Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 48 of 78
Found at i:9575222 original size:15 final size:15
Alignment explanation
Indices: 9575202--9575230 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9575192 CCCATCTCCG
9575202 ATTATTTTCTTTTTA
1 ATTATTTTCTTTTTA
9575217 ATTATTTTCTTTTT
1 ATTATTTTCTTTTT
9575231 GAAATTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTATTTTCTTTTTA
Found at i:9575439 original size:20 final size:20
Alignment explanation
Indices: 9575400--9575458 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
9575390 GCGATTCTCT
* **
9575400 CGTTGCAATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
9575420 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
** **
9575440 TATTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
9575459 AGAAACTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:9575649 original size:25 final size:24
Alignment explanation
Indices: 9575595--9575649 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
9575585 TGTTTATTAT
* *
9575595 TGTTTTTGGTATATCTTCATAGTG
1 TGTTTTTGGTATATCTACATAGTA
*
9575619 TAGTTTTTGGTATATCTAACTTAGTA
1 T-GTTTTTGGTATATCT-ACATAGTA
9575645 TGTTT
1 TGTTT
9575650 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 19 0.73
26 6 0.23
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.55
Consensus pattern (24 bp):
TGTTTTTGGTATATCTACATAGTA
Found at i:9576799 original size:18 final size:18
Alignment explanation
Indices: 9576778--9576822 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
9576768 TCCACTTCGG
*
9576778 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
9576796 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
9576814 GAGCCATCA
1 GAGCCATCA
9576823 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:9577352 original size:19 final size:20
Alignment explanation
Indices: 9577309--9577364 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
9577299 AGCAACACGA
9577309 AAATGACTATCGCAACGCAG
1 AAATGACTATCGCAACGCAG
* *
9577329 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCAG
**
9577348 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
9577365 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCAG
Found at i:9577372 original size:14 final size:14
Alignment explanation
Indices: 9577353--9577410 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
9577343 ATGCGAAATG
9577353 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
9577367 AAAATCGCAATGTGAA
1 AAAATCGCAA--CGAC
9577383 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
9577399 AAAATCGCAACG
1 AAAATCGCAACG
9577411 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 21 0.58
16 6 0.17
18 9 0.25
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:9577395 original size:32 final size:33
Alignment explanation
Indices: 9577337--9577427 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
9577327 AGAAATGGCT
9577337 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
9577370 ATCGCAATGTGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
9577402 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
9577428 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:9577421 original size:19 final size:19
Alignment explanation
Indices: 9577337--9577432 Score: 79
Period size: 19 Copynumber: 5.6 Consensus size: 19
9577327 AGAAATGGCT
9577337 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9577356 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
9577370 ATCGCAATGTGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
9577388 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
9577402 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
9577421 ATCGCAATGCGA
1 ATCGCAATGCGA
9577433 TTTGTGTTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 22
0.67 0.08 0.25
Matches are distributed among these distances:
14 20 0.34
15 1 0.02
16 4 0.07
17 2 0.03
18 11 0.19
19 21 0.36
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:9577465 original size:14 final size:15
Alignment explanation
Indices: 9577446--9577520 Score: 55
Period size: 14 Copynumber: 4.7 Consensus size: 15
9577436 GTGTTTCGCT
9577446 TTGCGATTTTGTCG-
1 TTGCGATTTTGTCGA
*
9577460 TTGCGATTTCATTTCGCA
1 TTGCGATTT--TGTCG-A
*
9577478 TTGCGATTTTCATTTCGCA
1 TTGCGA-TTT--TGTCG-A
9577497 TTGCGATTTTGTCG-
1 TTGCGATTTTGTCGA
9577511 TTGCGATTTT
1 TTGCGATTTT
9577521 CATTTCGCAT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
14 19 0.35
16 8 0.15
18 9 0.17
19 18 0.33
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.49
Consensus pattern (15 bp):
TTGCGATTTTGTCGA
Found at i:9577473 original size:19 final size:18
Alignment explanation
Indices: 9577460--9577578 Score: 102
Period size: 19 Copynumber: 6.5 Consensus size: 18
9577450 GATTTTGTCG
9577460 TTGCGATTTCATTTCGCA
1 TTGCGATTTCATTTCGCA
9577478 TTGCGATTTTCATTTCGCA
1 TTGCGA-TTTCATTTCGCA
*
9577497 TTGCGATTT--TGTCG--
1 TTGCGATTTCATTTCGCA
9577511 TTGCGATTTTCATTTCGCA
1 TTGCGA-TTTCATTTCGCA
** *
9577530 TTGCGATAGCCATTTCCGCG
1 TTGCGAT-TTCATTT-CGCA
* *
9577550 TTGCGATAGTCATTTTCGCG
1 TTGCGAT-TTCA-TTTCGCA
9577570 TTGCGATTT
1 TTGCGATTT
9577579 TAAGTTTCGT
Statistics
Matches: 85, Mismatches: 7, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
14 6 0.07
15 3 0.04
16 4 0.05
17 4 0.05
18 10 0.12
19 30 0.35
20 25 0.29
21 3 0.04
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (18 bp):
TTGCGATTTCATTTCGCA
Found at i:9577477 original size:51 final size:52
Alignment explanation
Indices: 9577422--9577536 Score: 180
Period size: 51 Copynumber: 2.2 Consensus size: 52
9577412 GAAATGAAAA
* * *
9577422 TCGCAATGCGATTTGT-GTTTCGCTTTGCGATTTTGTCGTTGCGA-TTTCATT
1 TCGCATTGCGATTT-TCATTTCGCATTGCGATTTTGTCGTTGCGATTTTCATT
9577473 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTGTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTGTCGTTGCGATTTTCATT
9577525 TCGCATTGCGAT
1 TCGCATTGCGAT
9577537 AGCCATTTCC
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
50 1 0.02
51 39 0.66
52 19 0.32
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTTTGTCGTTGCGATTTTCATT
Found at i:9577555 original size:20 final size:19
Alignment explanation
Indices: 9577521--9577576 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
9577511 TTGCGATTTT
*
9577521 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
9577540 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
9577560 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
9577577 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:9578039 original size:42 final size:42
Alignment explanation
Indices: 9577942--9578030 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
9577932 GACTCACCTG
* * *
9577942 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCCCCAACCGTTCAAGAGGCCACTA
* * *
9577984 TCCTCCCTCAAGAGTCCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCAACCGTTCAAGAGGCCACTA
9578026 TCATC
1 TCATC
9578031 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.21, C:0.44, G:0.15, T:0.20
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCCCCAACCGTTCAAGAGGCCACTA
Found at i:9579466 original size:14 final size:14
Alignment explanation
Indices: 9579447--9579482 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9579437 ATTGTTTAAT
9579447 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
9579461 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
9579475 TGATTTGT
1 TGATTTGT
9579483 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:9579628 original size:14 final size:14
Alignment explanation
Indices: 9579609--9579662 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
9579599 GAAACTGACT
9579609 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
9579623 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
9579642 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
9579656 ATCGCAA
1 ATCGCAA
9579663 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:9579711 original size:20 final size:20
Alignment explanation
Indices: 9579686--9579781 Score: 97
Period size: 20 Copynumber: 4.8 Consensus size: 20
9579676 TCGCATTGCA
*
9579686 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
***
9579706 ATTTTC-ACGTTGCGATTTTTC
1 ATTTTCGA-GTTGCGA-TAGCC
*
9579727 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
9579746 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
9579766 ATTTTCGTGTTGCGAT
1 ATTTTCGAGTTGCGAT
9579782 TTCCCCGTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
19 4 0.06
20 54 0.87
21 4 0.06
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:9579772 original size:40 final size:41
Alignment explanation
Indices: 9579686--9579781 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 41
9579676 TCGCATTGCA
* ***
9579686 ATTTTCTAGTTGCGATAGCCATTTTCACGTTGCGATTTTTC
