Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 1 of 213
Found at i:2722 original size:14 final size:14
Alignment explanation
Indices: 2703--2736 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2693 ATTTCATTTT
**
2703 ATATTAATTGTATA
1 ATATTAATTAAATA
2717 ATATTAATTAAATA
1 ATATTAATTAAATA
2731 ATATTA
1 ATATTA
2737 TAATTGCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
ATATTAATTAAATA
Found at i:4829 original size:21 final size:21
Alignment explanation
Indices: 4797--4837 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4787 TCCTGCAGCA
4797 TAAAAAATCTGAACCGGACAC
1 TAAAAAATCTGAACCGGACAC
4818 TAAAAGAA-CTGAACCGGACA
1 TAAAA-AATCTGAACCGGACA
4838 GGGGAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (21 bp):
TAAAAAATCTGAACCGGACAC
Found at i:5564 original size:40 final size:40
Alignment explanation
Indices: 5507--5590 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
5497 CTACGTGCGT
*
5507 CACAACTCCCACTGGGTTCCTAGAACCAAAATCAAGCCAA
1 CACAACTCCCACCGGGTTCCTAGAACCAAAATCAAGCCAA
5547 CACAACTCCCACCGGGTTCCTAGAACCAAAATCAAGCCAA
1 CACAACTCCCACCGGGTTCCTAGAACCAAAATCAAGCCAA
5587 CACA
1 CACA
5591 GATGCAGTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.38, C:0.37, G:0.12, T:0.13
Consensus pattern (40 bp):
CACAACTCCCACCGGGTTCCTAGAACCAAAATCAAGCCAA
Found at i:6901 original size:15 final size:15
Alignment explanation
Indices: 6878--6913 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
6868 CTTTTATTCC
*
6878 TTTCCTTACACTGTA
1 TTTCTTTACACTGTA
6893 TTTCTTTACACTGTA
1 TTTCTTTACACTGTA
6908 TTTCTT
1 TTTCTT
6914 CCTCCTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.22, G:0.06, T:0.56
Consensus pattern (15 bp):
TTTCTTTACACTGTA
Found at i:10037 original size:22 final size:23
Alignment explanation
Indices: 10011--10053 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10001 ATTTAGAATT
*
10011 TAAAC-TAAAATGATAAATTTTG
1 TAAACATAAAAGGATAAATTTTG
*
10033 TAAACATTAAAGGATAAATTT
1 TAAACATAAAAGGATAAATTT
10054 GTTGAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (23 bp):
TAAACATAAAAGGATAAATTTTG
Found at i:10552 original size:35 final size:35
Alignment explanation
Indices: 10503--10642 Score: 235
Period size: 35 Copynumber: 4.0 Consensus size: 35
10493 ACTCAACCTT
**
10503 TGCAATCGACAGTCAGTCGCGCGGCTCGCAAGCAG
1 TGCAATCGGTAGTCAGTCGCGCGGCTCGCAAGCAG
10538 TGCAATCGGTAGTCAGTCGCGCGGCTCGCAAGCAG
1 TGCAATCGGTAGTCAGTCGCGCGGCTCGCAAGCAG
*
10573 TGCAATCGGTAGTCAGTCGCGCGGATCGCAAGCAG
1 TGCAATCGGTAGTCAGTCGCGCGGCTCGCAAGCAG
* *
10608 TGCAATCGGTAGTCAGTTGCGCAGCTCGCAAGCAG
1 TGCAATCGGTAGTCAGTCGCGCGGCTCGCAAGCAG
10643 CAAGCTCGTC
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 99 1.00
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.17
Consensus pattern (35 bp):
TGCAATCGGTAGTCAGTCGCGCGGCTCGCAAGCAG
Found at i:13453 original size:28 final size:28
Alignment explanation
Indices: 13413--13466 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
13403 AATTTTAAAC
13413 TAAAAATTAAAAATACGAGTAATAATTT
1 TAAAAATTAAAAATACGAGTAATAATTT
13441 TAAAAATTAAAAATACGAGTAATAAT
1 TAAAAATTAAAAATACGAGTAATAAT
13467 CTTTGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (28 bp):
TAAAAATTAAAAATACGAGTAATAATTT
Found at i:17253 original size:4 final size:4
Alignment explanation
Indices: 17244--17291 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
17234 ATCTCCCTCA
17244 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
17292 AACTGGATTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:20311 original size:35 final size:35
Alignment explanation
Indices: 20265--20369 Score: 165
Period size: 35 Copynumber: 3.0 Consensus size: 35
20255 GACGAGCTTG
*
20265 CTGCTTGCGAGCTGCGCAACTGACTACCGATTGCA
1 CTGCTTGCGAGCTGCGCGACTGACTACCGATTGCA
*
20300 CTGCTTGCGAGCCGCGCGACTGACTACCGATTGCA
1 CTGCTTGCGAGCTGCGCGACTGACTACCGATTGCA
* * *
20335 TTGCTTGCGAGTTGCGCGACTGACTGCCGATTGCA
1 CTGCTTGCGAGCTGCGCGACTGACTACCGATTGCA
20370 AGGGTTGAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 64 1.00
ACGTcount: A:0.17, C:0.30, G:0.29, T:0.24
Consensus pattern (35 bp):
CTGCTTGCGAGCTGCGCGACTGACTACCGATTGCA
Found at i:20387 original size:33 final size:34
Alignment explanation
Indices: 20283--20387 Score: 95
Period size: 35 Copynumber: 3.1 Consensus size: 34
20273 GAGCTGCGCA
** ** *
20283 ACTGACTACCGATTGCACTGCTTGCGAGCCGCGCG
1 ACTGACTACCGATTGCAAGGCTT-CGAGTTGAGCG
** *
20318 ACTGACTACCGATTGCATTGCTTGCGAGTTGCGCG
1 ACTGACTACCGATTGCAAGGCTT-CGAGTTGAGCG
* *
20353 ACTGACTGCCGATTGCAAGGGTT-GAGTTGAGCG
1 ACTGACTACCGATTGCAAGGCTTCGAGTTGAGCG
20386 AC
1 AC
20388 GGAAAGAGGC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 11 0.18
35 51 0.82
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (34 bp):
ACTGACTACCGATTGCAAGGCTTCGAGTTGAGCG
Found at i:30553 original size:54 final size:54
Alignment explanation
Indices: 30481--30592 Score: 197
Period size: 54 Copynumber: 2.1 Consensus size: 54
30471 TTTAACTGTT
* * *
30481 AACATTTATAAATTATGTCAATTTATTCTTGGTTTTAAAACGAATTTAACCATC
1 AACATTTATAAATTATGTCAATTTAATCTTGATTCTAAAACGAATTTAACCATC
30535 AACATTTATAAATTATGTCAATTTAATCTTGATTCTAAAACGAATTTAACCATC
1 AACATTTATAAATTATGTCAATTTAATCTTGATTCTAAAACGAATTTAACCATC
30589 AACA
1 AACA
30593 AATCCACATT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.39
Consensus pattern (54 bp):
AACATTTATAAATTATGTCAATTTAATCTTGATTCTAAAACGAATTTAACCATC
Found at i:30995 original size:18 final size:18
Alignment explanation
Indices: 30972--31012 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
30962 ATATTAATTT
30972 TATAACTTTTCATACTTA
1 TATAACTTTTCATACTTA
30990 TATAACTTTTCATACTTA
1 TATAACTTTTCATACTTA
*
31008 GATAA
1 TATAA
31013 ATAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (18 bp):
TATAACTTTTCATACTTA
Found at i:37159 original size:56 final size:58
Alignment explanation
Indices: 37098--37219 Score: 162
Period size: 56 Copynumber: 2.2 Consensus size: 58
37088 TTAAAATTTC
* *
37098 ATAACCTTC-GTTACTT-ACGGTTTGTTTAAGGTTACACACAAAATTAATG-AAAAATT
1 ATAACCTTCTGCTACTTGA-GGTTTGCTTAAGGTTACACACAAAATTAATGAAAAAATT
* **
37154 ATAACC-TCTGCTGCTTGAGGTTTGCTTAAGGTTGTACACAAAATTAATGAAAAAATT
1 ATAACCTTCTGCTACTTGAGGTTTGCTTAAGGTTACACACAAAATTAATGAAAAAATT
37211 ATAACCTTC
1 ATAACCTTC
37220 ATCACTTATG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
55 2 0.04
56 39 0.68
57 14 0.25
58 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (58 bp):
ATAACCTTCTGCTACTTGAGGTTTGCTTAAGGTTACACACAAAATTAATGAAAAAATT
Found at i:38765 original size:6 final size:6
Alignment explanation
Indices: 38754--38783 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
38744 TATCTGCAGT
38754 AGTATC AGTATC AGTATC AGTATC AGTATC
1 AGTATC AGTATC AGTATC AGTATC AGTATC
38784 TATATGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (6 bp):
AGTATC
Found at i:39811 original size:12 final size:12
Alignment explanation
Indices: 39796--39854 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
39786 TAAAAATAAT
