Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007954.1 Hibiscus syriacus cultivar Beakdansim tig00110379_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: 289567
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:5358 original size:23 final size:24
Alignment explanation
Indices: 5310--5358 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
5300 ATGATGAAGT
5310 AAGTTCCACTAGTGGGTATATTTTA
1 AAGTTCCACTAGTGGG-ATATTTTA
5335 AAGTTCCACTAGTGGG-TATTTTA
1 AAGTTCCACTAGTGGGATATTTTA
5358 A
1 A
5359 CTTTAGGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.33
25 16 0.67
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (24 bp):
AAGTTCCACTAGTGGGATATTTTA
Found at i:9622 original size:25 final size:25
Alignment explanation
Indices: 9545--9624 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
9535 TGATTTGGTA
9545 ATATTTTCATTTATTTAAAGAAATT
1 ATATTTTCATTTATTTAAAGAAATT
* * **
9570 ATA-TGTC--TAATTTAAATGATTTCTTT
1 ATATTTTCATTTATTTAAA-GA---AATT
9596 ATATTTTCATTTATTTAAAGAAATT
1 ATATTTTCATTTATTTAAAGAAATT
9621 ATAT
1 ATAT
9625 AGGTCTGCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
22 8 0.20
23 2 0.05
24 3 0.08
25 9 0.22
26 5 0.12
27 3 0.08
28 2 0.05
29 8 0.20
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (25 bp):
ATATTTTCATTTATTTAAAGAAATT
Found at i:12645 original size:18 final size:18
Alignment explanation
Indices: 12624--12669 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
12614 CACTGGTTCA
*
12624 ATCGGTCGAATTGGTCCG
1 ATCGGTCGAATCGGTCCG
12642 ATCGGTCGAATCGGTCCG
1 ATCGGTCGAATCGGTCCG
12660 ATCGGTCGAA
1 ATCGGTCGAA
12670 AGAATCGGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.24
Consensus pattern (18 bp):
ATCGGTCGAATCGGTCCG
Found at i:12730 original size:22 final size:22
Alignment explanation
Indices: 12695--12739 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
12685 CATAATTATT
12695 TAAAAAATTAAAT-AAAAATAA
1 TAAAAAATTAAATAAAAAATAA
*
12716 TAAAAATATTTAATAAAAAATAA
1 TAAAAA-ATTAAATAAAAAATAA
12739 T
1 T
12740 TTTTTATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 9 0.43
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAAATTAAATAAAAAATAA
Found at i:15175 original size:16 final size:16
Alignment explanation
Indices: 15154--15186 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15144 TACTATTCAA
*
15154 GTGAATAGTGAATTTT
1 GTGAATAGTGAAATTT
15170 GTGAATAGTGAAATTT
1 GTGAATAGTGAAATTT
15186 G
1 G
15187 GTCGGCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.39
Consensus pattern (16 bp):
GTGAATAGTGAAATTT
Found at i:17802 original size:16 final size:16
Alignment explanation
Indices: 17781--17813 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17771 TACTATTCAA
*
17781 GTGAATAGTGAATTTT
1 GTGAATAGTGAAATTT
17797 GTGAATAGTGAAATTT
1 GTGAATAGTGAAATTT
17813 G
1 G
17814 GTCGGCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.39
Consensus pattern (16 bp):
GTGAATAGTGAAATTT
Found at i:23929 original size:20 final size:20
Alignment explanation
Indices: 23904--23941 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23894 TCATCCCAAA
*
23904 TCATCCAATATTGATACTGT
1 TCATCCAATATCGATACTGT
23924 TCATCCAATATCGATACT
1 TCATCCAATATCGATACT
23942 CAAACCCAGA
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:0.32, C:0.24, G:0.08, T:0.37
Consensus pattern (20 bp):
TCATCCAATATCGATACTGT
Found at i:24426 original size:9 final size:9
Alignment explanation
Indices: 24409--24441 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
24399 AGCATGAGAG
*
24409 AAATAAAGA
1 AAATGAAGA
24418 AAATGAAGA
1 AAATGAAGA
24427 AAAT-AAGA
1 AAATGAAGA
24435 AAATGAA
1 AAATGAA
24442 AAGAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (9 bp):
AAATGAAGA
Found at i:24427 original size:17 final size:17
Alignment explanation
Indices: 24402--24452 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 17
24392 GAATAAGAGC
24402 ATGAGAGAAATAAAGAAA
1 ATGA-AGAAATAAAGAAA
24420 ATGAAGAAA-ATAAGAAA
1 ATGAAGAAATA-AAGAAA
24437 ATGAAAAGAAATAAAG
1 ATG--AAGAAATAAAG
24453 GGTCCTCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.03
17 14 0.48
18 4 0.14
19 9 0.31
20 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.12
Consensus pattern (17 bp):
ATGAAGAAATAAAGAAA
Found at i:25287 original size:90 final size:90
Alignment explanation
Indices: 25134--25307 Score: 330
Period size: 90 Copynumber: 1.9 Consensus size: 90
25124 AATATGTCAT
25134 GAACTAAATGTTTATGCATCTAGCAATGATTAACAATAACTAACATATATAAATCAACTCCCATT
1 GAACTAAATGTTTATGCATCTAGCAATGATTAACAATAACTAACATATATAAATCAACTCCCATT
25199 GACTTAATCAATTAAACTATTAATA
66 GACTTAATCAATTAAACTATTAATA
* *
25224 GAACTAAATGTTTATGCATCTAGCAATGATTAACATTATCTAACATATATAAATCAACTCCCATT
1 GAACTAAATGTTTATGCATCTAGCAATGATTAACAATAACTAACATATATAAATCAACTCCCATT
25289 GACTTAATCAATTAAACTA
66 GACTTAATCAATTAAACTA
25308 AATGATTAAC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (90 bp):
GAACTAAATGTTTATGCATCTAGCAATGATTAACAATAACTAACATATATAAATCAACTCCCATT
GACTTAATCAATTAAACTATTAATA
Found at i:25341 original size:60 final size:60
Alignment explanation
Indices: 25248--25367 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
25238 TGCATCTAGC
25248 AATGATTAACATTATCTAACATATATAAATCAACTCCCATTGACTTAATCAATTAAACTA
1 AATGATTAACATTATCTAACATATATAAATCAACTCCCATTGACTTAATCAATTAAACTA
25308 AATGATTAACATTATCTAACATATATAAATCAACTCCCATTGACTTAATCAATTAAACTA
1 AATGATTAACATTATCTAACATATATAAATCAACTCCCATTGACTTAATCAATTAAACTA
25368 TTAATAATGC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.33
Consensus pattern (60 bp):
AATGATTAACATTATCTAACATATATAAATCAACTCCCATTGACTTAATCAATTAAACTA
Found at i:29972 original size:20 final size:20
Alignment explanation
Indices: 29947--29997 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
29937 TTTTCTGAAT
29947 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGAATATG-ACAA
*
29967 TCGCAATGCGAATATGACTA
1 TCGCAATGCGAATATGACAA
29987 TCGCAATGCGA
1 TCGCAATGCGA
29998 TTCTTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATATGACAA
Found at i:30008 original size:20 final size:20
Alignment explanation
Indices: 29966--30073 Score: 135
Period size: 20 Copynumber: 5.4 Consensus size: 20
29956 GAATATGTAA
* * *
29966 ATCGCAATGCGAATATGACT
1 ATCGCAACGCGATTCTGACT
* * *
29986 ATCGCAATGCGATTCTTATT
1 ATCGCAACGCGATTCTGACT
*
30006 ATCGCAACGCAATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
30026 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
30046 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
30066 GTCGCAAC
1 ATCGCAAC
30074 ACTGAATTTC
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:30926 original size:24 final size:24
Alignment explanation
Indices: 30894--30947 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
30884 GTATTCGAAA
30894 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
30918 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
30942 TTTGAT
1 TTTGAT
30948 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:31134 original size:6 final size:6
Alignment explanation
Indices: 31123--31157 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
31113 TATAACCCTC
* *
31123 AAAAAG AAAAAG AAGAAG AAAAAG AAGAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
31158 ATCCCCGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:31143 original size:12 final size:12
Alignment explanation
Indices: 31126--31157 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
31116 AACCCTCAAA
31126 AAGAAAAAGAAG
1 AAGAAAAAGAAG
31138 AAGAAAAAGAAG
1 AAGAAAAAGAAG
31150 AAGAAAAA
1 AAGAAAAA
31158 ATCCCCGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAAG
Found at i:31167 original size:15 final size:15
Alignment explanation
Indices: 31149--31185 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
31139 AGAAAAAGAA
31149 GAAGAAAAAATCCCC
1 GAAGAAAAAATCCCC
*
31164 GAAG-AAAAGTCCCC
1 GAAGAAAAAATCCCC
31178 GAAGAAAA
1 GAAGAAAA
31186 TGCCACGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.54, C:0.22, G:0.19, T:0.05
Consensus pattern (15 bp):
GAAGAAAAAATCCCC
Found at i:32538 original size:140 final size:140
Alignment explanation
Indices: 32277--32546 Score: 486
Period size: 140 Copynumber: 1.9 Consensus size: 140
32267 AAACGTTGTA
*
32277 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTACTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGTTTGAACATTACTA
* *
32342 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACACGAATTTGACTAT
32407 TATGTGTATT
131 TATGTGTATT
*
32417 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGTTTGAACATTACTA
* *
32482 TGATATGTTCAGTTGTTATCACTTATTACACATTTATTTGAATATCGGAACACGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACACGAATTTGACTAT
32547 CGCAACTCAA
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGTTTGAACATTACTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACACGAATTTGACTAT
TATGTGTATT
Found at i:32582 original size:54 final size:54
Alignment explanation
Indices: 32517--32661 Score: 209
Period size: 54 Copynumber: 2.7 Consensus size: 54
32507 TTACACATTT
* * ** *
32517 ATTTGAATATCGGAACACGAATTTGACTATCGCAACTCAAAAATTGCAACGCGA
1 ATTTGACTATCGCAACACGAATTTGACTATCGCAACGAAAAAATCGCAACGCGA
*
32571 ATTTGACTATCGCAACACGAATATGACTATCGCAACGAAAAAATCGCAACGCGA
1 ATTTGACTATCGCAACACGAATTTGACTATCGCAACGAAAAAATCGCAACGCGA
** *
32625 ATTTGACTATCGCAATGCGAATTTGATTATCGCAACG
1 ATTTGACTATCGCAACACGAATTTGACTATCGCAACG
32662 GGTATTTGAC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.24
Consensus pattern (54 bp):
ATTTGACTATCGCAACACGAATTTGACTATCGCAACGAAAAAATCGCAACGCGA
Found at i:32617 original size:34 final size:35
Alignment explanation
Indices: 32579--32789 Score: 167
