Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_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: 3402722
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 17
Found at i:649 original size:30 final size:30
Alignment explanation
Indices: 615--679 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
605 TTGCTACAGT
*
615 GACCTCCATAGGTCTCCAGGAGTACACGAC
1 GACCTCCATAGGTCTCCAGGAGCACACGAC
645 GACCTCCATAGGTCTCCAGGAGCACACGAC
1 GACCTCCATAGGTCTCCAGGAGCACACGAC
675 GACCT
1 GACCT
680 ACCTAGTGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.26, C:0.35, G:0.23, T:0.15
Consensus pattern (30 bp):
GACCTCCATAGGTCTCCAGGAGCACACGAC
Found at i:3849 original size:57 final size:57
Alignment explanation
Indices: 3761--3880 Score: 240
Period size: 57 Copynumber: 2.1 Consensus size: 57
3751 GATTAAAAAA
3761 ATTATTGTTTTATTGAGGTTCTAGGTTAGAGCAATTATATTTGTAGAGTATACACAC
1 ATTATTGTTTTATTGAGGTTCTAGGTTAGAGCAATTATATTTGTAGAGTATACACAC
3818 ATTATTGTTTTATTGAGGTTCTAGGTTAGAGCAATTATATTTGTAGAGTATACACAC
1 ATTATTGTTTTATTGAGGTTCTAGGTTAGAGCAATTATATTTGTAGAGTATACACAC
3875 ATTATT
1 ATTATT
3881 AATTAATAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.43
Consensus pattern (57 bp):
ATTATTGTTTTATTGAGGTTCTAGGTTAGAGCAATTATATTTGTAGAGTATACACAC
Found at i:5278 original size:20 final size:20
Alignment explanation
Indices: 5255--5318 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
5245 TAGCATTTAG
5255 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
5275 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
5295 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
5314 TTAAA
1 ATAAA
5319 CTTTATTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:5288 original size:19 final size:20
Alignment explanation
Indices: 5264--5313 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
5254 GATAAATTTA
*
5264 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
5283 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
5304 TT-ATAATTTT
1 TTAATAATTTT
5314 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:5309 original size:31 final size:30
Alignment explanation
Indices: 5231--5317 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
5221 TTCGATAATA
* *
5231 TAATAATTATTTTAT-AGCATTTAGATAAATT
1 TAATAA-TATTTTATAATCTTTTA-ATAAATT
*
5262 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATCTTTTAATAAATT
*
5293 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATCTTTTAA
5318 ACTTTATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 40 0.83
32 7 0.15
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (30 bp):
TAATAATATTTTATAATCTTTTAATAAATT
Found at i:6481 original size:26 final size:25
Alignment explanation
Indices: 6431--6485 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
6421 ATCTAAGAAT
6431 TATAATTTAAAATTTTAAAATTTAA
1 TATAATTTAAAATTTTAAAATTTAA
6456 TATAATATT-AAATTTTATACAA-TTAA
1 TATAAT-TTAAAATTTTA-A-AATTTAA
6482 TATA
1 TATA
6486 TCAAATATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 14 0.52
26 11 0.41
27 2 0.07
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TATAATTTAAAATTTTAAAATTTAA
Found at i:11879 original size:200 final size:199
Alignment explanation
Indices: 11424--11897 Score: 575
Period size: 200 Copynumber: 2.4 Consensus size: 199
11414 TTATATTATA
*
11424 AAAT-TACCTATTACATTATAATTA-TGAGTTTTGATGTTTTTGGGATCGATACTTTTTAAAAAT
1 AAATGTACCTATTACATTATAATTATTG-GTTTCGATGTTTTTGGGATCGATAC-TTTTAAAAAT
11487 GTATCGACACTTTATGAGTGCACCCGTCTGGCATTCATTATGGACAAAATATATCGACACAAATT
64 GTATCGACACTTTATGAGTGCACCCGTCTGGCATTCATTATGGACAAAATATATCGACACAAATT
* * * *
11552 TAATAAGAATCGATACTTTATGATGACATATTTTCTCATAAAACCGGTATATTTATATACCAGTT
129 AAACAAGAATCGATACATTATGATGACATATTTTCTAATAAAACCGGTATATTTATATA-CAGTT
11617 ACATTGT
193 ACATTGT
* * * * *
11624 AAATTTACATATTACATTATAATTATCGGTTTCGAT-TTTATTGGGATCAATACTTTTAATAATT
1 AAATGTACCTATTACATTATAATTATTGGTTTCGATGTTT-TTGGGATCGATACTTTTAA-AAAT
* * * * * *
11688 GTATCGACACTTTATGCGTGCACCCCGTTTGGGCATTTATTCTGGACAATAA-GTATCGACATAA
64 GTATCGACACTTTATGAGTGCA-CCCGTCT-GGCATTCATTATGGACAA-AATATATCGACACAA
** * * * * * *
11752 ATTAAACAAGTGTCGATACATTATGTTTACCTGTTTTCTAAT-TAACCGGTATATTTATAT-CGG
126 ATTAAACAAGAATCGATACATTATGATGACATATTTTCTAATAAAACCGGTATATTTATATACAG
11815 TTACATTGT
191 TTACATTGT
*
11824 TAATGTACCTATTACATTATAATTATTGGTTTCGATGATTTTTGGG-TCGATACTTTTAGAAAAT
1 AAATGTACCTATTACATTATAATTATTGGTTTCGATG-TTTTTGGGATCGATACTTTTA-AAAAT
*
11888 GCATCGACAC
64 GTATCGACAC
11898 ATATTTATGT
Statistics
Matches: 234, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
200 79 0.34
201 68 0.29
202 27 0.12
203 58 0.25
204 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (199 bp):
AAATGTACCTATTACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTTTTAAAAATGT
ATCGACACTTTATGAGTGCACCCGTCTGGCATTCATTATGGACAAAATATATCGACACAAATTAA
ACAAGAATCGATACATTATGATGACATATTTTCTAATAAAACCGGTATATTTATATACAGTTACA
TTGT
Found at i:14427 original size:16 final size:16
Alignment explanation
Indices: 14406--14438 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14396 TAATAAATAA
14406 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
14422 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
14438 A
1 A
14439 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:14533 original size:16 final size:16
Alignment explanation
Indices: 14508--14572 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
14498 TAATAAATAA
*
14508 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
14524 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
14540 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
14556 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
14572 A
1 A
14573 TAAACGTTGG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:14537 original size:10 final size:10
Alignment explanation
Indices: 14504--14578 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
14494 CATTTAATAA
*
14504 ATAAACGAAT
1 ATAAACGAAC
14514 ATAAACGAAC
1 ATAAACGAAC
14524 ----ACGAAC
1 ATAAACGAAC
14530 ATAAACGAAC
1 ATAAACGAAC
** *
14540 ACGAAC-ATAA
1 ATAAACGA-AC
14550 ATGAACACGAAC
1 AT-AA-ACGAAC
14562 ATAAACGAAC
1 ATAAACGAAC
14572 ATAAACG
1 ATAAACG
14579 TTGGAGGCCC
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 34 0.68
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.20, G:0.12, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:15341 original size:24 final size:24
Alignment explanation
Indices: 15301--15369 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
15291 GATTGTGTTA
*
15301 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
15325 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* *
15349 AACATAACCAAACGAACATAA
1 AACATAATCGAACGAACATAA
15370 CTGAATGTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 3 0.07
24 38 0.93
ACGTcount: A:0.58, C:0.19, G:0.10, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:15361 original size:14 final size:14
Alignment explanation
Indices: 15320--15370 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
15310 GAATGAACAT
*
15320 AAACGAACATAATC
1 AAACGAACATAACC
*
15334 GAACGAACAT----
1 AAACGAACATAACC
15344 AAACGAACATAACC
1 AAACGAACATAACC
15358 AAACGAACATAAC
1 AAACGAACATAAC
15371 TGAATGTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 9 0.29
14 22 0.71
ACGTcount: A:0.57, C:0.24, G:0.10, T:0.10
Consensus pattern (14 bp):
AAACGAACATAACC
Found at i:16844 original size:200 final size:198
Alignment explanation
Indices: 16414--17176 Score: 806
Period size: 200 Copynumber: 3.8 Consensus size: 198
16404 CGTTATTTAC
* * * * * * *
16414 AAGTATCGACACAAAACTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGAT
1 AAGTATCGACAC-AAATTAAAACGTGTCGACACATTATGTACACCTATTCTCACATAAAATCGGT
* ** * * *
16479 ACATTTATACCGGTTACATTGTAAATTTACCTATTATATTATAATTATCGGTTTCAATGTTTTTG
65 ACATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTTG
* *
16544 GGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTCTTTGGGCATTCATTCT
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTT-AACCTT-TTTGGGCATTCATTCT
16609 AGAAAA
193 AGAAAA
* * * **
16615 AAGCATCGACACATCAATTAAAA-GTGTCGACAAATTATGTAGACCTATTCTCACATAAAATTAG
1 AAGTATCGACACA--AATTAAAACGTGTCGACACATTATGTACACCTATTCTCACATAAAATCGG
* * * * * *
16679 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTT-GATGTTTTA
64 TACATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTT
* * *** * *
16743 GGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGTGTAACCTTTTTGGATTTTCCTTGT
129 GGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGT-TAACCTTTTTGGGCATTCATTCT
16808 -GAACCAA
193 AGAA--AA
* * *
16815 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTA-A-AAAGATCG
1 AAGTATCGACACAAAT-TAAAACGTGTCGACACATTATGTACACCTATTCTC-ACATAAA-ATCG
* * ** * * * * **
16878 GTACATTTGTACCAATTACATTGTAAATTTACATATTACATTATAATCATCGGTTTTGATGTTTT
63 GTACATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTT
* * * *
16943 T-GG---GATACTTTTTATAAATGTATTGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCT
128 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTAACCTTTTTGGGCATTCATTCT
*
17004 GGAAAA
193 AGAAAA
* * * **
17010 AAGTATCGACACAACATTAAAAAGTGTCGACACATTATGTAGACCGATTCTCACATAAAGCCGGT
1 AAGTATCGACACAA-ATTAAAACGTGTCGACACATTATGTACACCTATTCTCACATAAAATCGGT
* ** *
17075 ATAAATATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTTG
65 ACATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTTG
*
