATGTATA
* * **
1918692 -CAAACTATATATTATATAGTTCATTAGTATATAAATTTATAGTATATATA
1 TAAAACTATACATTATATAGTTCATTAGTATATAAACCTATAG-ATATATA
1918742 AACTATATAT
Statistics
Matches: 140, Mismatches: 16, Indels: 29
0.76 0.09 0.16
Matches are distributed among these distances:
54 15 0.11
55 21 0.15
56 4 0.03
58 6 0.04
61 5 0.04
62 34 0.24
63 47 0.34
64 8 0.06
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (62 bp):
TAAAACTATACATTATATAGTTCATTAGTATATAAACCTATAGATATATAGCTATATGTATA
Found at i:1918608 original size:17 final size:17
Alignment explanation
Indices: 1918586--1918639 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
1918576 AAATATGCAT
1918586 TATATAGTTCACTAGTA
1 TATATAGTTCACTAGTA
*
1918603 TATATA---AACTA-TA
1 TATATAGTTCACTAGTA
*
1918616 CTATATAGTTCATTAGTA
1 -TATATAGTTCACTAGTA
1918634 TATATA
1 TATATA
1918640 AACTATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
13 2 0.07
14 10 0.34
17 15 0.52
18 2 0.07
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (17 bp):
TATATAGTTCACTAGTA
Found at i:1918697 original size:54 final size:54
Alignment explanation
Indices: 1918632--1918737 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
1918622 AGTTCATTAG
* *
1918632 TATATATAAACTATAT-TTGTATAGTTCATTAGTATATATAACCTATAGTATAGA
1 TATATACAAACTATATATTATATAGTTCATTAGTATATA-AACCTATAGTATAGA
**
1918686 TATATACAAACTATATATTATATAGTTCATTAGTATATAAATTTATAGTATA
1 TATATACAAACTATATATTATATAGTTCATTAGTATATAAACCTATAGTATA
1918738 TATAAACTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
54 26 0.55
55 21 0.45
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (54 bp):
TATATACAAACTATATATTATATAGTTCATTAGTATATAAACCTATAGTATAGA
Found at i:1918750 original size:48 final size:52
Alignment explanation
Indices: 1918629--1918753 Score: 170
Period size: 55 Copynumber: 2.4 Consensus size: 52
1918619 TATAGTTCAT
*
1918629 TAGTATATATAAACTATAT-TTGTATAGTTCATTAGTATATATAACCTATAGTA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAA-CTATA-TA
*
1918682 TAGATATATACAAACTATATATTATATAGTTCATTAGTATATA-AA-T-T-TA
1 TAG-TATATATAAACTATATATTATATAGTTCATTAGTATATATAACTATATA
1918731 TAGTATATATAAACTATATATTA
1 TAGTATATATAAACTATATATTA
1918754 ATTTATTAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
48 19 0.28
49 5 0.07
51 1 0.01
52 1 0.01
53 3 0.04
54 17 0.25
55 21 0.31
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.43
Consensus pattern (52 bp):
TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACTATATA
Found at i:1919773 original size:2 final size:2
Alignment explanation
Indices: 1919766--1919834 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
1919756 AATAGTTGTC
*
1919766 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1919808 AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1919835 ATCCGAGGTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1922134 original size:21 final size:20
Alignment explanation
Indices: 1922101--1922139 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1922091 AAATCAAATT
*
1922101 TATAATACAAATTATAATAA
1 TATAAAACAAATTATAATAA
*
1922121 TATAAAACTAAATTTTAAT
1 TATAAAAC-AAATTATAAT
1922140 GTAATCATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAAAACAAATTATAATAA
Found at i:1926900 original size:18 final size:19
Alignment explanation
Indices: 1926879--1926927 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
1926869 AATACCATTT
*
1926879 GTGCATCGATGC-TAAGTA
1 GTGCATCGATGCATAAGAA
1926897 GTGCATCGATGCATAAGAA
1 GTGCATCGATGCATAAGAA
*
1926916 GTGTATCGATGC
1 GTGCATCGATGC
1926928 CCCCTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (19 bp):
GTGCATCGATGCATAAGAA
Found at i:1927258 original size:19 final size:19
Alignment explanation
Indices: 1927234--1927284 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
1927224 AATACCATTT
*
1927234 GTGCATCGATGCATAAGTA
1 GTGCATCGATGCATAAGAA
1927253 GTGCATCGATGCATAAGAA
1 GTGCATCGATGCATAAGAA
*
1927272 GTGTATCGATGCA
1 GTGCATCGATGCA
1927285 CCCCCTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (19 bp):
GTGCATCGATGCATAAGAA
Found at i:1928596 original size:21 final size:21
Alignment explanation
Indices: 1928572--1928615 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1928562 TGTATTTTTC
1928572 GTGAAATG-GTATATGTGATAT
1 GTGAAATGTG-ATATGTGATAT
*
1928593 GTGATATGTGATATGTGATAT
1 GTGAAATGTGATATGTGATAT
1928614 GT
1 GT
1928616 ATAAGTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (21 bp):
GTGAAATGTGATATGTGATAT
Found at i:1928628 original size:7 final size:7
Alignment explanation
Indices: 1928582--1928625 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
1928572 GTGAAATGGT
1928582 ATATGTG
1 ATATGTG
1928589 ATATGTG
1 ATATGTG
1928596 ATATGTG
1 ATATGTG
1928603 ATATGTG
1 ATATGTG
1928610 ATATGT-
1 ATATGTG
*
1928616 ATAAGTG
1 ATATGTG
1928623 ATA
1 ATA
1928626 AGTTAGAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 5 0.14
7 30 0.86
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.41
Consensus pattern (7 bp):
ATATGTG
Found at i:1929613 original size:21 final size:21
Alignment explanation
Indices: 1929584--1929626 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1929574 CCGTTAGACA
*
1929584 GGGGAGAATCTGTTCCCCCTG
1 GGGGAGAATCTGTACCCCCTG
*