1 ATTTTCGAGTTGCGATAGCCATTTTCACGTTGCGATTAGCC
* *
9579727 A-TTTCGAATTGCGATAGCCATTTTCGCGTTGCGA-TAGCC
1 ATTTTCGAGTTGCGATAGCCATTTTCACGTTGCGATTAGCC
*
9579766 ATTTTCGTGTTGCGAT
1 ATTTTCGAGTTGCGAT
9579782 TTCCCCGTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.07
40 42 0.91
41 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.42
Consensus pattern (41 bp):
ATTTTCGAGTTGCGATAGCCATTTTCACGTTGCGATTAGCC
Found at i:9580020 original size:20 final size:20
Alignment explanation
Indices: 9580004--9580061 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
9579994 ATTGCGATTT
*
9580004 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCTCGTTGCGATAG
9580024 TCAGAATCTCGTTGCGATAG
1 TCAGAATCTCGTTGCGATAG
* * *
9580044 TCAGTATCGCATTGCGAT
1 TCAGAATCTCGTTGCGAT
9580062 TTTCCAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (20 bp):
TCAGAATCTCGTTGCGATAG
Found at i:9580317 original size:12 final size:12
Alignment explanation
Indices: 9580298--9580331 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9580288 CTCTCCGGCG
9580298 ACATCCGTTCCT
1 ACATCCGTTCCT
*
9580310 ATATCCGTTCCT
1 ACATCCGTTCCT
9580322 ACATCC-TTCC
1 ACATCCGTTCC
9580332 CCATCCGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:9580937 original size:24 final size:24
Alignment explanation
Indices: 9580886--9580939 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
9580876 GTATTCGAAA
* *
9580886 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCAGAC
* *
9580910 TTTGATATTGGTCAATACTCAGAT
1 TTTGATATTGGTCAATACCCAGAC
9580934 TTTGAT
1 TTTGAT
9580940 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCAGAC
Found at i:9581131 original size:12 final size:12
Alignment explanation
Indices: 9581114--9581150 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
9581104 ATATAATCCT
9581114 GAAGAAGAAAAA
1 GAAGAAGAAAAA
9581126 GAAGAAGAAAAA
1 GAAGAAGAAAAA
9581138 GAAGAAGAAAAA
1 GAAGAAGAAAAA
9581150 G
1 G
9581151 TCCCCGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:9583464 original size:19 final size:19
Alignment explanation
Indices: 9583442--9583565 Score: 80
Period size: 19 Copynumber: 7.3 Consensus size: 19
9583432 GAAAATTACT
9583442 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9583461 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
9583475 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
9583494 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
9583508 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
9583527 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
9583541 ATCGAAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
9583560 ATCGCA
1 ATCGCA
9583566 TCGCGAATTT
Statistics
Matches: 76, Mismatches: 14, Indels: 30
0.63 0.12 0.25
Matches are distributed among these distances:
14 26 0.34
15 3 0.04
16 6 0.08
17 6 0.08
18 3 0.04
19 32 0.42
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:9583484 original size:33 final size:33
Alignment explanation
Indices: 9583442--9583565 Score: 187
Period size: 33 Copynumber: 3.8 Consensus size: 33
9583432 GAAAATTACT
9583442 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
9583475 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
9583507 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
9583541 ATCGAAATGCGAAATGAAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCA
9583566 TCGCGAATTT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.98
34 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:9583550 original size:66 final size:66
Alignment explanation
Indices: 9583443--9583575 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
9583433 AAAATTACTA
* *
9583443 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGAAATGCGAAATGAAAATCGCAACGCGAAT
9583508 T
66 T
* *
9583509 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGAAATGCGAAATGAAAATCGCATCGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGAAATGCGAAATGAAAATCGCAACGCGAAT
9583574 T
66 T
9583575 T
1 T
9583576 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGAAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:9583603 original size:19 final size:19
Alignment explanation
Indices: 9583577--9583643 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
9583567 CGCGAATTTA
9583577 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
9583596 ATTTCGCGTTGCGA--TTC
1 ATTTCGCGTTGCGATTTTC
*
9583613 ---TCTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
9583629 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
9583644 AGTACTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.25
16 3 0.08
17 3 0.08
19 24 0.60
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:9583769 original size:14 final size:14
Alignment explanation
Indices: 9583750--9583786 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
9583740 CATCAATTAA
9583750 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
9583764 ACAAATCACCTTTT
1 ACAAATCAACTTTT
9583778 ACAAATCAA
1 ACAAATCAA
9583787 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:9585173 original size:21 final size:21
Alignment explanation
Indices: 9585149--9585264 Score: 56
Period size: 21 Copynumber: 5.5 Consensus size: 21
9585139 GTGGGAGCGA
9585149 CCTCTTCAACGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
* * ** *
9585170 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTCAACGATGACAGTGG
* * * * *
9585191 ACTC-TCGAGGAATGATAGGGG
1 CCTCTTCAACG-ATGACAGTGG
*
9585212 CCTCTTCAACGAT-AGGAGTGG
1 CCTCTTCAACGATGA-CAGTGG
* * **
9585233 ACTCTTGAGGGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
*
9585254 CCTCTTGAACG
1 CCTCTTCAACG
9585265 GTGGGAGGGG
Statistics
Matches: 66, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
20 4 0.06
21 57 0.86
22 5 0.08
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.22
Consensus pattern (21 bp):
CCTCTTCAACGATGACAGTGG
Found at i:9585214 original size:42 final size:42
Alignment explanation
Indices: 9585168--9585331 Score: 202
Period size: 42 Copynumber: 3.9 Consensus size: 42
9585158 CGATGACAGT
* * *
9585168 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * * * *
9585210 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGT
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
9585252 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
9585294 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
9585332 CAGGCGAGTC
Statistics
Matches: 100, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 100 1.00
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:9585270 original size:84 final size:84
Alignment explanation
Indices: 9585159--9585334 Score: 352
Period size: 84 Copynumber: 2.1 Consensus size: 84
9585149 CCTCTTCAAC
9585159 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
9585224 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
9585243 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
9585308 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
9585327 GATGACAG
1 GATGACAG
9585335 GCGAGTCGGG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:9585279 original size:21 final size:21
Alignment explanation
Indices: 9585171--9585279 Score: 53
Period size: 21 Copynumber: 5.2 Consensus size: 21
9585161 TGACAGTGGC
9585171 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
* ** *
9585192 CTCTCG-A-GGAATGATAGGGGC
1 CTCTTGAACGG--TGGGAGGGGA
* * * *
9585213 CTCTTCAACGATAGGAGTGGA
1 CTCTTGAACGGTGGGAGGGGA
* ** * *
9585234 CTCTTG-AGGGATGACAGTGGC
1 CTCTTGAACGG-TGGGAGGGGA
9585255 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
9585276 CTCT
1 CTCT
9585280 CGAGGAATGA
Statistics
Matches: 58, Mismatches: 24, Indels: 12
0.62 0.26 0.13
Matches are distributed among these distances:
19 2 0.03
20 3 0.05
21 48 0.83
22 4 0.07
23 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.39, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:9585715 original size:91 final size:88
Alignment explanation
Indices: 9585554--9585736 Score: 278
Period size: 91 Copynumber: 2.0 Consensus size: 88
9585544 ATTTCAAACT
*
9585554 TTCAACCAAAAGAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAG
1 TTCAACCAAAAGAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGCAG
9585619 AATTGGCAGCAACCGAATAAATTTAC
63 AATTGGCAGCAACCGAATAAATTTAC
9585645 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAG--AAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
9585709 GTATTGGCAGCAACCGAATAAATTTAC
62 GAATTGGCAGCAACCGAATAAATTTAC
9585736 T
1 T
9585737 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
91 54 0.63
93 5 0.06
95 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (88 bp):
TTCAACCAAAAGAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAAT
TGGCAGCAACCGAATAAATTTAC