17140 GGATCGATACTTTTTAAAAATGTATCGACCCTTTATG
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATG
17177 GGAAACTTTA
Statistics
Matches: 456, Mismatches: 88, Indels: 38
0.78 0.15 0.07
Matches are distributed among these distances:
194 1 0.00
195 100 0.22
196 23 0.05
197 34 0.07
198 6 0.01
199 48 0.11
200 138 0.30
201 99 0.22
202 7 0.02
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (198 bp):
AAGTATCGACACAAATTAAAACGTGTCGACACATTATGTACACCTATTCTCACATAAAATCGGTA
CATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTTGG
GATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTAACCTTTTTGGGCATTCATTCTAGA
AAA
Found at i:17503 original size:25 final size:25
Alignment explanation
Indices: 17474--17526 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
17464 GTACACAAGA
17474 AATTTATACATAACAATGTTCAAAT
1 AATTTATACATAACAATGTTCAAAT
17499 AATTTATACATAACAATGTTCAAAT
1 AATTTATACATAACAATGTTCAAAT
17524 AAT
1 AAT
17527 GTTCCCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTTATACATAACAATGTTCAAAT
Found at i:20604 original size:21 final size:21
Alignment explanation
Indices: 20549--20591 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
20539 AGGGTGTCAA
*
20549 AGTGCATCCATGCACTCCTGC
1 AGTGCATCCATGCACCCCTGC
20570 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
20591 A
1 A
20592 TTGCGTCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:20626 original size:21 final size:21
Alignment explanation
Indices: 20601--20640 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20591 ATTGCGTCCT
20601 TGCAGTGCATCCATGCACCCC
1 TGCAGTGCATCCATGCACCCC
*
20622 TGCAGTGCATCGATGCACC
1 TGCAGTGCATCCATGCACC
20641 TTCTACTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.38, G:0.23, T:0.20
Consensus pattern (21 bp):
TGCAGTGCATCCATGCACCCC
Found at i:20656 original size:23 final size:23
Alignment explanation
Indices: 20625--20686 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
20615 GCACCCCTGC
*
20625 AGTGCATCGATGCACCTTCTACT
1 AGTGCATCGATGCACCTTCCACT
*
20648 AGTGTATCGATGCACCTTCCACT
1 AGTGCATCGATGCACCTTCCACT
20671 AGTGCATCGATGCACC
1 AGTGCATCGATGCACC
20687 ATGCAGTGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (23 bp):
AGTGCATCGATGCACCTTCCACT
Found at i:23598 original size:21 final size:21
Alignment explanation
Indices: 23572--23649 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
23562 AGGGTGTCAA
*
23572 AGTGCATCCATGCACTCCTGC
1 AGTGCATCCATGCACCCCTGC
23593 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
23614 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
23635 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
23650 TCCATTTCGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:24086 original size:34 final size:32
Alignment explanation
Indices: 24047--24116 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
24037 TTTTGTAAAG
* *
24047 GGGAAAGGTTCTAGCTTATCTCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCTCG-G-AAAAACTA
*
24081 GGGAAAGGTTCTAGTTTAGCTCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCTCGGAAAAACTA
24113 GGGA
1 GGGA
24117 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCTCGGAAAAACTA
Found at i:24707 original size:200 final size:200
Alignment explanation
Indices: 24358--24926 Score: 967
Period size: 200 Copynumber: 2.8 Consensus size: 200
24348 CCAACAATTA
* * *
24358 TGGACAAAAAGTATCGACACAATATAAAAAATTGTCGATACATTATGTAAACCTATTCTCACATA
1 TGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATA
* *
24423 AAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACGTTATAATTATCTGTTTCGA
66 AAACCGGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGA
* * * *
24488 TGTTTTTGGGATTGACACTTTTTATATATGTATCGACATTTTATTCGTTCATTATTTTTTGCATT
131 TGTTTTTGGGATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATT
24553 CATTC
196 CATTC
* *
24558 TGGAAAAAAAGTATCGACGCAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATA
1 TGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATA
* *
24623 AAACCGATATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATTTGTTTCGA
66 AAACCGGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGA
* *
24688 TGATTTTGGAATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATT
131 TGTTTTTGGGATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATT
24753 CATTC
196 CATTC
*
24758 TGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACATATTCTCACATA
1 TGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATA
*
24823 AAACCGGTATATTTATGCCAGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGA
66 AAACCGGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGA
* *
24888 TGTTTTTGGGATCGACACATTTTATAAATGTATCGACAC
131 TGTTTTTGGGATCGACACTTTTTATATATGTATCGACAC
24927 ATATGCTTAC
Statistics
Matches: 344, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
200 344 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (200 bp):
TGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATA
AAACCGGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGA
TGTTTTTGGGATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATT
CATTC
Found at i:25217 original size:19 final size:19
Alignment explanation
Indices: 25193--25237 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
25183 ATCCACATAA
25193 AAAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
25212 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
25231 AAAATTA
1 AAAATTA
25238 ACTCTACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:26833 original size:19 final size:19
Alignment explanation
Indices: 26790--26847 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
26780 TTCCTCCTCA
26790 TTTCCTCCATCTTTTC-TT
1 TTTCCTCCATCTTTTCTTT
* *
26808 CTTCCTCCCTCTTTTCTTT
1 TTTCCTCCATCTTTTCTTT
26827 TTTCCTCCATCTTTTCTTT
1 TTTCCTCCATCTTTTCTTT
26846 TT
1 TT
26848 CATATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
18 14 0.40
19 21 0.60
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTCCTCCATCTTTTCTTT
Found at i:26848 original size:18 final size:18
Alignment explanation
Indices: 26790--26848 Score: 91
Period size: 18 Copynumber: 3.2 Consensus size: 18
26780 TTCCTCCTCA
26790 TTTCCTCCATCTTTTCTT
1 TTTCCTCCATCTTTTCTT
* *
26808 CTTCCTCCCTCTTTTCTTT
1 TTTCCTCCATCTTTTC-TT
26827 TTTCCTCCATCTTTTCTT
1 TTTCCTCCATCTTTTCTT
26845 TTTC
1 TTTC
26849 ATATTTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
18 20 0.56
19 16 0.44
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTCCTCCATCTTTTCTT
Found at i:27083 original size:33 final size:33
Alignment explanation
Indices: 27032--27103 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
27022 CCATCTTAAG
* *
27032 TTCACCCCTCAACGCCTCAACTTCTTTCACCAC
1 TTCATCCCTCAACACCTCAACTTCTTTCACCAC
27065 TTCATCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCATCCCTCAACACCTCAACTTCTTTCACCAC
*
27098 TCCATC
1 TTCATC
27104 TATTTTTCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.22, C:0.47, G:0.01, T:0.29
Consensus pattern (33 bp):
TTCATCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:27156 original size:21 final size:21
Alignment explanation
Indices: 27132--27175 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
27122 CCTATTATGC
27132 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
27153 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
27174 CT
1 CT
27176 TGATTGTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.34, G:0.09, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:29824 original size:182 final size:182
Alignment explanation
Indices: 29515--30733 Score: 1773
Period size: 182 Copynumber: 6.7 Consensus size: 182
29505 TACGCGTACT
* * * * * *** *
29515 TATTAAAGTATTGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCA
1 TATTAAAGTATCGACACTTGCAATATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
* * *
29580 GTTTTATCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* * * *
29645 TTAAAGGCGCTAAAACAGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * ** *
29697 TATTAAATTATCGACACTTTCAATATATTTGGTAGCTCTTTACCGGTTTTGTCTTTTCGAGATCG
1 TATTAAAGTATCGACACTTGCAATATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
* * *
29762 ATTTTATCATATTTTTACATGTTATATCGTTGTGGATCGATATATATTTATAAAGAATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
29827 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* *
29879 TATTAAAGTATCGACACTTGCAATATATCCGGTATCTCTTTACCGGCTTTGTCTTTTCCTGACCG
1 TATTAAAGTATCGACACTTGCAATATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
* * ** * *
29944 GTTTTGTTATATTTTTGTCTGTTATATCGTTGTGGATTGATACATATTTATAAATAATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
** *
30009 TTCCAGGCGCTAAAATTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * *
30061 TATTAAAGTATCGACACTTGCAATATATCTGGTATCTCTTTACTGATTTTATCTTTTCCTGACCG
1 TATTAAAGTATCGACACTTGCAATATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
* *
30126 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* * *
30191 TTCTAGGAGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATATTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* *
30243 TATTAAAGTATCGACACTTGCAATATATCCT-GTATCTCTTTATCGGTTTTATCTTTTCCTGACC
1 TATTAAAGTATCGACACTTGCAATATAT-CTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACC
* *
30307 GGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCTATACATATTTATAAAGAATCGACAC
65 GGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
*
30372 TTTATATGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