1929605 GGGGGGAATCTGTACCCCCTG
1 GGGGAGAATCTGTACCCCCTG
1929626 G
1 G
1929627 ATAATCTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (21 bp):
GGGGAGAATCTGTACCCCCTG
Found at i:1931065 original size:19 final size:20
Alignment explanation
Indices: 1931022--1931069 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1931012 TCTAAATCCT
*
1931022 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
1931042 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
1931061 TTTTCAAAA
1 TTTTCAAAA
1931070 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:1932372 original size:21 final size:21
Alignment explanation
Indices: 1932347--1932388 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1932337 CGTTAGACAA
1932347 GGGGGAATC-GATACCCCCTGG
1 GGGGGAATCTG-TACCCCCTGG
1932368 GGGGGAATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
1932389 ATAATCTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.17, C:0.29, G:0.38, T:0.17
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:1933820 original size:19 final size:20
Alignment explanation
Indices: 1933777--1933824 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1933767 TCTAAATCCT
*
1933777 TTTTCAAAATTTAATTTTGG
1 TTTTCAAAATCTAATTTTGG
* *
1933797 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTAATTTTGG
1933816 TTTTCAAAA
1 TTTTCAAAA
1933825 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTAATTTTGG
Found at i:1935125 original size:20 final size:20
Alignment explanation
Indices: 1935100--1935238 Score: 170
Period size: 20 Copynumber: 6.8 Consensus size: 20
1935090 CCGTTAGACA
*
1935100 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
* * *
1935120 GGGGGAATCTGTTCCCCTTA
1 GGGGGAATCTGTACCCCCTG
*
1935140 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCTGTACCCCCT-G
* *
1935161 GGGGGAATCTGTTCCCCCTA
1 GGGGGAATCTGTACCCCCTG
* *
1935181 GGGGGAATCGGTACCCCTTGG
1 GGGGGAATCTGTACCCCCT-G
*
1935202 GGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTGTACCCCCTG
1935222 GGGGGAATCTGTACCCC
1 GGGGGAATCTGTACCCC
1935239 TTGGTCAATC
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
20 65 0.66
21 33 0.34
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:1935185 original size:61 final size:61
Alignment explanation
Indices: 1935100--1935238 Score: 190
Period size: 61 Copynumber: 2.3 Consensus size: 61
1935090 CCGTTAGACA
* * * *
1935100 GGGGGAATCGGTACCCCCTGGGGGGAATCTGTTCCCCTT-AGGGGGAATCGGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTAGGGGGAATCGGTACCCCTTGAGGGGGAATCGGTACCCCCT-G
* * * *
1935161 GGGGGAATCTGTTCCCCCTAGGGGGAATCGGTACCCCTTGGGGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTGTACCCCCTAGGGGGAATCGGTACCCCTTGAGGGGGAATCGGTACCCCCTG
1935222 GGGGGAATCTGTACCCC
1 GGGGGAATCTGTACCCC
1935239 TTGGTCAATC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 51 0.75
62 17 0.25
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (61 bp):
GGGGGAATCTGTACCCCCTAGGGGGAATCGGTACCCCTTGAGGGGGAATCGGTACCCCCTG
Found at i:1935242 original size:41 final size:41
Alignment explanation
Indices: 1935099--1935238 Score: 237
Period size: 41 Copynumber: 3.4 Consensus size: 41
1935089 ACCGTTAGAC
*
1935099 AGGGGGAATCGGTACCCCCT-GGGGGGAATCTGTTCCCCTT
1 AGGGGGAATCGGTACCCCCTGGGGGGGAATCTGTTCCCCCT
1935139 AGGGGGAATCGGTACCCCCTGGGGGGGAATCTGTTCCCCCT
1 AGGGGGAATCGGTACCCCCTGGGGGGGAATCTGTTCCCCCT
*
1935180 AGGGGGAATCGGTACCCCTTGGGGGGGAATCTGTTCCCCCT
1 AGGGGGAATCGGTACCCCCTGGGGGGGAATCTGTTCCCCCT
* *
1935221 GGGGGGAATCTGTACCCC
1 AGGGGGAATCGGTACCCC
1935239 TTGGTCAATC
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
40 20 0.21
41 75 0.79
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (41 bp):
AGGGGGAATCGGTACCCCCTGGGGGGGAATCTGTTCCCCCT
Found at i:1940923 original size:45 final size:46
Alignment explanation
Indices: 1940852--1940943 Score: 134
Period size: 45 Copynumber: 2.0 Consensus size: 46
1940842 AAAAGATATG
*
1940852 TTTATAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTG-GTAATT
1 TTTATAGTGGCGTTTTTTCAACAAACGACGCAATAGAG-GAGTAATT
* *
1940898 TTTATAGTGG-TTTTTTTCAACAAACGACGCTATAGAGGAGTAATT
1 TTTATAGTGGCGTTTTTTCAACAAACGACGCAATAGAGGAGTAATT
1940943 T
1 T
1940944 AGCGGCGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 1 0.02
45 31 0.74
46 10 0.24
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (46 bp):
TTTATAGTGGCGTTTTTTCAACAAACGACGCAATAGAGGAGTAATT
Found at i:1941473 original size:22 final size:22
Alignment explanation
Indices: 1941448--1941494 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
1941438 TGTTTTTTTA
*
1941448 CTTTCGAATAGAAAAATAATTG
1 CTTTCGAATAGAAAAATAATAG
*
1941470 CTTTCGAATAGGAAAATAATAG
1 CTTTCGAATAGAAAAATAATAG
1941492 CTT
1 CTT
1941495 CTGAAAACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (22 bp):
CTTTCGAATAGAAAAATAATAG
Found at i:1948666 original size:58 final size:58
Alignment explanation
Indices: 1948596--1948712 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
1948586 GAAAGTTAAA
*
1948596 ATTGCACACTTAGATGACACGCCATGGGTACAAGCACACTGATATGTTCTTTTCCATC
1 ATTGCACACTTAGATGACACGCCATGGGCACAAGCACACTGATATGTTCTTTTCCATC
*
1948654 ATTGCACACTTAGATGACACGTCATGGGCACAAGCACACTGATATGTTCTTTTCCATC
1 ATTGCACACTTAGATGACACGCCATGGGCACAAGCACACTGATATGTTCTTTTCCATC
