Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167965.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_224, 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: 46922
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
File 1 of 2
Found at i:128 original size:21 final size:21
Alignment explanation
Indices: 99--139 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
89 CCCTTCAAAA
* *
99 TTTTCTTTCTTTTTGCTTTTT
1 TTTTCTTTCATATTGCTTTTT
*
120 TTTTTTTTCATATTGCTTTT
1 TTTTCTTTCATATTGCTTTT
140 CATAGTTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTTCTTTCATATTGCTTTTT
Found at i:973 original size:21 final size:19
Alignment explanation
Indices: 931--973 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
921 TTGCGTTAAC
* *
931 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
950 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
971 TTT
1 TTT
974 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:1017 original size:16 final size:17
Alignment explanation
Indices: 998--1037 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
988 ATGTTTTTCA
*
998 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
1014 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
1031 ATTTTTT
1 ATTTTTT
1038 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:1389 original size:20 final size:19
Alignment explanation
Indices: 1354--1408 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
1344 TATTTTTGCC
1354 TCTTCATTTTTTATTTTTT
1 TCTTCATTTTTTATTTTTT
1373 TCTTC-TTTTTCTCATTTTTT
1 TCTTCATTTTT-T-ATTTTTT
**
1393 TC-TCAAATTTTATTTT
1 TCTTCATTTTTTATTTT
1409 ATATATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 10 0.32
19 9 0.29
20 12 0.39
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCATTTTTTATTTTTT
Found at i:1795 original size:18 final size:18
Alignment explanation
Indices: 1768--1828 Score: 72
Period size: 17 Copynumber: 3.5 Consensus size: 18
1758 TTTTTTGGTA
1768 TTTTAT-TTAATTTTTTC
1 TTTTATATTAATTTTTTC
*
1785 TTTTATATTAATATTTTC
1 TTTTATATTAATTTTTTC
* *
1803 TCTTA-ATTTATTTTTTC
1 TTTTATATTAATTTTTTC
*
1820 ATTTATATT
1 TTTTATATT
1829 TTAAAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 19 0.53
18 17 0.47
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATATTAATTTTTTC
Found at i:1892 original size:12 final size:12
Alignment explanation
Indices: 1875--1917 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
1865 TTTCATTTTC
1875 CTATTTTTTTGT
1 CTATTTTTTTGT
1887 CTATTTTTTTCG-
1 CTATTTTTTT-GT
1899 CTA-TTTTTTGTT
1 CTATTTTTTTG-T
1911 CTATTTT
1 CTATTTT
1918 ATAAATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 1 0.04
11 6 0.22
12 16 0.59
13 4 0.15
ACGTcount: A:0.09, C:0.12, G:0.07, T:0.72
Consensus pattern (12 bp):
CTATTTTTTTGT
Found at i:1896 original size:23 final size:24
Alignment explanation
Indices: 1870--1917 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
1860 TATTTTTTCA
1870 TTTTC-CTATTTTTT-TGTCTATTT
1 TTTTCGCTATTTTTTGT-TCTATTT
1893 TTTTCGCTATTTTTTGTTCTATTT
1 TTTTCGCTATTTTTTGTTCTATTT
1917 T
1 T
1918 ATAAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 17 0.74
25 1 0.04
ACGTcount: A:0.08, C:0.12, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTTCGCTATTTTTTGTTCTATTT
Found at i:2941 original size:15 final size:13
Alignment explanation
Indices: 2912--2945 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
2902 TTTCGTTAAC
2912 TTTTATTTTATTT
1 TTTTATTTTATTT
2925 TTTTATCTTTGATTT
1 TTTTAT-TTT-ATTT
2940 TTTTAT
1 TTTTAT
2946 ATCTTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 3 0.16
15 10 0.53
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:3118 original size:19 final size:18
Alignment explanation
Indices: 3091--3140 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
3081 CCATTTTTGG
3091 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
3108 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
3128 TATTTATATTTTA
1 TATTTATATTTTA
3141 AAATTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 12 0.46
20 8 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:3147 original size:20 final size:20
Alignment explanation
Indices: 3124--3172 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
3114 ATATTACTAT
* *
3124 TTTTTATTTATATTTTAAAA
1 TTTTTATTTAAAATTTAAAA
3144 TTTTT-TTATAAAATTTAAAA
1 TTTTTATT-TAAAATTTAAAA
3164 TTTTTATTT
1 TTTTTATTT
3173 TTTGAATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTATTTAAAATTTAAAA
Found at i:3510 original size:15 final size:14
Alignment explanation
Indices: 3476--3513 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
3466 CTTTCTTTTG
3476 TTTTTAT-TTT-AT
1 TTTTTATCTTTGAT
3488 TTTTTATCTTTGAT
1 TTTTTATCTTTGAT
3502 TTTTATATCTTT
1 TTTT-TATCTTT
3514 TTCCTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 3 0.13
14 6 0.26
15 7 0.30
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTATCTTTGAT
Found at i:3569 original size:579 final size:580
Alignment explanation
Indices: 2980--4056 Score: 1347
Period size: 579 Copynumber: 1.8 Consensus size: 580
2970 TTTTTCTTTA
* *
2980 AACTAAAAGTTTTTTCTGTTTTATATTTCAAATTTCTATTCATTTTGTCTTTTTATATTTTTTTG
1 AACTAAAAGTTTTTTCTATTTTATATTTCAAATTTCTATTCATTTTCTC-TTTTATATTTTTTT-
* * * **
3045 ATTTGCTAACTTTTTATTTTCTTAC-TTTTT-TTTTTTCCATTTTTGGTATTTTATTTTATTTTT
64 ATTCGCTAACTTTTTAATATCTTACTTTTTTATTTTTTCCATTTTTGGTATTTTATTGAATTTTT
* * *
3108 TCTTTTATATTACTA-TTT-T-TT-ATTTATATTTTAAAATT-TTTTTA-TAAAATTT-AAAATT
129 TCTTCTATATCAATATTTTATCTTAATTTAT-TTTTAAAATTATTTTTATTAAAATTTAAAAATT
* *** *
3166 TTTAT-TTTTTGAA-TCTTTTTTCTTTTTTCATTTTCATTTTTTTTGTT-CTA-TG-TTGTAATT
193 TTTATAGTTCAAAATTCTTTTTTATTTTTTCATTTTC-TTTTTTTTGTTGCTATTGTTTGTAATT
* * *
3226 TTTCAATAACTTTTTCCCTTCAAAATTTTCTTTCTTTTTGCTTTTTTTTTTTCATCTGCTTTCAG
257 TTTCAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGC----TTTTTCTCATATGCTTTCAG
* * * *
3291 TGTTGCTTCTTTTAATTTTTTTGTTGTTTTAAAATTTTTTATATTTCTTTTTCCCTTTTTTATTC
318 TGTTACTTCTTTTAATTTTTTCGTTATTTTAAAA-ATTTT-TA-TT-TTTTT--CTTTTTTATTC
3356 CAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTC-TTATTTTTTTCACAAATTTCCT
377 CAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTTATTTTTTTCACAAATTTCCT
*
3420 TTCATTTCTTATTTGCATCTTTAAATTATTAGACTTTTTTTGTGCACTTTCTTTTGTTTTTATTT
442 TTCATTTCTTATTTGCATCTTTAAATTATCAGACTTTTTTTGTGCACTTTCTTTTGTTTTTATTT
3485 TATTTTTTATCTTTGATTTTTATATCTTTTTCCTATATTTGTTATATTTTTTTTGTTTTTCTTTG
507 TATTTTTTATCTTTGATTTTTATATCTTTTTCCTATATTTGTTATATTTTTTTTGTTTTTCTTTG
3550 CATATTCTG
572 CATATTCTG
* * *
3559 AACTAAAAGTTTTTTCTATTTTGTATTTGAAATTTTTATTCATTTTCTCTTTTATATTTTTTTAT
1 AACTAAAAGTTTTTTCTATTTTATATTTCAAATTTCTATTCATTTTCTCTTTTATATTTTTTTAT
* * *
3624 TCGCTAATTTTTTAATATCTTACTTTTTTATTTTTTGCTTTTTTGGTATTTTATTGAATTTTTTC
66 TCGCTAACTTTTTAATATCTTACTTTTTTATTTTTTCCATTTTTGGTATTTTATTGAATTTTTTC
** * * *
3689 TTCTATATCAATATTTTATCTTAATTTATTTTTCCATTTATTTTTATTTATATTTTAAAAAATTT
131 TTCTATATCAATATTTTATCTTAATTTATTTTTAAAATTATTTTTA-TTAAAATTT-AAAAATTT
* * *
3754 TTATAAAGTTCAAAATTTTTTTTTATTTTTTTATTTTCTTTTTTTTTTTGCTATTTTTGTTCTAC
194 TTAT--AGTTCAAAATTCTTTTTTATTTTTTCATTTTCTTTTTTTTGTTGCTA---TTG------
*
3819 TTTGTAATTTTTTAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGCTTTTTCTCATATGCT
248 TTTGTAATTTTTCAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGCTTTTTCTCATATGCT
* * * * *
3884 TTCATTTTTACTTGTTTTAATTTTTTCGTTATTTTAAAAATTTTTATTTTTTTGTTTTTTGTTCC
313 TTCAGTGTTACTTCTTTTAATTTTTTCGTTATTTTAAAAATTTTTATTTTTTTCTTTTTTATTCC
*
3949 AAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTTTTTTTTTTTTTCACAAATTTC
378 AAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTC---TTTATTTTTTTCACAAATTTC
* * * *
4014 CTTTCATTTCTTATTTGCGTTTTTAAATTCTCATACTTTTTTT
440 CTTTCATTTCTTATTTGCATCTTTAAATTATCAGACTTTTTTT
4057 ATTTTGCGTT
Statistics
Matches: 419, Mismatches: 48, Indels: 45
0.82 0.09 0.09
Matches are distributed among these distances:
577 21 0.05
578 19 0.05
579 85 0.20
580 3 0.01
581 1 0.00
582 9 0.02
583 12 0.03
585 6 0.01
587 11 0.03
590 14 0.03
591 22 0.05
592 51 0.12
594 5 0.01
595 4 0.01
596 59 0.14
597 4 0.01
598 46 0.11
602 47 0.11
ACGTcount: A:0.19, C:0.11, G:0.05, T:0.65
Consensus pattern (580 bp):
AACTAAAAGTTTTTTCTATTTTATATTTCAAATTTCTATTCATTTTCTCTTTTATATTTTTTTAT
TCGCTAACTTTTTAATATCTTACTTTTTTATTTTTTCCATTTTTGGTATTTTATTGAATTTTTTC
TTCTATATCAATATTTTATCTTAATTTATTTTTAAAATTATTTTTATTAAAATTTAAAAATTTTT
ATAGTTCAAAATTCTTTTTTATTTTTTCATTTTCTTTTTTTTGTTGCTATTGTTTGTAATTTTTC
AATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGCTTTTTCTCATATGCTTTCAGTGTTACTT
CTTTTAATTTTTTCGTTATTTTAAAAATTTTTATTTTTTTCTTTTTTATTCCAAATCTTTTGTCT
TTTCATTTTTATTCTTTTCTTGCTTTTCTTTATTTTTTTCACAAATTTCCTTTCATTTCTTATTT
GCATCTTTAAATTATCAGACTTTTTTTGTGCACTTTCTTTTGTTTTTATTTTATTTTTTATCTTT
GATTTTTATATCTTTTTCCTATATTTGTTATATTTTTTTTGTTTTTCTTTGCATATTCTG
Found at i:3789 original size:18 final size:18
Alignment explanation
Indices: 3768--3802 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3758 AAAGTTCAAA
3768 ATTTT-TTTTTATTTTTTT
1 ATTTTCTTTTT-TTTTTTT