130 TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* *
30425 -ATTAAAGTATCGACACTTGCAATATATCCGGTATCTCTTTACCGGATTTGTCTTTTCCTGACCG
1 TATTAAAGTATCGACACTTGCAATATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
* * *
30489 GTTTTATAATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAAAATTGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* *
30554 TTATAGGCGCTAAAACTGCTTCACCTTTAAATTCACTATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * *
30606 TATTAAAGTATCGACACGTGCAATATATAC-GGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACC
1 TATTAAAGTATCGACACTTGCAATATAT-CTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACC
* * * * *
30670 GGTTTGT-TCATATTTTTTCCTTTTATATTGATGTGGATCGATACATTTTTATAAA-ATATCGAC
65 GGTTT-TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGA-ATCGAC
30733 A
128 A
30734 TAAACCGACA
Statistics
Matches: 944, Mismatches: 87, Indels: 12
0.91 0.08 0.01
Matches are distributed among these distances:
180 1 0.00
181 168 0.18
182 771 0.82
183 4 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTGCAATATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
Found at i:30994 original size:30 final size:31
Alignment explanation
Indices: 30941--31006 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
30931 GGCTTTAGAT
*
30941 AAATTTAAAGGTCAAATTGATATTTTATTTA
1 AAATTTAAAGGTCAAATTGATATTTTATCTA
**
30972 AAATTTAGGGGTCAAA-TGATATTTTATCTA
1 AAATTTAAAGGTCAAATTGATATTTTATCTA
31002 AAATT
1 AAATT
31007 CATGAGGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 18 0.56
31 14 0.44
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (31 bp):
AAATTTAAAGGTCAAATTGATATTTTATCTA
Found at i:33547 original size:31 final size:31
Alignment explanation
Indices: 33509--33585 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
33499 TGTTATGTCG
*
33509 GGGACCATATTGCAAACGGACTAAATGCTGA
1 GGGACCATATTGCAAACGAACTAAATGCTGA
* * *
33540 GGGACCATATTGAAAACGAACTAAATGTTGG
1 GGGACCATATTGCAAACGAACTAAATGCTGA
**
33571 GGGATTATATTGCAA
1 GGGACCATATTGCAA
33586 GTTTTAAAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.23
Consensus pattern (31 bp):
GGGACCATATTGCAAACGAACTAAATGCTGA
Found at i:35631 original size:31 final size:30
Alignment explanation
Indices: 35590--35663 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
35580 TAAAACTTGT
* * * *
35590 AATATAATCCCCAAACATTTTGTCCGTTTGC
1 AATATGATCCCC-AACATTTAGTCCATTTAC
35621 AATATGATCCCTCAACATTTAGTCCATTTAC
1 AATATGATCCC-CAACATTTAGTCCATTTAC
*
35652 AATATGGTCCCC
1 AATATGATCCCC
35664 GAAGTAACTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 1 0.03
31 35 0.95
32 1 0.03
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (30 bp):
AATATGATCCCCAACATTTAGTCCATTTAC
Found at i:36301 original size:32 final size:31
Alignment explanation
Indices: 36255--36341 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 31
36245 ACCCAAATAA
* *
36255 AAAATTAACTGATCTGATATTAACTCGATCCG
1 AAAATCAACTGATCTGATATTAACTCGA-CCC
* * *
36287 AAAATCAACCGATCTGACATTGACTCGACCC
1 AAAATCAACTGATCTGATATTAACTCGACCC
* *
36318 AAAATCTAATTGATCCGATATTAA
1 AAAATC-AACTGATCTGATATTAA
36342 TCTGACTCGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
31 8 0.18
32 36 0.82
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (31 bp):
AAAATCAACTGATCTGATATTAACTCGACCC
Found at i:40165 original size:27 final size:27
Alignment explanation
Indices: 40127--40182 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
40117 AATGTCATTT
*
40127 CAGATGTCATTTATTGCAGTAATAATG
1 CAGATGTCATTTATTGCAGAAATAATG
40154 CAGATGTCATTTATTGCAGAAATAATG
1 CAGATGTCATTTATTGCAGAAATAATG
40181 CA
1 CA
40183 TTGTCCCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (27 bp):
CAGATGTCATTTATTGCAGAAATAATG
Found at i:42469 original size:27 final size:27
Alignment explanation
Indices: 42431--42488 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
42421 AGTAGCCAAA
42431 CACACTACTTAATCACTCAACTAGAGT
1 CACACTACTTAATCACTCAACTAGAGT
42458 CACACTACTTAATCACTCAACTAGAGT
1 CACACTACTTAATCACTCAACTAGAGT
42485 -ACAC
1 CACAC
42489 CATTTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.38, C:0.31, G:0.07, T:0.24
Consensus pattern (27 bp):
CACACTACTTAATCACTCAACTAGAGT
Found at i:42711 original size:13 final size:13
Alignment explanation
Indices: 42674--42722 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
42664 TCTTAATTTT
42674 TATTTATTAATTA
1 TATTTATTAATTA
*
42687 TAATTTAATATTATATA
1 T-ATTT-AT-TAAT-TA
42704 TATTTATTAATTA
1 TATTTATTAATTA
42717 TATTTA
1 TATTTA
42723 ATGTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 9 0.30
14 7 0.23
15 4 0.13
16 7 0.23
17 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTTATTAATTA
Found at i:42741 original size:30 final size:30
Alignment explanation
Indices: 42677--42741 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
42667 TAATTTTTAT
* *
42677 TTATTAATTATAATTTAATATTATATATAT
1 TTATTAATTATAATTTAATATTATATAGAA
*
42707 TTATTAATTAT-ATTTAATGTT-TATTAAGAA
1 TTATTAATTATAATTTAATATTATA-T-AGAA
42737 TTATT
1 TTATT
42742 TTTCTATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 2 0.07
29 10 0.33
30 18 0.60
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (30 bp):
TTATTAATTATAATTTAATATTATATAGAA
Found at i:49933 original size:29 final size:29
Alignment explanation
Indices: 49891--49949 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
49881 ATTTTCACCT
49891 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
49920 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
49949 A
1 A
49950 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:54619 original size:29 final size:29
Alignment explanation
Indices: 54577--54635 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
54567 ATTTTCACCT
54577 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
54606 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
54635 A
1 A
54636 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:61221 original size:15 final size:16
Alignment explanation
Indices: 61193--61224 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
61183 AAAATCTTTC
61193 TTTCCCGTTCTGGATT
1 TTTCCCGTTCTGGATT
61209 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTGGATT
61224 T
1 T
61225 GGATCTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.25, G:0.19, T:0.50
Consensus pattern (16 bp):
TTTCCCGTTCTGGATT
Found at i:61997 original size:16 final size:16
Alignment explanation
Indices: 61973--62006 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
61963 TATCGCCGAC
*
61973 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
61989 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
62005 CG
1 CG
62007 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:65714 original size:30 final size:29
Alignment explanation
Indices: 65678--65740 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
65668 CCAAAAAAAT
65678 CACCGGTAACCAGTATATTTATCGATCTAA
1 CACCGGTAA-CAGTATATTTATCGATCTAA
* * * *
65708 CACCGGTCAGATTATATTTTTCGATCTAA
1 CACCGGTAACAGTATATTTATCGATCTAA
65737 CACC
1 CACC
65741 CATAGTAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (29 bp):
CACCGGTAACAGTATATTTATCGATCTAA
Found at i:70172 original size:31 final size:31
Alignment explanation
Indices: 70102--70178 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
70092 CTTTTAAAAC
* *
70102 TTGCAATACAGTCTCCCAACATTTAGTCCGT
1 TTGCAATATAGTCCCCCAACATTTAGTCCGT
* *
70133 TTGCAATATAGTCCCCCAATATTTAGTCTGT
1 TTGCAATATAGTCCCCCAACATTTAGTCCGT
*
70164 TTGCAATATGGTCCC
1 TTGCAATATAGTCCC
70179 TGACCGTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (31 bp):
TTGCAATATAGTCCCCCAACATTTAGTCCGT
Found at i:71896 original size:23 final size:23
Alignment explanation
Indices: 71870--71944 Score: 141
Period size: 23 Copynumber: 3.3 Consensus size: 23
71860 ATGGACCCTT
71870 ATTCAAGTCAACACCTCCACATA
1 ATTCAAGTCAACACCTCCACATA
71893 ATTCAAGTCAACACCTCCACATA
1 ATTCAAGTCAACACCTCCACATA
*
71916 ATTCAAGTCAATACCTCCACATA
1 ATTCAAGTCAACACCTCCACATA
71939 ATTCAA
1 ATTCAA
71945 AAGTTAGATT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.40, C:0.32, G:0.04, T:0.24
Consensus pattern (23 bp):
ATTCAAGTCAACACCTCCACATA
Found at i:72206 original size:30 final size:30
Alignment explanation
Indices: 72170--72235 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
72160 GCATCAAACG
* *
72170 GTTGGGGACCATATTGCAAACAGATTATAT
1 GTTGGGGACCATATTGCAAACAGACTAAAT
* *
72200 GTTGGGGATCATATTGCAAACGGACTAAAT
1 GTTGGGGACCATATTGCAAACAGACTAAAT
72230 GTTGGG
1 GTTGGG
72236 AGACTGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.29
Consensus pattern (30 bp):
GTTGGGGACCATATTGCAAACAGACTAAAT
Found at i:93234 original size:23 final size:22
Alignment explanation
Indices: 93205--93272 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 22
93195 TTTTGTGACT
93205 ACAACATGATCTAGTGTTAGTCA
1 ACAACATGATCTAGTGTT-GTCA
* * *
93228 ACGACAT-ATCT--TG-TGACT
1 ACAACATGATCTAGTGTTGTCA
93246 ACAACATGATCTAGTGTTGGTCA
1 ACAACATGATCTAGTGTT-GTCA
93269 ACAA
1 ACAA
93273 GGTATCTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
18 8 0.24
19 5 0.15
20 2 0.06
21 2 0.06
22 5 0.15
23 12 0.35
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (22 bp):
ACAACATGATCTAGTGTTGTCA
Found at i:93254 original size:41 final size:41
Alignment explanation
Indices: 93197--93297 Score: 157
Period size: 41 Copynumber: 2.5 Consensus size: 41
93187 ACCATTTTTT
*
93197 TTGTGACTACAACATGATCTAGTGTTAGTCAACGACATATC