1948712 A
1 A
1948713 CGATTCAATA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (58 bp):
ATTGCACACTTAGATGACACGCCATGGGCACAAGCACACTGATATGTTCTTTTCCATC
Found at i:1954914 original size:18 final size:19
Alignment explanation
Indices: 1954891--1954927 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1954881 ATTTTACACT
1954891 TAGGGA-ACCGATTCCCCA
1 TAGGGAGACCGATTCCCCA
1954909 TAGGGAGTACCGATTCCCC
1 TAGGGAG-ACCGATTCCCC
1954928 CCACGCTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.19
Consensus pattern (19 bp):
TAGGGAGACCGATTCCCCA
Found at i:1960642 original size:20 final size:20
Alignment explanation
Indices: 1960617--1960654 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1960607 TTTTGGTGCA
1960617 GAGGGAATCGATACCCCCAT
1 GAGGGAATCGATACCCCCAT
*
1960637 GAGGGAATCGATTCCCCC
1 GAGGGAATCGATACCCCC
1960655 TTTGAAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGGGAATCGATACCCCCAT
Found at i:1960696 original size:25 final size:23
Alignment explanation
Indices: 1960639--1960702 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
1960629 ACCCCCATGA
***
1960639 GGGAATCGATTCCCCCTTTGAAG
1 GGGAATCGATTCCCCCTCCCAAG
*
1960662 GGGAACCGATTCCCCCTCCCCACAG
1 GGGAATCGATTCCCCCT-CCCA-AG
*
1960687 GGGAATCGATACCCCC
1 GGGAATCGATTCCCCC
1960703 ATGGGGTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 16 0.48
24 1 0.03
25 16 0.48
ACGTcount: A:0.22, C:0.38, G:0.23, T:0.17
Consensus pattern (23 bp):
GGGAATCGATTCCCCCTCCCAAG
Found at i:1961388 original size:12 final size:12
Alignment explanation
Indices: 1961371--1961408 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
1961361 ACACCGTCAA
*
1961371 CCAAATCCACCT
1 CCAAATCCTCCT
*
1961383 CCAAATCCTTCT
1 CCAAATCCTCCT
1961395 CCAAATCCTCCT
1 CCAAATCCTCCT
1961407 CC
1 CC
1961409 TATTCCTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.26, C:0.50, G:0.00, T:0.24
Consensus pattern (12 bp):
CCAAATCCTCCT
Found at i:1966010 original size:2 final size:2
Alignment explanation
Indices: 1966005--1966062 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
1965995 ATATATATAT
*
1966005 TG TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1966047 TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG
1966063 AAAATTTGGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1966501 original size:117 final size:116
Alignment explanation
Indices: 1966220--1966521 Score: 401
Period size: 116 Copynumber: 2.6 Consensus size: 116
1966210 TGGGACGAGT
** * * * *
1966220 TCTTCTCATTATGAACTCTCCACTGGAAATACCGATCCACCTTCTTCAGTGAT-GAAATCGAGTA
1 TCTTCTCATTATGAACTCTCCACTGGAAATGTCGATCCACCTCCTTCTGTGATGGAATTCG-GAA
1966284 AAGGTTGAACAAGGTCTTCTCATTATGAACTTCTTTTCCCTCACAAATGAAC
65 AAGGTTGAACAAGGTCTTCTCATTATGAACTTCTTTTCCCTCACAAATGAAC
* * * * *
1966336 TCTTCTCATTATGAACTCTTCATTGGAAATGTCGATCCACCTCATTCTGTAATGGAATTTGGAAA
1 TCTTCTCATTATGAACTCTCCACTGGAAATGTCGATCCACCTCCTTCTGTGATGGAATTCGGAAA
* * *** *
1966401 AGGTTGAACAAGTTCTTCTTATTATGAACTTCTTTTCCCTCATTGGATGCAC
66 AGGTTGAACAAGGTCTTCTCATTATGAACTTCTTTTCCCTCA-CAAATGAAC
*
1966453 TCTTCTCATTATGAACTCTCCACTGTAAATGTCGATCCACCTCCTTCTGTGATGGAA-TCGGGAA
1 TCTTCTCATTATGAACTCTCCACTGGAAATGTCGATCCACCTCCTTCTGTGATGGAATTC-GGAA
1966517 AAGGT
65 AAGGT
1966522 CGTGTTATGC
Statistics
Matches: 160, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
116 89 0.56
117 71 0.44
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (116 bp):
TCTTCTCATTATGAACTCTCCACTGGAAATGTCGATCCACCTCCTTCTGTGATGGAATTCGGAAA
AGGTTGAACAAGGTCTTCTCATTATGAACTTCTTTTCCCTCACAAATGAAC
Found at i:1968308 original size:29 final size:29
Alignment explanation
Indices: 1968275--1968331 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
1968265 ACTCAACATG
* * *
1968275 AAAAAGTAAAAGTATGAATTTGGTGTCTA
1 AAAAAATAAAAGTACGAATTTGGGGTCTA
* *
1968304 AAAAAATAAAGGTACGACTTTGGGGTCT
1 AAAAAATAAAAGTACGAATTTGGGGTCT
1968332 CCAATAGATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (29 bp):
AAAAAATAAAAGTACGAATTTGGGGTCTA
Found at i:1968959 original size:20 final size:20
Alignment explanation
Indices: 1968915--1968959 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1968905 TTCAAATGTA
1968915 AAATGCAAAGAAGCAGATGC
1 AAATGCAAAGAAGCAGATGC
* * *
1968935 GAATGCAAAGATGCAGATTC
1 AAATGCAAAGAAGCAGATGC
1968955 AAATG
1 AAATG
1968960 TAAAATGTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.13, G:0.24, T:0.16
Consensus pattern (20 bp):
AAATGCAAAGAAGCAGATGC
Found at i:1969993 original size:15 final size:16
Alignment explanation
Indices: 1969970--1970002 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
1969960 ATGCCAGAAA
1969970 TAAAGTACACATAAAT
1 TAAAGTACACATAAAT
1969986 TAAA-TACACATAAAT
1 TAAAGTACACATAAAT
1970001 TA
1 TA
1970003 TAAATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (16 bp):
TAAAGTACACATAAAT
Found at i:1971002 original size:2 final size:2
Alignment explanation
Indices: 1970995--1971039 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1970985 AAGGAAAAAC
1970995 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1971037 AT A
1 AT A
1971040 CACATAATAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1973703 original size:9 final size:9
Alignment explanation
Indices: 1973691--1973742 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