39796 AATAAAGAAAAA
1 AATAAAGAAAAA
* *
39808 AATACAGAAACA
1 AATAAAGAAAAA
*
39820 ACTAAAAGAAAAA
1 AAT-AAAGAAAAA
*
39833 AATTAAGAACAAA
1 AATAAAGAA-AAA
39846 GAATAAAGA
1 -AATAAAGA
39855 TTTAAAACAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 17 0.47
13 12 0.33
14 7 0.19
ACGTcount: A:0.73, C:0.07, G:0.10, T:0.10
Consensus pattern (12 bp):
AATAAAGAAAAA
Found at i:40756 original size:19 final size:19
Alignment explanation
Indices: 40732--40768 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
40722 GGTGAACAAA
40732 AAGAATTTACTAATAGTTG
1 AAGAATTTACTAATAGTTG
40751 AAGAATTTACTAATAGTT
1 AAGAATTTACTAATAGTT
40769 CAGTGAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (19 bp):
AAGAATTTACTAATAGTTG
Found at i:42790 original size:22 final size:22
Alignment explanation
Indices: 42762--42811 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
42752 CTTCTTTACA
*
42762 TGTTTTATTATTGTTATATCAT
1 TGTTTTACTATTGTTATATCAT
**
42784 TGTTTTACTATTGTTATATTGT
1 TGTTTTACTATTGTTATATCAT
42806 TGTTTT
1 TGTTTT
42812 GACATCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.04, G:0.12, T:0.66
Consensus pattern (22 bp):
TGTTTTACTATTGTTATATCAT
Found at i:42808 original size:11 final size:11
Alignment explanation
Indices: 42762--42809 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
42752 CTTCTTTACA
*
42762 TGTTTTATTAT
1 TGTTATATTAT
*
42773 TGTTATATCAT
1 TGTTATATTAT
* *
42784 TGTTTTACTAT
1 TGTTATATTAT
*
42795 TGTTATATTGT
1 TGTTATATTAT
42806 TGTT
1 TGTT
42810 TTGACATCAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.19, C:0.04, G:0.12, T:0.65
Consensus pattern (11 bp):
TGTTATATTAT
Found at i:44480 original size:27 final size:27
Alignment explanation
Indices: 44449--44506 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
44439 TTTGGTTAAA
* * * *
44449 AATTAACCGAATTATCTGAATTAACTG
1 AATTAACCAAATTACCCGAATTAACCG
*
44476 AATTACCCAAATTACCCGAATTAACCG
1 AATTAACCAAATTACCCGAATTAACCG
44503 AATT
1 AATT
44507 GAATCACTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTAACCAAATTACCCGAATTAACCG
Found at i:44503 original size:9 final size:9
Alignment explanation
Indices: 44449--44506 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
44439 TTTGGTTAAA
44449 AATTAACCG
1 AATTAACCG
* *
44458 AATTATCTG
1 AATTAACCG
*
44467 AATTAACTG
1 AATTAACCG
* *
44476 AATTACCCA
1 AATTAACCG
*
44485 AATTACCCG
1 AATTAACCG
44494 AATTAACCG
1 AATTAACCG
44503 AATT
1 AATT
44507 GAATCACTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:44578 original size:21 final size:21
Alignment explanation
Indices: 44554--44595 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
44544 AATTAACACA
44554 TAAATTATTTGTAATTTTTAT
1 TAAATTATTTGTAATTTTTAT
44575 TAAATTATTTGTAATTTTTAT
1 TAAATTATTTGTAATTTTTAT
44596 GATTGGGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TAAATTATTTGTAATTTTTAT
Found at i:46370 original size:22 final size:21
Alignment explanation
Indices: 46344--46395 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
46334 ATAATTTAAA
46344 ATATACATTCATTTTCTATAGT
1 ATATACATTCATTTTC-ATAGT
* * *
46366 ATATATATACATTTTCATATT
1 ATATACATTCATTTTCATAGT
*
46387 ATAAACATT
1 ATATACATT
46396 TTTATTGTTC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (21 bp):
ATATACATTCATTTTCATAGT
Found at i:47523 original size:21 final size:21
Alignment explanation
Indices: 47499--47554 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
47489 AACAGCGGTG
*
47499 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
47520 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
47541 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
47555 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:47811 original size:20 final size:20
Alignment explanation
Indices: 47774--47812 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47764 TTTAATAAAC
* * *
47774 TATATAATCAATTTAAATTA
1 TATATAATAAAATAAAATTA
47794 TATATAATAAAATAAAATT
1 TATATAATAAAATAAAATT
47813 TTATCTATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TATATAATAAAATAAAATTA
Found at i:47972 original size:15 final size:16
Alignment explanation
Indices: 47940--47982 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47930 TATATTTATT
47940 AAATTATATAAAATTAA
1 AAATTAT-TAAAATTAA
*
47957 ATATTATTAAAA-TAA
1 AAATTATTAAAATTAA
*
47972 AAAGTATTAAA
1 AAATTATTAAA
47983 TAAGTATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 12 0.52
16 5 0.22
17 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATTATTAAAATTAA
Found at i:49716 original size:23 final size:22
Alignment explanation
Indices: 49676--49725 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
49666 TATGTATATA
*
49676 TATATTATAAAAAATATGTATG
1 TATATTATAAAAAATATGCATG
*
49698 TATATTATAAAAATGTATGCATG
1 TATATTATAAAAA-ATATGCATG
*
49721 CATAT
1 TATAT
49726 AAATATAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (22 bp):
TATATTATAAAAAATATGCATG
Found at i:57675 original size:17 final size:17
Alignment explanation
Indices: 57653--57687 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
57643 CTTTGGGCTG
* *
57653 TGATTTGAATGGGGTTT
1 TGATTTCAATGGGCTTT
57670 TGATTTCAATGGGCTTT
1 TGATTTCAATGGGCTTT
57687 T
1 T
57688 CCGGAACAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.29, T:0.49
Consensus pattern (17 bp):
TGATTTCAATGGGCTTT
Found at i:64670 original size:26 final size:27
Alignment explanation
Indices: 64641--64691 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
64631 GTAATGATTT
* *
64641 AATGTGATTCATTGAT-ATGCATCATG
1 AATGTGATGCATTCATAATGCATCATG
*
64667 AATGTTATGCATTCATAATGCATCA
1 AATGTGATGCATTCATAATGCATCA
64692 AATATTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (27 bp):
AATGTGATGCATTCATAATGCATCATG
Found at i:68685 original size:5 final size:5
Alignment explanation
Indices: 68675--68703 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
68665 AAGGTACTCT
68675 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
68704 TTGGTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:79413 original size:21 final size:21
Alignment explanation
Indices: 79384--79433 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
79374 AGAATAGATT
* *
79384 TAATATTTATTGTTTAAACAA
1 TAATATTTATTGTGTAAAAAA
*
79405 TATTATTTATTGTGTAAAAAA
1 TAATATTTATTGTGTAAAAAA
79426 TAATATTT
1 TAATATTT
79434 TTAAAGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (21 bp):
TAATATTTATTGTGTAAAAAA
Found at i:89933 original size:21 final size:21
Alignment explanation
Indices: 89901--89941 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
89891 GAACATTTGG
89901 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
89922 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
89942 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:92366 original size:19 final size:19
Alignment explanation
Indices: 92344--92390 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
92334 AATTTAGAAT
92344 TAATAATATATATTAAAT-A
1 TAATAATATA-ATTAAATAA