1 TTGTGACTACAACATGATCTAGTGTTAGTCAACAACATATC
* **
93238 TTGTGACTACAACATGATCTAGTGTTGGTCAACAAGGTATC
1 TTGTGACTACAACATGATCTAGTGTTAGTCAACAACATATC
*
93279 TTTTGACTACAACATGATC
1 TTGTGACTACAACATGATC
93298 ATACTTCCTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (41 bp):
TTGTGACTACAACATGATCTAGTGTTAGTCAACAACATATC
Found at i:94691 original size:33 final size:30
Alignment explanation
Indices: 94626--94729 Score: 84
Period size: 33 Copynumber: 3.3 Consensus size: 30
94616 AAAATCTATT
94626 TTCATTTATGTTTGTTTACGTTCGTTTATG
1 TTCATTTATGTTTGTTTACGTTCGTTTATG
*
94656 TTCATTTATTGTGTTAGTTTACGGTT-GTTTGTG
1 TTCATTTA-TGT-TT-GTTTAC-GTTCGTTTATG
* * * * *
94689 TTCGTTTACGTTCGTTTATTGTGTTTGTTTATG
1 TTCATTTATGTTTGTTTA---CGTTCGTTTATG
94722 TTCATTTA
1 TTCATTTA
94730 CATCCGTTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
30 13 0.22
31 4 0.07
32 7 0.12
33 32 0.54
34 3 0.05
ACGTcount: A:0.12, C:0.09, G:0.19, T:0.60
Consensus pattern (30 bp):
TTCATTTATGTTTGTTTACGTTCGTTTATG
Found at i:94723 original size:10 final size:10
Alignment explanation
Indices: 94630--94751 Score: 57
Period size: 10 Copynumber: 11.2 Consensus size: 10
94620 TCTATTTTCA
*
94630 TTTATGTTTG
1 TTTATGTTCG
*
94640 TTTACGTTCG
1 TTTATGTTCG
*
94650 TTTATGTTCA
1 TTTATGTTCG
*
94660 TTTATTGTGTTAG
1 TTTA---TGTTCG
*
94673 TTTACGGTT-G
1 TTTA-TGTTCG
*
94683 TTTGTGTTCG
1 TTTATGTTCG
*
94693 TTTACGTTCG
1 TTTATGTTCG
*
94703 TTTATTGTGTTTG
1 TTTA---TGTTCG
*
94716 TTTATGTTCA
1 TTTATGTTCG
94726 TTTACATCCGTTCG
1 TTT--AT--GTTCG
94740 TTTATGTTCG
1 TTTATGTTCG
94750 TT
1 TT
94752 AATTTGTGTT
Statistics
Matches: 84, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
9 3 0.04
10 51 0.61
11 3 0.04
12 4 0.05
13 16 0.19
14 7 0.08
ACGTcount: A:0.11, C:0.11, G:0.20, T:0.58
Consensus pattern (10 bp):
TTTATGTTCG
Found at i:94762 original size:24 final size:24
Alignment explanation
Indices: 94645--94768 Score: 98
Period size: 24 Copynumber: 5.4 Consensus size: 24
94635 GTTTGTTTAC
*
94645 GTTCGTTTATGTTCATTTA-TTGT
1 GTTCGTTTATGTTCGTTTATTTGT
* * *
94668 GTTAGTTTA----CGGTTGTTTGT
1 GTTCGTTTATGTTCGTTTATTTGT
*
94688 GTTCGTTTACGTTCGTTTA-TTGT
1 GTTCGTTTATGTTCGTTTATTTGT
* * ** **
94711 GTTTGTTTATGTTCATTTACATCC
1 GTTCGTTTATGTTCGTTTATTTGT
*
94735 GTTCGTTTATGTTCGTTAATTTGT
1 GTTCGTTTATGTTCGTTTATTTGT
94759 GTTCGTTTAT
1 GTTCGTTTAT
94769 CATTTAAATG
Statistics
Matches: 75, Mismatches: 20, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
19 3 0.04
20 12 0.16
23 28 0.37
24 32 0.43
ACGTcount: A:0.12, C:0.10, G:0.20, T:0.57
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTTATTTGT
Found at i:96463 original size:2 final size:2
Alignment explanation
Indices: 96394--96447 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
96384 ATCCTAAATC
96394 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96435 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
96448 TTGGTTTTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:98392 original size:26 final size:26
Alignment explanation
Indices: 98342--98392 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
98332 GGGTATGATA
* * *
98342 CCCTTCGTTGTGAAGTTGTGTATGGC
1 CCCTTCGTCGTGAAGTTGAGCATGGC
98368 CCCTTCGTCGTGAAGTTGAGCATGG
1 CCCTTCGTCGTGAAGTTGAGCATGG
98393 GAACTGGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (26 bp):
CCCTTCGTCGTGAAGTTGAGCATGGC
Found at i:98895 original size:106 final size:106
Alignment explanation
Indices: 98710--98926 Score: 344
Period size: 106 Copynumber: 2.0 Consensus size: 106
98700 TGTATTGTTC
* * *
98710 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGAAACCGGGAAATGGTTTGTTGACA
*
98775 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * **
98816 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCTGAAATTGGGAAATGGTTTGTTGACA
1 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGAAACCGGGAAATGGTTTGTTGACA
98881 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
98922 TGAGT
1 CGAGT
98927 GGCACGATAT
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
106 101 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGAAACCGGGAAATGGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:99454 original size:18 final size:18
Alignment explanation
Indices: 99427--99480 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
99417 TGTTGAATCC
*
99427 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
99445 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
*
99463 CCAAAAATACCCCAATAT
1 CCAAAAATGCCCCAATAT
99481 TTGATGTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.44, C:0.33, G:0.06, T:0.17
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:99924 original size:22 final size:22
Alignment explanation
Indices: 99898--99951 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
99888 GTGTTTGGTT
99898 AAAGGTTTGACATTTGATGCTC
1 AAAGGTTTGACATTTGATGCTC
* *
99920 AAAGGTTTGGCATTTGATGCTT
1 AAAGGTTTGACATTTGATGCTC
*
99942 GAAGGTTTGA
1 AAAGGTTTGA
99952 TGGGGTAGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (22 bp):
AAAGGTTTGACATTTGATGCTC
Found at i:100452 original size:11 final size:12
Alignment explanation
Indices: 100434--100462 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
100424 TGCTCATATT
100434 TGTTTCTCTGGA
1 TGTTTCTCTGGA
100446 T-TTTCTCTGGA
1 TGTTTCTCTGGA
100457 TGTTTC
1 TGTTTC
100463 AAGATCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.07, C:0.17, G:0.21, T:0.55
Consensus pattern (12 bp):
TGTTTCTCTGGA
Found at i:100629 original size:32 final size:31
Alignment explanation
Indices: 100593--100662 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 31
100583 GTCCTTTTGA
100593 TTTTTGCTTCTTTT-CTTCTTTGTTCTTGTTTT-
1 TTTTTGCTT-TTTTGCTTC-TT-TTCTTGTTTTC
* *
100625 TTTTTCCTTTTTTGCTTCTTTTCTTTTTTTC
1 TTTTTGCTTTTTTGCTTCTTTTCTTGTTTTC
100656 TTTTTGC
1 TTTTTGC
100663 CCTTTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 9 0.27
31 12 0.36
32 12 0.36
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.76
Consensus pattern (31 bp):
TTTTTGCTTTTTTGCTTCTTTTCTTGTTTTC
Found at i:100644 original size:25 final size:23
Alignment explanation
Indices: 100594--100660 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 23
100584 TCCTTTTGAT
* *
100594 TTTTGCTTCTTTTCTTCTTTGTTC
1 TTTT-CTTTTTTTCTTTTTTGTTC
100618 TTGTT-TTTTTTTCCTTTTTTGCTTC
1 TT-TTCTTTTTTT-CTTTTTTG-TTC
100643 TTTTCTTTTTTTCTTTTT
1 TTTTCTTTTTTTCTTTTT
100661 GCCCTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 6 0.16
24 17 0.46
25 14 0.38
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (23 bp):
TTTTCTTTTTTTCTTTTTTGTTC
Found at i:100658 original size:8 final size:8
Alignment explanation
Indices: 100593--100660 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
100583 GTCCTTTTGA
*
100593 TTTTTGCT
1 TTTTTTCT
*
100601 TCTTTTCT
1 TTTTTTCT
100609 TCTTTGTTC-
1 T-TTT-TTCT
*
100618 TTGTTT-T
1 TTTTTTCT
*
100625 TTTTTCCT
1 TTTTTTCT
*
100633 TTTTTGCT
1 TTTTTTCT
*
100641 TCTTTTCT
1 TTTTTTCT
100649 TTTTTTCT
1 TTTTTTCT
100657 TTTT
1 TTTT
100661 GCCCTTTTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
7 6 0.13
8 34 0.74
9 3 0.07
10 3 0.07
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (8 bp):
TTTTTTCT
Found at i:104788 original size:17 final size:17
Alignment explanation
Indices: 104755--104810 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
104745 AATAATAAAA
*
104755 ATAATA-ATATTACATAT
1 ATAATATATA-TAAATAT
104772 ATAATATATATAAATAT
1 ATAATATATATAAATAT
**
104789 ATTTTATAT-TAAATATT
1 ATAATATATATAAATA-T
104806 ATAAT
1 ATAAT
104811 GGGACGAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 6 0.19
17 23 0.72
18 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATATATATAAATAT
Found at i:105000 original size:56 final size:56
Alignment explanation
Indices: 104938--105114 Score: 268
Period size: 56 Copynumber: 3.2 Consensus size: 56
104928 GATTTTGGGG
* *
104938 CCCTATTTTTATGTTTATTAATGACAACAATTGATAGATATACTCGATTTCGAGAC
1 CCCTATTTTTATGTTTATTAATGACAACAACTGATAGATATACTCGATTTCGAGGC
* * * *
104994 CCCTATTTTTATGTTTCTTAATGGCAACAACTGATAGATATACTCAATTTTG-GGC
1 CCCTATTTTTATGTTTATTAATGACAACAACTGATAGATATACTCGATTTCGAGGC
*
105049 CCCTATTTTTATGCTTATTAATGACAACAACTGATAGATATACTCGATTTC-AGTGC
1 CCCTATTTTTATGTTTATTAATGACAACAACTGATAGATATACTCGATTTCGAG-GC
105105 CCCTATTTTT
1 CCCTATTTTT
105115 TGGGGTCCTG
Statistics
Matches: 108, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
55 49 0.45
56 59 0.55
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (56 bp):
CCCTATTTTTATGTTTATTAATGACAACAACTGATAGATATACTCGATTTCGAGGC
Found at i:105077 original size:55 final size:55
Alignment explanation
Indices: 104917--105114 Score: 270
Period size: 55 Copynumber: 3.6 Consensus size: 55
104907 CCCTATTTTC
* * * *
104917 TAGACATATTCGATTTTGGGGCCCTATTTTTATGTTTATTAATGACAACAATTGA
1 TAGATATACTCGATTTTGGGCCCCTATTTTTATGTTTATTAATGACAACAACTGA
* * * *
104972 TAGATATACTCGATTTCGAGACCCCTATTTTTATGTTTCTTAATGGCAACAACTGA
1 TAGATATACTCGATTTTG-GGCCCCTATTTTTATGTTTATTAATGACAACAACTGA
* *
105028 TAGATATACTCAATTTTGGGCCCCTATTTTTATGCTTATTAATGACAACAACTGA
1 TAGATATACTCGATTTTGGGCCCCTATTTTTATGTTTATTAATGACAACAACTGA
* *
105083 TAGATATACTCGATTTCAGTGCCCCTATTTTT
1 TAGATATACTCGATTT-TGGGCCCCTATTTTT
105115 TGGGGTCCTG
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
55 63 0.51
56 61 0.49
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (55 bp):
TAGATATACTCGATTTTGGGCCCCTATTTTTATGTTTATTAATGACAACAACTGA