3786 ATTTTCTTTTTTTTTTT
1 ATTTTCTTTTTTTTTTT
3803 GCTATTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.89
Consensus pattern (18 bp):
ATTTTCTTTTTTTTTTTT
Found at i:4112 original size:21 final size:19
Alignment explanation
Indices: 4070--4112 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4060 TTGCGTTAAC
* *
4070 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
4089 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
4110 TTT
1 TTT
4113 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:4156 original size:16 final size:17
Alignment explanation
Indices: 4137--4176 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
4127 ATGTTTTTCA
*
4137 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
4153 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
4170 ATTTTTT
1 ATTTTTT
4177 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:4521 original size:18 final size:20
Alignment explanation
Indices: 4494--4534 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4484 TATTTTTGCC
4494 TCTTCATTTT-T-ATTTTTT
1 TCTTCATTTTCTCATTTTTT
*
4512 TCTTCTTTTTCTCATTTTTT
1 TCTTCATTTTCTCATTTTTT
4532 TCT
1 TCT
4535 CAAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 1 0.05
20 10 0.50
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (20 bp):
TCTTCATTTTCTCATTTTTT
Found at i:4569 original size:22 final size:21
Alignment explanation
Indices: 4538--4578 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4528 TTTTTCTCAA
4538 ATTTTATTTTATATATTTTGT
1 ATTTTATTTTATATATTTTGT
* *
4559 ATTTTCATTTTTTATTTTTT
1 ATTTT-ATTTTATATATTTT
4579 TCTTGCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTATTTTATATATTTTGT
Found at i:4933 original size:18 final size:18
Alignment explanation
Indices: 4906--4966 Score: 72
Period size: 17 Copynumber: 3.5 Consensus size: 18
4896 TTTTTTGGTA
4906 TTTTAT-TTAATTTTTTC
1 TTTTATATTAATTTTTTC
*
4923 TTTTATATTAATATTTTC
1 TTTTATATTAATTTTTTC
* *
4941 TCTTA-ATTTATTTTTTC
1 TTTTATATTAATTTTTTC
*
4958 ATTTATATT
1 TTTTATATT
4967 TTAAAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 19 0.53
18 17 0.47
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATATTAATTTTTTC
Found at i:5030 original size:12 final size:12
Alignment explanation
Indices: 5013--5055 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
5003 TTTCATTTTC
5013 CTATTTTTTTGT
1 CTATTTTTTTGT
5025 CTATTTTTTTCG-
1 CTATTTTTTT-GT
5037 CTA-TTTTTTGTT
1 CTATTTTTTTG-T
5049 CTATTTT
1 CTATTTT
5056 ATAAATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 1 0.04
11 6 0.22
12 16 0.59
13 4 0.15
ACGTcount: A:0.09, C:0.12, G:0.07, T:0.72
Consensus pattern (12 bp):
CTATTTTTTTGT
Found at i:5034 original size:23 final size:24
Alignment explanation
Indices: 5008--5055 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
4998 TATTTTTTCA
5008 TTTTC-CTATTTTTT-TGTCTATTT
1 TTTTCGCTATTTTTTGT-TCTATTT
5031 TTTTCGCTATTTTTTGTTCTATTT
1 TTTTCGCTATTTTTTGTTCTATTT
5055 T
1 T
5056 ATAAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 17 0.74
25 1 0.04
ACGTcount: A:0.08, C:0.12, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTTCGCTATTTTTTGTTCTATTT
Found at i:6078 original size:24 final size:22
Alignment explanation
Indices: 6023--6109 Score: 59
Period size: 24 Copynumber: 3.6 Consensus size: 22
6013 CTTCCTTTTG
*
6023 TTTTTATTTCTTTTTTCGTTAACTTT
1 TTTTTA-TT-TTTTTTC-TTGA-TTT
6049 TATTTTATTTTTTTATCTTTGATTT
1 T-TTTTATTTTTTT-TC-TTGATTT
*
6074 TTTTTATATCTTTTTCTTGTATTT
1 TTTTTAT-TTTTTTTCTTG-ATTT
*
6098 GTTTT-TTTTTTT
1 TTTTTATTTTTTT
6110 CTTTAAACTA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
22 5 0.10
23 4 0.08
24 16 0.31
25 14 0.27
26 8 0.15
27 5 0.10
ACGTcount: A:0.11, C:0.07, G:0.05, T:0.77
Consensus pattern (22 bp):
TTTTTATTTTTTTTCTTGATTT
Found at i:6253 original size:19 final size:18
Alignment explanation
Indices: 6226--6275 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
6216 CCATTTTTGG
6226 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
6243 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
6263 TATTTATATTTTA
1 TATTTATATTTTA
6276 AAATTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 12 0.46
20 8 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:6282 original size:20 final size:20
Alignment explanation
Indices: 6259--6307 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6249 ATATTACTAT
* *
6259 TTTTTATTTATATTTTAAAA
1 TTTTTATTTAAAATTTAAAA
6279 TTTTT-TTATAAAATTTAAAA
1 TTTTTATT-TAAAATTTAAAA
6299 TTTTTATTT
1 TTTTTATTT
6308 TTTGAATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTATTTAAAATTTAAAA
Found at i:6644 original size:15 final size:14
Alignment explanation
Indices: 6610--6647 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
6600 CTTTCTTTTG
6610 TTTTTAT-TTT-AT
1 TTTTTATCTTTGAT
6622 TTTTTATCTTTGAT
1 TTTTTATCTTTGAT
6636 TTTTATATCTTT
1 TTTT-TATCTTT
6648 TTCCTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 3 0.13
14 6 0.26
15 7 0.30
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTATCTTTGAT
Found at i:6738 original size:578 final size:578
Alignment explanation
Indices: 6115--7173 Score: 1349
Period size: 578 Copynumber: 1.8 Consensus size: 578
6105 TTTTTCTTTA
* *
6115 AACTAAAAGTTTTTTCTGTTTTATATTTCAAATTTCTATTCATTTTGTCTTTTTATATTTTTTTG
1 AACTAAAAGTTTTTTCTATTTTATATTTCAAATTTCTATTCATTTTCTC-TTTTATATTTTTTT-
* * * **
6180 ATTTGCTAACTTTTTATTTTCTTAC-TTTTT-TTTTTTCCATTTTTGGTATTTTATTTTATTTTT
64 ATTCGCTAACTTTTTAATATCTTACTTTTTTATTTTTTCCATTTTTGGTATTTTATTGAATTTTT
* *
6243 TCTTTTATATTACTA-TTT-T-TT-ATTTATATTTTAAAATT-TTTTTA-TAAAATTT-AAAATT
129 TCTTCTATATTAATATTTTATCTTAATTTAT-TTTTAAAATTATTTTTATTAAAATTTAAAAATT
* *** *
6301 TTTAT-TTTTTGAA-TCTTTTTTCTTTTTTCATTTTC-ATT-T-TTTTTGTTCTA-TGTTGTAAT
193 TTTATAGTTCAAAATTCTTTTTTATTTTTTCATTTTCTATTCTATTTTTGTTCTACT-TTGTAAT
* *
6360 TTTTCAATAACTTTTTCCCTTCAAAATTTTCTTTCTTTTTGCTTTTTTTTTTTCATCTGCTTTCA
257 TTTTCAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGC----TTTTTTTCATATGCTTTCA
* * * *
6425 GTGTTGCTTCTTTTAATTTTTTTGTTGTTTTAAAATTTTTTATATTTCTTTTTCCCTTTTTTATT
318 GTGTTACTTCTTTTAATTTTTTCGTTATTTTAAAA-ATTTT-TA--T-TTTTT--CTTTTTTATT
6490 CCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTC-TTATTTTTTTCACAAATTTCC
376 CC-AATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTTATTTTTTTCACAAATTTCC
6554 TTTCATTTCTTATTTGCATCTTTAAATTATTAGACTTTTTTGTGCACTTTCTTTTGTTTTTATTT
440 TTTCATTTCTTATTTGCATCTTTAAATTATTAGACTTTTTTGTGCACTTTCTTTTGTTTTTATTT
6619 TATTTTTTATCTTTGATTTTTATATCTTTTTCCTATATTTGTTATATTTTTTTTGTTTTTCTTTG
505 TATTTTTTATCTTTGATTTTTATATCTTTTTCCTATATTTGTTATATTTTTTTTGTTTTTCTTTG
6684 CATATTCTG
570 CATATTCTG
* * *
6693 AACTAAAAGTTTTTTCTATTTTGTATTTGAAATTTTTATTCATTTTCTCTTTTATATTTTTTTAT
1 AACTAAAAGTTTTTTCTATTTTATATTTCAAATTTCTATTCATTTTCTCTTTTATATTTTTTTAT
* * *
6758 TCGCTAATTTTTTAATATCTTACTTTTTTATTTTTTGCTTTTTTGGTATTTTATTGAATTTTTTC
66 TCGCTAACTTTTTAATATCTTACTTTTTTATTTTTTCCATTTTTGGTATTTTATTGAATTTTTTC
** * * *
6823 TTCTATATTAATATTTTATCTTAATTTATTTTTCCATTTATTTTTATTTATATTTTAAAAAATTT
131 TTCTATATTAATATTTTATCTTAATTTATTTTTAAAATTATTTTTA-TTAAAATTT-AAAAATTT
* * *
6888 TTATAAAGTTCAAAATTTTTTTTTATTTTTTTATTTTCTTTTTTTTTTGCTATTTTTGTTCTACT
194 TTAT--AGTTCAAAATTCTTTTTTATTTTTTCATTTTC------TATT-CTATTTTTGTTCTACT
*
6953 TTGTAATTTTTTAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGCTTTTTTTCATATGCTT
250 TTGTAATTTTTCAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGCTTTTTTTCATATGCTT
* * * * *
7018 TCATTTTTACTTGTTTTAATTTTTTCGTTATTTTAAAAATTTTTATTTTTTGTTTTTTGTTCCAA
315 TCAGTGTTACTTCTTTTAATTTTTTCGTTATTTTAAAAATTTTTATTTTTTCTTTTTTATTCCAA
*
7083 TCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTTTTTTTTTTTTTCACAAATTTCCTT
380 TCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTC---TTTATTTTTTTCACAAATTTCCTT
* *
7148 TCATTTCTTATTTGCGTTTTTAAATT
442 TCATTTCTTATTTGCATCTTTAAATT
7174 CTCATACTTT
Statistics
Matches: 408, Mismatches: 43, Indels: 46
0.82 0.09 0.09
Matches are distributed among these distances:
576 21 0.05
577 19 0.05
578 86 0.21
579 3 0.01
580 1 0.00
581 9 0.02
582 12 0.03
584 6 0.01
586 11 0.03
588 40 0.10
589 14 0.03
590 19 0.05
591 5 0.01
592 47 0.12
594 2 0.00
595 4 0.01
596 47 0.12
597 2 0.00
599 1 0.00
600 58 0.14
601 1 0.00
ACGTcount: A:0.19, C:0.11, G:0.05, T:0.65
Consensus pattern (578 bp):
AACTAAAAGTTTTTTCTATTTTATATTTCAAATTTCTATTCATTTTCTCTTTTATATTTTTTTAT
TCGCTAACTTTTTAATATCTTACTTTTTTATTTTTTCCATTTTTGGTATTTTATTGAATTTTTTC
TTCTATATTAATATTTTATCTTAATTTATTTTTAAAATTATTTTTATTAAAATTTAAAAATTTTT
ATAGTTCAAAATTCTTTTTTATTTTTTCATTTTCTATTCTATTTTTGTTCTACTTTGTAATTTTT
CAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGCTTTTTTTCATATGCTTTCAGTGTTACT
TCTTTTAATTTTTTCGTTATTTTAAAAATTTTTATTTTTTCTTTTTTATTCCAATCTTTTGTCTT
TTCATTTTTATTCTTTTCTTGCTTTTCTTTATTTTTTTCACAAATTTCCTTTCATTTCTTATTTG
CATCTTTAAATTATTAGACTTTTTTGTGCACTTTCTTTTGTTTTTATTTTATTTTTTATCTTTGA
TTTTTATATCTTTTTCCTATATTTGTTATATTTTTTTTGTTTTTCTTTGCATATTCTG
Found at i:6941 original size:19 final size:18
Alignment explanation