Period size: 34 Copynumber: 5.8 Consensus size: 35
32569 GAATTTGACT
* *
32579 ATCGCAACACGAATATGACTATCGCAACGAA-AAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAATAAA
**
32613 ATCGCAACGCGAATTTGACTATCGCAATGCGAATTTGATT
1 ATCGCAACGCGAATTTGACTATCGCAA--CGAA--T-AAA
* * *
32653 ATCGCAACGGGTATTTGACTATCGCAAC-AAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAATAAA
* **
32687 ATCGCAACGCGAATTTGACCATCGCAACGCGAATTTGATT
1 ATCGCAACGCGAATTTGACTATCGCAA--CGAA--T-AAA
* * *
32727 ATCGCAACGGGTATTTGACTATCGCAACG-AGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAATAAA
* * *
32761 ATCGCAAAGCGTATTAGACTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACG
32790 CGAATTAACT
Statistics
Matches: 141, Mismatches: 24, Indels: 24
0.75 0.13 0.13
Matches are distributed among these distances:
34 77 0.55
36 5 0.04
37 5 0.04
38 3 0.02
40 51 0.36
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (35 bp):
ATCGCAACGCGAATTTGACTATCGCAACGAATAAA
Found at i:32649 original size:74 final size:74
Alignment explanation
Indices: 32562--32795 Score: 353
Period size: 74 Copynumber: 3.2 Consensus size: 74
32552 CTCAAAAATT
* ** * *
32562 GCAACGCGAATTTGACTATCGCAACACGAATATGACTATCGCAACGAAAAAATCGCAACGCGAAT
1 GCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACGAAAAAATCGCAACGCGAAT
32627 TTGACTATC
66 TTGACTATC
*
32636 GCAATGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAAC-AAGAAAATCGCAACGCGAA
1 GCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACGAA-AAAATCGCAACGCGAA
*
32700 TTTGACCATC
65 TTTGACTATC
* * *
32710 GCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACGAGAAAATCGCAAAGCGTAT
1 GCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACGAAAAAATCGCAACGCGAAT
*
32775 TAGACTATC
66 TTGACTATC
32784 GCAACGCGAATT
1 GCAACGCGAATT
32796 AACTTTTGCG
Statistics
Matches: 145, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
73 2 0.01
74 142 0.98
75 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (74 bp):
GCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACGAAAAAATCGCAACGCGAAT
TTGACTATC
Found at i:32796 original size:20 final size:20
Alignment explanation
Indices: 32562--32795 Score: 180
Period size: 20 Copynumber: 12.6 Consensus size: 20
32552 CTCAAAAATT
32562 GCAACGCGAATTTGACTATC
1 GCAACGCGAATTTGACTATC
* *
32582 GCAACACGAATATGACTATC
1 GCAACGCGAATTTGACTATC
**
32602 GCAA--CGAA----AAAATC
1 GCAACGCGAATTTGACTATC
32616 GCAACGCGAATTTGACTATC
1 GCAACGCGAATTTGACTATC
* *
32636 GCAATGCGAATTTGATTATC
1 GCAACGCGAATTTGACTATC
* *
32656 GCAACGGGTATTTGACTATC
1 GCAACGCGAATTTGACTATC
**
32676 GCAA--C-AA---GAAAATC
1 GCAACGCGAATTTGACTATC
*
32690 GCAACGCGAATTTGACCATC
1 GCAACGCGAATTTGACTATC
*
32710 GCAACGCGAATTTGATTATC
1 GCAACGCGAATTTGACTATC
* *
32730 GCAACGGGTATTTGACTATC
1 GCAACGCGAATTTGACTATC
*
32750 GCAACGAGAA----A--ATC
1 GCAACGCGAATTTGACTATC
* * *
32764 GCAAAGCGTATTAGACTATC
1 GCAACGCGAATTTGACTATC
32784 GCAACGCGAATT
1 GCAACGCGAATT
32796 AACTTTTGCG
Statistics
Matches: 166, Mismatches: 30, Indels: 36
0.72 0.13 0.16
Matches are distributed among these distances:
14 27 0.16
16 6 0.04
17 3 0.02
18 5 0.03
20 125 0.75
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (20 bp):
GCAACGCGAATTTGACTATC
Found at i:33010 original size:14 final size:14
Alignment explanation
Indices: 32950--33011 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
32940 CACAAATAAG
*
32950 AATTATTTACACATC
1 AATT-TTTACAAATC
**
32965 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
32980 AACTTTTACAAATC
1 AATTTTTACAAATC
*
32994 AATTTTTATAAATC
1 AATTTTTACAAATC
33008 AATT
1 AATT
33012 AAACAAGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:34494 original size:21 final size:21
Alignment explanation
Indices: 34413--34499 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
34403 GAATGTTGGG
* * *
34413 AGGGACCTCTTCAACGATTAC
1 AGGGGCCTCTTGAACGATGAC
* * **
34434 AGTGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTGAACGATGAC
* ** *
34455 AGGGGACTCTTGAGGGATGAT
1 AGGGGCCTCTTGAACGATGAC
34476 AGGGGCCTCTTGAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
34497 AGG
1 AGG
34500 TGAGTCGGGC
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.22
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAC
Found at i:35015 original size:18 final size:18
Alignment explanation
Indices: 34989--35051 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 18
34979 CTTAAAATCA
* *
34989 CAACACGAATGACTATTG
1 CAACGCGAATGACTATCG
35007 CAACGCGAAAATGACTATCG
1 CAACGCG--AATGACTATCG
*
35027 CAACGTGAATTTGACTATCG
1 CAACGCGAA--TGACTATCG
35047 CAACG
1 CAACG
35052 AGAGAATCGC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 8 0.21
20 30 0.79
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (18 bp):
CAACGCGAATGACTATCG
Found at i:35021 original size:20 final size:20
Alignment explanation
Indices: 34996--35051 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
34986 TCACAACACG
*
34996 AATGACTATTGCAACGCGAA
1 AATGACTATCGCAACGCGAA
*
35016 AATGACTATCGCAACGTGAA
1 AATGACTATCGCAACGCGAA
**
35036 TTTGACTATCGCAACG
1 AATGACTATCGCAACG
35052 AGAGAATCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:35080 original size:100 final size:100
Alignment explanation
Indices: 34962--35163 Score: 350
Period size: 100 Copynumber: 2.0 Consensus size: 100
34952 TTTTCAGAAG
*
34962 AAGAATAGAATCTAAAACTTAAAATCACAACACGAATGACTATTGCAACGCGAAAATGACTATCG
1 AAGAATAGAATCTAAAACTTAAAATCACAACACGAATGACTATCGCAACGCGAAAATGACTATCG
***
35027 CAACGTGAATTTGACTATCGCAACGAGAGAATCGC
66 CAACACAAATTTGACTATCGCAACGAGAGAATCGC
*
35062 AAGAATAGAATCTGAAACTTAAAATCACAACACGAATGACTATCGCAACGCGAAAATGACTATCG
1 AAGAATAGAATCTAAAACTTAAAATCACAACACGAATGACTATCGCAACGCGAAAATGACTATCG
*
35127 CAACACAAATTTGACTATCGGAACGAGAGAATCGC
66 CAACACAAATTTGACTATCGCAACGAGAGAATCGC
35162 AA
1 AA
35164 TGCGATTTCC
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (100 bp):
AAGAATAGAATCTAAAACTTAAAATCACAACACGAATGACTATCGCAACGCGAAAATGACTATCG
CAACACAAATTTGACTATCGCAACGAGAGAATCGC
Found at i:35115 original size:18 final size:19
Alignment explanation
Indices: 35089--35146 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
35079 CTTAAAATCA
35089 CAACACG-AATGACTATCG
1 CAACACGAAATGACTATCG
*
35107 CAACGCGAAAATGACTATCG
1 CAACACG-AAATGACTATCG
35127 CAACAC-AAATTTGACTATCG
1 CAACACGAAA--TGACTATCG
35147 GAACGAGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 9 0.26
20 25 0.74
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.19
Consensus pattern (19 bp):
CAACACGAAATGACTATCG
Found at i:35141 original size:20 final size:20
Alignment explanation
Indices: 35096--35146 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
35086 TCACAACACG
*
35096 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACACGAA
35116 AATGACTATCGCAACAC-AA
1 AATGACTATCGCAACACGAA
*
35135 ATTTGACTATCG
1 A-ATGACTATCG
35147 GAACGAGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.22
Consensus pattern (20 bp):
AATGACTATCGCAACACGAA
Found at i:35221 original size:20 final size:20
Alignment explanation
Indices: 35194--35261 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
35184 GCGATTCTTT
**
35194 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
35214 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
35234 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
35254 CGTTGCGA
1 CGTTGCGA
35262 AAGTAAACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:35479 original size:20 final size:20
Alignment explanation
Indices: 35454--35539 Score: 136
Period size: 20 Copynumber: 4.3 Consensus size: 20
35444 GTTTACTTTT
35454 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
35474 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
*
35494 ACAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
* **
35514 ACAACGCGAATTTGACTATC
1 GCAACGCGAAAATGACTATC
35534 GCAACG
1 GCAACG
35540 AGAGAATCGC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.16
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:35636 original size:20 final size:20
Alignment explanation
Indices: 35582--35647 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
35572 GCGATTCTTT
**
35582 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
35602 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* *
35622 CGTTGCGATGGTCATTTTTG
1 CGTTGCGATAGTCATTTTCG
35642 CGTTGC
1 CGTTGC
35648 AAAAGTAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.15, C:0.20, G:0.27, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:35820 original size:18 final size:18
Alignment explanation
Indices: 35797--35846 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
35787 TTTACTAAGC
35797 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
*
35815 AATCTAAGTAAAATGGTT
1 AATCTAAGTGAAATGGTT
35833 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
35847 TACGAGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:37593 original size:20 final size:20
Alignment explanation
Indices: 37570--37657 Score: 79
Period size: 20 Copynumber: 4.5 Consensus size: 20
37560 TCTGAAACTT
*
37570 AAAATCGTAACACGAAAATG
1 AAAATCGCAACACGAAAATG
37590 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
37610 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** * *
37630 ACTATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
37649 AAAATCGCA
1 AAAATCGCA
37658 TTGCGATTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
19 7 0.12
20 51 0.88
ACGTcount: A:0.45, C:0.23, G:0.16, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:38070 original size:22 final size:23
Alignment explanation
Indices: 38042--38093 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
38032 GAGATAGACG
* *
38042 GATTTCGCT-GGAGATGGGGACT