Found at i:107611 original size:46 final size:46
Alignment explanation
Indices: 107558--107650 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
107548 GAATTCTGTA
*
107558 TATTAAGGAATAAAGTTATTCCTTAAATCTAGGAGTTAACTTAGAC
1 TATTAAGGAATAAAATTATTCCTTAAATCTAGGAGTTAACTTAGAC
107604 TATTAAGGAATAAAATTATTCCTTAAATCTAGGAGTTAACTTAGAC
1 TATTAAGGAATAAAATTATTCCTTAAATCTAGGAGTTAACTTAGAC
107650 T
1 T
107651 TGATATTCTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (46 bp):
TATTAAGGAATAAAATTATTCCTTAAATCTAGGAGTTAACTTAGAC
Found at i:117731 original size:20 final size:19
Alignment explanation
Indices: 117708--117754 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
117698 CGATATACCA
117708 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
117728 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
*
117748 CGTAAAA
1 GGTAAAA
117755 CGTTACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:120180 original size:21 final size:21
Alignment explanation
Indices: 120154--120218 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
120144 AAGATAATCA
*
120154 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
120175 AGAGTCGAAGAGAAA-TATGAG
1 AGAGTCGAAGAGAAACT-TGAG
* *
120196 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
120217 AG
1 AG
120219 GCATAAGGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
20 1 0.03
21 37 0.95
22 1 0.03
ACGTcount: A:0.43, C:0.09, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:120294 original size:33 final size:33
Alignment explanation
Indices: 120252--120317 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
120242 AAATAGATGG
*
120252 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
120285 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
120318 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:122136 original size:19 final size:19
Alignment explanation
Indices: 122112--122160 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
122102 AATGTAGGGT
122112 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
122131 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
122150 TAATTTTGTAT
1 TAATTTTGTAT
122161 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:122616 original size:200 final size:200
Alignment explanation
Indices: 122273--123507 Score: 2281
Period size: 200 Copynumber: 6.2 Consensus size: 200
122263 AATTTACAAT
*
122273 ATGGCAAACACGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
122338 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGCTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
122403 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
122468 AATGA
196 AATGA
122473 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
122538 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
122603 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
122668 AATGA
196 AATGA
* * * *
122673 ATGGAAAACAGGGTGCAACCATAAAATGTTGATCCATATATAAAAAGTGTCAATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
122738 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCTGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
122803 ATGAGAGAATATGTCTAAATAATGTATCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
*
122868 AATTA
196 AATGA
* **
122873 ATGGCAAACAGGGTGCAACCGTAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCGTAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
122938 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
123003 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
123068 AATGA
196 AATGA
123073 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
* * *
123138 CGAAAACTAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAAGTATACCAGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
123203 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
123268 AATGA
196 AATGA
* *
123273 ATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAATAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
* *
123338 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAGCTGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
123403 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
123468 AATGA
196 AATGA
123473 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCC
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCC
123508 CAAAAACATC
Statistics
Matches: 998, Mismatches: 37, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
200 998 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:125095 original size:6 final size:6
Alignment explanation
Indices: 125084--125171 Score: 86
Period size: 6 Copynumber: 14.7 Consensus size: 6
125074 CAAGCGGTCA
* * * * *
125084 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAA ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * *
125132 ATGACG ATGATG ATGACG ATGAAG CTGACG ATGAAG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
125172 TGACGACGAC
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.41, C:0.09, G:0.32, T:0.18
Consensus pattern (6 bp):
ATGAAG
Found at i:125106 original size:12 final size:12
Alignment explanation
Indices: 125084--125171 Score: 131
Period size: 12 Copynumber: 7.3 Consensus size: 12
125074 CAAGCGGTCA
*
125084 ATGAAGATGAAG
1 ATGACGATGAAG
*
125096 CTGACGATGAAG
1 ATGACGATGAAG
*
125108 ATGACGATGAAA
1 ATGACGATGAAG
125120 ATGACGATGAAG
1 ATGACGATGAAG
*
125132 ATGACGATGATG
1 ATGACGATGAAG
125144 ATGACGATGAAG
1 ATGACGATGAAG
*
125156 CTGACGATGAAG
1 ATGACGATGAAG
125168 ATGA
1 ATGA
125172 TGACGACGAC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 67 1.00
ACGTcount: A:0.41, C:0.09, G:0.32, T:0.18
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:125202 original size:6 final size:6
Alignment explanation
Indices: 125097--125198 Score: 84
Period size: 6 Copynumber: 17.5 Consensus size: 6
125087 AAGATGAAGC
* ** * *
125097 TGACGA TGAAGA TGACGA TGAAAA TGACGA TGAAGA TGACGA TGATGA
1 TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA
* * * * *
125145 TGACGA TGAAGC TGACGA TGA--A -GATGA TGACGA CGACGA CGACGA
1 TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA
*
125190 TGATGA TGA
1 TGACGA TGA
125199 TGATCCAAAC
Statistics
Matches: 75, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
3 2 0.03
4 1 0.01
5 1 0.01
6 71 0.95
ACGTcount: A:0.38, C:0.12, G:0.32, T:0.18
Consensus pattern (6 bp):
TGACGA
Found at i:126716 original size:183 final size:182
Alignment explanation
Indices: 126411--126986 Score: 1041
Period size: 183 Copynumber: 3.2 Consensus size: 182
126401 ACAAAGTTTT
* *
126411 GACACTTTTTGATATTGTGTCTGTACTTTATGT---GAATGGAAGAAAAATGTGTCGATACCTTG
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
*
126473 TCAAAAAGTGTCGACATTTACTCATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
126538 TAACTGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATC
131 TAACCGGTATAAATATACC-GTTTTATGAGCGAATAGGTCTACAACCTATATC
*
126591 GACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
126656 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
126721 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
131 TAACCGGTATAAATATACC-GTTTTATGAGCGAATAGGTCTACAACCTATATC
* *
126774 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATATGTCGATACCTTG
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
126839 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
126904 TAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATC
131 TAACCGGTATAAATATACCG-TTTTATGAGCGAATAGGTCTACAACCTATATC
126957 GACACTTTTTAATATTGTGTCGGTACTTTA
1 GACACTTTTTAATATTGTGTCGGTACTTTA
126987 CAATAGGAGT
Statistics
Matches: 385, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
180 32 0.08
182 1 0.00
183 352 0.91
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
TAACCGGTATAAATATACCGTTTTATGAGCGAATAGGTCTACAACCTATATC
Found at i:128751 original size:20 final size:21
Alignment explanation
Indices: 128728--128766 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
128718 TAAAAGATAT
*
128728 ATTTAATTA-TATTATTTTAA
1 ATTTAATTACTATAATTTTAA
*
128748 ATTTTATTACTATAATTTT
1 ATTTAATTACTATAATTTT
128767 TAAGAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTAATTACTATAATTTTAA
Found at i:128926 original size:21 final size:22
Alignment explanation
Indices: 128902--128945 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
128892 AAACATTTTC
128902 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
128923 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
128945 T
1 T
128946 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:129259 original size:20 final size:22
Alignment explanation
Indices: 129234--129294 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 22
129224 ATTTAAACAT
*
129234 ATAAAATTAAA-ATATAAA-TA
1 ATAAAATTAAATATAAAAAGTA
129254 ATAAAATTAAATATAAAAAGTA
1 ATAAAATTAAATATAAAAAGTA
129276 ATAAAACTTATAAT-TAAAA
1 ATAAAA-TTA-AATATAAAA
129295 TTTGTGACTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 11 0.31
21 6 0.17
22 8 0.22
23 8 0.22
24 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAAAATTAAATATAAAAAGTA
Found at i:130545 original size:3 final size:3
Alignment explanation
Indices: 130537--130585 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
130527 ATGTATTTAT
* *
130537 TAA TAA TAA -AA TAA TAA TAA TAA TTA TTA TAA TAA TAA T-A TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
130581 TAA TA
1 TAA TA
130586 TTTAAATGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.85