Indices: 6902--6944 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
6892 AAAGTTCAAA
*
6902 ATTTTTTTTTATTTTTTT
1 ATTTTTTTTTATTTTTCT
6920 ATTTTCTTTTT-TTTTTGCT
1 ATTTT-TTTTTATTTTT-CT
6939 ATTTTT
1 ATTTTT
6945 GTTCTACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.09, C:0.05, G:0.02, T:0.84
Consensus pattern (18 bp):
ATTTTTTTTTATTTTTCT
Found at i:7285 original size:16 final size:17
Alignment explanation
Indices: 7266--7305 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
7256 ATGTTTTTCA
*
7266 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
7282 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
7299 ATTTTTT
1 ATTTTTT
7306 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:7658 original size:20 final size:19
Alignment explanation
Indices: 7623--7677 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
7613 TATTTTTGCC
7623 TCTTCATTTTTTATTTTTT
1 TCTTCATTTTTTATTTTTT
7642 TCTTC-TTTTTCTCATTTTTT
1 TCTTCATTTTT-T-ATTTTTT
**
7662 TC-TCAAATTTTATTTT
1 TCTTCATTTTTTATTTT
7678 ATATATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 10 0.32
19 9 0.29
20 12 0.39
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCATTTTTTATTTTTT
Found at i:8057 original size:18 final size:18
Alignment explanation
Indices: 8036--8087 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
8026 TTTTTTGGTA
8036 TTTTATTTAATTTTTTTC
1 TTTTATTTAATTTTTTTC
*
8054 TTTTATATTAA-TATTTTC
1 TTTTAT-TTAATTTTTTTC
*
8072 TCTTAATTT-ATTTTTT
1 T-TTTATTTAATTTTTT
8088 CATTTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.04
18 19 0.68
19 8 0.29
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTATTTAATTTTTTTC
Found at i:8160 original size:12 final size:12
Alignment explanation
Indices: 8143--8184 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
8133 TTTCATTTTC
8143 CTATTTTTTTGT
1 CTATTTTTTTGT
8155 CTATTTTTTTCG-
1 CTATTTTTTT-GT
*
8167 CTATTTTTGT-T
1 CTATTTTTTTGT
8178 CTATTTT
1 CTATTTT
8185 ATAAATTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 7 0.26
12 19 0.70
13 1 0.04
ACGTcount: A:0.10, C:0.12, G:0.07, T:0.71
Consensus pattern (12 bp):
CTATTTTTTTGT
Found at i:8164 original size:23 final size:23
Alignment explanation
Indices: 8138--8184 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
8128 TATTTTTTCA
*
8138 TTTTC-CTATTTTTTTGTCTATTT
1 TTTTCGCTATTTTTGT-TCTATTT
8161 TTTTCGCTATTTTTGTTCTATTT
1 TTTTCGCTATTTTTGTTCTATTT
8184 T
1 T
8185 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.09, C:0.13, G:0.06, T:0.72
Consensus pattern (23 bp):
TTTTCGCTATTTTTGTTCTATTT
Found at i:9029 original size:18 final size:18
Alignment explanation
Indices: 9008--9043 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8998 TTTTGTAATC
*
9008 CCTTTTCATTTTTTATCT
1 CCTTTTAATTTTTTATCT
9026 CCTTTTAATTTTTTATCT
1 CCTTTTAATTTTTTATCT
9044 TTCATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (18 bp):
CCTTTTAATTTTTTATCT
Found at i:9397 original size:19 final size:18
Alignment explanation
Indices: 9370--9419 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
9360 CCATTTTTGG
9370 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
9387 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
9407 TATTTATATTTTA
1 TATTTATATTTTA
9420 AAATTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 12 0.46
20 8 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:9426 original size:19 final size:20
Alignment explanation
Indices: 9403--9450 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
9393 ATATTACTAT
* *
9403 TTTTTATTTATATTTTAAAA
1 TTTTTATTTAAAATTTAAAA
*
9423 TTTTT-TATAAAATTTAAAA
1 TTTTTATTTAAAATTTAAAA
9442 TTTTTATTT
1 TTTTTATTT
9451 TTTGAATCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTATTTAAAATTTAAAA
Found at i:9788 original size:15 final size:14
Alignment explanation
Indices: 9754--9791 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
9744 CTTTCTTTTG
9754 TTTTTAT-TTT-AT
1 TTTTTATCTTTGAT
9766 TTTTTATCTTTGAT
1 TTTTTATCTTTGAT
9780 TTTTATATCTTT
1 TTTT-TATCTTT
9792 TTCCTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 3 0.13
14 6 0.26
15 7 0.30
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTATCTTTGAT
Found at i:9965 original size:578 final size:577
Alignment explanation
Indices: 9259--10320 Score: 1411
Period size: 578 Copynumber: 1.8 Consensus size: 577
9249 TTTTTCTTTA
* *
9259 AACTAAAAGTTTTTTCTGTTTTATATTTCAAATTTCTATTCATTTTGTCTTTTTATATTTTTTTG
1 AACTAAAAGTTTTTTCTATTTTATATTTCAAATTTCTATTCATTTTCTCTTTTTATATTTTTTTG
* * * **
9324 ATTTGCTAACTTTTATTTTCTTACTTTTTTTTTTTTCCATTTTTGGTATTTTATTTTATTTTTTC
66 ATTCGCTAACTTTTAATATCTTACTTTTTTTTTTTTCCATTTTTGGTATTTTATTGAATTTTTTC
* *
9389 TTTTATATTACTA-TTT-T-TT-ATTTATATTTT-A-AAATTTTT-TATAAAATTT-AAAATTTT
131 TTCTATATTAATATTTTATCTTAATTTAT-TTTTCATAAATTTTTATATAAAATTTAAAAATTTT
* ***
9446 TAT-TTTTTGAATCTTTTTTCTT-TTTTC-ATTTTCATT-T-TTTTTGTTCTA-TGTTGTAATTT
195 TATAGTTCAAAAT-TTTTTTCTTATTTTCTATTTTCATTCTATTTTTGTTCTACT-TTGTAATTT
* *
9505 TTCAATAACTTTTTCCCTTCAAAATTTTCTTTCTTTTTGCTTTTTTTTTTTCATCTGCTTTCAGT
258 TTCAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGC----TTTTTTTCATATGCTTTCAGT
* * * *
9570 GTTGCTTCTTTTAATTTTTTTGTTGTTTTAAAATTTTTTATATTTCTTTTTCCCTTTTTTATTCC
319 GTTACTTCTTTTAA-TTTTTCGTTATTTTAAAA-ATTTT-TA--T-TTTTT---TTTTTTATTCC
9635 AAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTA-TTTTTTTCACAAATTTCCTT
375 AAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTATTTTTTTTCACAAATTTCCTT
*
9699 TCATTTCTTATTTGCATCTTTAAATTATTAGACTTTTTTTGTGCACTTTCTTTTGTTTTTATTTT
440 TCATTTCTTATTTGCATCTTTAAATTATCAGACTTTTTTTGTGCACTTTCTTTTGTTTTTATTTT
9764 ATTTTTTATCTTTGATTTTTATATCTTTTTCCTATATTTGTTATATTTTTTTTGTTTTTCTTTGC
505 ATTTTTTATCTTTGATTTTTATATCTTTTTCCTATATTTGTTATATTTTTTTTGTTTTTCTTTGC
9829 ATATTCTG
570 ATATTCTG
* * *
9837 AACTAAAAGTTTTTTCTATTTTGTATTTGAAATTTTTATTCATTTTCTC-TTTTATATTTTTTT-
1 AACTAAAAGTTTTTTCTATTTTATATTTCAAATTTCTATTCATTTTCTCTTTTTATATTTTTTTG
* * *
9900 ATTCGCTAATTTTTTAATATCTTACTTTTTTATTTTTTGCTTTTTTGGTATTTTATTGAATTTTT
66 ATTCGCTAA-CTTTTAATATCTTACTTTTTT-TTTTTTCCATTTTTGGTATTTTATTGAATTTTT
** * * *
9965 TCTTCTATATTAATATTTTATCTTAATTTATTTTTCCATTTATTTTTATTTATATTTTAAAAAAT
129 TCTTCTATATTAATATTTTATCTTAATTTATTTTT-CATAAATTTTTATATAAAATTT-AAAAAT
* * **
10030 TTTTATAAAGTTCAAAATTTTTTTTTTATTTTCTTTTTTTTTTGCTATTTTTGTTCTACTTTGTA
192 TTTTAT--AGTTCAAAATTTTTTTCTTATTTTCTATTTTCATT-CTATTTTTGTTCTACTTTGTA
* *
10095 ATTTTTTAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGCTTTTTTTCATATGCTTTCATT
254 ATTTTTCAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGCTTTTTTTCATATGCTTTCAGT
* *
10160 TTTACTTGTTTTAATTTTTCGTTATTTTAAAAATTTTTATTTTTTTTTTTTATTCCAAATCTTTT
319 GTTACTTCTTTTAATTTTTCGTTATTTTAAAAATTTTTATTTTTTTTTTTTATTCCAAATCTTTT
10225 GTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTATTTTTTTTCACAAATTTCCTTTCATTTCTT
384 GTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTATTTTTTTTCACAAATTTCCTTTCATTTCTT
* * * *
10290 ATTTGCGTTTTTAAATTCTCATACTTTTTTT
449 ATTTGCATCTTTAAATTATCAGACTTTTTTT
10321 ATTTTGCATT
Statistics
Matches: 419, Mismatches: 43, Indels: 40
0.83 0.09 0.08
Matches are distributed among these distances:
576 8 0.02
577 32 0.08
578 86 0.21
579 3 0.01
580 1 0.00
581 61 0.15
582 61 0.15
583 1 0.00
584 11 0.03
585 8 0.02
587 13 0.03
588 4 0.01
589 24 0.06
590 40 0.10
591 6 0.01
593 1 0.00
594 58 0.14
595 1 0.00
ACGTcount: A:0.19, C:0.11, G:0.05, T:0.65
Consensus pattern (577 bp):
AACTAAAAGTTTTTTCTATTTTATATTTCAAATTTCTATTCATTTTCTCTTTTTATATTTTTTTG
ATTCGCTAACTTTTAATATCTTACTTTTTTTTTTTTCCATTTTTGGTATTTTATTGAATTTTTTC
TTCTATATTAATATTTTATCTTAATTTATTTTTCATAAATTTTTATATAAAATTTAAAAATTTTT
ATAGTTCAAAATTTTTTTCTTATTTTCTATTTTCATTCTATTTTTGTTCTACTTTGTAATTTTTC
AATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGCTTTTTTTCATATGCTTTCAGTGTTACTT
CTTTTAATTTTTCGTTATTTTAAAAATTTTTATTTTTTTTTTTTATTCCAAATCTTTTGTCTTTT
CATTTTTATTCTTTTCTTGCTTTTCTTATTTTTTTTCACAAATTTCCTTTCATTTCTTATTTGCA
TCTTTAAATTATCAGACTTTTTTTGTGCACTTTCTTTTGTTTTTATTTTATTTTTTATCTTTGAT
TTTTATATCTTTTTCCTATATTTGTTATATTTTTTTTGTTTTTCTTTGCATATTCTG
Found at i:10376 original size:21 final size:19
Alignment explanation
Indices: 10334--10376 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10324 TTGCATTAAC
* *
10334 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
10353 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
10374 TTT
1 TTT
10377 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:10420 original size:16 final size:17
Alignment explanation
Indices: 10401--10440 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
10391 ATGTTTTTCA
*
10401 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
10417 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
10434 ATTTTTT
1 ATTTTTT
10441 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:10497 original size:23 final size:23
Alignment explanation
Indices: 10458--10516 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
10448 TTTTGTTTTT
*
10458 TTTTC-TTTTT-TTGTGCTTT-A
1 TTTTCTTTTTTCTTTTGCTTTAA