Found at i:9587434 original size:14 final size:14
Alignment explanation
Indices: 9587415--9587470 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
9587405 GGAAATGACT
9587415 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
9587429 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
9587446 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
9587462 ATCGCAACG
1 ATCGCAACG
9587471 CGAAATGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:9587448 original size:33 final size:33
Alignment explanation
Indices: 9587391--9587489 Score: 189
Period size: 33 Copynumber: 3.0 Consensus size: 33
9587381 ACGAGATAAT
9587391 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
9587425 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
9587458 GAGAATCGCAACGCGAAATGACTATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
9587490 CGAAATGAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 51 0.78
34 14 0.22
ACGTcount: A:0.38, C:0.24, G:0.25, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:9587494 original size:52 final size:52
Alignment explanation
Indices: 9587428--9587544 Score: 189
Period size: 52 Copynumber: 2.2 Consensus size: 52
9587418 GCAACGAGAG
** *
9587428 AATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
*
9587480 TATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
*
9587532 AATCGCAATGCGA
1 AATCGCAACGCGA
9587545 TTTTGGTTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.42, C:0.23, G:0.23, T:0.12
Consensus pattern (52 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
Found at i:9587537 original size:19 final size:19
Alignment explanation
Indices: 9587366--9587544 Score: 136
Period size: 19 Copynumber: 10.1 Consensus size: 19
9587356 TCTTTTGGTT
* *
9587366 GAAATGAAAATCGCAACGA
1 GAAATGAGAATCGCAACGC
9587385 GATAATGAGAATCGCAACGC
1 GA-AATGAGAATCGCAACGC
**
9587405 GGAAATGACTATCGCAA--C
1 -GAAATGAGAATCGCAACGC
9587423 G--A-GAGAATCGCAACGC
1 GAAATGAGAATCGCAACGC
**
9587439 GAAATGACTATCGCAA--C
1 GAAATGAGAATCGCAACGC
9587456 G--A-GAGAATCGCAACGC
1 GAAATGAGAATCGCAACGC
**
9587472 GAAATGACTATCGCAACGC
1 GAAATGAGAATCGCAACGC
*
9587491 GAAATGAAAATCGCAA--C
1 GAAATGAGAATCGCAACGC
9587508 G--A-GAGAATCGCAACGC
1 GAAATGAGAATCGCAACGC
* *
9587524 GAAATGAAAATCGCAATGC
1 GAAATGAGAATCGCAACGC
9587543 GA
1 GA
9587545 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 17, Indels: 34
0.71 0.10 0.19
Matches are distributed among these distances:
14 28 0.22
15 3 0.02
16 6 0.05
17 5 0.04
18 4 0.03
19 51 0.40
20 27 0.21
21 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAGAATCGCAACGC
Found at i:9587573 original size:19 final size:19
Alignment explanation
Indices: 9587540--9587606 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
9587530 AAAATCGCAA
**
9587540 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
9587559 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
9587578 TGCGATAGTTATTTTCGCGT
1 TGCGATTTTTA-TTTCGCGT
9587598 TGCGATTTT
1 TGCGATTTT
9587607 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 26 0.63
20 15 0.37
ACGTcount: A:0.10, C:0.15, G:0.25, T:0.49
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:9588143 original size:20 final size:20
Alignment explanation
Indices: 9588118--9588167 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
9588108 GCGCTATGTA
9588118 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
9588138 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
9588158 TATCTCGTTG
1 AATCGCGTTG
9588168 TGATTTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:9588204 original size:20 final size:20
Alignment explanation
Indices: 9588179--9588228 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
9588169 GATTTTGTAT
*
9588179 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCAATAGTAAG
* *
9588199 TATCGCATTGCAATAGTCAT
1 TATCGCATTGCAATAGTAAG
9588219 TATCGCATTG
1 TATCGCATTG
9588229 TGATTTTCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (20 bp):
TATCGCATTGCAATAGTAAG
Found at i:9588217 original size:61 final size:61
Alignment explanation
Indices: 9588119--9588235 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
9588109 CGCTATGTAA
* * * * *
9588119 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGTGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGTGATTTTGTATT
* * *
9588180 ATCGCATTGCGATAGTAAGTATCGCATTGC-AATAGTCATTATCGCATTGTGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAA-AGTCAGTATCGCATTGTGATTTT
9588236 CCCAATTCGC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 2 0.04
61 45 0.96
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGTGATTTTGTATT
Found at i:9588251 original size:61 final size:61
Alignment explanation
Indices: 9588119--9588253 Score: 139
Period size: 61 Copynumber: 2.2 Consensus size: 61
9588109 CGCTATGTAA
* * * * * ** *
9588119 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGTGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGTGATTTTCCAAT
* * *
9588180 ATCGCATTGCGATAGTAAGTATCGCATTGC-AATAGTCATTATCGCATTGTGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAA-AGTCAGTATCGCATTGTGATTTT-CCAAT
9588242 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
9588254 TTACTTATTC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
60 2 0.03
61 56 0.93
62 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGTGATTTTCCAAT
Found at i:9588343 original size:21 final size:21
Alignment explanation
Indices: 9588303--9588343 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9588293 ACTGTAGACC
** *
9588303 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATACAACT
9588324 ATCGCAACGCGAAATACAAC
1 ATCGCAACGCGAAATACAAC
9588344 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.32, G:0.15, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATACAACT
Found at i:9591126 original size:21 final size:21
Alignment explanation
Indices: 9591041--9591161 Score: 72
Period size: 21 Copynumber: 5.8 Consensus size: 21
9591031 TAACAAACCA
9591041 CAAACCCTAAATTACAACA-C
1 CAAACCCTAAATTACAACATC
* * *
9591061 CTAACACC-AAATAACAACCT-
1 CAAAC-CCTAAATTACAACATC
* * * *
9591081 AAAACCCCCACATTGCATA-ATC
1 CAAA-CCCTAAATTACA-ACATC
9591103 CAAACCCTAAATTACAACATC
1 CAAACCCTAAATTACAACATC
* * * *
9591124 CAACCCCTAACTTATAAGA-C
1 CAAACCCTAAATTACAACATC
9591144 CTAAACCCTAAATTACAA
1 C-AAACCCTAAATTACAA
9591162 TACTTTAAAC
Statistics
Matches: 73, Mismatches: 20, Indels: 15
0.68 0.19 0.14
Matches are distributed among these distances:
20 20 0.27
21 49 0.67
22 4 0.05
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.18
Consensus pattern (21 bp):
CAAACCCTAAATTACAACATC
Found at i:9591181 original size:42 final size:40
Alignment explanation
Indices: 9591104--9591232 Score: 123
Period size: 42 Copynumber: 3.1 Consensus size: 40
9591094 TGCATAATCC
* * * *
9591104 AAACCCTAAATTACAACATCCAACCCCTAACTTATAAGACCT
1 AAACCCTAAATTACAATATCTAAACCC-AAATTATAA-ACCT
* * *
9591146 AAACCCTAAATTACAATACTTTAAACCCAAGTTATAACCCT
1 AAACCCTAAATTACAATA-TCTAAACCCAAATTATAAACCT
* * *
9591187 AAACTCTAAATCACAATATCTAAACTCCAAATTATAACAACT
1 AAACCCTAAATTACAATATCTAAAC-CCAAATTATAA-ACCT
9591229 AAAC
1 AAAC
9591233 TTCAAAATAC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
40 6 0.08
41 29 0.40
42 31 0.43
43 6 0.08
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.24
Consensus pattern (40 bp):
AAACCCTAAATTACAATATCTAAACCCAAATTATAAACCT
Found at i:9591203 original size:41 final size:41
Alignment explanation
Indices: 9591135--9591246 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 41
9591125 AACCCCTAAC
* * * *
9591135 TTATAAGACCTAAACCCTAAATTACAATACTTTAAAC-CCAAG
1 TTATAACACCTAAACTCTAAA-TACAATA-TCTAAACTCCAAA
9591177 TTATAAC-CCTAAACTCTAAATCACAATATCTAAACTCCAAA
1 TTATAACACCTAAACTCTAAAT-ACAATATCTAAACTCCAAA
* *
9591218 TTATAACAACTAAACTTCAAAATACAATA
1 TTATAACACCTAAAC-TCTAAATACAATA
9591247 ACCAAATCCC
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
40 7 0.12
41 29 0.48
42 18 0.30
43 6 0.10
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (41 bp):
TTATAACACCTAAACTCTAAATACAATATCTAAACTCCAAA
Found at i:9591230 original size:21 final size:21
Alignment explanation
Indices: 9591167--9591238 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
9591157 TACAATACTT
* *
9591167 TAAAC-CCAAGTTATAAC-CC
1 TAAACTCCAAATTATAACAAC
* * * * *
9591186 TAAACTCTAAATCACAATATC
1 TAAACTCCAAATTATAACAAC
9591207 TAAACTCCAAATTATAACAAC
1 TAAACTCCAAATTATAACAAC
*
9591228 TAAACTTCAAA
1 TAAACTCCAAA
9591239 ATACAATAAC
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
19 5 0.13
20 7 0.18
21 27 0.69
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (21 bp):
TAAACTCCAAATTATAACAAC
Found at i:9604939 original size:117 final size:116
Alignment explanation
Indices: 9604732--9605011 Score: 400