4 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:131127 original size:113 final size:113
Alignment explanation
Indices: 130898--131791 Score: 1211
Period size: 113 Copynumber: 7.9 Consensus size: 113
130888 CTCTTTATGC
* * *
130898 AAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTTC-TCTTCAGATAAGTTCTTCTCAT
1 AAAA-GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
130962 TATGAACT-TCTCTGGAAAAGATGATCCATTGAATTATGAATTCAAACA
65 TATGAACTCTATCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGCG
* *
131010 AAAAGTTTGACCAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * **
131075 TATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGC-
65 TATGAACTCTATCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGCG
*
131123 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAA-GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * ** * * **
131188 TATGAACTTTTTCTGGAAAAACTGATCCATCAAATGATGGATTTGAGC-
65 TATGAACTCTATCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGCG
* *
131236 AAAAGGTTGAACAAATTCTTCTCATTATTAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAA-GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
131301 TATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCA
65 TATGAACTCTATCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGCG
*
131350 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
131415 ATGAGCTCTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCTATCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGCG
*
131463 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
131528 ATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCG
66 ATGAACTCTATCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGCG
* * * *
131576 AAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTATTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
131641 ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCTATCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGCG
* * *
131689 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
131754 ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATG
66 ATGAACTCTATCTGGAAAAGTTGATCCATCGAATGATG
131792 GATTTGAATC
Statistics
Matches: 722, Mismatches: 55, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
111 1 0.00
112 36 0.05
113 650 0.90
114 35 0.05
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTATCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGCG
Found at i:132225 original size:22 final size:22
Alignment explanation
Indices: 132197--132251 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
132187 GATAAAGCTT
* *
132197 TCATCTTTGAAAAGAGCATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
132219 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
132241 TCATCTTTGAA
1 TCATCTTTGAA
132252 GAAGTAGATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:133596 original size:75 final size:75
Alignment explanation
Indices: 133495--133735 Score: 288
Period size: 75 Copynumber: 3.2 Consensus size: 75
133485 TGATATGGGC
* * * * *
133495 CTTT-AGCATGCCCCAACAGTTACTGATACTAACGTTCAAAATATATCAACATTCTTGATTCTGA
1 CTTTCAGCATGCCCCATCAATTGCTGATACTAACGTTCAAAATACATCAACATTCTTCATTCTGA
**
133559 TTGAAATAGG
66 TTGAAAGGGG
* *
133569 CTTTCAGCATGCCCCATCAATTGCTGATACGAACGTTCAAAATACATCAACATTCTTCATTATGA
1 CTTTCAGCATGCCCCATCAATTGCTGATACTAACGTTCAAAATACATCAACATTCTTCATTCTGA
*
133634 TTAAAAGGGG
66 TTGAAAGGGG
* * * ** *
133644 CTTTCAGCATGCCCTATCATTTTGCTGATA-TAAACATTCAGGATACATCAACATTCCTCATTCT
1 CTTTCAGCATGCCCCATCA-ATTGCTGATACT-AACGTTCAAAATACATCAACATTCTTCATTCT
133708 GATTGAAAGGGG
64 GATTGAAAGGGG
* *
133720 TTTTCAGCATACCCCA
1 CTTTCAGCATGCCCCA
133736 ACATTTTCTT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
74 4 0.03
75 78 0.55
76 60 0.42
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (75 bp):
CTTTCAGCATGCCCCATCAATTGCTGATACTAACGTTCAAAATACATCAACATTCTTCATTCTGA
TTGAAAGGGG
Found at i:135005 original size:115 final size:115
Alignment explanation
Indices: 134852--135181 Score: 491
Period size: 115 Copynumber: 2.9 Consensus size: 115
134842 CTTTTAATTT
* * * * *
134852 CAATGATTGGTTCTGT-GGTTCCTACCGAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGA
1 CAATGATTGGTTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
* * * * *
134916 TGCTATTGGGCCTCCTTATTTCTACCATGAGAAAATTCATCTTTCAAATC
66 TGCTATTGGGTCTTCTTATTTCTACTATGAGCAAATCCATCTTTCAAATC
* * *
134966 TAATGATTGGTTTTTTGGGTTCATTCCAAACCAGATCAGATAACTCAAAAAACACTTCCAGAAGA
1 CAATGATTGGTTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
*
135031 TGCTATTGGGTCTTCTTATTTCTACTATGAGCAAATCCATCTTTTAAATC
66 TGCTATTGGGTCTTCTTATTTCTACTATGAGCAAATCCATCTTTCAAATC
* * *
135081 CAATGATTAGTTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
1 CAATGATTGGTTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
*
135146 TGCTATTGGGTCTTCTTATTTATACTATGAGCAAAT
66 TGCTATTGGGTCTTCTTATTTCTACTATGAGCAAAT
135182 GGCACTTGCT
Statistics
Matches: 194, Mismatches: 21, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
114 13 0.07
115 181 0.93
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (115 bp):
CAATGATTGGTTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
TGCTATTGGGTCTTCTTATTTCTACTATGAGCAAATCCATCTTTCAAATC
Found at i:140053 original size:14 final size:14
Alignment explanation
Indices: 140020--140073 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
140010 ATGACATAAA
* *
140020 AAATGCAAAGATGCC
1 AAATGTAAATATG-C
140035 AAATGTAAATATGC
1 AAATGTAAATATGC
* *
140049 AAATGTAAAAATGT
1 AAATGTAAATATGC
140063 AAATGTAAATA
1 AAATGTAAATA
140074 CTAACGTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 23 0.68
15 11 0.32
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (14 bp):
AAATGTAAATATGC
Found at i:140094 original size:28 final size:28
Alignment explanation
Indices: 140034--140095 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
140024 GCAAAGATGC
*
140034 CAAATGTAAATATGCAAATGTAAAAATGT
1 CAAATGTAAATA-GCAAACGTAAAAATGT
*
140063 -AAATGTAAATA-CTAACGTAAAAATGT
1 CAAATGTAAATAGCAAACGTAAAAATGT
140089 ACAAATG
1 -CAAATG
140096 CAAAATACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 13 0.45
28 16 0.55
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (28 bp):
CAAATGTAAATAGCAAACGTAAAAATGT
Found at i:141575 original size:18 final size:16
Alignment explanation
Indices: 141533--141589 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 16
141523 ATTTGAAAAT
141533 AAAATAATAAATAATA
1 AAAATAATAAATAATA
*
141549 AATATATAATAAATATTATG
1 AA-A-ATAATAAATA--ATA
*
141569 AAAATAATAAGTAATA
1 AAAATAATAAATAATA
141585 AAAAT
1 AAAAT
141590 TTTGAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 9 0.26
17 1 0.03
18 19 0.56
19 1 0.03
20 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (16 bp):
AAAATAATAAATAATA
Found at i:141577 original size:25 final size:25
Alignment explanation
Indices: 141555--141614 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
141545 AATAAATATA
*
141555 TAATAAATATTATGAAAATAATAAG
1 TAATAAAAATTATGAAAATAATAAG
*
141580 TAATAAAAATTTTG-AAATAA-AAG
1 TAATAAAAATTATGAAAATAATAAG
141603 -AATTAAAAATTA
1 TAA-TAAAAATTA
141615 AATAAATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 2 0.06
23 11 0.35
24 6 0.19
25 12 0.39
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.32
Consensus pattern (25 bp):
TAATAAAAATTATGAAAATAATAAG
Found at i:142243 original size:21 final size:22
Alignment explanation
Indices: 142219--142262 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
142209 AAACATTTTC
142219 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
142240 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
142262 T
1 T
142263 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:142576 original size:20 final size:22
Alignment explanation
Indices: 142551--142611 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 22
142541 ATTTAAACAT
*
142551 ATAAAATTAAA-ATATAAA-TA
1 ATAAAATTAAATATAAAAAGTA
142571 ATAAAATTAAATATAAAAAGTA
1 ATAAAATTAAATATAAAAAGTA
142593 ATAAAACTTATAAT-TAAAA
1 ATAAAA-TTA-AATATAAAA
142612 TTGGTGACTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 11 0.31
21 6 0.17
22 8 0.22
23 8 0.22
24 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAAAATTAAATATAAAAAGTA
Found at i:143898 original size:3 final size:3
Alignment explanation
Indices: 143890--143935 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
143880 CTGTATTTAT
*
143890 TAA TAA TAA -AA TAA TAA TAA TAA TTA TAA TAA TAA T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
143934 TA
1 TA
143936 TTTAAATGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:145399 original size:23 final size:23
Alignment explanation
Indices: 145368--145417 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
145358 ATAGGTAAAA
*
145368 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAACGCTT
**
145391 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAACGCTT
145414 ATAT
1 ATAT
145418 TGTAAAGTAT
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:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAACGCTT
Found at i:145817 original size:23 final size:23
Alignment explanation
Indices: 145782--145841 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
145772 ATAGGTAAAA
* *
145782 ATATGATGCAATAGATAACACTT
1 ATATAATGTAATAGATAACACTT
* * **
145805 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGATAACACTT
145828 ATATAATGTAATAG