10478 TTTATCTTTTTTCTTTTGCTTTAA
1 TTT-TCTTTTTTCTTTTGCTTTAA
*
10502 TTTTTTTTTTTCTTT
1 TTTTCTTTTTTCTTT
10517 CTTTTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 3 0.09
21 2 0.06
22 5 0.15
23 19 0.58
24 4 0.12
ACGTcount: A:0.07, C:0.10, G:0.05, T:0.78
Consensus pattern (23 bp):
TTTTCTTTTTTCTTTTGCTTTAA
Found at i:10793 original size:20 final size:19
Alignment explanation
Indices: 10758--10812 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
10748 TATTTTTGCC
10758 TCTTCATTTTTTATTTTTT
1 TCTTCATTTTTTATTTTTT
10777 TCTTC-TTTTTCTCATTTTTT
1 TCTTCATTTTT-T-ATTTTTT
**
10797 TC-TCAAATTTTATTTT
1 TCTTCATTTTTTATTTT
10813 ATATATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 10 0.32
19 9 0.29
20 12 0.39
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCATTTTTTATTTTTT
Found at i:11124 original size:23 final size:23
Alignment explanation
Indices: 11093--11152 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
11083 TCATTTTGTC
11093 TTTTATATTTTTTTGA-TTCGTAAA
1 TTTT-TATTTTTTT-ACTTCGTAAA
* * * *
11117 TTTTTATTTTCTTACTTTGTTAC
1 TTTTTATTTTTTTACTTCGTAAA
11140 TTTTTATTTTTTT
1 TTTTTATTTTTTT
11153 TCCTTTTTGG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 1 0.03
23 25 0.83
24 4 0.13
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.72
Consensus pattern (23 bp):
TTTTTATTTTTTTACTTCGTAAA
Found at i:11192 original size:18 final size:18
Alignment explanation
Indices: 11165--11224 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
11155 CTTTTTGGTA
11165 TTTTAT-TTAATTTTTTC
1 TTTTATATTAATTTTTTC
*
11182 TTTTATATTAATATTTTC
1 TTTTATATTAATTTTTTC
* *
11200 TCTTA-ATTTA-TTTTTC
1 TTTTATATTAATTTTTTC
*
11216 ATTTATATT
1 TTTTATATT
11225 TTAAAAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 8 0.23
17 13 0.37
18 14 0.40
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATATTAATTTTTTC
Found at i:11288 original size:12 final size:12
Alignment explanation
Indices: 11271--11313 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
11261 TTTCATTTTC
11271 CTATTTTTTTGT
1 CTATTTTTTTGT
11283 CTATTTTTTTCG-
1 CTATTTTTTT-GT
11295 CTA-TTTTTTGTT
1 CTATTTTTTTG-T
11307 CTATTTT
1 CTATTTT
11314 ATAAATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 1 0.04
11 6 0.22
12 16 0.59
13 4 0.15
ACGTcount: A:0.09, C:0.12, G:0.07, T:0.72
Consensus pattern (12 bp):
CTATTTTTTTGT
Found at i:11292 original size:23 final size:24
Alignment explanation
Indices: 11266--11313 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
11256 TATTTTTTCA
11266 TTTTC-CTATTTTTT-TGTCTATTT
1 TTTTCGCTATTTTTTGT-TCTATTT
11289 TTTTCGCTATTTTTTGTTCTATTT
1 TTTTCGCTATTTTTTGTTCTATTT
11313 T
1 T
11314 ATAAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 17 0.74
25 1 0.04
ACGTcount: A:0.08, C:0.12, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTTCGCTATTTTTTGTTCTATTT
Found at i:12334 original size:24 final size:22
Alignment explanation
Indices: 12279--12365 Score: 59
Period size: 24 Copynumber: 3.6 Consensus size: 22
12269 CTTCCTTTTG
*
12279 TTTTTATTTCTTTTTTCGTTAACTTT
1 TTTTTA-TT-TTTTTTC-TTGA-TTT
12305 TATTTTATTTTTTTATCTTTGATTT
1 T-TTTTATTTTTTT-TC-TTGATTT
*
12330 TTTTTATATCTTTTTCTTGTATTT
1 TTTTTAT-TTTTTTTCTTG-ATTT
*
12354 GTTTT-TTTTTTT
1 TTTTTATTTTTTT
12366 CTTTAAACTA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
22 5 0.10
23 4 0.08
24 16 0.31
25 14 0.27
26 8 0.15
27 5 0.10
ACGTcount: A:0.11, C:0.07, G:0.05, T:0.77
Consensus pattern (22 bp):
TTTTTATTTTTTTTCTTGATTT
Found at i:12510 original size:19 final size:18
Alignment explanation
Indices: 12483--12532 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
12473 CCATTTTTGG
12483 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
12500 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
12520 TATTTATATTTTA
1 TATTTATATTTTA
12533 AAAATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 12 0.46
20 8 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:12901 original size:15 final size:14
Alignment explanation
Indices: 12867--12904 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
12857 CTTTCTTTTG
12867 TTTTTAT-TTT-AT
1 TTTTTATCTTTGAT
12879 TTTTTATCTTTGAT
1 TTTTTATCTTTGAT
12893 TTTTATATCTTT
1 TTTT-TATCTTT
12905 TTCCTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 3 0.13
14 6 0.26
15 7 0.30
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTATCTTTGAT
Found at i:13493 original size:21 final size:19
Alignment explanation
Indices: 13451--13493 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13441 TTGCATTAAC
* *
13451 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
13470 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
13491 TTT
1 TTT
13494 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:13537 original size:16 final size:17
Alignment explanation
Indices: 13518--13557 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
13508 ATGTTTTTCA
*
13518 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
13534 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
13551 ATTTTTT
1 ATTTTTT
13558 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:13911 original size:20 final size:19
Alignment explanation
Indices: 13876--13930 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
13866 TATTTTTGCC
13876 TCTTCATTTTTTATTTTTT
1 TCTTCATTTTTTATTTTTT
13895 TCTTC-TTTTTCTCATTTTTT
1 TCTTCATTTTT-T-ATTTTTT
**
13915 TC-TCAAATTTTATTTT
1 TCTTCATTTTTTATTTT
13931 ATATATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 10 0.32
19 9 0.29
20 12 0.39
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCATTTTTTATTTTTT
Found at i:14306 original size:18 final size:18
Alignment explanation
Indices: 14279--14339 Score: 72
Period size: 17 Copynumber: 3.5 Consensus size: 18
14269 TTTTTTGGTA
14279 TTTTAT-TTAATTTTTTC
1 TTTTATATTAATTTTTTC
*
14296 TTTTATATTAATATTTTC
1 TTTTATATTAATTTTTTC
* *
14314 TCTTA-ATTTATTTTTTC
1 TTTTATATTAATTTTTTC
*
14331 ATTTATATT
1 TTTTATATT
14340 TTAAAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 19 0.53
18 17 0.47
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATATTAATTTTTTC
Found at i:14407 original size:13 final size:13
Alignment explanation
Indices: 14389--14428 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
14379 CATTTTCCTA
14389 TTTTTTTGTCTAT
1 TTTTTTTGTCTAT
14402 TTTTTTTG-CTAT
1 TTTTTTTGTCTAT
*
14414 TTTTTGT-TCTAT
1 TTTTTTTGTCTAT
14426 TTT
1 TTT
14429 ATAAATTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTGTCTAT
Found at i:14408 original size:24 final size:24
Alignment explanation
Indices: 14381--14428 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
14371 TATTTTTTCA
14381 TTTTCCTATTTTTT-TGTCTATTTT
1 TTTTCCTATTTTTTGT-TCTATTTT
*
14405 TTTTGCTATTTTTTGTTCTATTTT
1 TTTTCCTATTTTTTGTTCTATTTT
14429 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.75
Consensus pattern (24 bp):
TTTTCCTATTTTTTGTTCTATTTT
Found at i:15313 original size:18 final size:18
Alignment explanation
Indices: 15292--15327 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15282 TTTTGTAATC
*
15292 CCTTTTCATTTTTTATCT
1 CCTTTTAATTTTTTATCT
15310 CCTTTTAATTTTTTATCT
1 CCTTTTAATTTTTTATCT
15328 TTCATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (18 bp):
CCTTTTAATTTTTTATCT
Found at i:15682 original size:19 final size:18
Alignment explanation
Indices: 15655--15704 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
15645 CCATTTTTGG
15655 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
15672 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
15692 TATTTATATTTTA
1 TATTTATATTTTA
15705 AAAAATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 12 0.46
20 8 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:16069 original size:13 final size:13
Alignment explanation
Indices: 16035--16071 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
16025 TTGTGCACTT
16035 TCTTTG-TTTTTA
1 TCTTTGATTTTTA
16047 T-TTT-ATTTTTA
1 TCTTTGATTTTTA
16058 TCTTTGATTTTTA
1 TCTTTGATTTTTA
16071 T
1 T
16072 ATCTTTTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 10 0.45
12 4 0.18
13 8 0.36
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (13 bp):
TCTTTGATTTTTA
Found at i:16249 original size:577 final size:574
Alignment explanation
Indices: 15543--16592 Score: 1396
Period size: 577 Copynumber: 1.8 Consensus size: 574
15533 TTTTTCTTTA
* *
15543 AACTAAAAGTTTTTTCTGTTTTATATTTCAAATTTCTATTCATTTTGTCTTTTTATATTTTTTTG
1 AACTAAAAGTTTTTTCTATTTTATATTTCAAATTTCTATTCATTTTCTCTTTTTATATTTTTTTG
* * * **
15608 ATTTGCTAACTTTTTATTTTCTTACTTTTTTTTTTTTCCATTTTTGGTATTTTATTTTATTTTTT
66 ATTCGCTAACTTTTTAATATCTTACTTTTTTTTTTTTCCATTTTTGGTATTTTATTGAATTTTTT
* *
15673 CTTTTATATTACTA-TTT-T-TT-ATTTATATTTT-AAAAAATTTTTA-TAAAATTT-AAAATTT
131 CTTCTATATTAATATTTTATCTTAATTTAT-TTTTCAAAAAATTTTTATTAAAATTTAAAAATTT
* **
15731 TTAT-TTTTTGAATCTTTTTTCTT-TTTTC-ATTTTCATT-T-TTTTTGTTCTA-TGTTGTAATT
195 TTATAGTTTAAAAT-TTTTTT-TTATTTTCTATTTTCATTCTATTTTTGTTCTACT-TTGTAATT
* *