1 GATTTCGCTCAGAGATGGGGACA
38064 GATTTCG-TCAGAGATGGGGACA
1 GATTTCGCTCAGAGATGGGGACA
*
38086 GATGTCGC
1 GATTTCGC
38094 CTTAGAGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.21, C:0.15, G:0.38, T:0.25
Consensus pattern (23 bp):
GATTTCGCTCAGAGATGGGGACA
Found at i:38292 original size:20 final size:20
Alignment explanation
Indices: 38259--38352 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
38249 ACGCTTTGAA
* *
38259 AATCGCATTACGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
38279 CATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
38299 AATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
38319 AATCCCGTTGCGATAGTCAT
1 AATCGCGTTGCGATAGTCAG
*
38339 AATCGCATTGCGAT
1 AATCGCGTTGCGAT
38353 TTACATATTC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:50426 original size:16 final size:15
Alignment explanation
Indices: 50401--50431 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
50391 TTTTAGTAGT
50401 TTTCTTAAAAAATTA
1 TTTCTTAAAAAATTA
50416 TTTCATTAAAAAATTA
1 TTTC-TTAAAAAATTA
50432 CTAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTCTTAAAAAATTA
Found at i:51013 original size:22 final size:24
Alignment explanation
Indices: 50988--51041 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 24
50978 AATTTTTTAG
50988 TATTTTTAAAATATAT-ATAAT-T
1 TATTTTTAAAATATATAATAATAT
* *
51010 TA-TTTTAAAATTTATAATTATAT
1 TATTTTTAAAATATATAATAATAT
51033 TATTTTTAA
1 TATTTTTAA
51042 TAAATATGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 12 0.44
22 6 0.22
23 3 0.11
24 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTTTTAAAATATATAATAATAT
Found at i:55581 original size:6 final size:5
Alignment explanation
Indices: 55556--55595 Score: 53
Period size: 5 Copynumber: 7.4 Consensus size: 5
55546 ATTGTAGTAA
55556 TTAAT TTAAT TTAAT TTAATT TTAAT TATAAAT TTAAT TT
1 TTAAT TTAAT TTAAT TTAA-T TTAAT T-T-AAT TTAAT TT
55596 TTCATTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 21 0.66
6 7 0.22
7 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:55797 original size:24 final size:23
Alignment explanation
Indices: 55768--55813 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
55758 TTTTGAAACT
*
55768 TTAATAATATTTATTATAATTAAA
1 TTAATAATATTT-TAATAATTAAA
55792 TTAATAATATTTTAATAATTAA
1 TTAATAATATTTTAATAATTAA
55814 TTTATTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAATAATATTTTAATAATTAAA
Found at i:63042 original size:27 final size:27
Alignment explanation
Indices: 62964--63036 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
62954 TGTTGACGCT
*
62964 ATATTTTAATGAATGTGATTAATATCA
1 ATATTTGAATGAATGTGATTAATATCA
* *
62991 ATAGTTGAATTAATGTGATTAATATCA
1 ATATTTGAATGAATGTGATTAATATCA
63018 ATATTTGAATGAATGTGAT
1 ATATTTGAATGAATGTGAT
63037 GGATATTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (27 bp):
ATATTTGAATGAATGTGATTAATATCA
Found at i:64998 original size:102 final size:99
Alignment explanation
Indices: 64875--65355 Score: 320
Period size: 106 Copynumber: 4.7 Consensus size: 99
64865 AAAACAAAAC
* *
64875 AATAA-AATCTAAACTAAACTTACCAAACCACTTAAATACGATTTAATATGTAAAATCAAAATAA
1 AATAATAATTTAAACTAAACTTACCAAACCACTCAAATAC-ATTTAATATGTAAAATCAAAATAA
64939 ATAGTCCAAAAATTTATATTACTCAATAAAAAATTA
65 ATAGT-CAAAAATTTATATTACTCAATAAAAAATTA
* *
64975 AATATATAATTTAAACTAAACTTACCAAACTACTCAAATACATCTTAATATGTAAAATTTAAAA-
1 AATA-ATAATTTAAACTAAACTTACCAAACCACTCAAATACAT-TTAATATGTAAAA-TCAAAAT
* * * * *
65039 AAATAGTCTAATATTTATAAATTAAATTAAAAACAAAAATTA
63 AAATAGTCAAAAATTTAT--ATT--ACTCAATA-AAAAATTA
* * * * * * * *
65081 TACTAAAAATTTAAATTAAACTCACCAAACCACTCGAATACAGTTTAATCTTTATAATCAAAATA
1 -AATAATAATTTAAACTAAACTTACCAAACCACTCAAATACA-TTTAATATGTAAAATCAAAATA
* * *
65146 TATAGT-AATTAATTTATATT--TACAATAAAAACCCTAAACCCTA
64 AATAGTCAA-AAATTTATATTACT-CAAT--AAA----AAA--TTA
* * * *
65189 AACAATAAATTTTAAACTAAACTTACCAAACCACTCAAATACGATTTATTATGTCAAATAAAAAT
1 AATAAT-AA-TTTAAACTAAACTTACCAAACCACTCAAATAC-ATTTAATATGTAAAATCAAAAT
* * *
65254 AATTAGTCTAATAATTTATATTACTCAAT---AGA--A
63 AAATAGTC-AAAAATTTATATTACTCAATAAAAAATTA
* * * * * * *
65287 AAT-ATAATTTAAATTAAACTTACCAAACTGA-TAAAAAACAACTTATTATGTAAAATAAAAATA
1 AATAATAATTTAAACTAAACTTACCAAAC-CACTCAAATAC-ATTTAATATGTAAAATCAAAATA
65350 AATAGT
64 AATAGT
65356 ATAATAACTA
Statistics
Matches: 301, Mismatches: 50, Indels: 65
0.72 0.12 0.16
Matches are distributed among these distances:
95 52 0.17
96 3 0.01
97 2 0.01
98 3 0.01
100 5 0.02
101 14 0.05
102 55 0.18
103 9 0.03
104 3 0.01
105 11 0.04
106 65 0.22
107 7 0.02
108 4 0.01
109 49 0.16
110 12 0.04
111 6 0.02
112 1 0.00
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (99 bp):
AATAATAATTTAAACTAAACTTACCAAACCACTCAAATACATTTAATATGTAAAATCAAAATAAA
TAGTCAAAAATTTATATTACTCAATAAAAAATTA
Found at i:65231 original size:317 final size:308
Alignment explanation
Indices: 64836--65549 Score: 804
Period size: 321 Copynumber: 2.2 Consensus size: 308
64826 ATAATTAGTC
64836 TAATTAATTTATATTTACAATAAAAACAAAAAACAAAACAATAAAATCTAAACTAAACTTACCAA
1 TAATTAATTTATATTTACAATAAAAACAAAAAACAAAACAATAAAATCTAAACTAAACTTACCAA
* *
64901 ACCACTTAAATACGATTTAATATGTAAAATCAAAATAAATAGTCCAAAAATTTATATTACTCAAT
66 ACCACTCAAATACGATTTAATATGTAAAATAAAAATAAATAGTCCAAAAATTTATATTACTCAAT
* * * *
64966 AAAAAATTAAATATATAATTTAAACTAAACTTACCAAACT-ACTCAAATACATCTTAATATGTAA
131 -----A-GAAA-ATATAATTTAAACTAAACTTACCAAACTGA-TAAAAAACAACTTAATATGTAA
* * ** * *
65030 AATTTAAAA-AAATAGTCTAATATTTATAAATTAAATTAAAAACAAAAATTATACTAAAAATTTA
188 AA-TAAAAATAAATAGTATAATAACTATAAATTAAAATAAAAACAAAAAGTATACTAAAAATTTA
65094 AATTAAACTCACCAAACCACTCGAATACAGTTTAATCTTTATAATCAAAATATATAG
252 AATTAAACTCACCAAACCACTCGAATACAGTTTAATCTTTATAATCAAAATATATAG
* ** * * *
65151 TAATTAATTTATATTTACAATAAAAACCCTAAACCCTAAACAATAAATTTTAAACTAAACTTACC
1 TAATTAATTTATATTTACAATAAAAA--CAAAAAACAAAACAATAAAATCTAAACTAAACTTACC
* * * * *
65216 AAACCACTCAAATACGATTTATTATGTCAAATAAAAATAATTAGTCTAATAATTTATATTACTCA
64 AAACCACTCAAATACGATTTAATATGTAAAATAAAAATAAATAGTCCAAAAATTTATATTACTCA
* *
65281 ATAGAAAATATAATTTAAATTAAACTTACCAAACTGATAAAAAACAACTTATTATGTAAAATAAA
129 ATAGAAAATATAATTTAAACTAAACTTACCAAACTGATAAAAAACAACTTAATATGTAAAATAAA
* *
65346 AATAAATAGTATAATAACTATTATTTAAAATAAAAACAAAAAGTATACTAAAAATTAAACGAAAA
194 AATAAATAGTATAATAACTATAAATTAAAATAAAAACAAAAAGTATAC-------T--A--AAAA
* *** * * * * *
65411 TTTAAATTAAACTTACCAAACCACGATAATACAATTTAATATGTAAAATCAAAATA-AGTAATC
248 TTTAAATTAAACTCACCAAACCACTCGAATACAGTTTAATCTTTATAATCAAAATATA-T-A-G
* * * * *
65474 TAATTAATTTATATTTAAAATAAAAACAAAAAACAAAACAATAAAATTTACATTAAACTTACAAA
1 TAATTAATTTATATTTACAATAAAAACAAAAAACAAAACAATAAAATCTAAACTAAACTTACCAA
*
65539 AACACTCAAAT
66 ACCACTCAAAT
65550 TCGAATCATT
Statistics
Matches: 335, Mismatches: 46, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
309 5 0.01
310 85 0.25
311 4 0.01
312 1 0.00
315 26 0.08
317 92 0.27
319 1 0.00
320 1 0.00
321 94 0.28
322 1 0.00
323 25 0.07
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (308 bp):
TAATTAATTTATATTTACAATAAAAACAAAAAACAAAACAATAAAATCTAAACTAAACTTACCAA
ACCACTCAAATACGATTTAATATGTAAAATAAAAATAAATAGTCCAAAAATTTATATTACTCAAT
AGAAAATATAATTTAAACTAAACTTACCAAACTGATAAAAAACAACTTAATATGTAAAATAAAAA
TAAATAGTATAATAACTATAAATTAAAATAAAAACAAAAAGTATACTAAAAATTTAAATTAAACT
CACCAAACCACTCGAATACAGTTTAATCTTTATAATCAAAATATATAG
Found at i:65423 original size:117 final size:118
Alignment explanation
Indices: 65292--65505 Score: 292
Period size: 117 Copynumber: 1.8 Consensus size: 118
65282 TAGAAAATAT
* * *
65292 AATTTAAATTAAACTTACCAAA-C-TGATAAAAAACAACTTATTATGTAAAATAAAAATAAATAG
1 AATTTAAATTAAACTTACCAAACCACGAT--AAAACAACTTAATATGTAAAATAAAAATAAATAA
65355 TATAA-TAACTAT-TATTTAAAATAAAAACAAAAAGTATACTAAAAATTAAACGAA
64 TATAATTAA-TATATATTTAAAATAAAAACAAAAAGTATACTAAAAATTAAACGAA
* * * * *
65409 AATTTAAATTAAACTTACCAAACCACGATAATACAATTTAATATGTAAAATCAAAATAAGTAATC
1 AATTTAAATTAAACTTACCAAACCACGATAAAACAACTTAATATGTAAAATAAAAATAAATAATA
*
65474 TAATTAATTTATATTTAAAATAAAAACAAAAA
66 TAATTAATATATATTTAAAATAAAAACAAAAA
65506 ACAAAACAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 56 0.67
118 25 0.30
119 3 0.04
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.29
Consensus pattern (118 bp):
AATTTAAATTAAACTTACCAAACCACGATAAAACAACTTAATATGTAAAATAAAAATAAATAATA
TAATTAATATATATTTAAAATAAAAACAAAAAGTATACTAAAAATTAAACGAA
Found at i:68919 original size:27 final size:27
Alignment explanation
Indices: 68877--68970 Score: 156
Period size: 27 Copynumber: 3.6 Consensus size: 27
68867 CTGTAGGAAT
68877 TATAGAG--ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
68902 TATAGAGATATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
* *
68929 TATAGAGATATGATTTTTTGCCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
68956 TATAGAGATATGATT
1 TATAGAGATATGATT
68971 CTGTAAATAG
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
25 7 0.11
27 58 0.89
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:72701 original size:27 final size:27
Alignment explanation
Indices: 72668--72759 Score: 157
Period size: 27 Copynumber: 3.4 Consensus size: 27
72658 TAGGAATTAT
72668 AGATATGATTTGTTACCATTCCTATAG
1 AGATATGATTTGTTACCATTCCTATAG
*
72695 AGATATGATTTGTTATCATTCCTATAG
1 AGATATGATTTGTTACCATTCCTATAG
* *
72722 AGATATGATTTGTTGCCATTCCTATTG
1 AGATATGATTTGTTACCATTCCTATAG
72749 AGATATGATTT
1 AGATATGATTT
72760 TGTAAATAGA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.43
Consensus pattern (27 bp):
AGATATGATTTGTTACCATTCCTATAG
Found at i:81209 original size:38 final size:39
Alignment explanation
Indices: 81119--81209 Score: 94
Period size: 44 Copynumber: 2.2 Consensus size: 39
81109 ACACGAGTTA
* *
81119 TAAAATTATATTTATAGCATAAATAGTTAAAATATACAATTATT
1 TAAATTTATATTTATAACATAAATAGTTAAAATATAC----A-T