Period size: 117 Copynumber: 2.4 Consensus size: 116
9604722 TGGCGGGGTG
* *
9604732 GGCATCCATCTAACAACAAGGCCTTGTGAAGGTTGAGTTGATGTTGGAGTTGGTCTTAGGGTGGT
1 GGCATCCATCTAACAACATGGCCTTGTGAAGGTTGAGTTGATGTTCGAGTTGGTCTTAGGGTGGT
* * * *
9604797 TCTATCTTGACTTATTTTTGGGATGGTTCTATCTTGACTTGTTATTGTGGTA-
66 TCTATCTTGAATTATTGTTGAGATGGTTCTAACTTGACTTGTTATTG-GG-AC
*
9604849 GGCATCCATCTAACAACATGGCCTTGTGAAGGTTGAGTTGATGTTCGAGTTGGTCTTGGGGTGGT
1 GGCATCCATCTAACAACATGGCCTTGTGAAGGTTGAGTTGATGTTCGAGTTGGTCTTAGGGTGGT
* *
9604914 TCTATCTTGAATTGTTGTTGAGATGGTTCTAACTTGACTTGTTGTTGGGAC
66 TCTATCTTGAATTATTGTTGAGATGGTTCTAACTTGACTTGTTATTGGGAC
* * * * *
9604965 GAGCATCCATCTAACAATATGGTCATGTGAAGGTTAAGTTGGTGTTC
1 G-GCATCCATCTAACAACATGGCCTTGTGAAGGTTGAGTTGATGTTC
9605012 CAACTTTTCT
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
115 1 0.01
116 3 0.02
117 143 0.97
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.38
Consensus pattern (116 bp):
GGCATCCATCTAACAACATGGCCTTGTGAAGGTTGAGTTGATGTTCGAGTTGGTCTTAGGGTGGT
TCTATCTTGAATTATTGTTGAGATGGTTCTAACTTGACTTGTTATTGGGAC
Found at i:9608546 original size:19 final size:19
Alignment explanation
Indices: 9608524--9608565 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
9608514 AATTGTTTAG
9608524 TAACCCTAAA-CTAAAATGT
1 TAACCCTAAATC-AAAATGT
* *
9608543 TAACCTTAAATCAAGATGT
1 TAACCCTAAATCAAAATGT
9608562 TAAC
1 TAAC
9608566 AGCAAACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.29
Consensus pattern (19 bp):
TAACCCTAAATCAAAATGT
Found at i:9608577 original size:57 final size:56
Alignment explanation
Indices: 9608479--9608590 Score: 138
Period size: 57 Copynumber: 2.0 Consensus size: 56
9608469 ACCTTGAACC
* **
9608479 AAAATGTTAACCCTAAACTAAGATGTTAATATTAAAATTGTTTAG-TAACCCTAAACT
1 AAAATGTTAACCCTAAACTAAGATGTTAACAGCAAAATTGTTT-GTTAACCC-AAACT
* *
9608536 AAAATGTTAACCTTAAA-TCAAGATGTTAACAGCAAACTTGTTTGTTAACCCAAAC
1 AAAATGTTAACCCTAAACT-AAGATGTTAACAGCAAAATTGTTTGTTAACCCAAAC
9608591 CCTAAATATT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
56 6 0.12
57 42 0.88
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (56 bp):
AAAATGTTAACCCTAAACTAAGATGTTAACAGCAAAATTGTTTGTTAACCCAAACT
Found at i:9608669 original size:20 final size:20
Alignment explanation
Indices: 9608594--9608669 Score: 61
Period size: 19 Copynumber: 3.9 Consensus size: 20
9608584 CCCAAACCCT
* *
9608594 AAATATTAACCC-AAATATA
1 AAATATTAACCCTAAATCTC
9608613 AAATATTAA-CCTCAAA-CTC
1 AAATATTAACCCT-AAATCTC
** *
9608632 ATTTATTCAACCAT-AATCTC
1 AAATATT-AACCCTAAATCTC
9608652 AAATATTAACCCTAAATC
1 AAATATTAACCCTAAATC
9608670 ATAAAAAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
18 2 0.05
19 22 0.51
20 17 0.40
21 2 0.05
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATATTAACCCTAAATCTC
Found at i:9609148 original size:3 final size:3
Alignment explanation
Indices: 9609140--9609180 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
9609130 TATTTTTAAA
**
9609140 ATT ATT ATT ATT ATT ATT AAC ATTT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT A
9609181 AATAAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.97
4 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:9610629 original size:138 final size:143
Alignment explanation
Indices: 9610481--9610851 Score: 327
Period size: 148 Copynumber: 2.6 Consensus size: 143
9610471 AATTAAATAA
9610481 TAATGTTTATTTATTTTTAATATCAAAGAAAATGGCAGTCTTAATATAACTGGATGTCCTATTCT
1 TAATGTTTATTTATTTTTAATATCAAAGAAAATGGCAGTCTTAA-ATAACTGGATGTCCTATTCT
* * * *
9610546 GGTATTTTAAATAT-TATAAAAATTATAATT-T-AGT-TTTATTTAA---ATTATTTTTTAGGAA
65 GGTATTTTAAATATAAATAAAAATCATAATTATAAATATATATTTAATTCATTA-TTTTTAGG-A
9610604 AAATTATTACA-TTTT
128 AAATTATTACATTTTT
* * * * * *
9610619 TAATGTTTATTTATTTTTTTAATA-CTAAGAAAA-GAC-GATCATAAAATAATTGGACGTCTTAT
1 TAATGTTTATTTA--TTTTTAATATCAAAGAAAATGGCAG-TC-TTAAATAACTGGATGTCCTAT
* * * * *
9610681 TCTGGTACTTTAAAAATAAATAAATATCATACTTATAAAAATATATATTTACTTCATTATTTTTA
62 TCTGGTATTTTAAATATAAATAAAAATCATAATTAT--AAATATATATTTAATTCATTATTTTTA
*
9610746 GGAAAATTATTATATTCTTTT
125 GGAAAATTATTACA-T-TTTT
* * * * *
9610767 TAATATTTATTTATTTATTAATATTAAAGAAAAT-GCAGTCTTAAAGCAACTAGATGTCCTTTTC
1 TAATGTTTATTTATTT-TTAATATCAAAGAAAATGGCAGTCTTAAA-TAACTGGATGTCCTATTC
* *
9610831 TGATATTTTTAA-ATAAATAAA
64 TGGTATTTTAAATATAAATAAA
9610852 TGTCATATTT
Statistics
Matches: 182, Mismatches: 30, Indels: 33
0.74 0.12 0.13
Matches are distributed among these distances:
137 1 0.01
138 46 0.25
139 23 0.13
140 10 0.05
143 2 0.01
144 7 0.04
145 11 0.06
146 11 0.06
147 23 0.13
148 47 0.26
149 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (143 bp):
TAATGTTTATTTATTTTTAATATCAAAGAAAATGGCAGTCTTAAATAACTGGATGTCCTATTCTG
GTATTTTAAATATAAATAAAAATCATAATTATAAATATATATTTAATTCATTATTTTTAGGAAAA
TTATTACATTTTT
Found at i:9612259 original size:36 final size:36
Alignment explanation
Indices: 9612210--9612279 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
9612200 GCTATGGACA
* * *
9612210 CAAAGATCTTGTTATATTAATACCAAAAGTATTCCT
1 CAAAGATCCTGTTAGATTAATACCAAAAGCATTCCT
*
9612246 CAAAGATCCTGTTAGATTGATACCAAAAGCATTC
1 CAAAGATCCTGTTAGATTAATACCAAAAGCATTC
9612280 TACGGTAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (36 bp):
CAAAGATCCTGTTAGATTAATACCAAAAGCATTCCT
Found at i:9619116 original size:75 final size:75
Alignment explanation
Indices: 9618988--9619146 Score: 219
Period size: 75 Copynumber: 2.1 Consensus size: 75
9618978 AATGATGGAG
* * * *
9618988 CATGCTTAAAGCCCATTTCAATCATAATCAGGAATATTGACACATTTTAAACGTTTGTATTAGCC
1 CATGCTGAAAACCCATTTCAATCAGAATCAGGAATATTGACACACTTTAAACGTTTGTATTAGCC
9619053 AATGTTGGGC
66 AATGTTGGGC
* *** * *
9619063 CATGCTGAAAACCCCTTTCAATCAGAATCAGGAATATTGATGTACTTTGAACGTTTGTATTAGCT
1 CATGCTGAAAACCCATTTCAATCAGAATCAGGAATATTGACACACTTTAAACGTTTGTATTAGCC
*
9619128 AATGTTGGGG
66 AATGTTGGGC
9619138 CATGCTGAA
1 CATGCTGAA
9619147 GATCCATATC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (75 bp):
CATGCTGAAAACCCATTTCAATCAGAATCAGGAATATTGACACACTTTAAACGTTTGTATTAGCC
AATGTTGGGC
Found at i:9619995 original size:54 final size:53
Alignment explanation
Indices: 9619936--9620153 Score: 244
Period size: 54 Copynumber: 4.0 Consensus size: 53
9619926 CATTGGCCAG
* * *
9619936 ACATCTGGGCAAAAGCGACAAGAAAGGATGAATGTGTTGTCAAATGCTTTACGA
1 ACATCTGTGCAAAAGC-ACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGA
* *
9619990 ACATCTGTG-AAGAAGTCACATGAAATGATGAATGTGTTGTCGAATGTTTTACGA
1 ACATCTGTGCAA-AAG-CACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGA
* * * * *
9620044 ACATCTGAGCAGAAGC-CACAGAAAATGATGAATGTATTGTTAAATG-TTTATGAA
1 ACATCTGTGCAAAAGCACA-AG-AAATGATGAATGTGTTGTCAAATGTTTTACG-A
* *
9620098 ACATCTGTACAAAAATCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGA
1 ACATCTGTGC-AAAAGCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGA
9620152 AC
1 AC
9620154 TAGTTATTCT
Statistics
Matches: 136, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
52 2 0.01
53 9 0.07
54 110 0.81
55 13 0.10
56 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.28
Consensus pattern (53 bp):
ACATCTGTGCAAAAGCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGA
Found at i:9620125 original size:108 final size:108
Alignment explanation
Indices: 9619936--9620153 Score: 289
Period size: 108 Copynumber: 2.0 Consensus size: 108
9619926 CATTGGCCAG
* * *
9619936 ACATCTGGGCAAAAGCGACAAGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATCTGTGAA
1 ACATCTGAGCAAAAGCCACAAGAAAGGATGAATGTATTGTCAAATGCTTTACGAACATCTGTGAA
* * * *
9620001 GAAGTCACATGAAATGATGAATGTGTTGTCGAATGTTTTACGA
66 AAAATCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGA
* * * *
9620044 ACATCTGAGCAGAAGCCAC-AGAAAATGATGAATGTATTGTTAAATG-TTTATGAAACATCTGT-
1 ACATCTGAGCAAAAGCCACAAG-AAAGGATGAATGTATTGTCAAATGCTTTACG-AACATCTGTG
9620106 ACAAAAATCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGA
64 A-AAAAATCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGA
9620152 AC
1 AC
9620154 TAGTTATTCT
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
107 8 0.08
108 88 0.92
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.28
Consensus pattern (108 bp):
ACATCTGAGCAAAAGCCACAAGAAAGGATGAATGTATTGTCAAATGCTTTACGAACATCTGTGAA
AAAATCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGA
Found at i:9620544 original size:22 final size:22
Alignment explanation
Indices: 9620514--9620597 Score: 96
Period size: 22 Copynumber: 3.8 Consensus size: 22
9620504 TATCTACATC
*
9620514 TACATTCTTCAAAGATGATAGA
1 TACACTCTTCAAAGATGATAGA
9620536 TACACTCTTCAAAGATGATAGA
1 TACACTCTTCAAAGATGATAGA
* * * *
9620558 TTCTCTTTTCAATGATGATAGA
1 TACACTCTTCAAAGATGATAGA
* * *
9620580 TTCTCTTTTCAAAGATGA
1 TACACTCTTCAAAGATGA
9620598 AAGCTTTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (22 bp):
TACACTCTTCAAAGATGATAGA