15790 TTTCAATAACTTTTTCCCTTCAAAATTTTCTTTCTTTTTGCTTTTTTTTTTTTTTCATCTGCTTT
257 TTTCAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGC-------TTTTTTTCATATGCTTT
* * * *
15855 CAGTGTTGCTTGTTTTAATTTTTTTGTTGTTTTAAAATTTTTTATATTTCTTTTTTCCTTTTTTA
315 CA-TGTTACTTGTTTTAAATTTTTCGTTATTTTAAAA--TTTT-TA--T-TTTTTT-CTTTTTTA
15920 TTCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTA-TTTTTTTCACAAATTT
372 TTCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTATTTTTTTTCACAAATTT
15984 CCTTTCATTTCTTATTTGCATCTTTAAATTATTAGACTTTTTTGTGCACTTTCTTTGTTTTTATT
437 CCTTTCATTTCTTATTTGCATCTTTAAATTATTAGACTTTTTTGTGCACTTTCTTTGTTTTTATT
16049 TTATTTTTATCTTTGATTTTTATATCTTTTCCTATATTTGTTATATTTTTTTTGTTTTTCTTTGT
502 TTATTTTTATCTTTGATTTTTATATCTTTTCCTATATTTGTTATATTTTTTTTGTTTTTCTTTGT
16114 ATATTCTG
567 ATATTCTG
* * *
16122 AACTAAAAG-TTTTTCTATTTTGTATTTGAAATTTTTATTCATTTTCTC-TTTTATATTTTTTT-
1 AACTAAAAGTTTTTTCTATTTTATATTTCAAATTTCTATTCATTTTCTCTTTTTATATTTTTTTG
* * *
16184 ATTCGCTAATTTTTTAATATCTTACTTTTTTATTTTTTGCTTTTTTGGTATTTTATTGAATTTTT
66 ATTCGCTAACTTTTTAATATCTTACTTTTTT-TTTTTTCCATTTTTGGTATTTTATTGAATTTTT
* *** * *
16249 TCTTCTATATTAATATTTTATCTTAATTTATTTTTCCATTTATTTTTATTTATATTTTAAAAAAT
130 TCTTCTATATTAATATTTTATCTTAATTTATTTTTCAAAAAATTTTTA-TTAAAATTT-AAAAAT
* **
16314 TTTTATAAAGTTTAAAATTTTTTTTTATTTTCTTTTTTTTTTTGCTATTTTTGTTCTACTTTGTA
193 TTTTAT--AGTTTAAAATTTTTTTTTATTTTC-TATTTTCATT-CTATTTTTGTTCTACTTTGTA
* *
16379 ATTTTTTAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGCTTTTTTTCATATGCTTTCATT
254 ATTTTTCAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGCTTTTTTTCATATGCTTTCATG
*
16444 TTACTTGTTTTAAATTTTTCGTTATTTTAAAATTTTTATTTTTTTGTTTTTTATTCCAAATCTTT
319 TTACTTGTTTTAAATTTTTCGTTATTTTAAAATTTTTATTTTTTTCTTTTTTATTCCAAATCTTT
16509 TGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTATTTTTTTTTCACAAATTTCCTTTCATTTC
384 TGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTA-TTTTTTTTCACAAATTTCCTTTCATTTC
* *
16574 TTATTTGCGTTTTTAAATT
448 TTATTTGCATCTTTAAATT
16593 CTCATACTTT
Statistics
Matches: 411, Mismatches: 38, Indels: 44
0.83 0.08 0.09
Matches are distributed among these distances:
576 27 0.07
577 111 0.27
578 43 0.10
579 55 0.13
580 6 0.01
581 16 0.04
582 4 0.01
583 6 0.01
584 29 0.07
585 29 0.07
586 2 0.00
587 11 0.03
588 6 0.01
589 6 0.01
591 1 0.00
592 58 0.14
593 1 0.00
ACGTcount: A:0.19, C:0.11, G:0.05, T:0.65
Consensus pattern (574 bp):
AACTAAAAGTTTTTTCTATTTTATATTTCAAATTTCTATTCATTTTCTCTTTTTATATTTTTTTG
ATTCGCTAACTTTTTAATATCTTACTTTTTTTTTTTTCCATTTTTGGTATTTTATTGAATTTTTT
CTTCTATATTAATATTTTATCTTAATTTATTTTTCAAAAAATTTTTATTAAAATTTAAAAATTTT
TATAGTTTAAAATTTTTTTTTATTTTCTATTTTCATTCTATTTTTGTTCTACTTTGTAATTTTTC
AATAACTTTTTCCCTTCAAAATTTTCCTTCTTTTTGCTTTTTTTCATATGCTTTCATGTTACTTG
TTTTAAATTTTTCGTTATTTTAAAATTTTTATTTTTTTCTTTTTTATTCCAAATCTTTTGTCTTT
TCATTTTTATTCTTTTCTTGCTTTTCTTATTTTTTTTCACAAATTTCCTTTCATTTCTTATTTGC
ATCTTTAAATTATTAGACTTTTTTGTGCACTTTCTTTGTTTTTATTTTATTTTTATCTTTGATTT
TTATATCTTTTCCTATATTTGTTATATTTTTTTTGTTTTTCTTTGTATATTCTG
Found at i:16462 original size:17 final size:19
Alignment explanation
Indices: 16442--16481 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
16432 TATGCTTTCA
*
16442 TTTTAC-TTGTTTT-AAAT
1 TTTTACGTTATTTTAAAAT
16459 TTTT-CGTTATTTTAAAAT
1 TTTTACGTTATTTTAAAAT
16477 TTTTA
1 TTTTA
16482 TTTTTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 1 0.05
17 10 0.53
18 8 0.42
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTACGTTATTTTAAAAT
Found at i:16662 original size:21 final size:19
Alignment explanation
Indices: 16620--16662 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
16610 TTGCATTAAC
* *
16620 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
16639 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
16660 TTT
1 TTT
16663 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:16706 original size:16 final size:17
Alignment explanation
Indices: 16687--16726 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
16677 ATGTTTTTCA
*
16687 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
16703 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
16720 ATTTTTT
1 ATTTTTT
16727 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:16808 original size:28 final size:28
Alignment explanation
Indices: 16777--16832 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
16767 ATCTTTTTTC
* *
16777 TTTTGCTTTAATTTTTTTCTTATTTTAT
1 TTTTACTTTAATTTCTTTCTTATTTTAT
* * *
16805 TTTTATTTTTATTTCTTTCTTTTTTTAT
1 TTTTACTTTAATTTCTTTCTTATTTTAT
16833 AGTTTCATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (28 bp):
TTTTACTTTAATTTCTTTCTTATTTTAT
Found at i:16830 original size:17 final size:16
Alignment explanation
Indices: 16714--16832 Score: 55
Period size: 16 Copynumber: 7.1 Consensus size: 16
16704 TTTTCTTACT
16714 TTTTATATTTTTTGTTGTA
1 TTTTAT-TTTTTT-TT-TA
*
16733 TTTT-TGTTTTTTTTTC
1 TTTTAT-TTTTTTTTTA
* **
16749 TTTT-TTTGTGCTTTA
1 TTTTATTTTTTTTTTA
* *
16764 TTTATCTTTTTTCTTTTGC
1 TTT-TATTTTTT-TTTT-A
* *
16783 TTTAATTTTTTTCTTA
1 TTTTATTTTTTTTTTA
16799 TTTTATTTTTATTTTTA
1 TTTTATTTTT-TTTTTA
*
16816 TTTCT-TTCTTTTTTTA
1 TTT-TATTTTTTTTTTA
16832 T
1 T
16833 AGTTTCATAA
Statistics
Matches: 77, Mismatches: 17, Indels: 15
0.71 0.16 0.14
Matches are distributed among these distances:
15 9 0.12
16 23 0.30
17 21 0.27
18 17 0.22
19 7 0.09
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTTTTTTA
Found at i:17086 original size:20 final size:19
Alignment explanation
Indices: 17051--17105 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
17041 TATTTTTGCC
17051 TCTTCATTTTTTATTTTTT
1 TCTTCATTTTTTATTTTTT
17070 TCTTC-TTTTTCTCATTTTTT
1 TCTTCATTTTT-T-ATTTTTT
**
17090 TC-TCAAATTTTATTTT
1 TCTTCATTTTTTATTTT
17106 ATATATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 10 0.32
19 9 0.29
20 12 0.39
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCATTTTTTATTTTTT
Found at i:17127 original size:22 final size:21
Alignment explanation
Indices: 17096--17136 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
17086 TTTTTCTCAA
17096 ATTTTATTTTATATATTTTGT
1 ATTTTATTTTATATATTTTGT
* *
17117 ATTTTCATTTTTTATTTTTT
1 ATTTT-ATTTTATATATTTT
17137 CTTGCTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTATTTTATATATTTTGT
Found at i:17478 original size:18 final size:18
Alignment explanation
Indices: 17451--17511 Score: 72
Period size: 17 Copynumber: 3.5 Consensus size: 18
17441 TTTTTTGGTA
17451 TTTTAT-TTAATTTTTTC
1 TTTTATATTAATTTTTTC
*
17468 TTTTATATTAATATTTTC
1 TTTTATATTAATTTTTTC
* *
17486 TCTTA-ATTTATTTTTTC
1 TTTTATATTAATTTTTTC
*
17503 ATTTATATT
1 TTTTATATT
17512 TTAAAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 19 0.53
18 17 0.47
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATATTAATTTTTTC
Found at i:17578 original size:14 final size:13
Alignment explanation
Indices: 17561--17601 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
17551 CATTTTCCTA
17561 TTTTTTTGTCTATT
1 TTTTTTTG-CTATT
17575 TTTTTTTGCTATT
1 TTTTTTTGCTATT
*
17588 TTTTGTT-CTATT
1 TTTTTTTGCTATT
17600 TT
1 TT
17602 ATAAATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 7 0.27
13 11 0.42
14 8 0.31
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTGCTATT
Found at i:17579 original size:13 final size:12
Alignment explanation
Indices: 17553--17601 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
17543 TATTTTTTCA
*
17553 TTTTCCTATTTT
1 TTTTTCTATTTT
*
17565 TTTGTCTATTTT
1 TTTTTCTATTTT
17577 TTTTTGCTATTTT
1 TTTTT-CTATTTT
*
17590 TTGTTCTATTTT
1 TTTTTCTATTTT
17602 ATAAATTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 21 0.66
13 11 0.34
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (12 bp):
TTTTTCTATTTT
Found at i:17581 original size:25 final size:25
Alignment explanation
Indices: 17553--17601 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
17543 TATTTTTTCA
17553 TTTTCCTATTTTTT-TGTCTATTTTT
1 TTTTCCTATTTTTTGT-TCTATTTTT
*
17578 TTTTGCTATTTTTTGTTCTATTTT
1 TTTTCCTATTTTTTGTTCTATTTT
17602 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (25 bp):
TTTTCCTATTTTTTGTTCTATTTTT
Found at i:17734 original size:5 final size:5
Alignment explanation
Indices: 17724--17774 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
17714 TTATTCCAAA
* * *
17724 TCTTT TCTTT TCATTT T-TAT TCTTT TC-TT ACTTT TCTTT TCTTT TTTTT
1 TCTTT TCTTT TC-TTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
17773 TC
1 TC
17775 ACAAATTTCC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 6 0.16
5 27 0.73
6 4 0.11
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (5 bp):
TCTTT
Found at i:17772 original size:14 final size:14
Alignment explanation
Indices: 17726--17772 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
17716 ATTCCAAATC
17726 TTTTCTTTTCATTTT
1 TTTTCTTTTC-TTTT
* **
17741 TATTCTTTTCTTAC
1 TTTTCTTTTCTTTT
17755 TTTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
17769 TTTT
1 TTTT
17773 TCACAAATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTTCTTTT
Found at i:18399 original size:14 final size:15