1973681 TAATATTTTG
1973691 TATTTAATT
1 TATTTAATT
*
1973700 TATTTAA-G
1 TATTTAATT
1973708 TATTTAATT
1 TATTTAATT
1973717 TATTTAA--
1 TATTTAATT
*
1973724 TATTTTATT
1 TATTTAATT
*
1973733 TAATTAATT
1 TATTTAATT
1973742 T
1 T
1973743 TTTTGCAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 22 0.63
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TATTTAATT
Found at i:1973712 original size:17 final size:17
Alignment explanation
Indices: 1973690--1973739 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
1973680 TTAATATTTT
1973690 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
1973707 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
* *
1973724 -TATTTTATTTAATTAA
1 GTATTTAATTTATTTAA
1973740 TTTTTTTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:1974352 original size:182 final size:183
Alignment explanation
Indices: 1974045--1974407 Score: 710
Period size: 182 Copynumber: 2.0 Consensus size: 183
1974035 GATAGAATCA
1974045 GACCTTATTTTTACCTTAGTAGAGCGGTGGAGGCCGGAGACCCACATATTCCATCTTCCGTGTGG
1 GACCTTATTTTTACCTTAGTAGAGCGGTGGAGGCCGGAGACCCACATATTCCATCTTCCGTGTGG
1974110 AGAGTGCACGATTACACTTGAGGATGTTGCTATGCACCTGGGGCTTCCGGTGGATAGAGATCTGA
66 AGAGTGCACGATTACACTTGAGGATGTTGCTATGCACCTGGGGCTTCCGGTGGATAGAGATCTGA
1974175 TATCGGGGAGCGCGCAGGGTTCTTGGACTGCTTTGTG-CGGGATAATCTAGAC
131 TATCGGGGAGCGCGCAGGGTTCTTGGACTGCTTTGTGTCGGGATAATCTAGAC
1974227 GACCTTATTTTTACCTTAGTAGAGCGGTGGAGGCCGGAGACCCACATATTCCATCTTCCGTGTGG
1 GACCTTATTTTTACCTTAGTAGAGCGGTGGAGGCCGGAGACCCACATATTCCATCTTCCGTGTGG
1974292 AGAGTGCACGATTACACTTGAGGATGTTGCTATGCACCTGGGGCTTCCGGTGGATAGAGATCTGA
66 AGAGTGCACGATTACACTTGAGGATGTTGCTATGCACCTGGGGCTTCCGGTGGATAGAGATCTGA
*
1974357 TATCGGGGATCGCGCAGGGTTCTTGGACTGCTTTGTGTCGGGATAATCTAG
131 TATCGGGGAGCGCGCAGGGTTCTTGGACTGCTTTGTGTCGGGATAATCTAG
1974408 GACATGTCCC
Statistics
Matches: 179, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
182 166 0.93
183 13 0.07
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (183 bp):
GACCTTATTTTTACCTTAGTAGAGCGGTGGAGGCCGGAGACCCACATATTCCATCTTCCGTGTGG
AGAGTGCACGATTACACTTGAGGATGTTGCTATGCACCTGGGGCTTCCGGTGGATAGAGATCTGA
TATCGGGGAGCGCGCAGGGTTCTTGGACTGCTTTGTGTCGGGATAATCTAGAC
Found at i:1975707 original size:33 final size:33
Alignment explanation
Indices: 1975643--1975709 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
1975633 TACCCGATGT
* *
1975643 CGCCGTCGCGACCATCACATGGTTTTATGACCC
1 CGCCGTCGCCACCATCACATGGTTATATGACCC
* *
1975676 CGCCGTCGCCACCTTCACA-GAGTTATGTGACCC
1 CGCCGTCGCCACCATCACATG-GTTATATGACCC
1975709 C
1 C
1975710 TCCTAGAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.18, C:0.39, G:0.21, T:0.22
Consensus pattern (33 bp):
CGCCGTCGCCACCATCACATGGTTATATGACCC
Found at i:1976178 original size:13 final size:13
Alignment explanation
Indices: 1976137--1976180 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
1976127 TATTTAATAC
*
1976137 TTTTTATTGTAGT
1 TTTTTATTGTAAT
* * *
1976150 TGTTTATTGGACT
1 TTTTTATTGTAAT
1976163 TTTTTATTGTAAT
1 TTTTTATTGTAAT
1976176 TTTTT
1 TTTTT
1976181 TATTATTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.68
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:1980494 original size:2 final size:2
Alignment explanation
Indices: 1980487--1980523 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1980477 AATCATTTTC
1980487 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1980524 TGTAAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1984025 original size:14 final size:14
Alignment explanation
Indices: 1984006--1984042 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1983996 GAGAAAAGAA
1984006 TAATAAAATAATAT
1 TAATAAAATAATAT
1984020 TAATAAAATAATAT
1 TAATAAAATAATAT
1984034 TAATGAAAA
1 TAAT-AAAA
1984043 ATGAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
TAATAAAATAATAT
Found at i:1984060 original size:2 final size:2
Alignment explanation
Indices: 1984055--1984079 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1984045 GAAAAAATAA
1984055 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1984080 AAACAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1984501 original size:33 final size:33
Alignment explanation
Indices: 1984460--1984561 Score: 177
Period size: 33 Copynumber: 3.1 Consensus size: 33
1984450 AATGCTTCGG
*
1984460 TTTTAGTGTTTTAATAGGACTCAAATACGTTAA
1 TTTTAGTGTTTTAATAGGACTCAAATACGTTGA
* *
1984493 TTTTAGTGTTTCAATAGGACTCAAATACGTTGG
1 TTTTAGTGTTTTAATAGGACTCAAATACGTTGA
1984526 TTTTAGTGTTTTAATAGGACTCAAATACGTTGA
1 TTTTAGTGTTTTAATAGGACTCAAATACGTTGA
1984559 TTT
1 TTT
1984562 ATTTTTTGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (33 bp):
TTTTAGTGTTTTAATAGGACTCAAATACGTTGA
Found at i:1984630 original size:3 final size:3
Alignment explanation
Indices: 1984611--1984667 Score: 84
Period size: 3 Copynumber: 19.7 Consensus size: 3
1984601 AGCCTACAAA
1984611 AAT AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1984657 AA- ATAT AAT AA
1 AAT A-AT AAT AA
1984668 AATGTTTTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 5 0.10
3 44 0.88
4 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1985321 original size:85 final size:84
Alignment explanation
Indices: 1985014--1985541 Score: 688