Found at i:9621325 original size:45 final size:45
Alignment explanation
Indices: 9621261--9621462 Score: 359
Period size: 45 Copynumber: 4.5 Consensus size: 45
9621251 CTATTTTCCA
9621261 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
9621306 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
9621351 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAGCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
9621396 CATCTATAAGCCCTTTAGTGCATGATGTTTTCAAAATCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
9621441 CATCTGTAAGCCCTTCAGTGCA
1 CATCTGTAAGCCCTTCAGTGCA
9621463 AGATAATAAG
Statistics
Matches: 149, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 149 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:9621416 original size:90 final size:90
Alignment explanation
Indices: 9621261--9621517 Score: 360
Period size: 90 Copynumber: 2.9 Consensus size: 90
9621251 CTATTTTCCA
*
9621261 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTG
9621326 CATGATGTTTTCAAAACCTTCGAGT
66 CATGATGTTTTCAAAACCTTCGAGT
* *
9621351 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAGCTTCGGGTCATCTATAAGCCCTTTAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTG
* *
9621416 CATGATGTTTTCAAAATCTTCGGGT
66 CATGATGTTTTCAAAACCTTCGAGT
* ** * * * *
9621441 CATCTGTAAGCCCTTCAGTGCAAGA--TAAT-AAGACC-TCAGGGTCATCCATAAGACCTCCAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC-GGGTCATCTATAAGCCCTTCAGT
*
9621502 GCAGGATGTTTTCAAA
65 GCATGATGTTTTCAAA
9621518 TGAGATTTTA
Statistics
Matches: 151, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
86 2 0.01
87 38 0.25
88 2 0.01
90 109 0.72
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (90 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTG
CATGATGTTTTCAAAACCTTCGAGT
Found at i:9621788 original size:3 final size:3
Alignment explanation
Indices: 9621780--9621817 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
9621770 TATTTTTAAA
9621780 ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT A
9621818 AATAAATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9621804 original size:19 final size:19
Alignment explanation
Indices: 9621780--9621816 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9621770 TATTTTTAAA
9621780 ATTATTATTATTATTATTT
1 ATTATTATTATTATTATTT
9621799 ATTATTATTATTATTATT
1 ATTATTATTATTATTATT
9621817 AAATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTATTATTATTATTATTT
Found at i:9628096 original size:38 final size:38
Alignment explanation
Indices: 9628054--9628128 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 38
9628044 TATGTATTAC
* * **
9628054 CGGTATTTTGTTCTGTAAATATTTTATATGGTTTTCTA
1 CGGTATTTTGATATGTAAATATTTTATACAGTTTTCTA
* *
9628092 CGGTATTTTGATATGTATATGTTTTATACAGTTTTCT
1 CGGTATTTTGATATGTAAATATTTTATACAGTTTTCT
9628129 GACATATGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.55
Consensus pattern (38 bp):
CGGTATTTTGATATGTAAATATTTTATACAGTTTTCTA
Found at i:9634119 original size:3 final size:3
Alignment explanation
Indices: 9634111--9634180 Score: 95
Period size: 3 Copynumber: 22.7 Consensus size: 3
9634101 AGGTAATATA
* *
9634111 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT ATT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
*
9634157 AAT ATT AAAT AAT AAT AAT AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AA
9634181 AATTTCGAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
3 55 0.93
4 4 0.07
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9635292 original size:59 final size:59
Alignment explanation
Indices: 9635220--9635366 Score: 267
Period size: 59 Copynumber: 2.5 Consensus size: 59
9635210 AAACATATGA
9635220 ATAGTCGATGACCATTTTGTAACTTTTATTAGTTGGGGGACTCAAAAATATAAAATTTC
1 ATAGTCGATGACCATTTTGTAACTTTTATTAGTTGGGGGACTCAAAAATATAAAATTTC
9635279 ATAGTCGATGACCATTTTGTAACTTTTATTAGTTGGGGGACTCAAAAATATAAAATTTC
1 ATAGTCGATGACCATTTTGTAACTTTTATTAGTTGGGGGACTCAAAAATATAAAATTTC
* *
9635338 ATAGTCAATGGATCATTTTGTAACTTTTA
1 ATAGTCGAT-GACCATTTTGTAACTTTTA
9635367 ATATGTAGGA
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
59 67 0.79
60 18 0.21
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (59 bp):
ATAGTCGATGACCATTTTGTAACTTTTATTAGTTGGGGGACTCAAAAATATAAAATTTC
Found at i:9638495 original size:23 final size:21
Alignment explanation
Indices: 9638452--9638514 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
9638442 CATATGAATT
* *
9638452 TGTCCCGAAAGACCGCGTAGAAA
1 TGTCCCGAAAGACCACATAG--A
*
9638475 TGTCCCGAATGACCACATAGA
1 TGTCCCGAAAGACCACATAGA
* *
9638496 TGTCTCGAAGGACCACATA
1 TGTCCCGAAAGACCACATA
9638515 TCACATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 18 0.51
23 17 0.49
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.17
Consensus pattern (21 bp):
TGTCCCGAAAGACCACATAGA
Found at i:9638504 original size:21 final size:21
Alignment explanation
Indices: 9638474--9638514 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9638464 CCGCGTAGAA
*
9638474 ATGTCCCGAATGACCACATAG
1 ATGTCCCGAAGGACCACATAG
*
9638495 ATGTCTCGAAGGACCACATA
1 ATGTCCCGAAGGACCACATA
9638515 TCACATATAT
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:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (21 bp):
ATGTCCCGAAGGACCACATAG
Found at i:9639574 original size:21 final size:19
Alignment explanation
Indices: 9639550--9639589 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
9639540 ATTGCCTTGT
*
9639550 AGTATCGGTACTTACTCAACC
1 AGTATCGATAC-TAC-CAACC
9639571 AGTATCGATACTACCAACC
1 AGTATCGATACTACCAACC
9639590 CAGATTCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 10 0.56
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (19 bp):
AGTATCGATACTACCAACC
Found at i:9642746 original size:23 final size:23
Alignment explanation
Indices: 9642710--9642773 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 23
9642700 TATATGAATC
* *
9642710 TGTCCCAAATGACCACATATAAA
1 TGTCCCGAAGGACCACATATAAA
* *
9642733 TGTCCTGAAGGACCAC--ATAGA
1 TGTCCCGAAGGACCACATATAAA
9642754 TGTCCCGAAGGACCACATAT
1 TGTCCCGAAGGACCACATAT
9642774 CATATATATG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 19 0.56
23 15 0.44
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (23 bp):
TGTCCCGAAGGACCACATATAAA
Found at i:9644016 original size:22 final size:23
Alignment explanation
Indices: 9643974--9644016 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
9643964 ACATGAAGTG
*
9643974 TTGGAGCTGAAAAGAGTAAATTT
1 TTGGAGCTGAAAAGAGAAAATTT
9643997 TTGG-GCTGAAAA-AGGAAAAT
1 TTGGAGCTGAAAAGA-GAAAAT
9644017 CTGGGCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 1 0.06
22 13 0.72
23 4 0.22
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.26
Consensus pattern (23 bp):
TTGGAGCTGAAAAGAGAAAATTT
Found at i:9645394 original size:15 final size:15
Alignment explanation
Indices: 9645374--9645404 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9645364 GATATGTGAA
9645374 TTATATGAAAATAAG
1 TTATATGAAAATAAG
9645389 TTATATGAAAATAAG
1 TTATATGAAAATAAG
9645404 T
1 T
9645405 ATAGTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (15 bp):
TTATATGAAAATAAG
Found at i:9646873 original size:32 final size:31
Alignment explanation
Indices: 9646837--9646899 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
9646827 CTGGATATTG
9646837 TTGAA-TTCTATTTTTAATATATAAATGATTTT
1 TTGAACTTCTA-TTTT-ATATATAAATGATTTT
* * *
9646869 TTGAACTTGTATTTTATCTATAAATTATTTT
1 TTGAACTTCTATTTTATATATAAATGATTTT
9646900 GCAGATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 14 0.52
32 9 0.33
33 4 0.15
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (31 bp):
TTGAACTTCTATTTTATATATAAATGATTTT
Found at i:9647815 original size:30 final size:29
Alignment explanation
Indices: 9647756--9647832 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 29
9647746 GTATGATCTT
* *
9647756 TATTTTAAATTAATCTTTAAATTTTTAAA
1 TATTTTAAATTAATCTCTAAATTTATAAA
*
9647785 TATTTTAAAATTTCATCTCTAAA-TTATAAA
1 TATTTT-AAA-TTAATCTCTAAATTTATAAA
9647815 TATCATTCTAAATTAATC
1 TAT--TT-TAAATTAATC
9647833 CTTAAACTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
29 6 0.15
30 12 0.31
31 15 0.38
32 5 0.13
33 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (29 bp):
TATTTTAAATTAATCTCTAAATTTATAAA
Found at i:9647826 original size:19 final size:20
Alignment explanation
Indices: 9647792--9647829 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9647782 AAATATTTTA
*
9647792 AAATTTCATCTCTAAATTAT
1 AAATATCATCTCTAAATTAT
9647812 AAATATCAT-TCTAAATTA
1 AAATATCATCTCTAAATTA
9647830 ATCCTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATATCATCTCTAAATTAT
Found at i:9649208 original size:17 final size:17
Alignment explanation
Indices: 9649183--9649225 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