*
81163 TAAATTTATTTTTATAACATAAATAGTTAAAATATAC-T
1 TAAATTTATATTTATAACATAAATAGTTAAAATATACAT
*
81201 TAAGTTTAT
1 TAAATTTAT
81210 GTGATACACT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
38 9 0.21
44 34 0.79
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (39 bp):
TAAATTTATATTTATAACATAAATAGTTAAAATATACAT
Found at i:81313 original size:2 final size:2
Alignment explanation
Indices: 81306--81343 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
81296 ATTACCGTCA
81306 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
81344 GATCTACTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:81636 original size:22 final size:22
Alignment explanation
Indices: 81609--81650 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
81599 ATAATATTTT
*
81609 ATATTAAATTAATA-TAAAATAA
1 ATATT-AATTAAAATTAAAATAA
81631 ATATTAATTAAAATTAAAAT
1 ATATTAATTAAAATTAAAAT
81651 TTAATCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATTAATTAAAATTAAAATAA
Found at i:81648 original size:17 final size:16
Alignment explanation
Indices: 81614--81661 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
81604 ATTTTATATT
81614 AAATTAATATAAAA-TA
1 AAATTAAT-TAAAATTA
81630 AATATTAATTAAAATTA
1 AA-ATTAATTAAAATTA
*
81647 AAATTTAATCAAAAT
1 AAA-TTAATTAAAAT
81662 ATTATTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTAATTAAAATTA
Found at i:82771 original size:26 final size:26
Alignment explanation
Indices: 82725--82774 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
82715 CTCTCTCATA
*
82725 GCTTTGCTAAGCTATTTCTCATTCTT
1 GCTTTGCTAAGCTATTACTCATTCTT
*
82751 GCTTTTCTAAGCT-TTCACTCATTC
1 GCTTTGCTAAGCTATT-ACTCATTC
82775 ATTTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.16, C:0.26, G:0.10, T:0.48
Consensus pattern (26 bp):
GCTTTGCTAAGCTATTACTCATTCTT
Found at i:101914 original size:16 final size:17
Alignment explanation
Indices: 101888--101921 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
101878 TCCAAATCAA
*
101888 ATATCAATAATTTAAAT
1 ATATCAATAATTGAAAT
101905 ATAT-AATAATTGAAAT
1 ATATCAATAATTGAAAT
101921 A
1 A
101922 AAAATAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
ATATCAATAATTGAAAT
Found at i:107185 original size:15 final size:14
Alignment explanation
Indices: 107158--107191 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
107148 TTTTTTAAAT
*
107158 AAATTTATTTTTTA
1 AAATTTATATTTTA
107172 AAATTCTATATTTTA
1 AAATT-TATATTTTA
107187 AAATT
1 AAATT
107192 AATTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
AAATTTATATTTTA
Found at i:111630 original size:683 final size:683
Alignment explanation
Indices: 110291--112124 Score: 2500
Period size: 683 Copynumber: 2.7 Consensus size: 683
110281 ATAACAAATA
110291 ATTTGTTATATTTTGACCCAAATTATAATTGGTAATTAAGTTGAATTTTATTGTAATTGTTTTAG
1 ATTTGTTATATTTTGACCCAAATTATAATTGGTAATTAAGTTGAATTTTATTGTAATTGTTTTAG
110356 GTAAGAATTCTTATGGATTAAGAATTCTTGGTGA-CTAAGTATTTGACTTTATAAATAGTGATAA
66 GTAAGAATTC-T-T--A-T-AGAATTCTTGGTGATC-AAGTATTTGACTTTATAAATAGTGATAA
* * * * *
110420 TGTCATAACCTAATTAGTAAAAGAAAATTATTTGGGAGAGATGTAATATTTCTGGGATCTTTGTA
124 TGTCATAACCTAATTAGTGAAAGAGAATTATTTTGGAGAGATGTAATATTTCTGAGATCTTTATA
* *
110485 ACTTTTGGAGTTTATGTTACAGATATAGTTTTGTAGGGATTGAGAGAGTTTTTGGGATACATCGG
189 ACTTTTGGGGTTTATGTTACAGAAATAGTTTTGTAGGGATTGAGAGAGTTTTT-GGATACATCGG
** * * *
110550 GTTTTGGTATCTATAACGGGGTTTTAGGATACATTTGATATCATGTACTTGTACTCTTTGTGTTC
253 GTTTTGGTATCTAT-ACTAGGTTTTGGGATACATATGATATCATGTACTTGTACTCTTCGTGTTC
* * * **
110615 TCTACATCTATAATGGATTATTGTTCATCTCGCCCGTAAAGGTAAGCAAGGTTGAACCACGTTAA
317 TCTACATCTATAATGGATTATTGTTCATCTCGCCTGTAGAGGTAGGCAA-GACGAACCACGTTAA
* * * *
110680 ATCTCGTCTCATGTGCATGTCTTATTTTATATTGATATCGCTTTGATTATTTTTCT-GCTTATAT
381 ATCTCGTCTCCTGTGCATGTCTTATTTTATGTTGATATCACTTTGATTATTTTTCTAG-TTACAT
* * * * * * *
110744 ATTATAACTAGTGGTATCAGAGCTATGGTTCAGATTGTGAAGCTTTTAAAGGAATTTGTTGTTAC
445 ATTATAACAAGTGGTATCAAAGATATAGTTCAGACTATGAAGCTTTTAAAGGAATTTATTGTTAC
*
110809 ATATTTTGTTAACGATTTTGGAGACATGTAAGGTGAATTTACTTTAACGAGTTTTCAGTTACAGA
510 AGATTTTGTTAACGATTTTGGAGACATGTAAGGTGAATTTACTTTAACGAGTTTTCAGTTACAGA
*
110874 GAAGTAATTATCGATTGATATAGTGATGCTTCAATAGATATTACGTAAGAATTGAAGTTGTTGAA
575 GAAGTAATTATCGATTGATATAGTGATACTTCAATAGATATTACGTAAGAATTGAAGTTGTTGAA
* *
110939 GACTTGAAGACCAATTTTTGGATGAAATTTGGGT-CAAGGAGGA-
640 GACTTGAAGACCAATTTTAGGATGAAATTTGGGTAAAAGG-GGAG
* * ** * *
110982 AGTTTGTTATATTTTAACTCAAATTATAATTAATAATTAAGTTAAATTTTATTATAATTGTTTTA
1 A-TTTGTTATATTTTGACCCAAATTATAATTGGTAATTAAGTTGAATTTTATTGTAATTGTTTTA
* *
111047 GATAAGAATTCTTAT-GAATTCTTGGTGATCAAGTATTTGACTTTATAAATAGTGATAGTGTCAT
65 GGTAAGAATTCTTATAGAATTCTTGGTGATCAAGTATTTGACTTTATAAATAGTGATAATGTCAT
* * *
111111 AACCTAATTAGTGAAAGAGAATTATTTTGGAGAGATGTAATCTTTCAGAGATCTCTATAACTTTT
130 AACCTAATTAGTGAAAGAGAATTATTTTGGAGAGATGTAATATTTCTGAGATCTTTATAACTTTT
* * * * *
111176 GGGGTTTATGTTACAAAAATAGTTTTATAGGGAATGAGAGAGTTATTGGATACATCGGGTTTTGA
195 GGGGTTTATGTTACAGAAATAGTTTTGTAGGGATTGAGAGAGTTTTTGGATACATCGGGTTTTGG
*
111241 TATCTATACTAGGTTTTGGGATACATATGATATCATGTACTTGTAC-CATTCGTGTTATCTACAT
260 TATCTATACTAGGTTTTGGGATACATATGATATCATGTACTTGTACTC-TTCGTGTTCTCTACAT
* * * *
111305 CTATAGTGGATTATTGTTTATCTCGCCTGTGGTGGTAGGCAAGACCGAACCACGTTAAATCTCGT
324 CTATAATGGATTATTGTTCATCTCGCCTGTAGAGGTAGGCAAGA-CGAACCACGTTAAATCTCGT
** *
111370 CTCCTGTGCATGTCTTATTTTATGTTGATATCACTTTGATTGCTTTCCTAGTTACATATTATAAC
388 CTCCTGTGCATGTCTTATTTTATGTTGATATCACTTTGATTATTTTTCTAGTTACATATTATAAC
* * * *
111435 AAGTGGTATCAAAGATATAGTTCAGGCTATGGAGTTTTTAAAGGAATTTATTGTTGCAGATTTTG
453 AAGTGGTATCAAAGATATAGTTCAGACTATGAAGCTTTTAAAGGAATTTATTGTTACAGATTTTG
* * * * *
111500 TTAGCGATTTTGGAGACATGTAAGGTGAATTTGCTTTAATGAGTTTTCAGTTGCAGGGAAGTAAT
518 TTAACGATTTTGGAGACATGTAAGGTGAATTTACTTTAACGAGTTTTCAGTTACAGAGAAGTAAT
* * * *
111565 TCTCGATTGATATAGTGATACTTCAATGGATATTGCGTAAGAATT-AGAGTTTTTGAAGACTTGA
583 TATCGATTGATATAGTGATACTTCAATAGATATTACGTAAGAATTGA-AGTTGTTGAAGACTTGA
111629 AGACCAATTTTAGGATGAAATTTGGGTAAAAGGGGAG
647 AGACCAATTTTAGGATGAAATTTGGGTAAAAGGGGAG
* *
111666 ATTTGTTATATTTTGACCCAAATTATAATTGGTAATAAAGTTGAATTTTATTGTAATTATTTTAG
1 ATTTGTTATATTTTGACCCAAATTATAATTGGTAATTAAGTTGAATTTTATTGTAATTGTTTTAG
* * *
111731 GTAAGAATTCTTATGGATTAAAAATTCCTGGTGATCAAGTATTTGACTTTATAAATAGTAATAAT
66 GTAAGAATTC-T-T--A-T-AGAATTCTTGGTGATCAAGTATTTGACTTTATAAATAGTGATAAT
* * * *
111796 GTCATAACCTAATTAGTGAAAGAGAATTATTTTGGAGATATGTAATTTTTGTGAAATCTTTATAA
125 GTCATAACCTAATTAGTGAAAGAGAATTATTTTGGAGAGATGTAATATTTCTGAGATCTTTATAA
* * * *
111861 CTTTTGGGGTTTATGTTATAGAGATAGTTTTGTAGGGATTGAGAGAGATTTTTTGATACACCGGG
190 CTTTTGGGGTTTATGTTACAGAAATAGTTTTGTAGGGATTGAGAGAG-TTTTTGGATACATCGGG
* * * *
111926 TTTTGGTATCTAT-GTCGAGTTTTGGAATACATGTGATATCATGTACTTGTACTCTTCGTGTTCT
254 TTTTGGTATCTATACTAG-GTTTTGGGATACATATGATATCATGTACTTGTACTCTTCGTGTTCT
* * * * *
111990 CTATATCTATATTGGATTATTATCCATC-C-CACTCGTAGAGGTAGGCAAGGACGAATCACGTTA
318 CTACATCTATAATGGATTATTGTTCATCTCGC-CT-GTAGAGGTAGGCAA-GACGAACCACGTTA
* * * *
112053 AATCTCATCTCCTGTGTATGTCTTATTTTATGTTGATATCATTTTGATTATTTTTCTACTTACAT
380 AATCTCGTCTCCTGTGCATGTCTTATTTTATGTTGATATCACTTTGATTATTTTTCTAGTTACAT
112118 ATTATAA
445 ATTATAA
112125 AAAAAGCACA
Statistics
Matches: 1005, Mismatches: 117, Indels: 42
0.86 0.10 0.04
Matches are distributed among these distances:
682 3 0.00
683 423 0.42
684 31 0.03
685 145 0.14
686 1 0.00
687 2 0.00
688 2 0.00
689 1 0.00
690 147 0.15
691 180 0.18
692 70 0.07
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (683 bp):
ATTTGTTATATTTTGACCCAAATTATAATTGGTAATTAAGTTGAATTTTATTGTAATTGTTTTAG
GTAAGAATTCTTATAGAATTCTTGGTGATCAAGTATTTGACTTTATAAATAGTGATAATGTCATA
ACCTAATTAGTGAAAGAGAATTATTTTGGAGAGATGTAATATTTCTGAGATCTTTATAACTTTTG
GGGTTTATGTTACAGAAATAGTTTTGTAGGGATTGAGAGAGTTTTTGGATACATCGGGTTTTGGT
ATCTATACTAGGTTTTGGGATACATATGATATCATGTACTTGTACTCTTCGTGTTCTCTACATCT
ATAATGGATTATTGTTCATCTCGCCTGTAGAGGTAGGCAAGACGAACCACGTTAAATCTCGTCTC
CTGTGCATGTCTTATTTTATGTTGATATCACTTTGATTATTTTTCTAGTTACATATTATAACAAG
TGGTATCAAAGATATAGTTCAGACTATGAAGCTTTTAAAGGAATTTATTGTTACAGATTTTGTTA
ACGATTTTGGAGACATGTAAGGTGAATTTACTTTAACGAGTTTTCAGTTACAGAGAAGTAATTAT
CGATTGATATAGTGATACTTCAATAGATATTACGTAAGAATTGAAGTTGTTGAAGACTTGAAGAC
CAATTTTAGGATGAAATTTGGGTAAAAGGGGAG
Found at i:113774 original size:22 final size:22
Alignment explanation
Indices: 113749--113803 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
113739 CTGTTAATAT
* *
113749 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
113771 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
113793 CGGGAGTTATA
1 CAGGAGTTATA
113804 ACATCTTAAT
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:124920 original size:40 final size:39
Alignment explanation
Indices: 124833--124920 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 39
124823 AATTTCCAAA
* *
124833 TTCGCAACTCGATTTCTGAATTCGCAACGCGAATTTTGT
1 TTCGCAACTCGATTTCTGAATTCGCAACACGAATTTTAT
* * *
124872 TGTAGCAACTTGATTTTTGAATTCGCAACACGAATTTTAAT
1 T-TCGCAACTCGATTTCTGAATTCGCAACACGAATTTT-AT
124913 TTCGCAAC
1 TTCGCAAC
124921 AGGTTTTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.02
40 38 0.93
41 2 0.05
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (39 bp):
TTCGCAACTCGATTTCTGAATTCGCAACACGAATTTTAT
Found at i:124921 original size:20 final size:20
Alignment explanation
Indices: 124793--124940 Score: 76
Period size: 20 Copynumber: 7.5 Consensus size: 20
124783 GACCAACAAA
* * *
124793 TTCGCAACGCGAACTCTAAT
1 TTCGCAACACGAATTTTAAT
* * *
124813 TTCGCAACTC-AATTTCCAAA
1 TTCGCAACACGAATTT-TAAT
*
124833 TTCGCAACTCG-ATTTCTGAA-
1 TTCGCAACACGAATTT-T-AAT
* *
124853 TTCGCAACGCGAATTTT-GT
1 TTCGCAACACGAATTTTAAT
* ** *
124872 TGTAGCAACTTGATTTTTGAA-
1 T-TCGCAACACGAATTTT-AAT
124893 TTCGCAACACGAATTTTAAT