Alignment explanation
Indices: 18380--18419 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
18370 CTTTGTTAAT
18380 TTTTTTGTCTT-TTA
1 TTTTTTGTCTTATTA
18394 TTTTTT-TCTTATTA
1 TTTTTTGTCTTATTA
*
18408 CTTTTTG-CTTAT
1 TTTTTTGTCTTAT
18420 GTTTTCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.75
Consensus pattern (15 bp):
TTTTTTGTCTTATTA
Found at i:18474 original size:18 final size:18
Alignment explanation
Indices: 18453--18488 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18443 TTTTGTAATC
*
18453 CCTTTTCATTTTTTATCT
1 CCTTTTAATTTTTTATCT
18471 CCTTTTAATTTTTTATCT
1 CCTTTTAATTTTTTATCT
18489 TTCATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (18 bp):
CCTTTTAATTTTTTATCT
Found at i:18836 original size:21 final size:25
Alignment explanation
Indices: 18794--18846 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
18784 TTTTCTTACT
*
18794 TTTTTTTTTCCATTTTGGTATT-TA
1 TTTTTTTTTCCATTTTGATATTATA
18818 TTTTTTTTT-C-TTTT-ATATTACTA
1 TTTTTTTTTCCATTTTGATATTA-TA
18841 TTTTTT
1 TTTTTT
18847 ATTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.15
22 4 0.15
23 9 0.35
24 9 0.35
ACGTcount: A:0.13, C:0.08, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTTTTTTCCATTTTGATATTATA
Found at i:19228 original size:15 final size:14
Alignment explanation
Indices: 19194--19231 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
19184 CTTTCTTTTG
19194 TTTTTAT-TTT-AT
1 TTTTTATCTTTGAT
19206 TTTTTATCTTTGAT
1 TTTTTATCTTTGAT
19220 TTTTATATCTTT
1 TTTT-TATCTTT
19232 TTCCTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 3 0.13
14 6 0.26
15 7 0.30
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTATCTTTGAT
Found at i:19793 original size:21 final size:19
Alignment explanation
Indices: 19751--19793 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
19741 TTGCATTAAC
* *
19751 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
19770 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
19791 TTT
1 TTT
19794 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:19837 original size:16 final size:17
Alignment explanation
Indices: 19818--19857 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
19808 ATGTTTTTCA
*
19818 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
19834 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
19851 ATTTTTT
1 ATTTTTT
19858 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:19935 original size:18 final size:18
Alignment explanation
Indices: 19918--19951 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19908 TTCTGCTTTA
19918 ATTTTT-TTTCTTATTTT
1 ATTTTTATTTCTTATTTT
*
19935 ATTTTTATTTTTTATTT
1 ATTTTTATTTCTTATTT
19952 CTTTCTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (18 bp):
ATTTTTATTTCTTATTTT
Found at i:19938 original size:17 final size:17
Alignment explanation
Indices: 19895--19951 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
19885 TTGTGCTTTA
* *
19895 TTTATCTTTTTTCTTCT
1 TTTATTTTTTTTCTTAT
19912 GCTTTAATTTTTTTTCTTAT
1 --TTT-ATTTTTTTTCTTAT
*
19932 TTTATTTTTATTTTTTAT
1 TTTATTTTT-TTTCTTAT
19950 TT
1 TT
19952 CTTTCTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 6 0.18
18 12 0.36
19 3 0.09
20 12 0.36
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTATTTTTTTTCTTAT
Found at i:19939 original size:16 final size:15
Alignment explanation
Indices: 19818--19962 Score: 64
Period size: 17 Copynumber: 9.0 Consensus size: 15
19808 ATGTTTTTCA
19818 ATTTTTTTCCTTTTTT
1 ATTTTTTT-CTTTTTT
*
19834 ATTTTCTTACTTTTTAT
1 ATTTT-TTTCTTTTT-T
*
19851 ATTTTTTGTTGTATTTTT
1 A-TTTTT-TTCT-TTTTT
* *
19869 GTTTTTTT-TTCTTT
1 ATTTTTTTCTTTTTT
* *
19883 -TTTTGTGCTTTATTT
1 ATTTTTTTCTTT-TTT
19898 ATCTTTTTTCTTCTGCTTT
1 AT-TTTTTTCTT-T--TTT
19917 AATTTTTTTTCTTATTTT
1 -A-TTTTTTTCTT-TTTT
*
19935 A--TTTTTATTTTTT
1 ATTTTTTTCTTTTTT
*
19948 ATTTCTTTCTTTTTT
1 ATTTTTTTCTTTTTT
19963 TATAGTTTCA
Statistics
Matches: 99, Mismatches: 15, Indels: 31
0.68 0.10 0.21
Matches are distributed among these distances:
13 10 0.10
14 13 0.13
15 14 0.14
16 14 0.14
17 18 0.18
18 11 0.11
19 7 0.07
20 11 0.11
21 1 0.01
ACGTcount: A:0.10, C:0.09, G:0.04, T:0.77
Consensus pattern (15 bp):
ATTTTTTTCTTTTTT
Found at i:19962 original size:23 final size:24
Alignment explanation
Indices: 19914--19965 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
19904 TTTCTTCTGC
* *
19914 TTTAATTTTTTTTCTTATTTTATT
1 TTTATTTTTTTTTCTTATCTTATT
19938 TTTATTTTTTATTTCTT-TCTT-TT
1 TTTATTTTTT-TTTCTTATCTTATT
19961 TTTAT
1 TTTAT
19966 AGTTTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
24 12 0.48
25 6 0.24
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTATTTTTTTTTCTTATCTTATT
Found at i:20201 original size:20 final size:19
Alignment explanation
Indices: 20166--20220 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
20156 TATTTTTGCC
20166 TCTTCATTTTTTATTTTTT
1 TCTTCATTTTTTATTTTTT
20185 TCTTC-TTTTTCTCATTTTTT
1 TCTTCATTTTT-T-ATTTTTT
**
20205 TC-TCAAATTTTATTTT
1 TCTTCATTTTTTATTTT
20221 ATATATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 10 0.32
19 9 0.29
20 12 0.39
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCATTTTTTATTTTTT
Found at i:20689 original size:14 final size:13
Alignment explanation
Indices: 20672--20712 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
20662 CATTTTCCTA
20672 TTTTTTTGTCTATT
1 TTTTTTTG-CTATT
20686 TTTTTTTGCTATT
1 TTTTTTTGCTATT
*
20699 TTTTGTT-CTATT
1 TTTTTTTGCTATT
20711 TT
1 TT
20713 ATAAATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 7 0.27
13 11 0.42
14 8 0.31
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTGCTATT
Found at i:20690 original size:13 final size:12
Alignment explanation
Indices: 20664--20712 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
20654 TATTTTTTCA
*
20664 TTTTCCTATTTT
1 TTTTTCTATTTT
*
20676 TTTGTCTATTTT
1 TTTTTCTATTTT
20688 TTTTTGCTATTTT
1 TTTTT-CTATTTT
*
20701 TTGTTCTATTTT
1 TTTTTCTATTTT
20713 ATAAATTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 21 0.66
13 11 0.34
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (12 bp):
TTTTTCTATTTT
Found at i:20692 original size:25 final size:25
Alignment explanation
Indices: 20664--20712 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
20654 TATTTTTTCA
20664 TTTTCCTATTTTTT-TGTCTATTTTT
1 TTTTCCTATTTTTTGT-TCTATTTTT
*
20689 TTTTGCTATTTTTTGTTCTATTTT
1 TTTTCCTATTTTTTGTTCTATTTT
20713 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (25 bp):
TTTTCCTATTTTTTGTTCTATTTTT
Found at i:21547 original size:18 final size:18
Alignment explanation
Indices: 21526--21561 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21516 TTTTGTAATC
*
21526 CCTTTTCATTTTTTATCT
1 CCTTTTAATTTTTTATCT
21544 CCTTTTAATTTTTTATCT
1 CCTTTTAATTTTTTATCT
21562 TTCATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (18 bp):
CCTTTTAATTTTTTATCT
Found at i:21900 original size:16 final size:15
Alignment explanation
Indices: 21868--21897 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21858 TTTTCTTACT
21868 TTTTTTTTCATTTTA
1 TTTTTTTTCATTTTA
21883 TTTTTTTTC-TTTTA
1 TTTTTTTTCATTTTA
21897 T
1 T
21898 ATTACTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTTCATTTTA
Found at i:22272 original size:12 final size:14
Alignment explanation
Indices: 22255--22291 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
22245 CTTTCTTTTG
22255 TTTTAT-TTT-ATT
1 TTTTATCTTTGATT
22267 TTTTATCTTTGATT
1 TTTTATCTTTGATT
22281 TTTATATCTTT
1 TTT-TATCTTT
22292 TTCCTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.27
13 3 0.14
14 6 0.27
15 7 0.32
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTATCTTTGATT
Found at i:22566 original size:13 final size:13
Alignment explanation
Indices: 22548--22572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22538 AAGTTCAAAT
22548 TTTTTTTTTTTTC
1 TTTTTTTTTTTTC
22561 TTTTTTTTTTTT
1 TTTTTTTTTTTT
22573 GCTATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:22882 original size:21 final size:19
Alignment explanation
Indices: 22840--22882 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
22830 TTGCATTAAC
* *
22840 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
22859 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
22880 TTT
1 TTT
22883 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:22926 original size:16 final size:16
Alignment explanation
Indices: 22907--22945 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22897 ATGTTTTTCA
* *
22907 ATTTTTTTCCTTTTTT
1 ATTTTTTTACTTTTAT
*
22923 ATTTTCTTACTTTTAT
1 ATTTTTTTACTTTTAT
22939 ATTTTTT
1 ATTTTTT
22946 GTTGTATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTTTTACTTTTAT
Found at i:23021 original size:23 final size:22
Alignment explanation
Indices: 22958--23040 Score: 60
Period size: 24 Copynumber: 3.5 Consensus size: 22
22948 TGTATTTTTG
*
22958 TTTTTTTTCTTTTTTTGTGCTTTA
1 TTTTTTTTC-TTATTT-TGCTTTA
*
22982 TTTATCTTTT-TTCTTTTGCTTTAA
1 TTT-T-TTTTCTTATTTTGCTTT-A
**
23006 TTTTTTTTCTTATTTTATTTTTA