9649173 TTATTTTGGG
*
9649183 TTAAGATTAATTTTAATT
1 TTAA-ATTAATTTTAAGT
9649201 TTAAATTAATTTTAAGT
1 TTAAATTAATTTTAAGT
*
9649218 TTGAATTA
1 TTAAATTA
9649226 GAGATGTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (17 bp):
TTAAATTAATTTTAAGT
Found at i:9651384 original size:28 final size:29
Alignment explanation
Indices: 9651327--9651384 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
9651317 CCAACAACTC
*
9651327 AAAAAAATATATTAAAATTTTATCTTTTA
1 AAAAAAATATATTAAAATTTTATCTGTTA
* *
9651356 AAAATAAAT-TATTAATA-TTTATGTGTTA
1 AAAA-AAATATATTAAAATTTTATCTGTTA
9651384 A
1 A
9651385 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 10 0.40
29 11 0.44
30 4 0.16
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (29 bp):
AAAAAAATATATTAAAATTTTATCTGTTA
Found at i:9655400 original size:45 final size:46
Alignment explanation
Indices: 9655330--9655417 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 46
9655320 ATGTGGTATT
9655330 GACATAAGTGATTATATGAAAATGTGATA-T-AAGCTACGTGATAAG
1 GACATAAGTGATTATATGAAAATGTGATATTGAA-CTACGTGATAAG
* ***
9655375 GACATACGTGATTATATGTCTATGTGATATTGAACTACGTGAT
1 GACATAAGTGATTATATGAAAATGTGATATTGAACTACGTGAT
9655418 TATATGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 25 0.68
46 10 0.27
47 2 0.05
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (46 bp):
GACATAAGTGATTATATGAAAATGTGATATTGAACTACGTGATAAG
Found at i:9655534 original size:23 final size:23
Alignment explanation
Indices: 9655503--9655552 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
9655493 GCCAAGAGTT
*
9655503 GATAGTTCTACACGGTCATTCGG
1 GATAATTCTACACGGTCATTCGG
**
9655526 GATAATTCTACGTGGTCATTCGG
1 GATAATTCTACACGGTCATTCGG
9655549 GATA
1 GATA
9655553 CTTTTACGCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (23 bp):
GATAATTCTACACGGTCATTCGG
Found at i:9655570 original size:23 final size:23
Alignment explanation
Indices: 9655503--9655573 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 23
9655493 GCCAAGAGTT
* * *
9655503 GATAGTTCTACACGGTCATTCGG
1 GATAATTCTACGCGATCATTCGG
* *
9655526 GATAATTCTACGTGGTCATTCGG
1 GATAATTCTACGCGATCATTCGG
* * *
9655549 GATACTTTTACGCGATCCTTCGG
1 GATAATTCTACGCGATCATTCGG
9655572 GA
1 GA
9655574 CAGTACTATG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
GATAATTCTACGCGATCATTCGG
Found at i:9655590 original size:23 final size:23
Alignment explanation
Indices: 9655564--9655617 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
9655554 TTTTACGCGA
*
9655564 TCCTTCGGGACAGTACTATGTGG
1 TCCTTCGGGACAGTACTATATGG
* * *
9655587 TCCTTTGGGACATTTCTATATGG
1 TCCTTCGGGACAGTACTATATGG
*
9655610 TACTTCGG
1 TCCTTCGG
9655618 TGCATATTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (23 bp):
TCCTTCGGGACAGTACTATATGG
Found at i:9661825 original size:3 final size:3
Alignment explanation
Indices: 9661796--9661860 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
9661786 TTGGGTTTTG
* * *
9661796 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
9661843 TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
9661861 AAATGGGTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:9662022 original size:21 final size:21
Alignment explanation
Indices: 9661998--9662039 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9661988 AGTTTATTTT
9661998 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
9662019 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
9662040 AACTTGGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (21 bp):
TAAACTTTGTTTCAATTATCG
Found at i:9662076 original size:33 final size:32
Alignment explanation
Indices: 9662028--9662104 Score: 118
Period size: 33 Copynumber: 2.4 Consensus size: 32
9662018 GTAAACTTTG
*
9662028 TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTGGAAGTATTTAAGTA
* *
9662060 TTTGAATTTATCGAACTTGGAAGTATTTATGTA
1 TTTCAA-TTATCGAACTTGGAAGTATTTAAGTA
9662093 TTTCAATTATCG
1 TTTCAATTATCG
9662105 TAAACTTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 11 0.28
33 29 0.73
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (32 bp):
TTTCAATTATCGAACTTGGAAGTATTTAAGTA
Found at i:9664560 original size:46 final size:45
Alignment explanation
Indices: 9664499--9664586 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 45
9664489 TTGAAAAAGC
* * *
9664499 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATACA
1 CTGAGTGCATCGATGCATGAT-ATGTGCATCGATGCATAAAATACA
9664545 CTGAGTGCATCGATGCATGATATGTGCATCGATGCATAAAAT
1 CTGAGTGCATCGATGCATGATATGTGCATCGATGCATAAAAT
9664587 GCATTCGATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 19 0.49
46 20 0.51
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
CTGAGTGCATCGATGCATGATATGTGCATCGATGCATAAAATACA
Found at i:9667202 original size:20 final size:20
Alignment explanation
Indices: 9667177--9667228 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
9667167 ACCCGACGGA
*
9667177 TGCATCGATGCATGACCCCG
1 TGCATCGATGCATGACCCAG
9667197 TGCATCGATGCATGACCCAG
1 TGCATCGATGCATGACCCAG
9667217 TGCATCGATGCA
1 TGCATCGATGCA
9667229 CATTCAAGGC
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:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (20 bp):
TGCATCGATGCATGACCCAG
Found at i:9667250 original size:23 final size:23
Alignment explanation
Indices: 9667216--9667274 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
9667206 GCATGACCCA
9667216 GTGCATCGATGCACATTCAAGGC
1 GTGCATCGATGCACATTCAAGGC
* *
9667239 GTGCATCAATGCACATTCAAGGT
1 GTGCATCGATGCACATTCAAGGC
9667262 GTGCATCGATGCA
1 GTGCATCGATGCA
9667275 TCAACATGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGGC
Found at i:9673137 original size:64 final size:64
Alignment explanation
Indices: 9673024--9673148 Score: 182
Period size: 64 Copynumber: 2.0 Consensus size: 64
9673014 TGCACTAAGA
**
9673024 GTGCAACGATGCATAAAATGCATTCGATGTTTTGAAAAAGCCTGAGTGCATCGATGCATGGTAT
1 GTGCAACGATGCATAAAATGCATTCGATGTTTTGAAAAAAACTGAGTGCATCGATGCATGGTAT
* *
9673088 GTGCATCGATGCATAAAATGCATTCGATG-TTTGAAAAATTAATTG-GTGCATCGATGCATGG
1 GTGCAACGATGCATAAAATGCATTCGATGTTTTGAAAAA--AACTGAGTGCATCGATGCATGG
9673149 ATTGGTGCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
63 9 0.16
64 44 0.80
65 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (64 bp):
GTGCAACGATGCATAAAATGCATTCGATGTTTTGAAAAAAACTGAGTGCATCGATGCATGGTAT
Found at i:9677428 original size:18 final size:18
Alignment explanation
Indices: 9677405--9677445 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
9677395 GGGACACCCT
9677405 CGATACACTCTATTAACC
1 CGATACACTCTATTAACC
9677423 CGATACACTCTATTAACC
1 CGATACACTCTATTAACC
9677441 CGATA
1 CGATA
9677446 ATTGTACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.32, G:0.07, T:0.27
Consensus pattern (18 bp):
CGATACACTCTATTAACC
Found at i:9679293 original size:31 final size:31
Alignment explanation
Indices: 9679255--9679318 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
9679245 AACCATAATG
*
9679255 TATGAACATGCAACGTAATATTCAAATAAAA
1 TATGAACATGCAACATAATATTCAAATAAAA
9679286 TATGAACATGCAACATAATATTCAAATAAAA
1 TATGAACATGCAACATAATATTCAAATAAAA
9679317 TA
1 TA
9679319 ATCACATTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (31 bp):
TATGAACATGCAACATAATATTCAAATAAAA
Found at i:9681034 original size:21 final size:21
Alignment explanation
Indices: 9681010--9681052 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9681000 TGTACATAAG
*
9681010 TACATGCACATGTT-TATATGA
1 TACATGCAC-TGTTATACATGA
9681031 TACATGCACTGTTATACATGA
1 TACATGCACTGTTATACATGA
9681052 T
1 T
9681053 CTATGTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (21 bp):
TACATGCACTGTTATACATGA
Found at i:9681244 original size:16 final size:17
Alignment explanation
Indices: 9681223--9681270 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
9681213 TGATAAGGAC
*
9681223 CTATGTGATTATATG-T
1 CTATGTGATTATATGAA
9681239 CTATGTGA-TAT-TGAA
1 CTATGTGATTATATGAA
*
9681254 CTACGTGATTATATGAA
1 CTATGTGATTATATGAA
9681271 AAAGTGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 11 0.41
17 4 0.15
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (17 bp):
CTATGTGATTATATGAA
Found at i:9681402 original size:23 final size:23
Alignment explanation
Indices: 9681353--9681477 Score: 99
Period size: 23 Copynumber: 5.4 Consensus size: 23
9681343 GAGTTGAGGG
* * * * *
9681353 TTCTACGTGGTCATTAGGTATAA
1 TTCTACGTGGTCCTTCGGGACAT
9681376 TTCTACGTGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAT
* *
9681399 TTCTACGTGATCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGACAT
* * **
9681422 TACTATGTGGTCCTTTTGGACAT
1 TTCTACGTGGTCCTTCGGGACAT
* **
9681445 TTCTATGTGGGACTTCGGTG-CAT
1 TTCTACGTGGTCCTTCGG-GACAT
9681468 ATTCTACGTG
1 -TTCTACGTG
9681478 ACACTTTGGT
Statistics
Matches: 81, Mismatches: 19, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