1 TTCGCAACACGAATTTTAAT
*
124913 TTCGCAACA-G-GTTTTAAT
1 TTCGCAACACGAATTTTAAT
124931 TTCGCAACAC
1 TTCGCAACAC
124941 AAATGTTTTG
Statistics
Matches: 100, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
18 16 0.16
19 7 0.07
20 70 0.70
21 7 0.07
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (20 bp):
TTCGCAACACGAATTTTAAT
Found at i:125880 original size:24 final size:24
Alignment explanation
Indices: 125853--125906 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
125843 TTATTCAAAA
125853 TTTGATCTTGGTCAATACCCAGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
125877 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
125901 TTTGAT
1 TTTGAT
125907 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:128483 original size:20 final size:20
Alignment explanation
Indices: 128460--128506 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
128450 GACTTTTGTG
*
128460 TTGCGAATTTGGCTTTCACA
1 TTGCGAATTTGACTTTCACA
* *
128480 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCACA
128500 TTGCGAA
1 TTGCGAA
128507 AGTGTACCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCACA
Found at i:128640 original size:13 final size:13
Alignment explanation
Indices: 128622--128647 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
128612 TTATTTACAC
128622 ATCAATTAAACAA
1 ATCAATTAAACAA
128635 ATCAATTAAACAA
1 ATCAATTAAACAA
128648 GCAAAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
ATCAATTAAACAA
Found at i:128674 original size:49 final size:50
Alignment explanation
Indices: 128580--128688 Score: 157
Period size: 49 Copynumber: 2.2 Consensus size: 50
128570 ATCAACTTTT
128580 ACAAATCAATTAAACAAGCAAAAAAATAAGAATTATTTACACATCAATTAA
1 ACAAATCAATTAAACAAGC-AAAAAATAAGAATTATTTACACATCAATTAA
*** * *
128631 ACAAATCAATTAAACAAGC-AAAAATAATTCTTATTTCCTCATCAATTAA
1 ACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTAA
128680 ACAAATCAA
1 ACAAATCAA
128689 CTTTACAACT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
49 34 0.64
51 19 0.36
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.26
Consensus pattern (50 bp):
ACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTAA
Found at i:130497 original size:21 final size:21
Alignment explanation
Indices: 130473--130512 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
130463 ATAAAGCGGC
*
130473 TACCTCATCACGTAAAGTAGA
1 TACCTCACCACGTAAAGTAGA
130494 TACCTCACCACGTAAAGTA
1 TACCTCACCACGTAAAGTA
130513 CCATTGTCAT
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:0.38, C:0.28, G:0.12, T:0.23
Consensus pattern (21 bp):
TACCTCACCACGTAAAGTAGA
Found at i:132168 original size:19 final size:19
Alignment explanation
Indices: 132124--132340 Score: 276
Period size: 19 Copynumber: 11.4 Consensus size: 19
132114 TTTGAAACTT
* *
132124 AAAATCGCAATGCGAAAATA
1 AAAATCGCAACGC-AAAATG
* *
132144 AAAATCGCAACGCGAAGTG
1 AAAATCGCAACGCAAAATG
* **
132163 AAAATCACAACGTGAAATG
1 AAAATCGCAACGCAAAATG
* *
132182 AAAATCGCAACGCGAAGTG
1 AAAATCGCAACGCAAAATG
132201 AAAATCGCAACGCAAAATG
1 AAAATCGCAACGCAAAATG
132220 AAAATCGCAACGCAAAATG
1 AAAATCGCAACGCAAAATG
132239 AAAATCGCAACGCAAAATG
1 AAAATCGCAACGCAAAATG
132258 AAAATCGCAACGCAAAATG
1 AAAATCGCAACGCAAAATG
**
132277 AAAAT-TTAACGCAAAATG
1 AAAATCGCAACGCAAAATG
*
132295 AAAATCGCAATGCAAAATG
1 AAAATCGCAACGCAAAATG
* *
132314 AAAATTGCAATGCAAAACT-
1 AAAATCGCAACGCAAAA-TG
132333 AAAATCGC
1 AAAATCGC
132341 GTTGCGATTT
Statistics
Matches: 176, Mismatches: 19, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
18 16 0.09
19 147 0.84
20 13 0.07
ACGTcount: A:0.51, C:0.18, G:0.17, T:0.14
Consensus pattern (19 bp):
AAAATCGCAACGCAAAATG
Found at i:132366 original size:20 final size:20
Alignment explanation
Indices: 132341--132378 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
132331 CTAAAATCGC
* *
132341 GTTGCGATTTTCAGTTTCGT
1 GTTGCGAATTTAAGTTTCGT
132361 GTTGCGAATTTAAGTTTC
1 GTTGCGAATTTAAGTTTC
132379 AAATAGTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.13, G:0.24, T:0.47
Consensus pattern (20 bp):
GTTGCGAATTTAAGTTTCGT
Found at i:133001 original size:32 final size:34
Alignment explanation
Indices: 132965--133034 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
132955 ACCTTACAAC
* * *
132965 TCCCTAG-TTTTTC-CGGGCTAAACTAGAACTTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
*
132997 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
133031 TCCC
1 TCCC
133035 CTTTATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
Found at i:133283 original size:21 final size:21
Alignment explanation
Indices: 133249--133288 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
133239 TGTTGTATAT
133249 AGCCGTTAGGGATG-TTTTGG
1 AGCCGTTAGGGATGATTTTGG
*
133269 AGCCGTTTGGGGATGATTTT
1 AGCCG-TTAGGGATGATTTT
133289 TCTACTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.38
Consensus pattern (21 bp):
AGCCGTTAGGGATGATTTTGG
Found at i:133435 original size:21 final size:20
Alignment explanation
Indices: 133391--133464 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
133381 ACAACCTTCG
*
133391 TGCATGGATGCACAGCAAGA
1 TGCATCGATGCACAGCAAGA
**
133411 TGCATCGATGCACAGCCTTGA
1 TGCATCGATGCACAG-CAAGA
*
133432 TGCATCGATGCACA-AAAGGA
1 TGCATCGATGCACAGCAA-GA
133452 TGCATCGATGCAC
1 TGCATCGATGCAC
133465 TAATTGCATT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 29 0.63
21 17 0.37
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAGCAAGA
Found at i:133536 original size:21 final size:20
Alignment explanation
Indices: 133486--133561 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 20
133476 GGTGTTTGAG
133486 TGCATGGATGCACTGCATGG-
1 TGCATGGATGCACTGCA-GGA
*
133506 TGCATCGATGCACTGCAGGGA
1 TGCATGGATGCACTGCA-GGA
133527 TGCATGGATGCACTGCAGGA
1 TGCATGGATGCACTGCAGGA
133547 GTGCATGGATGCACT
1 -TGCATGGATGCACT
133562 TTGACACCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
20 21 0.41
21 30 0.59
ACGTcount: A:0.22, C:0.21, G:0.34, T:0.22
Consensus pattern (20 bp):
TGCATGGATGCACTGCAGGA
Found at i:133686 original size:30 final size:30
Alignment explanation
Indices: 133639--133697 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
133629 AAACTTTGAA
*
133639 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTAAATTAAGTCCAAAAACCATTTTG
133668 TAAATTAAATTCAAGTCCAAAAACCATTTT
1 TAAATTAAATT-AAGTCCAAAAACCATTTT
133698 TTACTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.37
30 11 0.41
31 6 0.22
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (30 bp):
TAAATTAAATTAAGTCCAAAAACCATTTTG
Found at i:134695 original size:12 final size:12
Alignment explanation
Indices: 134670--134762 Score: 64
Period size: 12 Copynumber: 7.8 Consensus size: 12
134660 ACAGAGATAT
* *
134670 CAGAAATCAAAA
1 CAGAATTCAGAA
134682 CAGAATTCAGAA
1 CAGAATTCAGAA
134694 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* * *
134706 CAAAATCCAGAT
1 CAGAATTCAGAA
*
134718 CAGAAATCAGAA
1 CAGAATTCAGAA
* **
134730 CATAATTCAGGT
1 CAGAATTCAGAA
*
134742 CATGTA-TCAGAA
1 CA-GAATTCAGAA
134754 CAGAATTCA
1 CAGAATTCA
134763 AGTAGGAAAT
Statistics
Matches: 59, Mismatches: 18, Indels: 8
0.69 0.21 0.09
Matches are distributed among these distances:
11 4 0.07
12 52 0.88
13 3 0.05
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.18
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:134702 original size:24 final size:24
Alignment explanation
Indices: 134668--134762 Score: 102
Period size: 24 Copynumber: 4.0 Consensus size: 24
134658 AAACAGAGAT
*
134668 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * * *
134692 AACAGATATCAGAACAAAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
134716 ATCAGAAATCAGAACATAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
134740 GTCATG-TATCAGAACAGAATTCA
1 ATCA-GAAATCAGAACAGAATTCA
134763 AGTAGGAAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
24 57 0.98
25 1 0.02
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:134774 original size:24 final size:25
Alignment explanation
Indices: 134672--134774 Score: 65
Period size: 24 Copynumber: 4.3 Consensus size: 25
134662 AGAGATATCA
* *
134672 GAAATCAAAACAGAATTC-AGAACA-
1 GAAATCAGAACAGAATTCAAG-TCAG
* * *
134696 GATATCAGAACA-AAATCCAGATCA-
1 GAAATCAGAACAGAATTCAAG-TCAG
* * *
134720 GAAATCAGAACATAATTCAGGTCAT
1 GAAATCAGAACAGAATTCAAGTCAG
*
134745 G-TATCAGAACAGAATTCAAGT-AG
1 GAAATCAGAACAGAATTCAAGTCAG
134768 GAAATCA
1 GAAATCA
134775 AATAAAAATA
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
23 6 0.10
24 50 0.81
25 6 0.10
ACGTcount: A:0.50, C:0.17, G:0.16, T:0.18
Consensus pattern (25 bp):
GAAATCAGAACAGAATTCAAGTCAG
Found at i:136269 original size:69 final size:71
Alignment explanation
Indices: 136168--136307 Score: 266
Period size: 69 Copynumber: 2.0 Consensus size: 71
136158 TCAGATCAAT
136168 ATGTCTTTTCAGATTTATTAATCCACTTCCAGTGACAATTCTTGTCATTTTCCAACATAAGGGTA
1 ATGTCTTTTCAGATTTATTAATCCACTTCCAGTGACAATTCTTGTCATTTTCCAACATAAGGGTA
136233 ATTTCG
66 ATTTCG
136239 ATGTCTTTTCAGA-TT-TTAATCCACTTCCAGTGACAATTCTTGTCATTTTCCAACATAAGGGTA
1 ATGTCTTTTCAGATTTATTAATCCACTTCCAGTGACAATTCTTGTCATTTTCCAACATAAGGGTA
136302 ATTTCG
66 ATTTCG
136308 TAATTTTACC
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
69 54 0.78
70 2 0.03
71 13 0.19
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (71 bp):
ATGTCTTTTCAGATTTATTAATCCACTTCCAGTGACAATTCTTGTCATTTTCCAACATAAGGGTA
ATTTCG
Found at i:139489 original size:12 final size:12
Alignment explanation
Indices: 139472--139554 Score: 71
Period size: 12 Copynumber: 6.9 Consensus size: 12
139462 CATAAATCAA
139472 AACAGAATTCAG
1 AACAGAATTCAG
139484 AACAG-ATATCAG
1 AACAGAAT-TCAG
* *
139496 AACAAAATCCAG
1 AACAGAATTCAG
* *
139508 ATCAGAAATCAG