1 ATATAATGTAATAG
145842 GTAGTGCTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.35
Consensus pattern (23 bp):
ATATAATGTAATAGATAACACTT
Found at i:145842 original size:23 final size:23
Alignment explanation
Indices: 145802--145854 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
145792 ATAGATAACA
145802 CTTATATAATGTAATAGGTAGCG
1 CTTATATAATGTAATAGGTAGCG
* *
145825 TTTATATAATGTAATAGGTAGTG
1 CTTATATAATGTAATAGGTAGCG
145848 CTTATAT
1 CTTATAT
145855 TGTAAAGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.42
Consensus pattern (23 bp):
CTTATATAATGTAATAGGTAGCG
Found at i:146359 original size:23 final size:23
Alignment explanation
Indices: 146330--146377 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
146320 AAATAGGTCA
*
146330 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAGTATATT
*
146353 ATATAAGCGCTACCTAGTATGTT
1 ATATAAGCGCTACCTAGTATATT
146376 AT
1 AT
146378 TGTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAGTATATT
Found at i:148814 original size:22 final size:20
Alignment explanation
Indices: 148789--148832 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
148779 TTTTTTGGTG
148789 TAGTAAAATAATAATGATTAAT
1 TAGTAAAATAAT-AT-ATTAAT
**
148811 TAGTAATTTAATATATTAAT
1 TAGTAAAATAATATATTAAT
148831 TA
1 TA
148833 TCTATTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 2 0.10
22 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (20 bp):
TAGTAAAATAATATATTAAT
Found at i:148856 original size:43 final size:44
Alignment explanation
Indices: 148809--148891 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
148799 ATAATGATTA
148809 ATTAGTAATTTAAT-ATATT-AATTATCTATTAGA-AAATTAATAG
1 ATTAGTAATTT-ATCATATTCAATTATCTATTA-ACAAATTAATAG
*
148852 ATTAGTAATTTATCATTTTCAATTATCTATTAACAAATTA
1 ATTAGTAATTTATCATATTCAATTATCTATTAACAAATTA
148892 GTAATTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
42 2 0.06
43 16 0.44
44 18 0.50
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (44 bp):
ATTAGTAATTTATCATATTCAATTATCTATTAACAAATTAATAG
Found at i:152726 original size:5 final size:5
Alignment explanation
Indices: 152708--152763 Score: 53
Period size: 5 Copynumber: 11.6 Consensus size: 5
152698 CCGCCGCCGC
* * * *
152708 CGTC- CGTC- CGTCT CGTCT CGTCT CGTCT CGGCT CGGCT CGGCT CGGCT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT
*
152756 CGGCT CGT
1 CGTCT CGT
152764 GGTCGTGGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
4 8 0.16
5 41 0.84
ACGTcount: A:0.00, C:0.41, G:0.30, T:0.29
Consensus pattern (5 bp):
CGTCT
Found at i:152731 original size:10 final size:10
Alignment explanation
Indices: 152719--152763 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
152709 GTCCGTCCGT
*
152719 CTCGTCTCGT
1 CTCGTCTCGG
152729 CTCGTCTCGG
1 CTCGTCTCGG
*
152739 CTCGGCTCGG
1 CTCGTCTCGG
*
152749 CTCGGCTCGG
1 CTCGTCTCGG
152759 CTCGT
1 CTCGT
152764 GGTCGTGGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.00, C:0.40, G:0.31, T:0.29
Consensus pattern (10 bp):
CTCGTCTCGG
Found at i:152736 original size:15 final size:15
Alignment explanation
Indices: 152716--152763 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
152706 GCCGTCCGTC
* *
152716 CGTCTCGTCTCGTCT
1 CGTCTCGGCTCGGCT
152731 CGTCTCGGCTCGGCT
1 CGTCTCGGCTCGGCT
*
152746 CGGCTCGGCTCGGCT
1 CGTCTCGGCTCGGCT
152761 CGT
1 CGT
152764 GGTCGTGGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.00, C:0.40, G:0.31, T:0.29
Consensus pattern (15 bp):
CGTCTCGGCTCGGCT
Found at i:152771 original size:6 final size:6
Alignment explanation
Indices: 152760--152784 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
152750 TCGGCTCGGC
152760 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
152785 AATACGTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:158399 original size:5 final size:5
Alignment explanation
Indices: 158380--158418 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
158370 GTCCGTCCGT
* * *
158380 CTCGT CTCGT CTCGG CTCGG CACGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
158419 TGGTCGTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.03, C:0.41, G:0.33, T:0.23
Consensus pattern (5 bp):
CTCGG
Found at i:158427 original size:6 final size:6
Alignment explanation
Indices: 158416--158494 Score: 140
Period size: 6 Copynumber: 13.2 Consensus size: 6
158406 TCGGCTCGGC
* *
158416 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
158464 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
158495 AATACGTGTC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.03, C:0.16, G:0.49, T:0.32
Consensus pattern (6 bp):
TCGTGG
Found at i:158794 original size:22 final size:22
Alignment explanation
Indices: 158769--158823 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
158759 TCAGGAGTTA
* *
158769 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
158791 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
158813 CGGGAGTTATA
1 CAGGAGTTATA
158824 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:167600 original size:20 final size:20
Alignment explanation
Indices: 167575--167612 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
167565 CTTTATTTGA
*
167575 ATTAATCAAATAATAATACT
1 ATTAATCAAATAAGAATACT
167595 ATTAATCAAATAAGAATA
1 ATTAATCAAATAAGAATA
167613 AAATATATAG
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:0.58, C:0.08, G:0.03, T:0.32
Consensus pattern (20 bp):
ATTAATCAAATAAGAATACT
Found at i:168741 original size:6 final size:6
Alignment explanation
Indices: 168730--168796 Score: 125
Period size: 6 Copynumber: 11.2 Consensus size: 6
168720 GACACGTATT
*
168730 ACCACG ACCACG ACCACG ACCACG ACCACG ACCTCG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
168778 ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG A
168797 GCCGAGCCGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.33, C:0.49, G:0.16, T:0.01
Consensus pattern (6 bp):
ACCACG
Found at i:168804 original size:5 final size:5
Alignment explanation
Indices: 168794--168832 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
168784 ACCACGACCA
* * *
168794 CGAGC CGAGC CGAGC CGTGC CGAGC CGAGA CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
168833 ACGGACGGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.23, C:0.33, G:0.41, T:0.03
Consensus pattern (5 bp):
CGAGC
Found at i:174429 original size:6 final size:6
Alignment explanation
Indices: 174418--174454 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
174408 AACACGTATT
174418 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
174455 GCCGAGCCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:174462 original size:5 final size:5
Alignment explanation
Indices: 174452--174495 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
174442 ACCACGACCA
* * *
174452 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGA CGAGA CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
174496 ACGGACGGAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.27, C:0.32, G:0.41, T:0.00
Consensus pattern (5 bp):
CGAGC
Found at i:174472 original size:15 final size:15
Alignment explanation
Indices: 174451--174498 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
174441 GACCACGACC
174451 ACGAGCCGAGCCGAG
1 ACGAGCCGAGCCGAG
*
174466 CCGAGCCGAGCCGAG
1 ACGAGCCGAGCCGAG
* *
174481 ACGAGACGAGACGAG
1 ACGAGCCGAGCCGAG
174496 ACG
1 ACG
174499 GACGGACGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.29, C:0.31, G:0.40, T:0.00
Consensus pattern (15 bp):
ACGAGCCGAGCCGAG
Found at i:174507 original size:4 final size:5
Alignment explanation
Indices: 174451--174506 Score: 53
Period size: 5 Copynumber: 11.6 Consensus size: 5
174441 GACCACGACC
* * * * *
174451 ACGAG CCGAG CCGAG CCGAG CCGAG CCGAG ACGAG ACGAG ACGAG ACG-G
1 ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG
174500 ACG-G ACG
1 ACGAG ACG
174507 GCGGCGGCGG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
4 8 0.16
5 41 0.84
ACGTcount: A:0.29, C:0.30, G:0.41, T:0.00
Consensus pattern (5 bp):
ACGAG
Found at i:178382 original size:44 final size:44
Alignment explanation
Indices: 178333--178416 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 44
178323 AAAAAATTAC
178333 TAATTTGT-TAATAGATAATTGAAA-ATGA-TAAATTACTAATCTAT
1 TAATTT-TCTAATAGATAATT-AAATAT-ATTAAATTACTAATCTAT
178377 TAATTTTCTAATAGATAATTAAATATATTAAATTACTAAT
1 TAATTTTCTAATAGATAATTAAATATATTAAATTACTAAT
178417 TAATCATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
43 5 0.14
44 32 0.86
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (44 bp):
TAATTTTCTAATAGATAATTAAATATATTAAATTACTAATCTAT
Found at i:181005 original size:6 final size:6
Alignment explanation
Indices: 180994--181031 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
180984 AGACACGTAT
180994 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GA
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GA
181032 GCCGAGCCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.47, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:181095 original size:5 final size:5
Alignment explanation
Indices: 181029--181092 Score: 101
Period size: 5 Copynumber: 12.8 Consensus size: 5
181019 ACCACGACCA
*
181029 CGAGC CGAGC CGAGC CGTGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC
* *
181079 CGAGA CGAGA CGAG
1 CGAGC CGAGC CGAG
181093 ACGGACGGAC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 56 1.00
ACGTcount: A:0.22, C:0.36, G:0.41, T:0.02