Period size: 84 Copynumber: 6.3 Consensus size: 84
1985004 CTGAATGAAA
* * * * * * * *
1985014 TCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * * *
1985078 GCCCTCGAAGCTGAGTGTAA
66 G-CCTTGGAGCTGAGCGTAG
* * *
1985098 TCGAACTCGAGGGTC--T--TTGGCATATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1985159 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * *
1985178 TCGAACTTGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1985243 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* *
1985262 TCGAACTCGAAGGTATTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATG
1 TCGAACTCGAAGGT-CTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
*
1985327 TGCCTTGAAGCTGAGCGTAG
65 TGCCTTGGAGCTGAGCGTAG
* * * *
1985347 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTTTCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
*
1985412 GTCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* *
1985431 TCGAACTCGAAGGTCTTTTGGTTGTCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGTTG
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* *
1985496 TGCCTTTGAGCTTAGCGTAG
65 TGCCTTGGAGCTGAGCGTAG
* *
1985516 TCAAACTCGAAGGTCTTTGGTGGGCA
1 TCGAACTCGAAGGTCTTTGGTTGGCA
1985542 CAATTTCCTT
Statistics
Matches: 386, Mismatches: 51, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
80 27 0.07
81 35 0.09
82 2 0.01
84 171 0.44
85 151 0.39
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAG
Found at i:1985341 original size:169 final size:167
Alignment explanation
Indices: 1985014--1985536 Score: 750
Period size: 169 Copynumber: 3.1 Consensus size: 167
1985004 CTGAATGAAA
* * * * *
1985014 TCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATAT
* * * * * * *
1985078 GCCCTCGAAGCTGAGTGTAATCGAACTCG-AGG-GTCT--TTGGCATATAGCCCTTCTCGACTTA
66 G-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGGTTGGCAGATAGCCCTTCTCGACTTA
*
1985139 AGCTATGCTGCAAATAATGTGCCTTGGAGCTGAGCGTAG
130 AGCTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAG
* *
1985178 TCGAACTTGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATAT
1985243 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTTGGTTGGCAGATAGCCCTTCTCGACTTA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTTTGGTTGGCAGATAGCCCTTCTCGACTTA
*
1985308 AGCTATGTTGCAAATGATGTGCCTTGAAGCTGAGCGTAG
130 AGCTATGCTGCAAATGATGTGCCTTG-AGCTGAGCGTAG
* *
1985347 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTTTCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATAT
* *
1985412 GTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTGTCAGATAGCCCTTCTCGACTTA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTTTGGTTGGCAGATAGCCCTTCTCGACTTA
* *
1985477 AGCTATGCTGCAAATGTTGTGCCTTTGAGCTTAGCGTAG
130 AGCTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAG
*
1985516 TCAAACTCGAAGGTCTTTGGT
1 TCGAACTCGAAGGTCTTTGGT
1985537 GGGCACAATT
Statistics
Matches: 325, Mismatches: 26, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
164 42 0.13
165 42 0.13
167 2 0.01
168 1 0.00
169 235 0.72
170 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (167 bp):
TCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATAT
GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGGTTGGCAGATAGCCCTTCTCGACTTAA
GCTATGCTGCAAATGATGTGCCTTGAGCTGAGCGTAG
Found at i:1985860 original size:110 final size:110
Alignment explanation
Indices: 1985659--1986189 Score: 867
Period size: 110 Copynumber: 4.9 Consensus size: 110
1985649 TGTTTCAAGG
* * * * *
1985659 CCAATATCATTCGCCGTGAAGTTAAAATTGACTCT--A--AAACT-AGAAAGTTATTTGTTGATA
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGA-AAAGTTGTTTGTTGACA
*
1985719 GCCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGT
65 GTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGT
* * *
1985765 CCAATATCTTTCGGTGTGAAGTTGAAATTGCCTCT-AGATGAAACTGAAAAGTTGTTTGTTGACA
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-ATGAAACTGAAAAGTTGTTTGTTGACA
* *
1985829 GTCAGCCGCCCCTTCGCTGTGAAGTTAAGCTTGTGTTGTCTCGAGT
65 GTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGT
*
1985875 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAG
1985940 TCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGT
66 TCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGT
1985985 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAG
* *
1986050 TCAGTCACCCCTTCGCTGTGAAGTTGACCTTGTGTTGTCTCGAGT
66 TCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGT
1986095 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAG
*
1986160 TCAGTCGCCCCTTCGCTATGAAGTTGAGCT
66 TCAGTCGCCCCTTCGCTGTGAAGTTGAGCT
1986190 ACTGCCATCA
Statistics
Matches: 397, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
106 30 0.08
108 1 0.00
110 364 0.92
111 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (110 bp):
CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAG
TCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGT
Found at i:1989940 original size:2 final size:2
Alignment explanation
Indices: 1989933--1989978 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
1989923 GAAAAATGAA
1989933 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1989974 AT AT A
1 AT AT A