1 AACAGAATTCAG
139520 AACAGAATTCAG
1 AACAGAATTCAG
** *
139532 GTCATGTA-TCAG
1 AACA-GAATTCAG
139544 AACAGAATTCA
1 AACAGAATTCA
139555 AGTCGGAAAT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
11 4 0.08
12 45 0.85
13 4 0.08
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.18
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:139499 original size:24 final size:24
Alignment explanation
Indices: 139467--139554 Score: 106
Period size: 24 Copynumber: 3.7 Consensus size: 24
139457 GATATCATAA
* *
139467 ATCAAAACAGAATTCAGAACAGAT
1 ATCAGAACAGAATTCAGATCAGAT
* * *
139491 ATCAGAACAAAATCCAGATCAGAA
1 ATCAGAACAGAATTCAGATCAGAT
*
139515 ATCAGAACAGAATTCAGGTCATG-T
1 ATCAGAACAGAATTCAGATCA-GAT
139539 ATCAGAACAGAATTCA
1 ATCAGAACAGAATTCA
139555 AGTCGGAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 53 0.98
25 1 0.02
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.18
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATCAGAT
Found at i:139564 original size:48 final size:48
Alignment explanation
Indices: 139460--139568 Score: 123
Period size: 48 Copynumber: 2.3 Consensus size: 48
139450 AAACAGAGAT
* * *
139460 ATCATAAATCAAAACAGAATTCAGAACAGATATCAGAACAAAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAAAATCAAG
** *
139508 ATCAGAAATCAGAACAGAATTCAGGTCATG-TATCAGAACAGAATTCAAG
1 ATCAGAAATCAGAACAGAATTCAGAACA-GATATCAGAACA-AAATCAAG
*
139557 -TCGGAAATCAGA
1 ATCAGAAATCAGA
139569 TAAAATATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 45 0.87
49 7 0.13
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.18
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAAAATCAAG
Found at i:139566 original size:24 final size:25
Alignment explanation
Indices: 139465--139568 Score: 76
Period size: 24 Copynumber: 4.3 Consensus size: 25
139455 GAGATATCAT
* *
139465 AAATCAAAACAGAATTC-AGAACA-G
1 AAATCAGAACAGAATTCAAG-TCAGG
* * *
139489 ATATCAGAACA-AAATCCAGATCA-G
1 AAATCAGAACAGAATTCAAG-TCAGG
* *
139513 AAATCAGAACAGAATTCAGGTCATG
1 AAATCAGAACAGAATTCAAGTCAGG
*
139538 -TATCAGAACAGAATTCAAGTC-GG
1 AAATCAGAACAGAATTCAAGTCAGG
139561 AAATCAGA
1 AAATCAGA
139569 TAAAATATTT
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
23 5 0.08
24 53 0.83
25 6 0.09
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.17
Consensus pattern (25 bp):
AAATCAGAACAGAATTCAAGTCAGG
Found at i:141212 original size:17 final size:18
Alignment explanation
Indices: 141190--141226 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
141180 TCTTATGCAC
141190 ATCAATA-GT-TTTATCAG
1 ATCAATATGTCTTT-TCAG
141207 ATCAATATGTCTTTTCAG
1 ATCAATATGTCTTTTCAG
141225 AT
1 AT
141227 TTATTAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCAATATGTCTTTTCAG
Found at i:154861 original size:19 final size:19
Alignment explanation
Indices: 154837--154875 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
154827 ACAATTAGTT
*
154837 AGAAATAAGTGGTTAGGTA
1 AGAAATAAGCGGTTAGGTA
154856 AGAAATAAGCGGTTAGGTA
1 AGAAATAAGCGGTTAGGTA
154875 A
1 A
154876 TATGATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.31, T:0.23
Consensus pattern (19 bp):
AGAAATAAGCGGTTAGGTA
Found at i:156131 original size:203 final size:212
Alignment explanation
Indices: 155903--156306 Score: 688
Period size: 204 Copynumber: 1.9 Consensus size: 212
155893 TTGATATACT
155903 AATTATATTTAAATAAATATTTTTTT-TTTAAACTTAGATGATGTAATAATTAAAATATTTTTTA
1 AATTATATTTAAATAAATATTTTTTTCTTTAAACTTAGATGATGTAATAATTAAAATATTTTTTA
155967 AATTTTCATTCAAATATTTATAATTTATAATTT-A-ATT-AGTTTTAGTTGTTAAAAAA-ATATA
66 AATTTTCATTCAAATA-TTATAATTTATAATTTAATATTAAGTTTTAGTTGTTAAAAAACATATA
156028 TCACAATGATAATTTGGT-AAA-ATGCATTCAAGTAATC-T-TAT-TCTCAATCAAACAA-TAAT
130 TCACAATGATAATTTGGTAAAATATGCATTCAAGTAATCTTATATCTCTCAATC-AACAAGTAAT
156087 CTTACATTACTAATTATAG
194 CTTACATTACTAATTATAG
*
156106 AATTATATGTTAAATATAT-TTTTTTTCTTTAAACTTAGATGATGTAATAATTAAAATATTTTTT
1 AATTATAT-TTAAATAAATATTTTTTTCTTTAAACTTAGATGATGTAATAATTAAAATATTTTTT
156170 AAATTTTCATTCAAATATTATAATTTATAATTTAATATTAAGTTTTAGTTGTTAAAAAACATATA
65 AAATTTTCATTCAAATATTATAATTTATAATTTAATATTAAGTTTTAGTTGTTAAAAAACATATA
156235 TCACAATGATAATTTGGTAAAATATGCATTCAAGTAATCTTATATCTCTCAATCAACAAGTAATC
130 TCACAATGATAATTTGGTAAAATATGCATTCAAGTAATCTTATATCTCTCAATCAACAAGTAATC
156300 TTACATT
195 TTACATT
156307 CTTAAAAAGC
Statistics
Matches: 188, Mismatches: 1, Indels: 15
0.92 0.00 0.07
Matches are distributed among these distances:
203 31 0.16
204 64 0.34
205 3 0.02
206 19 0.10
207 23 0.12
208 3 0.02
209 16 0.09
210 1 0.01
211 8 0.04
212 20 0.11
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (212 bp):
AATTATATTTAAATAAATATTTTTTTCTTTAAACTTAGATGATGTAATAATTAAAATATTTTTTA
AATTTTCATTCAAATATTATAATTTATAATTTAATATTAAGTTTTAGTTGTTAAAAAACATATAT
CACAATGATAATTTGGTAAAATATGCATTCAAGTAATCTTATATCTCTCAATCAACAAGTAATCT
TACATTACTAATTATAG
Found at i:158342 original size:3 final size:3
Alignment explanation
Indices: 158334--158408 Score: 80
Period size: 3 Copynumber: 25.0 Consensus size: 3
158324 AATTTTTCGT
** * * *
158334 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
158382 -TA ATA TTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA
158409 AATATATATA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.03
3 55 0.92
4 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:162904 original size:7 final size:7
Alignment explanation
Indices: 162869--162909 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
162859 TTTTCATATA
162869 TGCATTT
1 TGCATTT
162876 T-CATTT
1 TGCATTT
162882 TGCATCTT
1 TGCAT-TT
162890 TGCATTT
1 TGCATTT
*
162897 TTCATTT
1 TGCATTT
162904 TGCATT
1 TGCATT
162910 CATACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:167289 original size:114 final size:114
Alignment explanation
Indices: 167083--167536 Score: 719
Period size: 114 Copynumber: 4.0 Consensus size: 114
167073 AAGTGCCATG
* * * * * *
167083 TGCTCATAGTAGAAATAAGAAGACCCGATAGCATCTTTTGGAAGTGTTTTTTTAGTTATCCGATC
1 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * *
167148 TGGTTTGGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAAGT
66 TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAAGT
**
167197 TATTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
167262 TGATTTGGTATGAACCCCAAAATCAATCATTGGATTTAAAAGATGAAGT
66 TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAAGT
*
167311 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGTAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* *
167376 TGATTTGGTATGAACCCCAAAATCAATCATTGGATTTAAAAGATGAATT
66 TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAAGT
* * *
167425 TGCTCATAGTATAAATAAGGAGACTCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * *
167490 TGATTTGGTATGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAA
167537 CTGCATGATC
Statistics
Matches: 316, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 316 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAAGT
Found at i:168675 original size:76 final size:75
Alignment explanation
Indices: 168561--168703 Score: 169
Period size: 76 Copynumber: 1.9 Consensus size: 75
168551 CTTTGTTAAT
* * * * * *
168561 CAGAATCAGGAATGTTGATGTATCCTGAATGTTTATATCAGCAAAATGCTAGGGCATGTTGAAAG
1 CAGAATCAAGAATGTTGATGTATCCTGAACGCTCATATCAG-AAAATACTAGGGCATGCTGAAAG
168626 CCCTTTTCAAC
65 CCCTTTTCAAC
* ** * * *
168637 CAGAATGAAGAATGTTGATGTATTTTGAACGCTCATATCAGTAAATACTGGGGCATGCTGAAGGC
1 CAGAATCAAGAATGTTGATGTATCCTGAACGCTCATATCAGAAAATACTAGGGCATGCTGAAAGC
168702 CC
66 CC
168704 ACAACATCAT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
75 21 0.38
76 34 0.62
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (75 bp):
CAGAATCAAGAATGTTGATGTATCCTGAACGCTCATATCAGAAAATACTAGGGCATGCTGAAAGC
CCTTTTCAAC
Found at i:169996 original size:22 final size:22
Alignment explanation
Indices: 169967--170021 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
169957 ATCTACACTC
169967 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
169989 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
170011 TTCAAATATGA
1 TTCAAAGATGA
170022 AAGCTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:170913 original size:73 final size:76
Alignment explanation
Indices: 170686--171309 Score: 1033
Period size: 73 Copynumber: 8.4 Consensus size: 76
170676 CTATTTCCCA
*
170686 CATCTGT-AGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
170750 AGCCTTAGGGT
66 AGCCTTAGGGT
170761 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
170826 AGCCTTAGGG-
66 AGCCTTAGGGT
*
170836 CATCTGTAAGTCTTGCAGTGCATGATG-TTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
170898 AGCCTTAGGGT
66 AGCCTTAGGGT
*
170909 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
170974 AGTCTTATGGT
66 AGCCTTAGGGT
*
170985 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
171050 AGCCTT--GGT
66 AGCCTTAGGGT
* *
171059 CATCTGTAAGTCCTGTAGTGCATGATGTTTCC-ATAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
171123 AGCCTTAGGGT
66 AGCCTTAGGGT
171134 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC-GG-GC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
171196 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
171207 CATCTGTATGTCCTGCAGTGCATGATTTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
171271 A-CCTT-CGGT
66 AGCCTTAGGGT
* *
171280 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
171310 TTTAAGACCT
Statistics
Matches: 518, Mismatches: 21, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
72 11 0.02
73 189 0.36
74 50 0.10
75 115 0.22
76 153 0.30
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:171099 original size:224 final size:226
Alignment explanation
Indices: 170686--171309 Score: 1052