Consensus pattern (5 bp):
CGAGC
Found at i:181976 original size:2 final size:2
Alignment explanation
Indices: 181969--182009 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
181959 CGGACAATCC
181969 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT A
182010 AATGAATGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:185738 original size:64 final size:64
Alignment explanation
Indices: 185663--185805 Score: 184
Period size: 64 Copynumber: 2.2 Consensus size: 64
185653 ATTGTTTAAG
* *
185663 GTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGATTTATGCATCGATGCATAAG-G
1 GTGCATCGATGCATCCAA-TTAAATA-AAAACACCGAATAGGATTTATGCATCGATGCAT-AGTG
185726 -A
63 TA
* * *
185727 GTGCATCGATGCATCCCCATTAAATACAAACACCGAATAGGATTTATGCATCGATGCATGGTGTA
1 GTGCATCGATGCAT-CCAATTAAATAAAAACACCGAATAGGATTTATGCATCGATGCATAGTGTA
185792 GTGCATCGATGCAT
1 GTGCATCGATGCAT
185806 ACCTTCATTA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 46 0.66
65 22 0.31
66 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (64 bp):
GTGCATCGATGCATCCAATTAAATAAAAACACCGAATAGGATTTATGCATCGATGCATAGTGTA
Found at i:185805 original size:65 final size:65
Alignment explanation
Indices: 185681--185805 Score: 191
Period size: 64 Copynumber: 1.9 Consensus size: 65
185671 ATGCATGAAT
*
185681 TTAAATAGAAAACATCGAATAGGATTTATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA
1 TTAAATAGAAAACACCGAATAGGATTTATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA
* *
185746 TTAAATA-CAAACACCGAATAGGATTTATGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TTAAATAGAAAACACCGAATAGGATTTATGCATCGATGCATAAG-G-AGTGCATCGATGCAT
185806 ACCTTCATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
63 1 0.02
64 32 0.58
65 22 0.40
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (65 bp):
TTAAATAGAAAACACCGAATAGGATTTATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA
Found at i:187452 original size:151 final size:149
Alignment explanation
Indices: 187214--187529 Score: 492
Period size: 151 Copynumber: 2.1 Consensus size: 149
187204 GAGTCGAGGG
* * * * * *
187214 TCTACGCGGTCCTTC-GGGACATATGTATATTCTTTGGAACATTTATGAGGTCTTTGAGGCACAT
1 TCTACGCGGTCCTTCGGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTTAAGACACAT
* *
187278 ACTTGGTCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTAGGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTAGGGACATTATTA
187343 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
187362 TCTACGCGGTCCTTCGGGAGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACAC
1 TCTACGCGGTCCTTCGGG-GACATATATATATTCTGTGGAACATGTATGAAGTCTT-TAAGACAC
*
187427 ATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
64 ATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTAGGGACATTAT
187492 TATATGGCACTACGGTGCAAT
129 TATATGGCACTACGGTGCAAT
187513 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
187530 TGCAATTATA
Statistics
Matches: 153, Mismatches: 11, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
148 15 0.10
149 2 0.01
150 32 0.21
151 104 0.68
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTTAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTAGGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:200471 original size:55 final size:55
Alignment explanation
Indices: 200405--200510 Score: 194
Period size: 55 Copynumber: 1.9 Consensus size: 55
200395 GGTAAACAAC
*
200405 TTAATATTGTTTAAGTAAAGATTCATGTTCGAGTCCTTATATATATATATATATA
1 TTAATATTGTTTAAGTAAAGATTCATGTTCGAGTCCTCATATATATATATATATA
*
200460 TTAATATTGTTTAAGTAAGGATTCATGTTCGAGTCCTCATATATATATATA
1 TTAATATTGTTTAAGTAAAGATTCATGTTCGAGTCCTCATATATATATATA
200511 ATCTCTGTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (55 bp):
TTAATATTGTTTAAGTAAAGATTCATGTTCGAGTCCTCATATATATATATATATA
Found at i:200843 original size:2 final size:2
Alignment explanation
Indices: 200836--200881 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
200826 TTTATTTAGA
200836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
200877 AT AT A
1 AT AT A
200882 ATTTTGAAAA
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:201066 original size:77 final size:76
Alignment explanation
Indices: 200864--201234 Score: 472
Period size: 77 Copynumber: 4.8 Consensus size: 76
200854 ATATATATAT
* * *
200864 ATATATATATATTATATAATTTTGAAAACATTTTGAAAATATATA-A-TATATAATTTTTAAAAA
1 ATATATATATATTATATAGTTTTTAAAACATTTTGAAAATATATATATTATATAGTTTTT-AAAA
200927 CATTTTTGAAAAC
65 CA-TTTTGAAAAC
200940 --ATATATATATTATATAGTTTTTAAAACATTTTGAAAATATATATATATTATATAGTTTTTAAA
1 ATATATATATATTATATAGTTTTTAAAACATTTTG-AAA-ATATATATATTATATAGTTTTTAAA
201003 ACATTTTGAAAAC
64 ACATTTTGAAAAC
201016 ATATATTATATATTATATAGTTTTTAAAACATTTTGAAAATATATATATTATATAGTTTTTAAAA
1 ATATA-TATATATTATATAGTTTTTAAAACATTTTGAAAATATATATATTATATAGTTTTTAAAA
201081 CATTTTGAAAAC
65 CATTTTGAAAAC
* * *
201093 --ATATGTATATTATATAATTTTTAAAACA-TTTGAAAAAATATATATATATTATATAATTTTTA
1 ATATATATATATTATATAGTTTTTAAAACATTTTG---AAA-ATATATATATTATATAGTTTTTA
* *
201155 AAACATTTT-TAAAT
62 AAACATTTTGAAAAC
* * *
201169 ATATATATATAATATAT-GTTTTTTAAAACAATTTTTGAAAATATATATAATATATAGTTTTGAA
1 ATATATATATATTATATAG-TTTTTAAAAC-A-TTTTGAAAATATATATATTATATAGTTTTTAA
201233 AA
63 AA
201235 TTATTTTTTT
Statistics
Matches: 264, Mismatches: 14, Indels: 33
0.85 0.05 0.11
Matches are distributed among these distances:
73 4 0.02
74 54 0.20
75 6 0.02
76 23 0.09
77 99 0.38
78 43 0.16
79 31 0.12
81 4 0.02
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (76 bp):
ATATATATATATTATATAGTTTTTAAAACATTTTGAAAATATATATATTATATAGTTTTTAAAAC
ATTTTGAAAAC
Found at i:201241 original size:38 final size:36
Alignment explanation
Indices: 200866--201275 Score: 398
Period size: 38 Copynumber: 10.9 Consensus size: 36
200856 ATATATATAT
* * *
200866 ATATATATATTATATAATTTTGAAAACATTTTG-AA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
*
200901 A-ATATATAATATATAATTTTTAAAAACATTTTTGAAAA
1 ATATATATAATATATAGTTTTT-AAAACA-TTTTG-AAA
*
200939 CATATATATATTATATAGTTTTTAAAACATTTTGAAA
1 -ATATATATAATATATAGTTTTTAAAACATTTTGAAA
200976 ATATATATATATTATATAGTTTTTAAAACATTTTGAAAA
1 ATATATATA-A-TATATAGTTTTTAAAACATTTTG-AAA
201015 CATATATTATATATTATATAGTTTTTAAAACATTTTGAAA
1 -ATATA-TATA-A-TATATAGTTTTTAAAACATTTTGAAA
*
201055 ATATATATATTATATAGTTTTTAAAACATTTTGAAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTG-AAA
* * *
201092 CATATGTATATTATATAATTTTTAAAACA-TTTGAAAAA
1 -ATATATATAATATATAGTTTTTAAAACATTTTG--AAA
* *
201130 ATATATATATATTATATAATTTTTAAAACATTTT-TAA
1 ATATATATA-A-TATATAGTTTTTAAAACATTTTGAAA
201167 ATATATATATATAATATATGTTTTTTAAAACAATTTTTGAAA
1 ATATATATA-AT-ATATA-G-TTTTTAAAAC-A-TTTTGAAA
* * ***
201209 ATATATATAATATATAGTTTTGAAAATTATTTTTTTA
1 ATATATATAATATATAGTTTTTAAAA-CATTTTGAAA
* * *
201246 AGATATATATTATATAG-TTTTAAAAAATTT
1 ATATATATAATATATAGTTTTTAAAACATTT
201276 CTTCATTGTA
Statistics
Matches: 329, Mismatches: 22, Indels: 48
0.82 0.06 0.12
Matches are distributed among these distances:
34 18 0.05
35 11 0.03
36 45 0.14
37 56 0.17
38 73 0.22
39 44 0.13
40 35 0.11
41 36 0.11
42 11 0.03
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:202585 original size:13 final size:14
Alignment explanation
Indices: 202562--202591 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
202552 TTTATCTCCA
202562 TTTATTTATTTTTC
1 TTTATTTATTTTTC
202576 TTTA-TTATTTTTC
1 TTTATTTATTTTTC
202589 TTT
1 TTT
202592 TCTCTTGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTATTTTTC
Found at i:202622 original size:16 final size:17
Alignment explanation
Indices: 202602--202642 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
202592 TCTCTTGATT
202602 TTATTATTTTAGTATTA
1 TTATTATTTTAGTATTA
*
202619 -TATT-TGTTTATTATTA
1 TTATTAT-TTTAGTATTA
202635 TTATTATT
1 TTATTATT
202643 ATTTCCTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 6
0.74 0.04 0.22
Matches are distributed among these distances:
15 1 0.05
16 13 0.65
17 5 0.25
18 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
TTATTATTTTAGTATTA
Found at i:202725 original size:14 final size:14
Alignment explanation
Indices: 202706--202733 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
202696 TTTACCTAAC
202706 ATTTAGCCTATTAG
1 ATTTAGCCTATTAG
202720 ATTTAGCCTATTAG
1 ATTTAGCCTATTAG
202734 TTAATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
ATTTAGCCTATTAG
Found at i:204300 original size:32 final size:32
Alignment explanation
Indices: 204211--204310 Score: 85
Period size: 32 Copynumber: 3.1 Consensus size: 32
204201 AATTTAGCGA
* * *
204211 AACCAAAAGCAAACAAAACTGAAATTAAC-CTG
1 AACCAAAAACAACCAAAACAGAAATTAACTC-G
* * * * *
204243 AATCGAAAATAACCCAAACATAAATTAACTCG
1 AACCAAAAACAACCAAAACAGAAATTAACTCG
* * *
204275 AACCAAAAACAACCTAAACCGAAATTAACTCA
1 AACCAAAAACAACCAAAACAGAAATTAACTCG
204307 AACC
1 AACC
204311 GAAAGAAATC
Statistics
Matches: 52, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
32 51 0.98
33 1 0.02
ACGTcount: A:0.55, C:0.25, G:0.06, T:0.14
Consensus pattern (32 bp):
AACCAAAAACAACCAAAACAGAAATTAACTCG
Found at i:205408 original size:22 final size:22
Alignment explanation
Indices: 205380--205427 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
205370 AAAATTTAGT
*
205380 GAAACCGAAAGTAACCCAAATC
1 GAAACCGAAAGTAACCCAAACC
*
205402 GAAACCGAAATTAACCCAAACC
1 GAAACCGAAAGTAACCCAAACC
205424 GAAA
1 GAAA
205428 GAAATTCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.27, G:0.12, T:0.08
Consensus pattern (22 bp):
GAAACCGAAAGTAACCCAAACC
Done.