23 72 0.89
24 9 0.11
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAT
Found at i:9681406 original size:46 final size:46
Alignment explanation
Indices: 9681353--9681454 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 46
9681343 GAGTTGAGGG
* * *
9681353 TTCTACGTGGTCATTAGGTATAATTCTACGTGGTCCTTCGGGACAT
1 TTCTACGTGGTCATTAGGGACAATACTACGTGGTCCTTCGGGACAT
* * * * **
9681399 TTCTACGTGATCCTTCGGGACAATACTATGTGGTCCTTTTGGACAT
1 TTCTACGTGGTCATTAGGGACAATACTACGTGGTCCTTCGGGACAT
*
9681445 TTCTATGTGG
1 TTCTACGTGG
9681455 GACTTCGGTG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.38
Consensus pattern (46 bp):
TTCTACGTGGTCATTAGGGACAATACTACGTGGTCCTTCGGGACAT
Found at i:9681635 original size:2 final size:2
Alignment explanation
Indices: 9681628--9681697 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
9681618 GATGTTGGTG
9681628 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
9681670 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
9681698 GCTTTGTTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9683802 original size:21 final size:21
Alignment explanation
Indices: 9683778--9683850 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
9683768 TAGTTTTTTG
9683778 TTATTATTATTTATTTTATAA
1 TTATTATTATTTATTTTATAA
***
9683799 TTATTA-TA-TTAAGATAT-A
1 TTATTATTATTTATTTTATAA
*
9683817 TTATTATTTATTTATTTT-TAT
1 TTATTA-TTATTTATTTTATAA
*
9683838 TTATTATTTTTTA
1 TTATTATTATTTA
9683851 ACAGGTTCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
18 7 0.17
19 6 0.15
20 11 0.28
21 16 0.40
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (21 bp):
TTATTATTATTTATTTTATAA
Found at i:9683828 original size:10 final size:10
Alignment explanation
Indices: 9683778--9683850 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
9683768 TAGTTTTTTG
9683778 TTATTATTAT
1 TTATTATTAT
9683788 TTATT-TTA-
1 TTATTATTAT
*
9683796 TAATTATTAT
1 TTATTATTAT
**
9683806 ATTAAGA-TAT
1 -TTATTATTAT
9683816 ATTATTATTTAT
1 -TTATTA-TTAT
*
9683828 TTATTTTTAT
1 TTATTATTAT
*
9683838 TTATTATTTT
1 TTATTATTAT
9683848 TTA
1 TTA
9683851 ACAGGTTCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
8 4 0.08
9 6 0.12
10 28 0.57
11 8 0.16
12 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (10 bp):
TTATTATTAT
Found at i:9683850 original size:14 final size:14
Alignment explanation
Indices: 9683815--9683848 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9683805 TATTAAGATA
*
9683815 TATTATTATTTATT
1 TATTTTTATTTATT
9683829 TATTTTTATTTA-T
1 TATTTTTATTTATT
9683842 TATTTTT
1 TATTTTT
9683849 TAACAGGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTTTTATTTATT
Found at i:9684990 original size:5 final size:5
Alignment explanation
Indices: 9684980--9685015 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
9684970 AACTTTCTTC
*
9684980 ATTTT ATTTT ATTTT GTTTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT
9685016 TTAACATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (5 bp):
ATTTT
Found at i:9685002 original size:16 final size:16
Alignment explanation
Indices: 9684981--9685016 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9684971 ACTTTCTTCA
*
9684981 TTTTATTTTATTTTGT
1 TTTTATTTTATTTTAT
9684997 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
9685013 TTTT
1 TTTT
9685017 TAACATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:9689591 original size:15 final size:15
Alignment explanation
Indices: 9689571--9689604 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
9689561 AGAGATTAAT
9689571 AACATCAATGCTTTC
1 AACATCAATGCTTTC
*
9689586 AACATCAATGCTTTT
1 AACATCAATGCTTTC
9689601 AACA
1 AACA
9689605 CTAGTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (15 bp):
AACATCAATGCTTTC
Found at i:9694806 original size:31 final size:31
Alignment explanation
Indices: 9694770--9694852 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 31
9694760 TGAGTACCTT
* *
9694770 GGGGCCTGAGAACCTACCCAAGAAAATTCTC
1 GGGGCCTGAGAGCCTACCCAAGAAAAATCTC
** * *
9694801 GGGGCCACAGAGGCTTGCCCAAGAAAAATCTC
1 GGGGCCTGAGA-GCCTACCCAAGAAAAATCTC
9694833 GGGG-CTGTAGAGCCTACCCA
1 GGGGCCTG-AGAGCCTACCCA
9694853 TGGAATTACC
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
31 17 0.43
32 23 0.57
ACGTcount: A:0.29, C:0.29, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGGCCTGAGAGCCTACCCAAGAAAAATCTC
Found at i:9696065 original size:22 final size:22
Alignment explanation
Indices: 9696014--9696091 Score: 81
Period size: 21 Copynumber: 3.6 Consensus size: 22
9696004 TTGATGCAAG
* *
9696014 GGGTATCGATA-CATGTATGAA
1 GGGTATCGATACCATATGTGAA
**
9696035 CAGTATCGATACCATATG-GAA
1 GGGTATCGATACCATATGTGAA
*
9696056 GAGGTATCGATACC-TATGTGGA
1 G-GGTATCGATACCATATGTGAA
9696078 GGGTATCGATACCA
1 GGGTATCGATACCA
9696092 GGGATCATCG
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
21 28 0.61
22 18 0.39
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (22 bp):
GGGTATCGATACCATATGTGAA
Found at i:9700598 original size:12 final size:12
Alignment explanation
Indices: 9700581--9700663 Score: 80
Period size: 12 Copynumber: 6.7 Consensus size: 12
9700571 ATATTTGATT
9700581 TTAATTTTAATA
1 TTAATTTTAATA
9700593 TTAATTTTTTAA-A
1 TTAA--TTTTAATA
* *
9700606 -TAAATTAAATA
1 TTAATTTTAATA
9700617 TTAATTTTTAATA
1 TTAA-TTTTAATA
*
9700630 TTATATTATAGATA
1 TTA-ATTTTA-ATA
9700644 TTAATTTTAATA
1 TTAATTTTAATA
9700656 TTAATTTT
1 TTAATTTT
9700664 TTAAATTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
10 4 0.07
11 1 0.02
12 21 0.36
13 19 0.33
14 13 0.22
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:9700604 original size:20 final size:20
Alignment explanation
Indices: 9700579--9700672 Score: 75
Period size: 20 Copynumber: 4.5 Consensus size: 20
9700569 TTATATTTGA
9700579 TTTTAATTTTAATATTAATT
1 TTTTAATTTTAATATTAATT
*
9700599 TTTTAAATAAATTAAATATTAA-T
1 TTTT-AAT---TTTAATATTAATT
* **
9700622 TTTTAATATT-ATATTATAGA
1 TTTTAATTTTAATATTA-ATT
*
9700642 TATTAATTTTAATATTAATT
1 TTTTAATTTTAATATTAATT
*
9700662 TTTTAAATTTA
1 TTTTAATTTTA
9700673 TTTATATCAT
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
18 6 0.11
19 2 0.04
20 22 0.39
21 9 0.16
22 3 0.05
23 5 0.09
24 10 0.18
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (20 bp):
TTTTAATTTTAATATTAATT
Found at i:9700649 original size:27 final size:25
Alignment explanation
Indices: 9700589--9700659 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 25
9700579 TTTTAATTTT
9700589 AATATTAATTTTTTAA-A-TAAATTA
1 AATATTAA-TTTTTAATATTAAATTA
*
9700613 AATATTAATTTTTAATATTATATTA
1 AATATTAATTTTTAATATTAAATTA
9700638 TAGATATTAA-TTTTAATATTAA
1 -A-ATATTAATTTTTAATATTAA
9700660 TTTTTTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.17
24 9 0.22
25 6 0.15
26 12 0.29
27 7 0.17
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (25 bp):
AATATTAATTTTTAATATTAAATTA
Found at i:9700675 original size:13 final size:14
Alignment explanation
Indices: 9700585--9700667 Score: 65
Period size: 13 Copynumber: 6.4 Consensus size: 14
9700575 TTGATTTTAA
9700585 TTTTAATATTAATT
1 TTTTAATATTAATT
9700599 TTTTAA-A-TAA--
1 TTTTAATATTAATT
* *
9700609 ATTAAATATTAA-T
1 TTTTAATATTAATT
*
9700622 TTTTAATATT-ATA
1 TTTTAATATTAATT
*
9700635 TTATAGATATTAA--
1 TTTTA-ATATTAATT
9700648 TTTTAATATTAATT
1 TTTTAATATTAATT
9700662 TTTTAA
1 TTTTAA
9700668 ATTTATTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
10 4 0.07
11 1 0.02
12 14 0.26
13 17 0.31
14 17 0.31
15 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (14 bp):
TTTTAATATTAATT
Found at i:9700731 original size:20 final size:19
Alignment explanation
Indices: 9700673--9700732 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
9700663 TTTAAATTTA
*
9700673 TTTATATCA-TATAAATTAT
1 TTTATAT-ATTATTAATTAT
*
9700692 TTTATATATTATTAA-AAT
1 TTTATATATTATTAATTAT
9700710 TTTATAT-TTATTTTAATTAT
1 TTTATATATTA--TTAATTAT
9700730 TTT
1 TTT
9700733 GATTTAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 3 0.09
18 10 0.29
19 16 0.47
20 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATATATTATTAATTAT
Found at i:9705291 original size:28 final size:28
Alignment explanation
Indices: 9705251--9705308 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
9705241 CTATTGCTCA
9705251 TTGCTAGCTCATGAGCCCCAGCAAGAGC
1 TTGCTAGCTCATGAGCCCCAGCAAGAGC
9705279 TTGCTAGCTCATGAGCCCCAGCAAGAGC
1 TTGCTAGCTCATGAGCCCCAGCAAGAGC
9705307 TT
1 TT
9705309 CATTTGTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (28 bp):
TTGCTAGCTCATGAGCCCCAGCAAGAGC
Found at i:9707315 original size:138 final size:138
Alignment explanation
Indices: 9707146--9707423 Score: 493
Period size: 138 Copynumber: 2.0 Consensus size: 138
9707136 GTCATAATAG
* *
9707146 TATACACATATGTATGTTATCATCTCATCAATAAGGTCGCATGTGTGTTATATCAGGTGTCCATA