1 TTTTTTTTCTTATTTT-GCTTTA
23029 TTTTTATTTCTT
1 TTTTT-TTTCTT
23041 TCTTTTTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
22 4 0.08
23 19 0.39
24 21 0.43
25 1 0.02
26 4 0.08
ACGTcount: A:0.10, C:0.08, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTTTTTCTTATTTTGCTTTA
Found at i:23049 original size:17 final size:16
Alignment explanation
Indices: 22919--23051 Score: 56
Period size: 17 Copynumber: 7.8 Consensus size: 16
22909 TTTTTTCCTT
22919 TTTTATTTTCTTACTTTTA
1 TTTT-TTTT-TTA-TTTTA
22938 TATTTTTTGTTGTATTTT-
1 T-TTTTTT-TT-TATTTTA
* *
22956 TGTTTTTTTTCTTTT-
1 TTTTTTTTTTATTTTA
* ** *
22971 TTTGTGCTTTATTTATC
1 TTTTTTTTTTATTT-TA
* *
22988 TTTTTTCTTTTGCTTTAA
1 TTTTTT-TTTT-ATTTTA
23006 TTTTTTTTCTTATTTTA
1 TTTTTTTT-TTATTTTA
23023 TTTTTATTTTTATTTCT-
1 TTTTT-TTTTTATTT-TA
*
23040 TTCTTTTTTTAT
1 TTTTTTTTTTAT
23052 AGTTTCATAA
Statistics
Matches: 88, Mismatches: 16, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
15 14 0.16
16 10 0.11
17 30 0.34
18 16 0.18
19 12 0.14
20 6 0.07
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.77
Consensus pattern (16 bp):
TTTTTTTTTTATTTTA
Found at i:23304 original size:20 final size:19
Alignment explanation
Indices: 23269--23323 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
23259 TATTTTTGCC
23269 TCTTCATTTTTTATTTTTT
1 TCTTCATTTTTTATTTTTT
23288 TCTTC-TTTTTCTCATTTTTT
1 TCTTCATTTTT-T-ATTTTTT
**
23308 TC-TCAAATTTTATTTT
1 TCTTCATTTTTTATTTT
23324 ATATATTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 10 0.32
19 9 0.29
20 12 0.39
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCATTTTTTATTTTTT
Found at i:23769 original size:14 final size:13
Alignment explanation
Indices: 23752--23797 Score: 60
Period size: 12 Copynumber: 3.6 Consensus size: 13
23742 TTCCATTTTC
23752 CCTATTTTTTTGTT
1 CCTA-TTTTTTGTT
23766 CCTATTTTTT-TT
1 CCTATTTTTTGTT
*
23778 GCTATTTTTTGTT
1 CCTATTTTTTGTT
23791 -CTATTTT
1 CCTATTTT
23798 ATAAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 18 0.60
13 8 0.27
14 4 0.13
ACGTcount: A:0.09, C:0.13, G:0.07, T:0.72
Consensus pattern (13 bp):
CCTATTTTTTGTT
Found at i:23775 original size:25 final size:24
Alignment explanation
Indices: 23747--23797 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
23737 ATTTTTTCCA
23747 TTTTCCCTATTTTTTTGTTCCTATTT
1 TTTTCCCTA-TTTTTTGTT-CTATTT
**
23773 TTTTTGCTATTTTTTGTTCTATTT
1 TTTTCCCTATTTTTTGTTCTATTT
23797 T
1 T
23798 ATAAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 9 0.39
26 7 0.30
ACGTcount: A:0.08, C:0.14, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTTCCCTATTTTTTGTTCTATTT
Found at i:24212 original size:23 final size:21
Alignment explanation
Indices: 24137--24213 Score: 52
Period size: 22 Copynumber: 3.7 Consensus size: 21
24127 TTATATGTTT
*
24137 TTCAA-TTTTTTGTATTT-T-
1 TTCAATTTTTTTTTATTTGTA
*
24155 TTGAACTTTTTTTTTATTTGTA
1 TTCAA-TTTTTTTTTATTTGTA
* * * *
24177 TTCCATTCATTTTTAAGTTTTTA
1 TTCAATT-TTTTTTTA-TTTGTA
24200 TTCAATTTTTTTTT
1 TTCAATTTTTTTTT
24214 TTATTTTCTT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
18 4 0.09
20 11 0.26
21 3 0.07
22 14 0.33
23 11 0.26
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.69
Consensus pattern (21 bp):
TTCAATTTTTTTTTATTTGTA
Found at i:24220 original size:23 final size:22
Alignment explanation
Indices: 24161--24220 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
24151 TTTTTTGAAC
* *
24161 TTTTTTTTTATTTGTATTCCAT
1 TTTTTTTTTATTTTTATTCAAT
** *
24183 TCATTTTTAAGTTTTTATTCAATT
1 TTTTTTTTTA-TTTTTATTCAA-T
24207 TTTTTTTTTATTTT
1 TTTTTTTTTATTTT
24221 CTTACTTTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
22 7 0.25
23 13 0.46
24 8 0.29
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (22 bp):
TTTTTTTTTATTTTTATTCAAT
Found at i:24265 original size:17 final size:17
Alignment explanation
Indices: 24243--24282 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
24233 ATTTTTATTG
*
24243 TATTTTTGTTCATCTTT
1 TATTTTGGTTCATCTTT
* *
24260 TATTTTGGTTTATTTTT
1 TATTTTGGTTCATCTTT
24277 TATTTT
1 TATTTT
24283 ATCATTGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.75
Consensus pattern (17 bp):
TATTTTGGTTCATCTTT
Found at i:24536 original size:17 final size:17
Alignment explanation
Indices: 24516--24549 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24506 TTATTTTGTA
24516 TTAACTTTTTCCCTTTG
1 TTAACTTTTTCCCTTTG
* *
24533 TTAATTTTTTCTCTTTG
1 TTAACTTTTTCCCTTTG
24550 ATTTTTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.18, G:0.06, T:0.65
Consensus pattern (17 bp):
TTAACTTTTTCCCTTTG
Found at i:24662 original size:14 final size:15
Alignment explanation
Indices: 24624--24682 Score: 59
Period size: 14 Copynumber: 3.9 Consensus size: 15
24614 TGTAATCCCT
24624 TTTCATTTTTTATCTCC
1 TTTCATTTTTTA--TCC
*
24641 TTTAATTTTTTAT-C
1 TTTCATTTTTTATCC
24655 TTTCATTTTTTATACC
1 TTTCATTTTTTAT-CC
*
24671 TTT-ATTTCTTAT
1 TTTCATTTTTTAT
24683 TGTTTGTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 13 0.35
15 9 0.24
16 4 0.11
17 11 0.30
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTCATTTTTTATCC
Found at i:24839 original size:15 final size:14
Alignment explanation
Indices: 24806--24842 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
24796 TTTTGTTAAC
24806 TTTTAT-TTT-ATT
1 TTTTATCTTTGATT
24818 TTTTATCTTTGATT
1 TTTTATCTTTGATT
24832 TTTATATCTTT
1 TTT-TATCTTT
24843 TTCTTGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.27
13 3 0.14
14 6 0.27
15 7 0.32
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTATCTTTGATT
Found at i:25392 original size:15 final size:14
Alignment explanation
Indices: 25353--25395 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 14
25343 TGCACTTTCT
25353 TTTG-TTTTTTAT-
1 TTTGATTTTTTATC
25365 TTT-ATTTTTTATC
1 TTTGATTTTTTATC
25378 TTTGATTTTTATATC
1 TTTGATTTTT-TATC
25393 TTT
1 TTT
25396 TTCCTATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 11 0.41
13 3 0.11
14 6 0.22
15 7 0.26
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTGATTTTTTATC
Found at i:26000 original size:21 final size:19
Alignment explanation
Indices: 25958--26000 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
25948 TTGCATTAAC
* *
25958 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
25977 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
25998 TTT
1 TTT
26001 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:26044 original size:16 final size:17
Alignment explanation
Indices: 26025--26064 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
26015 ATGTTTTTCA
*
26025 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
26041 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
26058 ATTTTTT
1 ATTTTTT
26065 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:26131 original size:21 final size:22
Alignment explanation
Indices: 26079--26137 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
26069 TATTTTTGTT
* *
26079 TTTTTTCTTTTTTTGTGCTTTAT
1 TTTTTT-TTTCTTTGTGCTTTAA
26102 TTATCTTTTTTCTTT-TGCTTTAA
1 TT-T-TTTTTTCTTTGTGCTTTAA
26125 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
26138 CTTTTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 10 0.31
22 1 0.03
23 11 0.34
24 7 0.22
25 3 0.09
ACGTcount: A:0.07, C:0.10, G:0.05, T:0.78
Consensus pattern (22 bp):
TTTTTTTTTCTTTGTGCTTTAA
Found at i:26455 original size:22 final size:21
Alignment explanation
Indices: 26424--26464 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
26414 TTTTTCTCAA
26424 ATTTTATTTTATATATTTTGT
1 ATTTTATTTTATATATTTTGT
* *
26445 ATTTTCATTTTTTATTTTTT
1 ATTTT-ATTTTATATATTTT
26465 TCTTGCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTATTTTATATATTTTGT
Found at i:26918 original size:13 final size:13
Alignment explanation
Indices: 26895--26933 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
26885 TATTTTCCTA
26895 TTTTTGTCTATTTT
1 TTTTTG-CTATTTT
26909 TTTTTGCTATTTT
1 TTTTTGCTATTTT
* *
26922 TTGTTCCTATTT
1 TTTTTGCTATTT
26934 ATAAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.08, C:0.10, G:0.08, T:0.74
Consensus pattern (13 bp):
TTTTTGCTATTTT
Found at i:27099 original size:19 final size:16
Alignment explanation
Indices: 27073--27111 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 16
27063 ATTCCAAATC
27073 TTTTCTTTTCATTTTTAT
1 TTTTCTTTTC-TTTTT-T
27091 TTTTACTTTTCTTTTTT
1 TTTT-CTTTTCTTTTTT
27108 TTTT
1 TTTT
27112 TCACAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTCTTTTTT
Found at i:27345 original size:16 final size:17
Alignment explanation
Indices: 27324--27358 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27314 GTCATTCCAT
*
27324 TTCATTTT-TTTTTTTA
1 TTCATTTTGTCTTTTTA
27340 TTCATTTTGTCTTTTTA
1 TTCATTTTGTCTTTTTA
27357 TT
1 TT
27359 TTCTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.11, C:0.09, G:0.03, T:0.77
Consensus pattern (17 bp):
TTCATTTTGTCTTTTTA
Found at i:27404 original size:18 final size:18
Alignment explanation
Indices: 27383--27424 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