1989979 AATGTAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1990389 original size:31 final size:33
Alignment explanation
Indices: 1990351--1990415 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
1990341 AAAATGCTTC
*
1990351 GGTTTTAGTGTTTC-A-ATGACTCAAATACGTT
1 GGTTTTAGTGTTTCAACAGGACTCAAATACGTT
1990382 GGTTTTAGTGTTTCAACAGGACTCAAATACGTT
1 GGTTTTAGTGTTTCAACAGGACTCAAATACGTT
1990415 G
1 G
1990416 ATTTATTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 14 0.45
32 1 0.03
33 16 0.52
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (33 bp):
GGTTTTAGTGTTTCAACAGGACTCAAATACGTT
Found at i:1990488 original size:3 final size:3
Alignment explanation
Indices: 1990469--1990535 Score: 81
Period size: 3 Copynumber: 23.3 Consensus size: 3
1990459 GGCCTACACA
1990469 AAT AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
1990516 AA- ATAT AAT -AT AAT AA- AAT A
1 AAT A-AT AAT AAT AAT AAT AAT A
1990536 TTTTGTAGAC
Statistics
Matches: 57, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
2 9 0.16
3 44 0.77
4 4 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1995667 original size:21 final size:21
Alignment explanation
Indices: 1995641--1995689 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1995631 GATATTGATA
*
1995641 TGACAGTTTATGATGCTGGCG
1 TGACAGTTTATGATGCTGACG
*
1995662 TGACAGTTTATGATGTTGACG
1 TGACAGTTTATGATGCTGACG
1995683 TGACAGT
1 TGACAGT
1995690 CTACGGTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.35
Consensus pattern (21 bp):
TGACAGTTTATGATGCTGACG
Found at i:2005923 original size:27 final size:27
Alignment explanation
Indices: 2005901--2005955 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
2005891 ACGATTGGTT
*
2005901 CCGGAAACCAAACCAATCTGATTTCCC
1 CCGGAAACCAAACCAATCTGATTGCCC
*
2005928 CCGGAAACCAAACCAATCTGATTTCCC
1 CCGGAAACCAAACCAATCTGATTGCCC
2005955 C
1 C
2005956 GTCGCCTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.38, G:0.11, T:0.18
Consensus pattern (27 bp):
CCGGAAACCAAACCAATCTGATTGCCC
Found at i:2007698 original size:64 final size:63
Alignment explanation
Indices: 2007579--2007698 Score: 138
Period size: 67 Copynumber: 1.9 Consensus size: 63
2007569 ATTTTTACAT
*
2007579 AAATAACTTAAAATAGTTTTCTATTATTTATAATTTTTATATATTTTTAATAAAATTTGTATAC
1 AAATAACTTAAAATAGTTTTCTATTATTTATAATTTTTATATATTTTT-AGAAAATTTGTATAC
* * *
2007643 AAATAACTTAATATATATTTTTTTTATTATTTTTAATTTTT-TAT-TTCTTT-GAAAAT
1 AAATAACTTAA-A-ATA-GTTTTCTATTATTTATAATTTTTATATATT-TTTAGAAAAT
2007699 ATAGAAACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
64 16 0.33
65 3 0.06
66 9 0.19
67 20 0.42
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.56
Consensus pattern (63 bp):
AAATAACTTAAAATAGTTTTCTATTATTTATAATTTTTATATATTTTTAGAAAATTTGTATAC
Found at i:2007876 original size:50 final size:50
Alignment explanation
Indices: 2007769--2008013 Score: 328
Period size: 51 Copynumber: 4.8 Consensus size: 50
2007759 AGATGTACAT
* * * *
2007769 ACTTACATCGGTATAAGTATATGTTAACTGCTACACTTTTTTTATTTTATTT
1 ACTTACATCGGTGTAAG-ATGTGTTAAGTGCTACAC-TTTTTTATTTTATTC
*
2007821 ACTTACATCGTTGTAAGATGTGTTAAGTGCTACACTTTTTTATTTTATTC
1 ACTTACATCGGTGTAAGATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* * * *
2007871 ACTTACACCGGTGTAATATGTGTTAAATGCTACACTTTTTTGTTTTATTC
1 ACTTACATCGGTGTAAGATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* * *
2007921 ACTTACACCGGTGTAAATATGTGTTAAGTGCTACACTTGTTTATTTTATTC
1 ACTTACATCGGTGT-AAGATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* *
2007972 ACTTACATCGGTGTAAGTTTGTGTTAAGTGCTACATTTTTTT
1 ACTTACATCGGTGTAAG-ATGTGTTAAGTGCTACACTTTTTT
2008014 GTAGTATGAA
Statistics
Matches: 173, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
50 75 0.43
51 83 0.48
52 15 0.09
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.47
Consensus pattern (50 bp):
ACTTACATCGGTGTAAGATGTGTTAAGTGCTACACTTTTTTATTTTATTC
Found at i:2007945 original size:101 final size:101
Alignment explanation
Indices: 2007769--2008015 Score: 352
Period size: 101 Copynumber: 2.4 Consensus size: 101
2007759 AGATGTACAT
* * * * * * *
2007769 ACTTACATCGGTATAAGTATATGTTAACTGCTACACTTTTTTTATTTTATTTACTTACATCGTTG
1 ACTTACATCGGTGTAAGTATGTGTTAAATGCTACAC-TTTTTTGTTTTATTCACTTACACCGGTG
*
2007834 TAAGATGTGTTAAGTGCTACACTTTTTTATTTTATTC
65 TAAGATGTGTTAAGTGCTACACTTGTTTATTTTATTC
*
2007871 ACTTACACCGGTGTAA-TATGTGTTAAATGCTACACTTTTTTGTTTTATTCACTTACACCGGTGT
1 ACTTACATCGGTGTAAGTATGTGTTAAATGCTACACTTTTTTGTTTTATTCACTTACACCGGTGT
*
2007935 AAATATGTGTTAAGTGCTACACTTGTTTATTTTATTC
66 -AAGATGTGTTAAGTGCTACACTTGTTTATTTTATTC
* * *
2007972 ACTTACATCGGTGTAAGTTTGTGTTAAGTGCTACATTTTTTTGT
1 ACTTACATCGGTGTAAGTATGTGTTAAATGCTACACTTTTTTGT
2008016 AGTATGAATT
Statistics
Matches: 129, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
100 25 0.19
101 66 0.51
102 38 0.29
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.47
Consensus pattern (101 bp):
ACTTACATCGGTGTAAGTATGTGTTAAATGCTACACTTTTTTGTTTTATTCACTTACACCGGTGT
AAGATGTGTTAAGTGCTACACTTGTTTATTTTATTC
Found at i:2021242 original size:58 final size:58
Alignment explanation
Indices: 2021121--2021251 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 58
2021111 AGTCGAGTGG
* * *
2021121 CCATTTTCTAACTTTTAATAGTTGGGGACTCAATAAAACAACACTCTATAGTCAGGAA