*
92363 TAATAATATAATTTAATAA
1 TAATAATATAATTAAATAA
*
92382 TAAAAATAT
1 TAATAATAT
92391 CAAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATAATATAATTAAATAA
Found at i:92455 original size:25 final size:25
Alignment explanation
Indices: 92426--92473 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
92416 TTATAGATAG
*
92426 TTCAAATCAATTATTACCTAATTCA
1 TTCAAATCAATTATTACCAAATTCA
92451 TTCAAATCAATTATTACCAAATT
1 TTCAAATCAATTATTACCAAATT
92474 TGAATTTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (25 bp):
TTCAAATCAATTATTACCAAATTCA
Found at i:99423 original size:19 final size:19
Alignment explanation
Indices: 99399--99435 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
99389 AAACACCTAA
99399 TATTTATTTATTAAGTATT
1 TATTTATTTATTAAGTATT
99418 TATTTATTTATTAAGTAT
1 TATTTATTTATTAAGTAT
99436 GCAAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TATTTATTTATTAAGTATT
Found at i:128528 original size:33 final size:34
Alignment explanation
Indices: 128470--128553 Score: 143
Period size: 33 Copynumber: 2.4 Consensus size: 34
128460 AAGCAGACAC
128470 AATAGTAAGACTTACTTTGTTTCAAAAAAAAAAA
1 AATAGTAAGACTTACTTTGTTTCAAAAAAAAAAA
128504 AATAGTAAGACTTAC-TTGTTTCAAAAAAAAAAA
1 AATAGTAAGACTTACTTTGTTTCAAAAAAAAAAA
128537 AATAGTAATAGACTTAC
1 AATAGT-A-AGACTTAC
128554 AAGCATCATC
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
33 24 0.50
34 16 0.33
35 8 0.17
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (34 bp):
AATAGTAAGACTTACTTTGTTTCAAAAAAAAAAA
Found at i:133969 original size:28 final size:28
Alignment explanation
Indices: 133936--133992 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
133926 CATCATTTTA
* *
133936 TGTGTATAATCACACTAAATCAAACTTT
1 TGTGTATAATCACAATAAATCAAAATTT
* *
133964 TGTGTATAATTACAATAAATTAAAATTT
1 TGTGTATAATCACAATAAATCAAAATTT
133992 T
1 T
133993 ATATATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (28 bp):
TGTGTATAATCACAATAAATCAAAATTT
Found at i:133999 original size:28 final size:28
Alignment explanation
Indices: 133940--134000 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
133930 ATTTTATGTG
* * * *
133940 TATAATCACACTAAATCAAACTTTTGTG
1 TATAATCACAATAAATCAAAATTTTATA
* *
133968 TATAATTACAATAAATTAAAATTTTATA
1 TATAATCACAATAAATCAAAATTTTATA
133996 TATAA
1 TATAA
134001 AATTGTATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (28 bp):
TATAATCACAATAAATCAAAATTTTATA
Found at i:143401 original size:18 final size:19
Alignment explanation
Indices: 143369--143407 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
143359 TAGTTCTTTT
143369 TTTTCCTATTATATTAGTA
1 TTTTCCTATTATATTAGTA
*
143388 TTTT-CTATTCTATTAGTA
1 TTTTCCTATTATATTAGTA
143406 TT
1 TT
143408 AGATTAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTCCTATTATATTAGTA
Found at i:146169 original size:63 final size:62
Alignment explanation
Indices: 146053--146181 Score: 163
Period size: 63 Copynumber: 2.1 Consensus size: 62
146043 TGCACTTAAC
* * *
146053 AAATTGGCATGAATAAATCAATATGTAAATCCCACTTCGACCTGACTTCCAAAAATTATCTTA
1 AAATCGGCATGAAGAAATCAATATGTAAATCCCACTTCGACCTAACTTCC-AAAATTATCTTA
* * *
146116 AAATCGGCATGAAGAAATCAATACT-TAAATCCGACTTTGACAC-AACTTTCAAAATTATCTTA
1 AAATCGGCATGAAGAAATCAATA-TGTAAATCCCACTTCGAC-CTAACTTCCAAAATTATCTTA
146178 AAAT
1 AAAT
146182 TTGTAGACCA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
62 16 0.28
63 40 0.69
64 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (62 bp):
AAATCGGCATGAAGAAATCAATATGTAAATCCCACTTCGACCTAACTTCCAAAATTATCTTA
Found at i:155729 original size:18 final size:19
Alignment explanation
Indices: 155708--155745 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
155698 TAATTTTTCT
*
155708 AAAATTTTAAATAT-ATTA
1 AAAATGTTAAATATAATTA
*
155726 AAAATGTTAAGTATAATTA
1 AAAATGTTAAATATAATTA
155745 A
1 A
155746 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
AAAATGTTAAATATAATTA
Found at i:155768 original size:23 final size:26
Alignment explanation
Indices: 155714--155773 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 26
155704 TTCTAAAATT
155714 TTAAATATATTAAAAATGTTAAGTATAA
1 TTAAAT-T-TTAAAAATGTTAAGTATAA
* *
155742 TT-AATTTTAAAAGT-TTAA-TATAT
1 TTAAATTTTAAAAATGTTAAGTATAA
155765 TTAAATTTT
1 TTAAATTTT
155774 TAATATACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 6 0.21
24 10 0.34
25 7 0.24
26 1 0.03
27 3 0.10
28 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (26 bp):
TTAAATTTTAAAAATGTTAAGTATAA
Found at i:155769 original size:17 final size:17
Alignment explanation
Indices: 155747--155785 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
155737 TATAATTAAT
155747 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
**
155764 TTTAAATTTTTAATATA
1 TTTAAAAGTTTAATATA
*
155781 CTTAA
1 TTTAA
155786 TACATATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:155844 original size:8 final size:8
Alignment explanation
Indices: 155831--155889 Score: 55
Period size: 8 Copynumber: 6.9 Consensus size: 8
155821 TCTTAATATA
155831 TTTAAAAT
1 TTTAAAAT
*
155839 TTTAAAAAAA
1 TTT--AAAAT
*
155849 TTAAAAAT
1 TTTAAAAT
155857 TTTAAAAAT
1 TTT-AAAAT
155866 TTTAAAAT
1 TTTAAAAT
155874 TTTAAATAT
1 TTTAAA-AT
*
155883 ATTAAAA
1 TTTAAAA
155890 ATGTTAAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 21 0.50
9 15 0.36
10 6 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TTTAAAAT
Found at i:155846 original size:9 final size:9
Alignment explanation
Indices: 155834--155896 Score: 74
Period size: 9 Copynumber: 7.1 Consensus size: 9
155824 TAATATATTT
155834 AAAATTTTA
1 AAAATTTTA
**
155843 AAAAAATTA
1 AAAATTTTA
155852 AAAATTTTA
1 AAAATTTTA
155861 AAAATTTT-
1 AAAATTTTA
155869 AAAATTTTA
1 AAAATTTTA
* *
155878 AATATATTA
1 AAAATTTTA
*
155887 AAAATGTTA
1 AAAATTTTA
155896 A
1 A
155897 GTATAACTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
8 8 0.18
9 37 0.82
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
AAAATTTTA
Found at i:155852 original size:17 final size:17
Alignment explanation
Indices: 155832--155889 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
155822 CTTAATATAT
*
155832 TTAAAATTTTAAAAAAA
1 TTAAAATTTTAAAAATA
*
155849 TTAAAAATTTTAAAAATT
1 TT-AAAATTTTAAAAATA
*
155867 TTAAAATTTTAAATATA
1 TTAAAATTTTAAAAATA
155884 TTAAAA
1 TTAAAA
155890 ATGTTAAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
17 21 0.58
18 15 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAATTTTAAAAATA
Found at i:155887 original size:161 final size:167
Alignment explanation
Indices: 155707--156105 Score: 460
Period size: 168 Copynumber: 2.4 Consensus size: 167
155697 TTAATTTTTC
* *
155707 TAAAATTTTAAATATATTAAAAATGTTAAGTATAATTAATTTTAAAAGTTTAATATATT-TAA-A
1 TAAAATTTTAAATATATTAAAAATGTTAAGTATAACTAATTTTAAAAGTTTAATATATTAAAATA
* *
155770 T-TTTTAATATACTTAATACATATTT-TTA-ATATTTAA-AGACAAA-A-A-AA-ATTTTCTTAA
66 TATTTTAA-AAACTTAAT--ATATTTAATATATATTTAATAGACAAAGAGAGAAGATTTT-TTAA
** *
155827 TATATTTAAAATTTTAAAAAAATTAAAAATTTTAAAAATTT