Period size: 224 Copynumber: 2.8 Consensus size: 226
170676 CTATTTCCCA
170686 CATCTGT-AGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
170750 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* * *
170815 GATGTTTTCAAAGCCTTAGGGCATCTGTAAGTCTTGCAGTGCATGATG-TTCCAAAAGCCTTCGG
131 GATGTTTTCAAAGCCTTAGGTCATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAGCCTTCGG
170879 GAGCTTTTTGATGTTTTC-AAGCCTTAGGGT
196 GAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
*
170909 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
170974 AGTCTTATGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
171039 GATGTTTTCAAAGCCTT-GGTCATCTGTAAGTCCTGTAGTGCATGATGTTTCCATAAGCCTTCGG
131 GATGTTTTCAAAGCCTTAGGTCATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAGCCTTCGG
171103 GAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
196 GAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
*
171134 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC-GG-GC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
171196 AGCCTTAGGGTCATCTGTATGTCCTGCAGTGCATGATTTTTCCAAAAAGCCTTC-GGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
171260 GATGTTTTCAAA-CCTTCGGTCATCTGTAAGCCCT-TCAGTGCATGATGTTT
131 GATGTTTTCAAAGCCTTAGGTCATCTGTAAGTCCTGT-AGTGCATGATGTTT
171310 TTTAAGACCT
Statistics
Matches: 381, Mismatches: 15, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
220 5 0.01
221 51 0.13
222 65 0.17
223 36 0.09
224 170 0.45
225 54 0.14
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (226 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGTCATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAGCCTTCGG
GAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
Found at i:171116 original size:149 final size:150
Alignment explanation
Indices: 170686--171309 Score: 1009
Period size: 149 Copynumber: 4.2 Consensus size: 150
170676 CTATTTCCCA
*
170686 CATCTGT-AGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
170750 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTA-GGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
170815 GATGTTTTCAAAGCCTTAGGG
130 GATGTTTTCAAAGCCTTAGGT
*
170836 CATCTGTAAGTCTTGCAGTGCATGATG-TTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
170898 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTA-GGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
170963 GATGTTTTCAAAGTCTTATGGT
130 GATGTTTTCAAAGCCTTA-GGT
*
170985 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
171050 AGCCTT-GGTCATCTGTAAGTCCTGTAGTGCATGATGTTTCC-ATAAGCCTTCGGGAGCTTTTTG
66 AGCCTTAGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
171113 ATGTTTTCAAAGCCTTAGGGT
131 ATGTTTTCAAAGCCTTA-GGT
171134 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC-GG-GC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
171196 AGCCTTAGGGTCATCTGTATGTCCTGCAGTGCATGATTTTTCCAAAAAGCCTTC-GGAGCTTTTT
66 AGCCTTA-GGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
171260 GATGTTTTCAAA-CCTTCGGT
130 GATGTTTTCAAAGCCTTAGGT
* *
171280 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
171310 TTTAAGACCT
Statistics
Matches: 446, Mismatches: 20, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
146 52 0.12
147 5 0.01
148 138 0.31
149 150 0.34
150 48 0.11
151 46 0.10
152 7 0.02
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (150 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
ATGTTTTCAAAGCCTTAGGT
Found at i:171459 original size:3 final size:3
Alignment explanation
Indices: 171451--171524 Score: 71
Period size: 3 Copynumber: 25.0 Consensus size: 3
171441 AATTTTTCGT
** * *
171451 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA -TA ATA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
171498 -TA ATA ATA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA
171525 AATATATATA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
2 4 0.07
3 54 0.89
4 3 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:171470 original size:12 final size:11
Alignment explanation
Indices: 171453--171527 Score: 56
Period size: 11 Copynumber: 7.2 Consensus size: 11
171443 TTTTTCGTTT
171453 ATTATTATTAAA
1 ATTATTATT-AA
171465 ATTATTATT--
1 ATTATTATTAA
171474 ATTATTA-TAA
1 ATTATTATTAA
171484 TATTATTATT-A
1 -ATTATTATTAA
*
171495 A-TA-TAATAA
1 ATTATTATTAA
171504 TATTATTATT-A
1 -ATTATTATTAA
*
171515 TTTATTATTAA
1 ATTATTATTAA
171526 AT
1 AT
171528 ATATATATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 19
0.68 0.05 0.26
Matches are distributed among these distances:
8 4 0.08
9 10 0.20
10 10 0.20
11 13 0.26
12 13 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATTATTAA
Found at i:171490 original size:20 final size:20
Alignment explanation
Indices: 171451--171522 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
171441 AATTTTTCGT
171451 TTATTATTATTA-AA-ATTA
1 TTATTATTATTATAATATTA
171469 TTATTATTATTATAATATTA
1 TTATTATTATTATAATATTA
* *
171489 TTATTAATATAATAATATTA
1 TTATTATTATTATAATATTA
171509 TTATTATTTATTAT
1 TTATTA-TTATTAT
171523 TAAATATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
18 12 0.26
19 2 0.04
20 28 0.60
21 5 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATTATTATTATAATATTA
Found at i:173938 original size:20 final size:20
Alignment explanation
Indices: 173892--173940 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
173882 CATGTCAATT
173892 ATTTTTTTAATATTAAAAAA
1 ATTTTTTTAATATTAAAAAA
* * *
173912 ATATTTTTGATA-TATAAATA
1 ATTTTTTTAATATTA-AAAAA
173932 ATTTTTTTA
1 ATTTTTTTA
173941 CCGAACCTCC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTTTTTAATATTAAAAAA
Found at i:174533 original size:20 final size:20
Alignment explanation
Indices: 174509--174595 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
174499 CAGTGTCGTT
*
174509 GCGATACTGACTATCGCAAT
1 GCGATACTGACTATCGCAAC
* *
174529 GCGATAAT-ACAAAATCGCAAC
1 GCGATACTGAC--TATCGCAAC
* *
174550 GAGATACTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
* * *
174570 GCAATTCTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
174590 GCGATA
1 GCGATA
174596 ATACATAATC
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
19 2 0.04
20 35 0.67
21 13 0.25
22 2 0.04
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
GCGATACTGACTATCGCAAC
Found at i:174805 original size:22 final size:22
Alignment explanation
Indices: 174777--174820 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
174767 CACTCTCTCA
174777 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
174799 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
174821 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:175096 original size:20 final size:20
Alignment explanation
Indices: 175071--175117 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
175061 ACGATTCTCT
175071 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
175091 CGTTGC--TAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
175109 TGTTGCGAT
1 CGTTGCGAT
175118 TTTCATTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 15 0.68
20 7 0.32
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:175288 original size:25 final size:24
Alignment explanation
Indices: 175234--175288 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
175224 TGTTTATTAT
* *
175234 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
175258 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
175284 TGTTT
1 TGTTT
175289 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:176412 original size:18 final size:18
Alignment explanation
Indices: 176391--176435 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
176381 TCCACTTCGG
*
176391 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
176409 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
176427 GAGCCATCA
1 GAGCCATCA
176436 TCTGATCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:176942 original size:20 final size:20
Alignment explanation
Indices: 176917--176958 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
176907 TAGCTTACTT
176917 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
176937 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
176957 TC
1 TC
176959 ATAATGCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:177010 original size:19 final size:19
Alignment explanation
Indices: 176986--177052 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
176976 TCACAACGAC
176986 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
*
177005 AAAATCGCAA--CG--A-C
1 AAAATCGCAATGCGAAATG
*
177019 AAAATCGCAACGCGAAATG
1 AAAATCGCAATGCGAAATG
177038 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
177053 TTTGTGTTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:177024 original size:14 final size:14
Alignment explanation
Indices: 176972--177030 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
176962 ATGCGAAATG
*
176972 AAAATCACAACGAC
1 AAAATCGCAACGAC
*
176986 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
177005 AAAATCGCAACGAC
1 AAAATCGCAACGAC
177019 AAAATCGCAACG
1 AAAATCGCAACG
177031 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 21 0.57
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.27
ACGTcount: A:0.51, C:0.24, G:0.15, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:177044 original size:33 final size:33
Alignment explanation
Indices: 176964--177047 Score: 150
Period size: 33 Copynumber: 2.5 Consensus size: 33
176954 CTATCATAAT
* *
176964 GCGAAATGAAAATCACAACGACAAAATCGCAAT
1 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
176997 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
1 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
177030 GCGAAATGAAAATCGCAA