1 CCATTTTATAACTTTTAATAGTCGGGAACTCAATAAAACAACACTCTATAGTCAGGAA
* * * * *
2021179 TCATTTTATAATTTTTAATAGTCGGAGAACTCAATAAAATAAC-GTCCTATAGTTAGG-A
1 CCATTTTATAACTTTTAATAGTCGG-GAACTCAATAAAACAACACT-CTATAGTCAGGAA
2021237 CCA-TTTATATACTTT
1 CCATTTTATA-ACTTT
2021252 ATCCTAGGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
57 6 0.10
58 29 0.48
59 25 0.42
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (58 bp):
CCATTTTATAACTTTTAATAGTCGGGAACTCAATAAAACAACACTCTATAGTCAGGAA
Found at i:2021331 original size:33 final size:34
Alignment explanation
Indices: 2021294--2021371 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 34
2021284 TCGCTAGCTG
* *
2021294 TCTTTCACCAACT-ATCTATTTATTTATTAATTA
1 TCTTTCAACAACTCATCTATCTATTTATTAATTA
* * *
2021327 TCTTT-AAGAAATCATCTATCTATTTATTAGTTA
1 TCTTTCAACAACTCATCTATCTATTTATTAATTA
* *
2021360 CCTTTCATCAAC
1 TCTTTCAACAAC
2021372 CTTAATAAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
32 4 0.12
33 27 0.79
34 3 0.09
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (34 bp):
TCTTTCAACAACTCATCTATCTATTTATTAATTA
Found at i:2024241 original size:4 final size:4
Alignment explanation
Indices: 2024232--2024256 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2024222 ATTAAAGACA
2024232 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
2024257 TTAAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:2025077 original size:268 final size:264
Alignment explanation
Indices: 2024618--2025351 Score: 902
Period size: 268 Copynumber: 2.8 Consensus size: 264
2024608 AAGGTTGTCC
* * ** *
2024618 GAGTTTAAGCTGATGGGGCCTTAGACATTCTCACTATAAGAAAATAAGTTAAAAGCTGAAAATGT
1 GAGTTTAAGCTGATGGAGCCTTGGATTTTCTCACGATAAGAAAATAAGTTAAAAGCTGAAAATGT
** * * *
2024683 TATG--A-ATATATATAAGAAATACAATTTTGCCCAATAACGTCATGGTTCGCTAAAAAAAGGTT
66 TATGAAATATATATATAAGAAATAC-GGTTT-CCCAATAATGTCATGGTTCACTAAAAATAGGTT
* * * **
2024745 GCGATGTGTAATGTTAATACTTTTATTAATAAAGTAGGTTGCACCCAAGAATGTCATGGTTCACT
129 GCGATATGTAATGTTAATATTTTTATTAATAAAATAGGTTGCGTCCAAGAATGTCATGGTTCACT
* * ** * * * * * *
2024810 AAGAAAACATGTCGTAATCTGGAATCTTAATGTTTTCGATAATAAAATGGGTTGTG-CCTAAAAT
194 AAGAAAACATGTCGCAATATAAAATCGTAATATTTTCAATAACAAAATGGATTGCGTCC-AAAAT
2024874 GTTATCA
258 GTTATCA
* * * *
2024881 TAGTTTAAGTTGATGGAGCCTTGGATTTTTTCACGATAAAAAAATAAGTTAAAAGCTGAAAATGT
1 GAGTTTAAGCTGATGGAGCCTTGGATTTTCTCACGATAAGAAAATAAGTTAAAAGCTGAAAATGT
2024946 TATGAATATATATATATAAGAAATACGGTTTCACCTAATAATGTCATGGTTCACTAAGAAATAGG
66 TATGAA-ATATATATATAAGAAATACGGTTTC-CC-AATAATGTCATGGTTCACTAA-AAATAGG
* * *
2025011 TAGTGATTTGTAATGTTAATATTTTTATTAATAAAATAGGTTGCGTCCAAGAATGTCATGGTTCA
127 TTGCGATATGTAATGTTAATATTTTTATTAATAAAATAGGTTGCGTCCAAGAATGTCATGGTTCA
* * *
2025076 CTAAGAAAACATGTTGCAATATAAAATCGTAATATTTTTAATAACGAAATGGATTGCGTCCAAAA
192 CTAAGAAAACATGTCGCAATATAAAATCGTAATATTTTCAATAACAAAATGGATTGCGTCCAAAA
**
2025141 TGTTATTG
257 TGTTATCA
* * * * *
2025149 GAGTTTAAGCTAATGGAGCCTTGGATTTTCCCATGATAAGAAAATAAGTCAAAAGTTGAAAATGT
1 GAGTTTAAGCTGATGGAGCCTTGGATTTTCTCACGATAAGAAAATAAGTTAAAAGCTGAAAATGT
* *
2025214 TATGAACATATATATATAAGAAATACGGTTGTGCCCAATAGTGTCATGGTTTACTAAAAAAATA-
66 TATGAA-ATATATATATAAGAAATACGGTT-T-CCCAATAATGTCATGGTTCACT--AAAAATAG
* * *
2025278 GTTGCAATATATAATGTTAATATTTTTATTAATAAAATAGGTTGCGTCCAAGAATGTCATAGTTC
126 GTTGCGATATGTAATGTTAATATTTTTATTAATAAAATAGGTTGCGTCCAAGAATGTCATGGTTC
2025343 ACTAAGAAA
191 ACTAAGAAA
2025352 GCAGGTTGCG
Statistics
Matches: 405, Mismatches: 54, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
263 60 0.15
265 1 0.00
266 6 0.01
267 36 0.09
268 289 0.71
269 10 0.02
270 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (264 bp):
GAGTTTAAGCTGATGGAGCCTTGGATTTTCTCACGATAAGAAAATAAGTTAAAAGCTGAAAATGT
TATGAAATATATATATAAGAAATACGGTTTCCCAATAATGTCATGGTTCACTAAAAATAGGTTGC
GATATGTAATGTTAATATTTTTATTAATAAAATAGGTTGCGTCCAAGAATGTCATGGTTCACTAA
GAAAACATGTCGCAATATAAAATCGTAATATTTTCAATAACAAAATGGATTGCGTCCAAAATGTT
ATCA
Found at i:2025677 original size:116 final size:112
Alignment explanation
Indices: 2025528--2025778 Score: 317
Period size: 116 Copynumber: 2.2 Consensus size: 112
2025518 TGTGATAATG
* * *
2025528 ATCGATATTTTTAAAAATTGAAAGAAAATAAGTTAAAAGCT-A-AATTTTTTATTTATATATAAG
1 ATCGATACTTTTAAAAATTGAAAGAAAATAAGTTAAAAGCTGAGAA--TGTTATTCATATATAAG
* *
2025591 AAATACGGTTGTGCCCAAAAAAATAAAAATAAAAACATATCGAAATTTTAAAT
64 AAATACGATTGAGCCC-AAAAAAT--AAA-AAAAACATATCGAAATTTTAAAT
* *
2025644 ATCGATACTTGTAAAAATTGAAAGAAAATAAGTTAAAAGTTGAGAATGTTATTCATATATAAGAA
1 ATCGATACTTTTAAAAATTGAAAGAAAATAAGTTAAAAGCTGAGAATGTTATTCATATATAAGAA
* * * *
2025709 ATATGATTGAGCCCAAAAAATTAAAAAAACATATTGAACTTTTAAAT
66 ATACGATTGAGCCCAAAAAATAAAAAAAACATATCGAAATTTTAAAT
* *
2025756 ATTGATACTTTTAAATATTGAAA
1 ATCGATACTTTTAAAAATTGAAA
2025779 AAGTTGAAGA
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
112 41 0.34
113 2 0.02
115 7 0.06
116 66 0.55
117 1 0.01
118 2 0.02
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.33
Consensus pattern (112 bp):
ATCGATACTTTTAAAAATTGAAAGAAAATAAGTTAAAAGCTGAGAATGTTATTCATATATAAGAA
ATACGATTGAGCCCAAAAAATAAAAAAAACATATCGAAATTTTAAAT
Found at i:2025767 original size:16 final size:15
Alignment explanation
Indices: 2025739--2025777 Score: 69
Period size: 16 Copynumber: 2.5 Consensus size: 15
2025729 TTAAAAAAAC
2025739 ATATTGAACTTTTAA