127 TATATTTAAAATTTTAAAAAAATTAAAAAAATTAAAAATAT
*
155868 TAAAATTTTAAATATATTAAAAATGTTAAGTATAACTAATTTTAAAATTTTAATATATTCAAAAT
1 TAAAATTTTAAATATATTAAAAATGTTAAGTATAACTAATTTTAAAAGTTTAATATATT-AAAAT
* * *
155933 ATATTTTAAAAATTTAATATATTTAATATATTTTTAATAGATAAAGAGAGAAGATTTTTTAATAT
65 ATATTTTAAAAACTTAATATATTTAATATATATTTAATAGACAAAGAGAGAAGATTTTTTAATAT
* *
155998 ATTTAAAATTTTAAAAAACTTAAAAAAATTAAATATAT
130 ATTTAAAATTTTAAAAAAATTAAAAAAATTAAAAATAT
* * ** *
156036 TAAAATTTTAAATATGTTAAAGAAAATGTTGAGTATAACCGA-TTTAAAATTTTTAATATACTTA
1 TAAAATTTTAAATATATT--A-AAAATGTTAAGTATAACTAATTTTAAAA-GTTTAATATA-TTA
*
156100 ATATAT
61 AAATAT
156106 TTAAATATAT
Statistics
Matches: 204, Mismatches: 18, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
161 57 0.28
162 6 0.03
163 4 0.02
164 16 0.08
165 12 0.06
166 1 0.00
167 1 0.00
168 59 0.29
169 5 0.02
170 8 0.04
171 33 0.16
172 2 0.01
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (167 bp):
TAAAATTTTAAATATATTAAAAATGTTAAGTATAACTAATTTTAAAAGTTTAATATATTAAAATA
TATTTTAAAAACTTAATATATTTAATATATATTTAATAGACAAAGAGAGAAGATTTTTTAATATA
TTTAAAATTTTAAAAAAATTAAAAAAATTAAAAATAT
Found at i:155935 original size:52 final size:50
Alignment explanation
Indices: 155854--155953 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 50
155844 AAAAATTAAA
**
155854 AATTTTAAAAATTTTAAAATTTTAAATATA-TTAAAAATGTTAAGTATAACT
1 AATTTTAAAAATTTTAAAATTCAAAATATATTTAAAAAT-TTAA-TATAACT
155905 AATTTT-AAAATTTTAATATATTCAAAATATATTTTAAAAATTTAATATA
1 AATTTTAAAAATTTTAA-A-ATTCAAAATATA-TTTAAAAATTTAATATA
155954 TTTAATATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
50 10 0.23
51 7 0.16
52 14 0.33
53 4 0.09
54 8 0.19
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (50 bp):
AATTTTAAAAATTTTAAAATTCAAAATATATTTAAAAATTTAATATAACT
Found at i:155948 original size:29 final size:29
Alignment explanation
Indices: 155906--155969 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
155896 AGTATAACTA
*
155906 ATTTTAAAATTTTAATATATTCAAAATAT
1 ATTTTAAAAATTTAATATATTCAAAATAT
* *
155935 ATTTTAAAAATTTAATATATTTAATATAT
1 ATTTTAAAAATTTAATATATTCAAAATAT
155964 -TTTTAA
1 ATTTTAA
155970 TAGATAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTTTAAAAATTTAATATATTCAAAATAT
Found at i:156011 original size:17 final size:17
Alignment explanation
Indices: 155988--156056 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
155978 GAGAGAAGAT
*
155988 TTTTTAATATATTTAAAA
1 TTTTAAATATA-TTAAAA
*
156006 TTTTAAA-AAACTTAAAAA
1 TTTTAAATATA-TT-AAAA
**
156024 AATTAAATATATTAAAA
1 TTTTAAATATATTAAAA
*
156041 TTTTAAATATGTTAAA
1 TTTTAAATATATTAAA
156057 GAAAATGTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
17 21 0.52
18 17 0.43
19 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
TTTTAAATATATTAAAA
Found at i:156056 original size:35 final size:37
Alignment explanation
Indices: 155993--156062 Score: 99
Period size: 35 Copynumber: 1.9 Consensus size: 37
155983 AAGATTTTTT
155993 AATATATTTAAAATTTTAAAAAACTTAAA-AAAATTA
1 AATATATTTAAAATTTTAAAAAACTTAAAGAAAATTA
* **
156029 AATATA-TTAAAATTTTAAATATGTTAAAGAAAAT
1 AATATATTTAAAATTTTAAAAAACTTAAAGAAAAT
156063 GTTGAGTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 19 0.63
36 11 0.37
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (37 bp):
AATATATTTAAAATTTTAAAAAACTTAAAGAAAATTA
Found at i:156134 original size:17 final size:17
Alignment explanation
Indices: 156079--156141 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
156069 TATAACCGAT
*
156079 TTAAAATTTTTAATATA
1 TTAAAATTTTAAATATA
*
156096 CTTAATATATTTAAATATA
1 -TTAAAAT-TTTAAATATA
* *
156115 TTAAAATTTTGAACATA
1 TTAAAATTTTAAATATA
156132 TTAAAATTTT
1 TTAAAATTTT
156142 TTTAAGTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
17 18 0.46
18 12 0.31
19 9 0.23
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (17 bp):
TTAAAATTTTAAATATA
Found at i:156162 original size:80 final size:80
Alignment explanation
Indices: 155998--156168 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 80
155988 TTTTTAATAT
* *
155998 ATTTAAAA-TTTTAAAAAACTTAAAAAAATTAAATATATTAAAATTTTAAATATGTTAAAGAAAA
1 ATTTAAAATTTTTAAAAAACTTAAAAAAATTAAATATATTAAAATTTTAAACATATTAAAGAAAA
* *
156062 TGTTGAGTATAACCG
66 TGTTAAGTATAACCA
* * * * * * ***
156077 ATTTAAAATTTTTAATATACTTAATATATTTAAATATATTAAAATTTTGAACATATTAAA-ATTT
1 ATTTAAAATTTTTAAAAAACTTAAAAAAATTAAATATATTAAAATTTTAAACATATTAAAGAAAA
* *
156141 TTTTAAGTATAATCA
66 TGTTAAGTATAACCA
156156 ATTTTAAAATTTT
1 A-TTTAAAATTTT
156169 AATTTATTTT
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 21 0.28
80 54 0.72
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.43
Consensus pattern (80 bp):
ATTTAAAATTTTTAAAAAACTTAAAAAAATTAAATATATTAAAATTTTAAACATATTAAAGAAAA
TGTTAAGTATAACCA
Found at i:158005 original size:32 final size:32
Alignment explanation
Indices: 157951--158017 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
157941 GAGGCGGCAT
* *
157951 AAATGTATATATATTATAAATATTTAAAGTTA
1 AAATATATATATATTATAAATATTAAAAGTTA
157983 AAATATATATAATATTAT-AATATTAAAAGTTA
1 AAATATATAT-ATATTATAAATATTAAAAGTTA
158015 AAA
1 AAA
158018 GTTTAAGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 25 0.78
33 7 0.22
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (32 bp):
AAATATATATATATTATAAATATTAAAAGTTA
Found at i:158603 original size:36 final size:36
Alignment explanation
Indices: 158558--158661 Score: 190
Period size: 36 Copynumber: 2.9 Consensus size: 36
158548 GAGATATTAA
*
158558 ATGAGATTGAATTGTGTTGTATTGATGAATTTACAT
1 ATGAAATTGAATTGTGTTGTATTGATGAATTTACAT
*
158594 ATGAAATTGAATTGTGTTATATTGATGAATTTACAT
1 ATGAAATTGAATTGTGTTGTATTGATGAATTTACAT
158630 ATGAAATTGAATTGTGTTGTATTGATGAATTT
1 ATGAAATTGAATTGTGTTGTATTGATGAATTT
158662 TAATTGTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (36 bp):
ATGAAATTGAATTGTGTTGTATTGATGAATTTACAT
Found at i:158604 original size:18 final size:18
Alignment explanation
Indices: 158583--158642 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
158573 GTTGTATTGA
158583 TGAATTTACATATGAAAT
1 TGAATTTACATATGAAAT
**
158601 TGAATTGTGTTATATTG--A-
1 TGAATT-T-ACATA-TGAAAT
158619 TGAATTTACATATGAAAT
1 TGAATTTACATATGAAAT
158637 TGAATT
1 TGAATT
158643 GTGTTGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 2 0.06
16 3 0.09
17 2 0.06
18 18 0.56
19 2 0.06
20 3 0.09
21 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.43
Consensus pattern (18 bp):
TGAATTTACATATGAAAT
Found at i:158886 original size:24 final size:23
Alignment explanation
Indices: 158859--158905 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
158849 ATTGAAATAG
158859 ATTGATTTAGTATGTGA-TGAATTT
1 ATTGATTTA-TAT-TGATTGAATTT
158883 ATTGATTTATATTGATTGAATTT
1 ATTGATTTATATTGATTGAATTT
158906 GTATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 10 0.45
24 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (23 bp):
ATTGATTTATATTGATTGAATTT
Found at i:159105 original size:41 final size:40
Alignment explanation