27373 ATTTTTATTG
*
27383 TATTTTTGTTCATCTTTT
1 TATTTTGGTTCATCTTTT
* *
27401 TATTTTGGTTTATTTTTT
1 TATTTTGGTTCATCTTTT
27419 TATTTT
1 TATTTT
27425 ATCATTGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (18 bp):
TATTTTGGTTCATCTTTT
Found at i:27414 original size:10 final size:8
Alignment explanation
Indices: 27328--27424 Score: 52
Period size: 8 Copynumber: 11.1 Consensus size: 8
27318 TTCCATTTCA
27328 TTTT-TTT
1 TTTTATTT
*
27335 TTTTATTCA
1 TTTTATT-T
* *
27344 TTTTGTCT
1 TTTTATTT
27352 TTTTATTT
1 TTTTATTT
*
27360 TCTTACTTT
1 TTTTA-TTT
*
27369 TTATATTTT
1 TTTTA-TTT
27378 TATTGTATTT
1 T-TT-TATTT
*
27388 TTGTTCATCT
1 TT-TT-ATTT
27398 TTTTATTT
1 TTTTATTT
27406 TGGTTTATTT
1 T--TTTATTT
27416 TTTTATTT
1 TTTTATTT
27424 T
1 T
27425 ATCATTGTTG
Statistics
Matches: 68, Mismatches: 13, Indels: 17
0.69 0.13 0.17
Matches are distributed among these distances:
7 4 0.06
8 24 0.35
9 19 0.28
10 19 0.28
11 2 0.03
ACGTcount: A:0.12, C:0.06, G:0.05, T:0.76
Consensus pattern (8 bp):
TTTTATTT
Found at i:27930 original size:21 final size:21
Alignment explanation
Indices: 27906--27965 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
27896 TTAACTTTTA
27906 TTTTATTTTTTATCTTTG-ATT
1 TTTTATTTTTT-TCTTTGTATT
27927 TTTTATATCTTTTTC-TTGTATT
1 TTTTAT-T-TTTTTCTTTGTATT
*
27949 TGTTTTTTTTTTTCTTT
1 T-TTTATTTTTTTCTTT
27966 AAACTAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
21 15 0.45
22 10 0.30
23 8 0.24
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTTTCTTTGTATT
Found at i:28107 original size:19 final size:18
Alignment explanation
Indices: 28080--28129 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
28070 CCATTTTTGG
28080 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
28097 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
28117 TATTTATATTTTA
1 TATTTATATTTTA
28130 AAAAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 12 0.46
20 8 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:28933 original size:28 final size:27
Alignment explanation
Indices: 28898--28951 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
28888 GTTGTTTTAA
* **
28898 AAATTTTTATTTTTTTTTTTTTATTCC
1 AAATTTTTATCTTTTCATTTTTATTCC
*
28925 AAATCTTTTGTCTTTTCATTTTTATTC
1 AAAT-TTTTATCTTTTCATTTTTATTC
28952 TTTTCTTGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.69
Consensus pattern (27 bp):
AAATTTTTATCTTTTCATTTTTATTCC
Found at i:29128 original size:16 final size:17
Alignment explanation
Indices: 29109--29148 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
29099 ATGTTTTTCA
*
29109 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
29125 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
29142 ATTTTTT
1 ATTTTTT
29149 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:29264 original size:20 final size:20
Alignment explanation
Indices: 29220--29265 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
29210 TTTTTCTTTC
29220 TTTTTTTTATAGTTTCATAAA
1 TTTTTTTTATAGTTTCAT-AA
*
29241 TTTTTGTTA-AGTTTTCA-AA
1 TTTTTTTTATAG-TTTCATAA
29260 TTTTTT
1 TTTTTT
29266 ATTTTTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.32
20 2 0.09
21 13 0.59
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTTTTTATAGTTTCATAA
Found at i:29497 original size:20 final size:19
Alignment explanation
Indices: 29462--29516 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
29452 TATTTTTGCC
29462 TCTTCATTTTTTATTTTTT
1 TCTTCATTTTTTATTTTTT
29481 TCTTC-TTTTTCTCATTTTTT
1 TCTTCATTTTT-T-ATTTTTT
**
29501 TC-TCAAATTTTATTTT
1 TCTTCATTTTTTATTTT
29517 ATATATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 10 0.32
19 9 0.29
20 12 0.39
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCATTTTTTATTTTTT
Found at i:29894 original size:18 final size:18
Alignment explanation
Indices: 29867--29926 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 18
29857 TTTTTTGGTA
29867 TTTTAT-TTAATTTTTTC
1 TTTTATATTAATTTTTTC
*
29884 TTTTATATTAATATTTTC
1 TTTTATATTAATTTTTTC
* *
29902 TCTTA-ATTTATTTTTT-
1 TTTTATATTAATTTTTTC
*
29918 ATTTATATT
1 TTTTATATT
29927 TTAAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 3 0.09
17 18 0.51
18 14 0.40
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATATTAATTTTTTC
Found at i:29925 original size:28 final size:30
Alignment explanation
Indices: 29865--29929 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
29855 CCTTTTTTGG
*
29865 TATTTTATTTAATTTTTTCTTTTATATTAA
1 TATTTTATTTAATTTATTCTTTTATATTAA
*
29895 TATTTTCTCTTAATTTATT-TTTTAT-TT-A
1 TATTTTAT-TTAATTTATTCTTTTATATTAA
29923 TATTTTA
1 TATTTTA
29930 AAAAATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 7 0.23
29 2 0.06
30 13 0.42
31 9 0.29
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.71
Consensus pattern (30 bp):
TATTTTATTTAATTTATTCTTTTATATTAA
Found at i:31619 original size:583 final size:578
Alignment explanation
Indices: 31013--32188 Score: 1361
Period size: 585 Copynumber: 2.0 Consensus size: 578
31003 CCTCTAACTT
* *
31013 CTTTTTTTGTGCACTTCCTTTTGTTTTTATTTCTTTTTTTGTTAACTTTTA-TTTTAT-T-TTTT
1 CTTTTTTTGTGCACTTCCTTTTG-TTTTA-TT-TTATTTT-TTAACTTTGATTTTTATATCTTTT
* * * * * *
31075 GT-CTTTGATTTTTTATATCTTTTTCTTGTATTTGTTTTTTTTTTCCTTTAAACTAAAAGTTTTT
62 -TCCTAT-ATTTGTTATA--TTTTT-TTGTATTTCTTTGTATATT-C--TAAACTAAAAGTTTTT
* *
31139 TCTGTTTTATATTTCAAATTTCTATTCATTTTGTCTTTTTATATTTTTTTGATTTGCTAACTTTT
119 TCTATTTTATATTTCAAATTTCTATTCATTTT-TC-TTTTATATTTTTTT-ATTCGCTAACTTTT
* * ** * *
31204 TATTTTCTTACTTTTTT-TTTTTTCCATTTTTGGTATTTTATTTTA-TTTTTCTTTTATATTACT
181 TAATATCTTACTTTTTTATTTTTTCCATTTTTGGTATTTTATTGAATTTTTTCTTCTATATTAAT
* ***
31267 A-TTT-T-TT-ATTTATATTTT-A-AAAATTTTA-TAAAATTT-AAAA-TTTTAT-TTTTTGAA-
246 ATTTTATCTTAATTTAT-TTTTCATAAAATTTTATTAAAATTTAAAAATTTTTATAGTTCAAAAT
31321 TCTTTTTTCTTTTTTCATTTTCATT-T-TTTTTGTTCTA-TGTTGTAATTTTTAAATAACTTTTT
310 TCTTTTTTCTTTTTTCATTTTCATTCTATTTTTGTTCTACT-TTGTAATTTTTAAATAACTTTTT
* * * *
31383 CCCTTCAAAATTTTCTTTCTTTTTGCTTTTTTTTTTTTCATCTGCTTTCAGTGTTGCTTCTTTTT
374 CCCTTCAAAATTTTCCTTCTTTTTGC---TTTTCTTTTCATATGCTTTCAGTGTTACTTCTTTTT
* *
31448 AATTTTTTTGTTGTTTTAAAATTTTTTATATTTCTTTTTCCTTTTTTATTCCAAATCTTTTGTCT
436 -ATTTTTTCGTTGTTTTAAAA-ATTTT-TA-TT-TTTTT--TTTTTTATTCCAAATCTTTTGTCT
31513 TTTCATTTTTATTCTTTTCTTGC-TT-TTCTTATTTTTTTCACAAATTTCCTTTCATTTCTTATT
494 TTTCATTTTTATTCTTTTCTTGCTTTCTTCTTATTTTTTTCACAAATTTCCTTTCATTTCTTATT
*
31576 TGCATCTTTAAATTATTAGA
559 TGCATCTTTAAATTATCAGA
* *
31596 CTTTTTTTGTGCACTTTCTTTTGTTTTATTTTATTTTTTATCTTTGATTTTTATATCTTTTTCCT
1 CTTTTTTTGTGCACTTCCTTTTGTTTTATTTTATTTTTTAACTTTGATTTTTATATCTTTTTCCT
* * *
31661 ATATTTGTTATATTTTTTTGTTTTTCTTTGTATATTCTGAACTAAAAGTTTTTTCTATTTTGTAT
66 ATATTTGTTATATTTTTTTGTATTTCTTTGTATATTCTAAACTAAAAGTTTTTTCTATTTTATAT
* * *
31726 TTGAAATTTTTATTCATTTTTCTTTTATATTTTTTTATTCGCTAATTTTTTAATATCTTACTTTT
131 TTCAAATTTCTATTCATTTTTCTTTTATATTTTTTTATTCGCTAACTTTTTAATATCTTACTTTT
* *
31791 TTATTTTTTGCTTTTTTGGTATTTTATTGAATTTTTTCTTCTATATTAATATTTTATCTTAATTT
196 TTATTTTTTCCATTTTTGGTATTTTATTGAATTTTTTCTTCTATATTAATATTTTATCTTAATTT
** * * * * *
31856 ATTTTTCCATTTATTTTTATTTATATTTTAAAAAATTTTTATAAAGTTCAAAATTTTTTTTTTTT
261 ATTTTT-CATAAAATTTTA-TTAAAATTT-AAAAATTTTTAT--AGTTCAAAA-TTCTTTTTTCT
** ** * *
31921 TTTTTTTTTTTTTTTGCTATTTTTGTTCTACTTTGTAATTTTTTAATAACTTTTTCCCTTCACAA
320 TTTTTCATTTTCATT-CTATTTTTGTTCTACTTTGTAATTTTTAAATAACTTTTTCCCTTCAAAA
* * *
31986 TTTTCCTTCTTTTTGCTTTTCTTTTCATATGCTTTCATTTTTACTTGTTTTTATTTTTTCGTTGT
384 TTTTCCTTCTTTTTGCTTTTCTTTTCATATGCTTTCAGTGTTACTTCTTTTTATTTTTTCGTTGT
32051 TTTAAAAATTTTTATTTTTTTTTTTTTATTCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCT
449 TTTAAAAATTTTTATTTTTTTTTTTTTATTCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCT
* * * * * *
32116 TGCTTTCTTTTTTTTTTTTTCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
514 TGCTTTCTTCTTATTTTTTTCACAAATTTCCTTTCATTTCTTATTTGCATCTTTAAATTATCAGA
32181 CTTTTTTT
1 CTTTTTTT
32189 ATTTTGCATT
Statistics
Matches: 505, Mismatches: 59, Indels: 56
0.81 0.10 0.09
Matches are distributed among these distances:
572 27 0.05
573 38 0.08
574 19 0.04
575 46 0.09
576 1 0.00
577 7 0.01
578 20 0.04
579 14 0.03
580 18 0.04
581 13 0.03
582 18 0.04
583 69 0.14
584 6 0.01
585 70 0.14
586 2 0.00
587 2 0.00
588 8 0.02
589 19 0.04
590 49 0.10
592 1 0.00
593 57 0.11
594 1 0.00
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
Consensus pattern (578 bp):
CTTTTTTTGTGCACTTCCTTTTGTTTTATTTTATTTTTTAACTTTGATTTTTATATCTTTTTCCT
ATATTTGTTATATTTTTTTGTATTTCTTTGTATATTCTAAACTAAAAGTTTTTTCTATTTTATAT
TTCAAATTTCTATTCATTTTTCTTTTATATTTTTTTATTCGCTAACTTTTTAATATCTTACTTTT
TTATTTTTTCCATTTTTGGTATTTTATTGAATTTTTTCTTCTATATTAATATTTTATCTTAATTT
ATTTTTCATAAAATTTTATTAAAATTTAAAAATTTTTATAGTTCAAAATTCTTTTTTCTTTTTTC
ATTTTCATTCTATTTTTGTTCTACTTTGTAATTTTTAAATAACTTTTTCCCTTCAAAATTTTCCT
TCTTTTTGCTTTTCTTTTCATATGCTTTCAGTGTTACTTCTTTTTATTTTTTCGTTGTTTTAAAA
ATTTTTATTTTTTTTTTTTTATTCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTC
TTCTTATTTTTTTCACAAATTTCCTTTCATTTCTTATTTGCATCTTTAAATTATCAGA
Done.