1 GCGAAATGAAAATCGCAA
177048 TGCGATTTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.50, C:0.21, G:0.18, T:0.11
Consensus pattern (33 bp):
GCGAAATGAAAATCGCAACGACAAAATCGCAAC
Found at i:177085 original size:14 final size:14
Alignment explanation
Indices: 177066--177154 Score: 61
Period size: 14 Copynumber: 5.7 Consensus size: 14
177056 GTGTTTCGCC
177066 TTGCGATTTTTTCG
1 TTGCGATTTTTTCG
177080 TTGCGATTTCATTTCG
1 TTGCGATTT--TTTCG
*
177096 CATTGCGATTTTGTCG
1 --TTGCGATTTTTTCG
*
177112 TTGCAATTTTCATTTCG
1 TTGCGA-TTT--TTTCG
* *
177129 CATTACGATTTTGTCG
1 --TTGCGATTTTTTCG
177145 TTGCGATTTT
1 TTGCGATTTT
177155 CATTTTGCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
14 23 0.39
15 3 0.05
16 13 0.22
17 4 0.07
18 12 0.20
19 4 0.07
ACGTcount: A:0.13, C:0.17, G:0.19, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTTTCG
Found at i:177128 original size:33 final size:33
Alignment explanation
Indices: 177059--177170 Score: 172
Period size: 33 Copynumber: 3.4 Consensus size: 33
177049 GCGATTTGTG
* *
177059 TTTCGCCTTGCGATTTTTTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
177091 TTTCGCATTGCGATTTTGTCGTTGCAATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
177124 TTTCGCATTACGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
177157 TTTTGCATTGCGAT
1 TTTCGCATTGCGAT
177171 AGCCATTTCT
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
32 24 0.33
33 48 0.67
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.49
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:177161 original size:20 final size:19
Alignment explanation
Indices: 177136--177210 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
177126 TCGCATTACG
**
177136 ATTTTGTCGTTGCGATTTTC
1 ATTTTG-CGTTGCGATAGTC
* *
177156 ATTTTGCATTGCGATAGCC
1 ATTTTGCGTTGCGATAGTC
177175 ATTTCTGCGTTGCGATAGTC
1 ATTT-TGCGTTGCGATAGTC
177195 ATTTTCGCGTTGCGAT
1 ATTTT-GCGTTGCGAT
177211 TTTAAGTTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 14 0.30
20 33 0.70
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.44
Consensus pattern (19 bp):
ATTTTGCGTTGCGATAGTC
Found at i:177652 original size:41 final size:41
Alignment explanation
Indices: 177556--177643 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
177546 GACTCACCTG
* * *
177556 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTA
* *
177598 TCCTCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
177639 TCATC
1 TCATC
177644 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
Found at i:179247 original size:19 final size:19
Alignment explanation
Indices: 179223--179290 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
179213 ATAGCAACGA
179223 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
179242 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
179261 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
179275 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
179291 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:179341 original size:20 final size:20
Alignment explanation
Indices: 179318--179401 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
179308 GATTTTCTAG
179318 TTGCGATAGCCATTTTCGCA
1 TTGCGATAGCCATTTTCGCA
**** *
179338 TTGCGAT-TTTTTGTTTCGAA
1 TTGCGATAGCCAT-TTTCGCA
*
179358 TTGCGATAGCCATTTTCGCT
1 TTGCGATAGCCATTTTCGCA
*
179378 TTGCGATAGCCATTTTCGCG
1 TTGCGATAGCCATTTTCGCA
179398 TTGC
1 TTGC
179402 AATTTCCCCG
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 1 0.02
20 48 0.96
21 1 0.02
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.42
Consensus pattern (20 bp):
TTGCGATAGCCATTTTCGCA
Found at i:179395 original size:40 final size:39
Alignment explanation
Indices: 179309--179395 Score: 93
Period size: 40 Copynumber: 2.2 Consensus size: 39
179299 TCGCATTGCG
* * ***
179309 ATTTTCTAGTTGCGATAGCCATTTTCGCATTGCGATTTT
1 ATTTTCGAATTGCGATAGCCATTTTCGCATTGCGATGCC
* *
179348 TTGTTTCGAATTGCGATAGCCATTTTCGCTTTGCGATAGCC
1 AT-TTTCGAATTGCGATAGCCATTTTCGCATTGCGAT-GCC
179389 ATTTTCG
1 ATTTTCG
179396 CGTTGCAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.03
40 36 0.95
41 1 0.03
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.44
Consensus pattern (39 bp):
ATTTTCGAATTGCGATAGCCATTTTCGCATTGCGATGCC
Found at i:179643 original size:20 final size:20
Alignment explanation
Indices: 179618--179667 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
179608 TTGAAGATGA
179618 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
179638 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
179658 TTGCGATTTT
1 TTGCGATTTT
179668 GTATTATCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:179920 original size:12 final size:12
Alignment explanation
Indices: 179901--179932 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
179891 CTCTCCGGCG
179901 ACATCCGTTCCT
1 ACATCCGTTCCT
*
179913 ATATCCGTTCCT
1 ACATCCGTTCCT
179925 ACATCCGT
1 ACATCCGT
179933 CCCCATCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.38, G:0.09, T:0.34
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:180516 original size:24 final size:24
Alignment explanation
Indices: 180489--180542 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
180479 GTATTCGAAA
*
180489 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
180513 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
180537 TTTGAT
1 TTTGAT
180543 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:180734 original size:12 final size:12
Alignment explanation
Indices: 180717--180741 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
180707 ATATAATCCT
180717 GAAGAAGAAAAA
1 GAAGAAGAAAAA
180729 GAAGAAGAAAAA
1 GAAGAAGAAAAA
180741 G
1 G
180742 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:183052 original size:19 final size:19
Alignment explanation
Indices: 183010--183088 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 19
183000 CTTAATGTCT
* **
183010 ATCGCAATGCAGAAATTACT
1 ATCGCAATGC-GAAATGAAA
183030 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
183049 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
183063 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
183082 ATCGCAA
1 ATCGCAA
183089 CGCTAATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 23 0.47
20 10 0.20
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:183072 original size:33 final size:33
Alignment explanation
Indices: 183030--183156 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 33
183020 AGAAATTACT
183030 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
183063 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
183095 TTTTGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
183129 ATCTTAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
183157 CGAATTTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:183139 original size:66 final size:66
Alignment explanation
Indices: 183033--183163 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
183023 AATTACTATC
*
183033 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
183098 T
66 T
* **
183099 GCAATGCGAAATGAAAATCGCAACGAGGGAATCTTAATGCGAAATGAAAATCGCAACGCGAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
183164 AATTTCGCGT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (66 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
T
Found at i:183207 original size:33 final size:33
Alignment explanation
Indices: 183165--183235 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
183155 CGCGAATTTA
183165 ATTTCGCGTTACGATTCTCTCGTTACGATTTTC
1 ATTTCGCGTTACGATTCTCTCGTTACGATTTTC
* *
183198 ATTTCGCGTTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCGTTACGATTCTCTCGTTACGATTTTC
183231 ATTTC
1 ATTTC
183236 ACATTGCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (33 bp):
ATTTCGCGTTACGATTCTCTCGTTACGATTTTC
Found at i:183212 original size:19 final size:19
Alignment explanation
Indices: 183185--183245 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 19
183175 ACGATTCTCT
* *
183185 CGTTACGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCA
*
183204 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCA
183218 CGTTGCGATTTTCATTTCA
1 CGTTGCGATTTTCATTTCA
*
183237 CATTGCGAT
1 CGTTGCGAT
183246 AGTACTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 10 0.30
16 3 0.09
17 3 0.09
19 17 0.52
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCA
Found at i:183243 original size:33 final size:33
Alignment explanation
Indices: 183176--183245 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
183166 TTTCGCGTTA
* *
183176 CGATTCTCTCGTTACGATTTTCATTTCGCGTTG
1 CGATTCTCTCGTTACGATTTTCATTTCACATTG
*
183209 CGATTCTCTCGTTGCGATTTTCATTTCACATTG
1 CGATTCTCTCGTTACGATTTTCATTTCACATTG
183242 CGAT
1 CGAT
183246 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.44
Consensus pattern (33 bp):
CGATTCTCTCGTTACGATTTTCATTTCACATTG
Found at i:183371 original size:14 final size:14
Alignment explanation
Indices: 183352--183388 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
183342 CATCAATTAA
183352 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
183366 ACAAATCACCTTTT
1 ACAAATCAACTTTT
183380 ACAAATCAA
1 ACAAATCAA
183389 TTAAACAATA
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:184809 original size:21 final size:21
Alignment explanation
Indices: 184743--184809 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
184733 GTGAATCGGG
*
184743 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
184763 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
184785 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
184806 CTCT
1 CTCT
184810 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Done.