Indices: 159060--159191 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 40
159050 CGACTTCGAG
159060 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAA
1 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAA
* *
159100 TTCGATGAGGCACTGGGTG-CTAA--T-TTACTTCGGTTTAA
1 -TCGATGAGACACTGGGTGTC-AATTTATTACTTCGGATTAA
* ** *
159138 CCGATGAGACACTATGTGTCAATTTATTACTTCGAATT-A
1 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAA
*
159177 TCTGATGAGGCACTG
1 TC-GATGAGACACTG
159192 CGTGCCAAAC
Statistics
Matches: 74, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
37 16 0.22
38 14 0.19
39 4 0.05
40 21 0.28
41 19 0.26
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.35
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAA
Found at i:159162 original size:37 final size:38
Alignment explanation
Indices: 159061--159163 Score: 111
Period size: 37 Copynumber: 2.7 Consensus size: 38
159051 GACTTCGAGT
*
159061 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAA--T-TTACTTCGGATTAATC
* *
159102 CGATGAGGCACTGGGTG-CTAATTTACTTCGGTTTAA-C
1 CGATGAGACACTGGGTGTC-AATTTACTTCGGATTAATC
**
159139 CGATGAGACACTATGTGTCAATTTA
1 CGATGAGACACTGGGTGTCAATTTA
159164 TTACTTCGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
37 20 0.37
38 14 0.26
39 1 0.02
40 1 0.02
41 18 0.33
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAATTTACTTCGGATTAATC
Found at i:160018 original size:31 final size:31
Alignment explanation
Indices: 159982--160056 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
159972 TTTTGTGTTG
*
159982 CTTATTGTTAAAGATTGTAAGGAATGGTAAA
1 CTTATTGTTAAAGATTGCAAGGAATGGTAAA
* * *
160013 CTTATTGTTCAAGCTTGCAGGGAATGGTAAA
1 CTTATTGTTAAAGATTGCAAGGAATGGTAAA
*
160044 CTTCTTGTTAAAG
1 CTTATTGTTAAAG
160057 TTTTTACTGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (31 bp):
CTTATTGTTAAAGATTGCAAGGAATGGTAAA
Found at i:167442 original size:19 final size:19
Alignment explanation
Indices: 167418--167456 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
167408 TAGATTGCCG
167418 CAATTATACATACAATCAA
1 CAATTATACATACAATCAA
167437 CAATTATACATACAATCAA
1 CAATTATACATACAATCAA
167456 C
1 C
167457 TATATATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (19 bp):
CAATTATACATACAATCAA
Found at i:178498 original size:31 final size:31
Alignment explanation
Indices: 178463--178532 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
178453 TTACAAAATG
178463 GTTATTGAACCATTCGAAAATTTTCATTTAA
1 GTTATTGAACCATTCGAAAATTTTCATTTAA
* *
178494 GTTATTGAACTATTCGAAAATTTTTATTTAA
1 GTTATTGAACCATTCGAAAATTTTCATTTAA
178525 GTTATTGA
1 GTTATTGA
178533 GTTGTTAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (31 bp):
GTTATTGAACCATTCGAAAATTTTCATTTAA
Found at i:186905 original size:19 final size:19
Alignment explanation
Indices: 186881--186919 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
186871 TCGAACTTAA
186881 TCAAGCATCTATTTTAAAG
1 TCAAGCATCTATTTTAAAG
186900 TCAAGCATCTATTTTAAAG
1 TCAAGCATCTATTTTAAAG
186919 T
1 T
186920 AAAGTAGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCAAGCATCTATTTTAAAG
Found at i:196368 original size:172 final size:171
Alignment explanation
Indices: 196066--196374 Score: 469
Period size: 172 Copynumber: 1.8 Consensus size: 171
196056 AATGTCATTG
* * *
196066 ACAATACATGACATAAAATCAAATAATTCTTGTACTGAAATAAATACTAAATCGTAAAACATCCA
1 ACAATACATGACATAAAATCAAAGAATTCTTGTACTGAAATAAAGACTAAATCGTAAAACAACCA
*
196131 ACCATCTTTCGATTTCCCAATCTGTGAAACTAAAGAACTATGGAACTCAAACCCAAGATAACTGC
66 ACCATCTTTCGATTTCCCAATCTGTGAAACTAAAGAAATATGGAACTCAAACCCAAGATAACTGC
196196 AGACATGGAGGAGAAACATGAACACAACATGTATGCCACTA
131 AGACATGGAGGAGAAACATGAACACAACATGTATGCCACTA
* * * * *
196237 ACAATACATGACAATACAATCAAAGAATGTC-TGTACTGAAATAAAGACTAAATCTTCAGATAAC
1 ACAATACATGAC-ATAAAATCAAAGAAT-TCTTGTACTGAAATAAAGACTAAATCGTAAAACAAC
** *
196301 CAACTGTCTTTCGATTATCCCAATTTGTGAAACTAAAGAAATATGGAACTCAAACCC-AGATAAC
64 CAACCATCTTTCGATT-TCCCAATCTGTGAAACTAAAGAAATATGGAACTCAAACCCAAGATAAC
196365 TGCAGACATG
128 TGCAGACATG
196375 TCATAGAAAC
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
171 12 0.10
172 71 0.58
173 40 0.33
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (171 bp):
ACAATACATGACATAAAATCAAAGAATTCTTGTACTGAAATAAAGACTAAATCGTAAAACAACCA
ACCATCTTTCGATTTCCCAATCTGTGAAACTAAAGAAATATGGAACTCAAACCCAAGATAACTGC
AGACATGGAGGAGAAACATGAACACAACATGTATGCCACTA
Found at i:196603 original size:148 final size:147
Alignment explanation
Indices: 196247--196663 Score: 534
Period size: 148 Copynumber: 2.8 Consensus size: 147
196237 ACAATACATG
* * **
196247 ACAATACAATCAAAGAATGTCTGTACTGAAATAAAGACTAAATCTTCAGATAACCAACTGTCTTT
1 ACAATACAATCAAAGAATGTCTGTACTGAAATAAAGACTGAATCTTCACATAACCAACCATCTTT
* * *
196312 CGATTATCCCAATTTGTGAAACTAAAGAAATATGGAACTCAAACCCAGATAACTGCAGACATGTC
66 CGATTATCCCAATCTGTGAAACTAAAGAAATATGGAACTCAAACCCAGATAACTGCAAACACGTC
*
196377 ATAGAAACACGCCACCA
131 ATACAAACACGCCACCA
* * *
196394 ACAACACAATCAAAGAACGTCTGTACTGAAATAAAGACTGTATCTTCACATAACCAACCATCTTT
1 ACAATACAATCAAAGAATGTCTGTACTGAAATAAAGACTGAATCTTCACATAACCAACCATCTTT
* * * *
196459 CGGTTATCTCAATCTGTGAAACTAAAGAAATATGGAACTCAAACCCATATCA-TAG-AAACACGA
66 CGATTATCCCAATCTGTGAAACTAAAGAAATATGGAACTCAAACCCAGATAACT-GCAAACACG-
* * * *
196522 ATACA-ACATATATGCCACTA
129 -T-CATACAAACACGCCACCA
* * * * * *
196542 ACAATACAATCAAAGAATGTCCGTACTGAATTGAAGACTGCATCTTCACATAACCACCCATCTCT
1 ACAATACAATCAAAGAATGTCTGTACTGAAATAAAGACTGAATCTTCACATAACCAACCATCTTT
* *
196607 CGATTATCCCAATCAGTGAAACTAAAGAAATATGGAACTCTAACCCAGATAACTGCA
66 CGATTATCCCAATCTGTGAAACTAAAGAAATATGGAACTCAAACCCAGATAACTGCA
196664 GACAACTGAG
Statistics
Matches: 231, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
146 6 0.03
147 106 0.46
148 115 0.50
149 4 0.02
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.23
Consensus pattern (147 bp):
ACAATACAATCAAAGAATGTCTGTACTGAAATAAAGACTGAATCTTCACATAACCAACCATCTTT
CGATTATCCCAATCTGTGAAACTAAAGAAATATGGAACTCAAACCCAGATAACTGCAAACACGTC
ATACAAACACGCCACCA
Found at i:204468 original size:21 final size:21
Alignment explanation
Indices: 204442--204482 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
204432 ATCTGCTTAA
* *
204442 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
204463 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
204483 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:211516 original size:12 final size:11
Alignment explanation
Indices: 211485--211509 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
211475 AGTGAATCTA
211485 GGGAATTTTTT
1 GGGAATTTTTT
211496 GGGAATTTTTT
1 GGGAATTTTTT
211507 GGG
1 GGG
211510 GTATTTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (11 bp):
GGGAATTTTTT
Found at i:213041 original size:15 final size:16
Alignment explanation
Indices: 213009--213043 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
212999 AATTGGGCTG
213009 GAAAAATACAAAACAA
1 GAAAAATACAAAACAA
*
213025 GAAAAATAGAAAA-AA
1 GAAAAATACAAAACAA
213040 GAAA
1 GAAA