1 TATACACATATGTATGTTATCATCTCATCAATAAGGTCGCATATGTGTTATATCAAGTGTCCATA
* * *
9707211 TTATTTTTCTGATTGCCACTAAGGTCCCACAGATATAACATTTTGTTACCACTTTGGCAACGATT
66 TTAGTTTTCTGATTGCCACTAAGATCCCACAGATATAACATTCTGTTACCACTTTGGCAACGATT
9707276 CGATATGT
131 CGATATGT
*
9707284 TATACACATATGTATGTTATCATCTCATCAATAAGGTCGCGTATGTGTTATATCAAGTGTCCATA
1 TATACACATATGTATGTTATCATCTCATCAATAAGGTCGCATATGTGTTATATCAAGTGTCCATA
*
9707349 TTAGTTTTCTGATTGCCACTAAGATCCCACATATATAACATTCTGTTACCACTTTGGCAACGATT
66 TTAGTTTTCTGATTGCCACTAAGATCCCACAGATATAACATTCTGTTACCACTTTGGCAACGATT
9707414 CGATATGT
131 CGATATGT
9707422 TA
1 TA
9707424 CATATGTATA
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
138 133 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (138 bp):
TATACACATATGTATGTTATCATCTCATCAATAAGGTCGCATATGTGTTATATCAAGTGTCCATA
TTAGTTTTCTGATTGCCACTAAGATCCCACAGATATAACATTCTGTTACCACTTTGGCAACGATT
CGATATGT
Found at i:9710964 original size:19 final size:19
Alignment explanation
Indices: 9710922--9710966 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9710912 TTTTTCCCAC
*
9710922 AATTAT-ATTTTAAAAATA
1 AATTATAATTCTAAAAATA
**
9710940 TTTTATAATTCTAAAAATA
1 AATTATAATTCTAAAAATA
9710959 AATTATAA
1 AATTATAA
9710967 ACTTTTATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTATAATTCTAAAAATA
Found at i:9711468 original size:22 final size:21
Alignment explanation
Indices: 9711434--9711474 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
9711424 ATAATTATTT
9711434 AAAAAATTAAATAAAAATACA
1 AAAAAATTAAATAAAAATACA
*
9711455 AAAAATATTTAATAAAAATA
1 AAAAA-ATTAAATAAAAATA
9711475 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATACA
Found at i:9712984 original size:14 final size:13
Alignment explanation
Indices: 9712955--9712989 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
9712945 TTTTATAATT
9712955 TAAATTTATATGA
1 TAAATTTATATGA
*
9712968 TAAATTTCATATTA
1 TAAATTT-ATATGA
9712982 TAAATTTA
1 TAAATTTA
9712990 ATTTTTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (13 bp):
TAAATTTATATGA
Found at i:9713724 original size:17 final size:17
Alignment explanation
Indices: 9713702--9713793 Score: 73
Period size: 17 Copynumber: 5.2 Consensus size: 17
9713692 TTGAAACAAT
9713702 TATATTATATTAATATA
1 TATATTATATTAATATA
9713719 TATATTATATATAATA-A
1 TATATTATAT-TAATATA
*
9713736 TATAATATATATACACTATA
1 TATATTATAT-TA-A-TATA
*
9713756 TATAATTATATAAACTATA
1 TAT-ATTATATTAA-TATA
* *
9713775 TAAACTAT-TT-ATATA
1 TATATTATATTAATATA
9713790 TATA
1 TATA
9713794 AACATATAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
15 7 0.11
16 1 0.02
17 24 0.38
18 10 0.16
19 10 0.16
20 5 0.08
21 6 0.10
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
TATATTATATTAATATA
Found at i:9713738 original size:15 final size:14
Alignment explanation
Indices: 9713702--9713766 Score: 55
Period size: 13 Copynumber: 4.7 Consensus size: 14
9713692 TTGAAACAAT
*
9713702 TATATTATATTA-A
1 TATAATATATTATA
9713715 TAT-ATATATTATA
1 TATAATATATTATA
*
9713728 TATAATAATATAATA
1 TATAAT-ATATTATA
* *
9713743 TAT-ATACACTATA
1 TATAATATATTATA
9713756 TATAATTATAT
1 TATAA-TATAT
9713767 AAACTATATA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
12 7 0.17
13 15 0.38
14 5 0.12
15 13 0.32
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
TATAATATATTATA
Found at i:9713755 original size:28 final size:26
Alignment explanation
Indices: 9713702--9713810 Score: 112
Period size: 28 Copynumber: 4.1 Consensus size: 26
9713692 TTGAAACAAT
* * * *
9713702 TATATTATATTAATATATATATTATA
1 TATAATATATAAATATATAAACTATA
*
9713728 TATAATAATATAATATATATACACTATA
1 TATAAT-ATATAA-ATATATAAACTATA
*
9713756 TATAATTATATAAACTATATAAACTATT
1 TATAA-TATATAAA-TATATAAACTATA
*
9713784 TAT-ATATATAAACATATAAACTATA
1 TATAATATATAAATATATAAACTATA
9713809 TA
1 TA
9713811 AACTATAGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
25 13 0.18
26 13 0.18
27 7 0.10
28 37 0.52
29 1 0.01
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATATAAATATATAAACTATA
Found at i:9713774 original size:9 final size:9
Alignment explanation
Indices: 9713743--9713817 Score: 91
Period size: 9 Copynumber: 8.4 Consensus size: 9
9713733 TAATATAATA
*
9713743 TATATACAC
1 TATATAAAC
*
9713752 TATATATAAT
1 TATATA-AAC
9713762 TATATAAAC
1 TATATAAAC
9713771 TATATAAAC
1 TATATAAAC
* *
9713780 TATTTATA-
1 TATATAAAC
9713788 TATATAAAC
1 TATATAAAC
9713797 -ATATAAAC
1 TATATAAAC
9713805 TATATAAAC
1 TATATAAAC
9713814 TATA
1 TATA
9713818 GTTTATATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
8 14 0.25
9 35 0.62
10 7 0.12
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (9 bp):
TATATAAAC
Found at i:9713794 original size:17 final size:18
Alignment explanation
Indices: 9713743--9713817 Score: 91
Period size: 17 Copynumber: 4.2 Consensus size: 18
9713733 TAATATAATA
* *
9713743 TATATACACTATATATAAT
1 TATATAAACTATATA-AAC
9713762 TATATAAACTATATAAAC
1 TATATAAACTATATAAAC
* *
9713780 TATTTATA-TATATAAAC
1 TATATAAACTATATAAAC
9713797 -ATATAAACTATATAAAC
1 TATATAAACTATATAAAC
9713814 TATA
1 TATA
9713818 GTTTATATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
16 5 0.10
17 18 0.38
18 11 0.23
19 14 0.29
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (18 bp):
TATATAAACTATATAAAC
Found at i:9713801 original size:34 final size:34
Alignment explanation
Indices: 9713752--9713816 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
9713742 ATATATACAC
**
9713752 TATATATAATTATATAAACTATATAAACTATTTA
1 TATATATAAACATATAAACTATATAAACTATTTA
9713786 TATATATAAACATATAAACTATATAAACTAT
1 TATATATAAACATATAAACTATATAAACTAT
9713817 AGTTTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (34 bp):
TATATATAAACATATAAACTATATAAACTATTTA
Found at i:9713827 original size:43 final size:45
Alignment explanation
Indices: 9713740--9713844 Score: 126
Period size: 43 Copynumber: 2.4 Consensus size: 45
9713730 TAATAATATA
* *
9713740 ATATATATACACTATATATAATTATATAAACTATATAAACTATTT
1 ATATATATAAACTATATATAACTATATAAACTATATAAACTATTT
**
9713785 ATATATATAAAC-ATATA-AACTATATAAACTATAGTTTA-TATTT
1 ATATATATAAACTATATATAACTATATAAACTATA-TAAACTATTT
*
9713828 ATATACTATATACTATA
1 ATATA-TATAAACTATA
9713845 GTTTATATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
43 25 0.48
44 13 0.25
45 14 0.27
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.42
Consensus pattern (45 bp):
ATATATATAAACTATATATAACTATATAAACTATATAAACTATTT
Found at i:9713845 original size:27 final size:27
Alignment explanation
Indices: 9713807--9713866 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
9713797 ATATAAACTA
*
9713807 TATAAACTATAGTTTATATTTATATAC
1 TATATACTATAGTTTATATTTATATAC
9713834 TATATACTATAGTTTATATTTATATAC
1 TATATACTATAGTTTATATTTATATAC
9713861 TATATA
1 TATATA
9713867 AATTCAAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (27 bp):
TATATACTATAGTTTATATTTATATAC
Found at i:9713882 original size:2 final size:2
Alignment explanation
Indices: 9713702--9713866 Score: 69
Period size: 2 Copynumber: 82.0 Consensus size: 2
9713692 TTGAAACAAT
9713702 TA TA T- TA TA T- TA -A TA TA TA TA T- TA TA TA TA -A TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
9713738 TA -A TA TA TA TA CA CTA TA TA TA -A T- TA TA TA AA CTA TA TA AA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * * *
9713779 CTA TT TA TA TA TA TA AA CA TA TA AA CTA TA TA AA CTA TA GTT TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA -TA TA
* * *
9713823 TA TT TA TA TA CTA TA TA CTA TA GTT TA TA TT TA TA TA CTA TA TA
1 TA TA TA TA TA -TA TA TA -TA TA -TA TA TA TA TA TA TA -TA TA TA
9713867 AATTCAAAGT
Statistics
Matches: 121, Mismatches: 23, Indels: 38
0.66 0.13 0.21
Matches are distributed among these distances:
1 9 0.07
2 99 0.82
3 13 0.11
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.45
Consensus pattern (2 bp):
TA
Found at i:9714469 original size:102 final size:100
Alignment explanation
Indices: 9714330--9714531 Score: 248
Period size: 102 Copynumber: 2.0 Consensus size: 100
9714320 TTTTAAAAAC
* *
9714330 ACCAAAACCCAAGATCAAACCTATTTTTTCGATCAAACGCCTAAAACTCAACC-CT-TATTCATC
1 ACCAAAACCCAAGATCAAA-CTATTTTTTCGATCAAACACCAAAAACTCAACCACTGT-TT-ATC
* * *
9714393 TGTGTTCATCCCTAAAATCCTTATTCAATCCTTACAAAT
63 TGAGTTCATCCC-AAAACCCTCATTCAATCCTTACAAAT
* *
9714432 ACCAAAATCCAAGATCAAA-TATGTTTTCTGGATCAAACACCAAAAACTCAACCACTGTTTATCT
1 ACCAAAACCCAAGATCAAACTAT-TTTT-TCGATCAAACACCAAAAACTCAACCACTGTTTATCT
* *
9714496 GAGTTCATCCCAAAACCCTCATTCGATCCTTTCAAA
64 GAGTTCATCCCAAAACCCTCATTCAATCCTTACAAA
9714532 CACCCAATCC
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
100 3 0.03
101 25 0.29
102 54 0.62
103 4 0.05
104 1 0.01
ACGTcount: A:0.36, C:0.29, G:0.06, T:0.29
Consensus pattern (100 bp):
ACCAAAACCCAAGATCAAACTATTTTTTCGATCAAACACCAAAAACTCAACCACTGTTTATCTGA
GTTCATCCCAAAACCCTCATTCAATCCTTACAAAT
Done.