1 ATATTGAACTTTTAA
2025754 ATATTGATACTTTTAA
1 ATATTGA-ACTTTTAA
2025770 ATATTGAA
1 ATATTGAA
2025778 AAAGTTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (15 bp):
ATATTGAACTTTTAA
Found at i:2025903 original size:74 final size:74
Alignment explanation
Indices: 2025760--2025962 Score: 218
Period size: 74 Copynumber: 2.8 Consensus size: 74
2025750 TTAAATATTG
* *
2025760 ATACTTTTAAATATTG-AAAAAGTTGA-AGATAATATCGAA-AGTT-AAATATCGATACTTATGT
1 ATACTTTTAAATATTGAAAAAAGTTGATA-ATAAGATC-AATAGTTAAAATATCGATACTTATAT
* *
2025821 GGTAATGATTA
64 GATAATGATCA
* * *
2025832 ATACTTTTAAAAATTGAAAAAAGTTGATAAAAAGATCAATATTTAAAATATCGATACTTATATGA
1 ATACTTTTAAATATTGAAAAAAGTTGATAATAAGATCAATAGTTAAAATATCGATACTTATATGA
* *
2025897 TGATGATCG
66 TAATGATCA
* * * * *
2025906 CTACTTTTATATATTGAACAAA-TTGATGAATATGATCGATAGTTAAAATATCGATAC
1 ATACTTTTAAATATTGAAAAAAGTTGAT-AATAAGATCAATAGTTAAAATATCGATAC
2025963 ATATGTTATG
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
72 17 0.16
73 24 0.22
74 68 0.62
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.35
Consensus pattern (74 bp):
ATACTTTTAAATATTGAAAAAAGTTGATAATAAGATCAATAGTTAAAATATCGATACTTATATGA
TAATGATCA
Found at i:2025985 original size:74 final size:74
Alignment explanation
Indices: 2025760--2025987 Score: 202
Period size: 74 Copynumber: 3.1 Consensus size: 74
2025750 TTAAATATTG
* *
2025760 ATACTTTTAAATATTGAAAAAGTTGAAG-ATAAT-ATCGAAAGTT-AAATATCGATACTTATGTG
1 ATACTTTTAAATATTGAAAAAGTTGATGAAT-ATGATCGATAGTTAAAATATCGATACTTATGT-
2025822 GTAATG-A-TT-A
64 -T-ATGAAGTTCA
* * * * * * *
2025832 ATACTTTTAAAAATTGAAAAAAGTTGAT-AAAAAGATCAATATTTAAAATATCGATACTTATATG
1 ATACTTTTAAATATTG-AAAAAGTTGATGAATATGATCGATAGTTAAAATATCGATACTTATGTT
* * *
2025896 ATGATGATCG
65 ATGAAGTTCA
* * *
2025906 CTACTTTTATATATTGAACAAA-TTGATGAATATGATCGATAGTTAAAATATCGATACATATGTT
1 ATACTTTTAAATATTGAA-AAAGTTGATGAATATGATCGATAGTTAAAATATCGATACTTATGTT
*
2025970 ATGAAGTTCT
65 ATGAAGTTCA
2025980 ATACTTTT
1 ATACTTTT
2025988 TAATTGATAT
Statistics
Matches: 121, Mismatches: 26, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
71 3 0.02
72 16 0.13
73 26 0.21
74 76 0.63
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.37
Consensus pattern (74 bp):
ATACTTTTAAATATTGAAAAAGTTGATGAATATGATCGATAGTTAAAATATCGATACTTATGTTA
TGAAGTTCA
Found at i:2027127 original size:99 final size:98
Alignment explanation
Indices: 2026863--2027127 Score: 377
Period size: 99 Copynumber: 2.7 Consensus size: 98
2026853 AACTTAATCA
*
2026863 GTTTGTATTACTTTTCATAATATACACAGTTTCAGCCTATAACTTAACCATTTAACATAACAACA
1 GTTTGTATTACTTTTCATAATATACACAGTTTCAGCCTATAACTTAACCAGTTAACATAACAACA
*
2026928 AGGTGCAACCTATAATCTTATCCAAGAAACCAG
66 ATGTGCAACCTATAATCTTATCCAAGAAACCAG
* * * * * *
2026961 GTATGTATTACTTTTTCATAATATACACAATTTTAGTCTATAACTTAACTAGTTTACATAACAAC
1 GTTTGTATTAC-TTTTCATAATATACACAGTTTCAGCCTATAACTTAACCAGTTAACATAACAAC
* * * *
2027026 AATGTGTAACCTATAATGTTATCCAGGAAACCAT
65 AATGTGCAACCTATAATCTTATCCAAGAAACCAG
* * *
2027060 GTTTGTATTACTTTTCATAATATACACGGTTTCAACCCATAACTTAAACCAGTTAACATAACAAC
1 GTTTGTATTACTTTTCATAATATACACAGTTTCAGCCTATAACTT-AACCAGTTAACATAACAAC
2027125 AAT
65 AAT
2027128 ACGCAACCGA
Statistics
Matches: 144, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 38 0.26
99 106 0.74
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (98 bp):
GTTTGTATTACTTTTCATAATATACACAGTTTCAGCCTATAACTTAACCAGTTAACATAACAACA
ATGTGCAACCTATAATCTTATCCAAGAAACCAG
Found at i:2028725 original size:36 final size:36
Alignment explanation
Indices: 2028679--2028763 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 36
2028669 TAACAATGAA
2028679 TTGTTGGTTGATTGCTCAAGATTTTTGGATGAGTTG
1 TTGTTGGTTGATTGCTCAAGATTTTTGGATGAGTTG
* * * * *
2028715 TTGTTTGTTGATTGGTCGAGATTTTTTGATGAGTCG
1 TTGTTGGTTGATTGCTCAAGATTTTTGGATGAGTTG
*
2028751 TTAGTTGATTGAT
1 TT-GTTGGTTGAT
2028764 CGAGTTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 33 0.80
37 8 0.20
ACGTcount: A:0.16, C:0.05, G:0.29, T:0.49
Consensus pattern (36 bp):
TTGTTGGTTGATTGCTCAAGATTTTTGGATGAGTTG
Found at i:2028767 original size:33 final size:33
Alignment explanation
Indices: 2028685--2028780 Score: 95
Period size: 33 Copynumber: 2.8 Consensus size: 33
2028675 TGAATTGTTG
* * * * *
2028685 GTTGATTGCTCAAGATTTTTGGATGAGTTGTTGTTT
1 GTTGATTGATCGAGATTTTTTGATGA---GTCGTTA
*
2028721 GTTGATTGGTCGAGATTTTTTGATGAGTCGTTA
1 GTTGATTGATCGAGATTTTTTGATGAGTCGTTA
2028754 GTTGATTGATCGAG-TTTTTTCGATGAG
1 GTTGATTGATCGAGATTTTTT-GATGAG
2028781 CTATTTGTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
32 6 0.11
33 24 0.45
36 23 0.43
ACGTcount: A:0.18, C:0.06, G:0.29, T:0.47
Consensus pattern (33 bp):
GTTGATTGATCGAGATTTTTTGATGAGTCGTTA
Found at i:2028791 original size:33 final size:33
Alignment explanation
Indices: 2028718--2028794 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 33
2028708 TGAGTTGTTG
* *
2028718 TTTGTTGATTGGTCGAGATTTTTTGATGAGTCG
1 TTTGTTGATTGATCGAGATTTTTTGATGAGTCA
*
2028751 TTAGTTGATTGATCGAG-TTTTTTCGATGAG-CTA
1 TTTGTTGATTGATCGAGATTTTTT-GATGAGTC-A
2028784 TTTGTTGATTG
1 TTTGTTGATTG
2028795 CTCCAAGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 7 0.18
33 31 0.82
ACGTcount: A:0.17, C:0.06, G:0.27, T:0.49
Consensus pattern (33 bp):
TTTGTTGATTGATCGAGATTTTTTGATGAGTCA
Done.