213044 CTTTTAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (16 bp):
GAAAAATACAAAACAA
Found at i:217781 original size:4 final size:4
Alignment explanation
Indices: 217772--217804 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
217762 AATGCACCTG
217772 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
217805 CATGAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:219104 original size:268 final size:268
Alignment explanation
Indices: 218339--219139 Score: 1176
Period size: 259 Copynumber: 3.0 Consensus size: 268
218329 TGGTTGTCAT
* * *
218339 CCCACTTCGGTAAAATCCGGGATTGCGTATGCTCTTTACATTCAAGTCAGCTTTAAGTTGGATTC
1 CCCACATCGGTTAAATCCGGGATTGCGTATGCTCTTTACATTCGAGTCAGCTTTAAGTTGGA-TC
* *
218404 C-GTTATATTGTTGTTGTTGTTGTTGTTGTTGCATGTTCGAGTTTATCAC-ATGATAGGCTATTA
65 CTGTTATA------TTGTTATTGTTGTTATTGCATGTTCGAGTTTATCACAAT-ATAGGCTATTA
*
218467 TATTATCTGCATATGGAGGTTTTTACTGCAGCCAATTGGTTTTAGCCTGCCAAAGTTCTTCCCCT
123 TATTATCTGCCTATGGAGGTTTTTACTGCAGCCAATTGGTTTTAGCCTGCCAAAGTTCTTCCCCT
* * *
218532 TTGTTGTAGTTTTCAGGGGATAAGCCTGCTGATTTGGAGGAACTCAGGTTGCAACCGGTTGATCC
188 TTGTTGTAGTTTCCAGGGGATAAGCCTGCTCATTTGGAGGAACTCGGGTTGCAACCGGTTGATCC
*
218597 AAATGATGTAAGGAAA
253 AAATGATGTAAGGAAG
* * * *
218613 CCTACATCGGTTAAATCCGGGATTGCGTATGCTCTTTACGTTCGAGTCAGCATTAAGTTGGATTC
1 CCCACATCGGTTAAATCCGGGATTGCGTATGCTCTTTACATTCGAGTCAGCTTTAAGTTGGATCC
**
218678 TG-TA-A----TA---TTGTTATTGCATGTTCGAGTTTATCACACGATAGGCTATTATATTATCT
66 TGTTATATTGTTATTGTTGTTATTGCATGTTCGAGTTTATCACAATATAGGCTATTATATTATCT
* *
218734 GCCTATGGAGGTTTTTACTGCAGCCAATTGGTTTTAGCCTGCCGAAGTTCTCCCCCTTTGTTGTA
131 GCCTATGGAGGTTTTTACTGCAGCCAATTGGTTTTAGCCTGCCAAAGTTCTTCCCCTTTGTTGTA
218799 GTTTCCAGGGGATAAGCCTGCTCATTTGGAGGAACTCGGGTTGCAACCGGTTGATCCAAATGATG
196 GTTTCCAGGGGATAAGCCTGCTCATTTGGAGGAACTCGGGTTGCAACCGGTTGATCCAAATGATG
218864 TAAGGAAG
261 TAAGGAAG
* ** * *
218872 CCCACATTGGTTAAATTTGGGATTGCGTATGCTCTTTACATTTGAGTCAGTTTTAAGTTGGATCC
1 CCCACATCGGTTAAATCCGGGATTGCGTATGCTCTTTACATTCGAGTCAGCTTTAAGTTGGATCC
* *
218937 TGTTATATTGTTATTGTTGTTATTGCATGTTTGAGTTTATCACAATATAGGCGATTATATTATCT
66 TGTTATATTGTTATTGTTGTTATTGCATGTTCGAGTTTATCACAATATAGGCTATTATATTATCT
* *
219002 ACCTATGGAGGTCTTTTACTGCAGCCAATTGGTTTTAGCCTGCCAAAGTTCTTCCCC-TTATTGT
131 GCCTATGGAGGT-TTTTACTGCAGCCAATTGGTTTTAGCCTGCCAAAGTTCTTCCCCTTTGTTGT
**
219066 AGTTTCCAGGGGATAAGCCTGCTCATTTGGAGGAACTCGGGTTGCAACCGGTTGATCTGAATGAT
195 AGTTTCCAGGGGATAAGCCTGCTCATTTGGAGGAACTCGGGTTGCAACCGGTTGATCCAAATGAT
219131 GTAAGGAAG
260 GTAAGGAAG
219140 GACCAAAAAT
Statistics
Matches: 478, Mismatches: 37, Indels: 30
0.88 0.07 0.06
Matches are distributed among these distances:
259 234 0.49
260 2 0.00
261 1 0.00
262 1 0.00
265 2 0.00
268 134 0.28
269 42 0.09
272 1 0.00
273 4 0.01
274 57 0.12
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (268 bp):
CCCACATCGGTTAAATCCGGGATTGCGTATGCTCTTTACATTCGAGTCAGCTTTAAGTTGGATCC
TGTTATATTGTTATTGTTGTTATTGCATGTTCGAGTTTATCACAATATAGGCTATTATATTATCT
GCCTATGGAGGTTTTTACTGCAGCCAATTGGTTTTAGCCTGCCAAAGTTCTTCCCCTTTGTTGTA
GTTTCCAGGGGATAAGCCTGCTCATTTGGAGGAACTCGGGTTGCAACCGGTTGATCCAAATGATG
TAAGGAAG
Found at i:233574 original size:180 final size:183
Alignment explanation
Indices: 233309--233687 Score: 446
Period size: 180 Copynumber: 2.1 Consensus size: 183
233299 AACCTAACAC
* * * *
233309 GAACCTAACAAGAACAAGTTTAAAAATAAACTAATATGAACAGAGACTCCTTTGTCCAACCTCGG
1 GAACCGAACAAGAACAAGTTCAAAAATAAACTAACATGAACAGAGACTCCTTAGTCCAACCTCGG
* **
233374 TTCATTCACAGCCGTGAATATATTGATAAACAGTTCATAAATCATTCTG-G-TCCT-G-TTCGTT
66 TTCATTCACAGCCATGAATATATCCATAAACAGTTCATAAATCATTCTGTGTTCCTAGCTTCGTT
*
233435 TATCAA-CTAAATAAATGAATATGAACAATATTTTGAAGCTCCATTTATTAAACT
131 TATCAAGCTAAATAAATGAACATGAA-AATATTTTGAAGCT-CATTTATTAAACT
* * * * *
233489 GAACCGAACACGAACAAGTTCAAAAATAAA-TGAACATGACCAGAGATTCCTTAGTTCAAGCTCG
1 GAACCGAACAAGAACAAGTTCAAAAATAAACT-AACATGAACAGAGACTCCTTAGTCCAACCTCG
* * * * **
233553 GTTCATTTACAGCCATGAATATATCCATGAATAGTTCATAAATCGTTCTGTTTCAGTTTTTTTAG
65 GTTCATTCACAGCCATGAATATATCCATAAACAGTTCATAAATCATTCTG--T--G--TTCCTAG
*
233618 CTTCGTTTATCAAGCTAAATAAATGAACATGAAAATATTTTGAGGCTCATTTATTAAACT
124 CTTCGTTTATCAAGCTAAATAAATGAACATGAAAATATTTTGAAGCTCATTTATTAAACT
*
233678 GAATCGAACA
1 GAACCGAACA
233688 TATACAGAGA
Statistics
Matches: 166, Mismatches: 21, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
179 1 0.01
180 96 0.58
185 1 0.01
188 2 0.01
189 23 0.14
190 25 0.15
191 18 0.11
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.31
Consensus pattern (183 bp):
GAACCGAACAAGAACAAGTTCAAAAATAAACTAACATGAACAGAGACTCCTTAGTCCAACCTCGG
TTCATTCACAGCCATGAATATATCCATAAACAGTTCATAAATCATTCTGTGTTCCTAGCTTCGTT
TATCAAGCTAAATAAATGAACATGAAAATATTTTGAAGCTCATTTATTAAACT
Found at i:235149 original size:36 final size:36
Alignment explanation
Indices: 235102--235184 Score: 139
Period size: 36 Copynumber: 2.3 Consensus size: 36
235092 ATCTGTGAAA
235102 ATTAAATCAAATCAAATTTCATGTATGACATTACAC
1 ATTAAATCAAATCAAATTTCATGTATGACATTACAC
* *
235138 ATTAAATCAAATCAAATTTCATGTATGACATTGCAT
1 ATTAAATCAAATCAAATTTCATGTATGACATTACAC
*
235174 ATTGAATCAAA
1 ATTAAATCAAA
235185 GTTTATGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (36 bp):
ATTAAATCAAATCAAATTTCATGTATGACATTACAC
Found at i:236175 original size:28 final size:28
Alignment explanation
Indices: 236139--236193 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
236129 ATATTTTTTA
*
236139 TAAAAATAAAATAATCATTTT-AAAAGT
1 TAAAAATAAAATAATAATTTTGAAAAGT
**
236166 TAAAATATAATTTAATAATTTTGAAAAG
1 TAAAA-ATAAAATAATAATTTTGAAAAG
236194 AGATAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 13 0.57
29 5 0.22
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.36
Consensus pattern (28 bp):
TAAAAATAAAATAATAATTTTGAAAAGT
Found at i:240062 original size:67 final size:65
Alignment explanation
Indices: 239955--240078 Score: 194
Period size: 67 Copynumber: 1.9 Consensus size: 65
239945 GTAAAGGGAA
* * * *
239955 GAAATTGCAAAATGTATGTATAGCTTTTTTTTTATTTAGTGCTGCAACAATGGTGAACTCTTAAG
1 GAAATTGCAAAATGTATGCATAGCCTTTGTTTGATTTAGTGCTGCAACAATGGTGAACTCTTAAG
240020 GAAATTGCAGATAATGTATGCATAGCCTTTGTTTGATTTAGTGCTGCAACAATGGTGAA
1 GAAATTGCA-A-AATGTATGCATAGCCTTTGTTTGATTTAGTGCTGCAACAATGGTGAA
240079 TCAAAGGAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 9 0.17
66 1 0.02
67 43 0.81
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (65 bp):
GAAATTGCAAAATGTATGCATAGCCTTTGTTTGATTTAGTGCTGCAACAATGGTGAACTCTTAAG
Found at i:244001 original size:31 final size:31
Alignment explanation
Indices: 243964--244040 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
243954 TAAGTTTACA
*
243964 TTTTAATTTAAGTTACTAAATTATTCGAAAG
1 TTTTAATTTAAGTCACTAAATTATTCGAAAG
*
243995 TTTTAATTGAAGTCACTAAATTATTCGAAAG
1 TTTTAATTTAAGTCACTAAATTATTCGAAAG
*
244026 TTTTTATTTAAGTCA
1 TTTTAATTTAAGTCA
244041 TCAGGCTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.45
Consensus pattern (31 bp):
TTTTAATTTAAGTCACTAAATTATTCGAAAG
Found at i:245685 original size:30 final size:30
Alignment explanation
Indices: 245646--245702 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
245636 TTTTATAAAT
*
245646 AATTAATATTT-ATTTATTTAAAATATTTAA
1 AATTAATATTTCATATA-TTAAAATATTTAA
*
245676 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
245703 AACAACAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:246947 original size:15 final size:15
Alignment explanation
Indices: 246929--246972 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
246919 TACTTACTGT
246929 TATAAATATAATATA
1 TATAAATATAATATA
*
246944 TATAAATAAAATA-A
1 TATAAATATAATATA
*
246958 AAT-AATATAATATA
1 TATAAATATAATATA
246972 T
1 T
246973 TACAAACACA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 8 0.33
14 4 0.17
15 12 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATATAATATA
Found at i:247717 original size:22 final size:22
Alignment explanation
Indices: 247692--247752 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 22
247682 TTTAATTTAA
247692 TATTTAATAATTTAATATTTTT
1 TATTTAATAATTTAATATTTTT
247714 TA-TT--T-A-TTAAT-TTTTT
1 TATTTAATAATTTAATATTTTT
*
247730 TATATAATAATTTTAATATTTTT
1 TATTTAATAA-TTTAATATTTTT
247753 ATTACTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 13
0.69 0.02 0.29
Matches are distributed among these distances:
16 7 0.23
17 6 0.19
18 1 0.03
19 2 0.06
20 1 0.03
21 2 0.06
22 7 0.23
23 5 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTTAATAATTTAATATTTTT
Found at i:252775 original size:26 final size:25
Alignment explanation
Indices: 252746--252802 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 25
252736 TAAAATTTCA
252746 TTCGCCTACTAAAAAATTGTTCTGGC
1 TTCGCC-ACTAAAAAATTGTTCTGGC
*
252772 TTCGCCCCTAAAAAATTGTTCTGGC
1 TTCGCCACTAAAAAATTGTTCTGGC
252797 TTCGCC
1 TTCGCC
252803 CTGATTAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 24 0.80
26 6 0.20
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (25 bp):
TTCGCCACTAAAAAATTGTTCTGGC
Found at i:252804 original size:24 final size:25
Alignment explanation
Indices: 252754--252803 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
252744 CATTCGCCTA
252754 CTAAAAAATTGTTCTGGCTTCGCCC
1 CTAAAAAATTGTTCTGGCTTCGCCC
252779 CTAAAAAATTGTTCTGGCTTCGCCC
1 CTAAAAAATTGTTCTGGCTTCGCCC
252804 TGATTAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (25 bp):
CTAAAAAATTGTTCTGGCTTCGCCC
Found at i:278423 original size:5 final size:5
Alignment explanation
Indices: 278415--278441 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
278405 AAAAATAAAA
278415 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
278442 CGATAGTCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:279348 original size:42 final size:40
Alignment explanation
Indices: 279290--279424 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 40
279280 TAGATGTTAC
*
279290 TTAGTATTATTGTTAGTAAAAAACTAGTATTATTATTATGG
1 TTAGTATTATTTTTAGTAAAAAACTA-TATTATTATTATGG
** * *
279331 TTAGTTATTATTTTTAGTAAAACCCTA-ATTATTATTGTTAG
1 TTAG-TATTATTTTTAGTAAAAAACTATATTATTATT-ATGG
* * *
279372 TTAGTATTATTTTGAGTATAAAACTATTATTATTGTTATTGTG
1 TTAGTATTATTTTTAGTAAAAAACTA-TATTATTATTA-TG-G
279415 TTAGTTATTA
1 TTAG-TATTA
279425 GGGTTAGTGG
Statistics
Matches: 75, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
40 27 0.36
41 10 0.13
42 28 0.37
43 5 0.07
44 5 0.07
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.51
Consensus pattern (40 bp):
TTAGTATTATTTTTAGTAAAAAACTATATTATTATTATGG
Found at i:280152 original size:51 final size:51
Alignment explanation
Indices: 280077--280180 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
280067 TTGATGTGGT
280077 TGGTGGTGAAGAAGAAGGTGGTAGCGATCATTGGGATGAAGAGGTCGATAG
1 TGGTGGTGAAGAAGAAGGTGGTAGCGATCATTGGGATGAAGAGGTCGATAG
*
280128 TGGTGGTGAAGAAGAAGGTGGTAGCGATCATTGGGATGAATAGGTCGATAG
1 TGGTGGTGAAGAAGAAGGTGGTAGCGATCATTGGGATGAAGAGGTCGATAG
280179 TG
1 TG
280181 ACGTTGATCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.29, C:0.06, G:0.42, T:0.23
Consensus pattern (51 bp):
TGGTGGTGAAGAAGAAGGTGGTAGCGATCATTGGGATGAAGAGGTCGATAG
Found at i:286049 original size:18 final size:18
Alignment explanation
Indices: 286008--286049 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
285998 GAGTTAAACG
* *
286008 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAATC
286026 AATCGAGTTA-TCGAATC
1 AATCGAGTTATTCGAATC
286043 AACTCGA
1 AA-TCGA
286050 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (18 bp):
AATCGAGTTATTCGAATC
Found at i:286371 original size:30 final size:31
Alignment explanation
Indices: 286337--286396 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
286327 AAACCTTTTA
*
286337 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
286367 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
286397 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:286497 original size:17 final size:18
Alignment explanation
Indices: 286475--286531 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 18
286465 ACTCCCCCTA
286475 TTTTATTTCCCTC-AAAC-
1 TTTTATTTCCC-CAAAACT
286492 TTTTA-TTCCCCAAAACT
1 TTTTATTTCCCCAAAACT
*
286509 TTTTATTTTTCCCCTAAACT
1 TTTTA--TTTCCCCAAAACT
286529 TTT
1 TTT
286532 ACTTCTCACC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
15 1 0.03
16 9 0.26
17 10 0.29
20 14 0.41
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTATTTCCCCAAAACT
Found at i:286507 original size:16 final size:17
Alignment explanation
Indices: 286475--286516 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
286465 ACTCCCCCTA
286475 TTTTATTTCCCTCAAAC
1 TTTTATTTCCCTCAAAC
286492 TTTTA-TTCCC-CAAAAC
1 TTTTATTTCCCTC-AAAC
286508 TTTTTATTT
1 -TTTTATTT
286517 TTCCCCTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.05
16 9 0.41
17 10 0.45
18 2 0.09
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTATTTCCCTCAAAC
Found at i:288474 original size:316 final size:316
Alignment explanation
Indices: 287651--288604 Score: 1601
Period size: 315 Copynumber: 3.0 Consensus size: 316
287641 TCAATATAAA
* * * * *
287651 TTTTTAAA--AATTTAGTGTAAAAAAACCCTTATTTCTGTCTTTTGCTCGTATAATTTTCCCGAA
1 TTTTTAAATTAATTTAGTGTAAAAAAACCTTTATTCCTGCCCTTTGCTCGTATTATTTTCCCGAA
287714 TTTTATTACTTTTAATAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACAT
66 TTTTATTACTTTTAATAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACAT
* *
287779 TTTTTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAAGACTCTTACT
131 TTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTACT
287844 TCGGCCCTTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAATATCATAATTTCTAATT
196 TCGGCCCTTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAATATCATAATTTCTAATT
287909 TTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGTGT
261 TTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGTGT
* *
287965 TTTTTAAATTAATTTAGTGT-AAAAAACCTTTATTCCTGCCCTTTGCTCGTATTATTTTCTCAAA
1 TTTTTAAATTAATTTAGTGTAAAAAAACCTTTATTCCTGCCCTTTGCTCGTATTATTTTCCCGAA
* * *
288029 TTTTATTACTTTCAATAAAAATATATTATTTTCGTATATTATTATTTTATATTATTTCAGTATAT
66 TTTTATTACTTTTAATAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACAT
*
288094 TTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAATACTCTTACT
131 TTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTACT
*
288159 TCGGCCCTTTGTTCATA-TTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTAAT
196 TCGGCCCTTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTT-AAAAATATCATAATTTCTAAT
* *
288223 TTTATAATTTTACATTATTTCAGTGCATTATGTTTAAAATTTATTAATTTAGTGTAT
260 TTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGTGT
* *
288280 TTTTTAAATTAATTTAGTGTAAAAAAATCTTTATTCCTGCCCTTTACTCGTATTATTTTCCCGAA
1 TTTTTAAATTAATTTAGTGTAAAAAAACCTTTATTCCTGCCCTTTGCTCGTATTATTTTCCCGAA
288345 TTTTATTACTTTTAATAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACAT
66 TTTTATTACTTTTAATAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACAT
* * * *
288410 TTTGTTTGAAATATTTGTATTAATTATTTCTAAATTTTAAAAAAAATTAGTAAAACACTCTTACT
131 TTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTACT
* * * *
288475 TCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAATACCGTAATTTTTAATT
196 TCGGCCCTTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAATATCATAATTTCTAATT
* * * *
288540 TTATTATTTTACATTGTTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGTGT
261 TTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGTGT
288596 TTTTTAAAT
1 TTTTTAAAT
288605 ATACCATTTT
Statistics
Matches: 597, Mismatches: 38, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
314 33 0.06
315 274 0.46
316 265 0.44
317 25 0.04
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (316 bp):
TTTTTAAATTAATTTAGTGTAAAAAAACCTTTATTCCTGCCCTTTGCTCGTATTATTTTCCCGAA
TTTTATTACTTTTAATAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACAT
TTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTACT
TCGGCCCTTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAATATCATAATTTCTAATT
TTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGTGT
Found at i:288968 original size:19 final size:19
Alignment explanation
Indices: 288940--288979 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
288930 CTTTTTTTCT
*
288940 TTCTTTTCCTTCCCTCTTC
1 TTCTTCTCCTTCCCTCTTC
* *
288959 TTCTTCTCCTTTCCTTTTC
1 TTCTTCTCCTTCCCTCTTC
288978 TT
1 TT
288980 TCATTCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCTTCTCCTTCCCTCTTC
Found at i:288980 original size:10 final size:10
Alignment explanation
Indices: 288967--289070 Score: 56
Period size: 10 Copynumber: 10.5 Consensus size: 10
288957 TCTTCTTCTC
288967 CTTTCCTTTT
1 CTTTCCTTTT
*
288977 CTTTCATTCTT
1 CTTTCCTT-TT
288988 -TTT-CTTTCT
1 CTTTCCTTT-T
* * *
288997 TTTTTCTTCTC
1 CTTTCCTT-TT
*
289008 CTTTCATTTT
1 CTTTCCTTTT
289018 CTTTCCTTCTT
1 CTTTCCTT-TT
289029 -TTT-C-TTT
1 CTTTCCTTTT
* * * *
289036 CCTCCCTCTC
1 CTTTCCTTTT
289046 CTTTCCTTTT
1 CTTTCCTTTT
289056 CTTTCCTTTT
1 CTTTCCTTTT
289066 CTTTC
1 CTTTC
289071 TTTATTTCTT
Statistics
Matches: 69, Mismatches: 16, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
7 2 0.03
8 3 0.04
9 5 0.07
10 46 0.67
11 12 0.17
12 1 0.01
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:289015 original size:31 final size:29
Alignment explanation
Indices: 288972--289038 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
288962 TTCTCCTTTC
* *
288972 CTTTTCTTTCATTCTT-TTTCTTTCTTTTTT
1 CTTTCCTTTCATT-TTCTTTCCTTC-TTTTT
289002 CTTCTCCTTTCATTTTCTTTCCTTCTTTTT
1 CTT-TCCTTTCATTTTCTTTCCTTCTTTTT
289032 CTTTCCT
1 CTTTCCT
289039 CCCTCTCCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 4 0.12
30 13 0.39
31 16 0.48
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (29 bp):
CTTTCCTTTCATTTTCTTTCCTTCTTTTT
Found at i:289037 original size:14 final size:14
Alignment explanation
Indices: 288931--289038 Score: 82
Period size: 14 Copynumber: 7.8 Consensus size: 14
288921 AAAAATTACC
*
288931 TTTT-TTTCTTTC-
1 TTTTCTTTCCTTCT
* *
288943 TTTTCCTTCCCTCT
1 TTTTCTTTCCTTCT
* *
288957 TCTTCTTCTCCTTTCC
1 TTTTCTT-TCC-TTCT
*
288973 TTTTCTTTCATTCT
1 TTTTCTTTCCTTCT
288987 TTTTCTTT-C-T-T
1 TTTTCTTTCCTTCT
*
288998 TTTTCTTCTCCTTTCA
1 TTTTCTT-TCC-TTCT
289014 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
289028 TTTTCTTTCCT
1 TTTTCTTTCCT
289039 CCCTCTCCTT
Statistics
Matches: 74, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
11 8 0.11
12 6 0.08
13 6 0.08
14 30 0.41
15 9 0.12
16 15 0.20
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:289084 original size:38 final size:37
Alignment explanation
Indices: 288959--289089 Score: 156
Period size: 38 Copynumber: 3.4 Consensus size: 37
288949 TTCCCTCTTC
288959 TTCTTCTCCTTTCCTTTTCTTTCATTCTTTTTCTTTCTTTT
1 TTCTTCTCCTTTCCTTTTCTTTC---C-TTTTCTTTCTTTT
* *
289000 TTCTTCTCCTTTCATTTTCTTTCCTTCTT-TTTCTTTCC
1 TTCTTCTCCTTTCCTTTTCTTTCCTT-TTCTTTCTTT-T
* *
289038 TCCCTCTCCTTTCCTTTTCTTTCCTTTTCTTTCTTTAT
1 TTCTTCTCCTTTCCTTTTCTTTCCTTTTCTTTCTTT-T
289076 TTCTTCTCCTTTCC
1 TTCTTCTCCTTTCC
289090 CTCTCCTTCT
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
37 11 0.14
38 45 0.58
41 22 0.28
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (37 bp):
TTCTTCTCCTTTCCTTTTCTTTCCTTTTCTTTCTTTT
Found at i:293604 original size:3 final size:3
Alignment explanation
Indices: 293596--293620 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
293586 TGTTTGTACA
293596 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
293621 TTTAAATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:301091 original size:22 final size:21
Alignment explanation
Indices: 301066--301133 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 21
301056 TACTTTGATC
301066 AATTTTAATTTTTGTATTTATT
1 AATTTTAATTTTT-TATTTATT
301088 AATTTTAATTTTTATATTT-TT
1 AATTTTAATTTTT-TATTTATT
* ** *
301109 AATATTAAAATTTTATTTATG
1 AATTTTAATTTTTTATTTATT
301130 AATT
1 AATT
301134 AAATAATAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
20 5 0.13
21 16 0.41
22 18 0.46
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (21 bp):
AATTTTAATTTTTTATTTATT
Found at i:301245 original size:15 final size:15
Alignment explanation
Indices: 301219--301260 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
301209 TTATTTACTG
301219 AATAAAATTTTAAAAT
1 AATAAAA-TTTAAAAT
**
301235 AATAAAATTTAATTT
1 AATAAAATTTAAAAT
301250 AAT-AAATTTAA
1 AATAAAATTTAA
301261 TATTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 8 0.33
15 9 0.38
16 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATAAAATTTAAAAT
Found at i:301258 original size:14 final size:15
Alignment explanation
Indices: 301219--301261 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
301209 TTATTTACTG
**
301219 AATAAAATTTTAAAAT
1 AATAAAA-TTTAATTT
301235 AATAAAATTTAATTT
1 AATAAAATTTAATTT
301250 AAT-AAATTTAAT
1 AATAAAATTTAAT
301262 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 9 0.36
15 9 0.36
16 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAAAATTTAATTT
Found at i:312194 original size:18 final size:18
Alignment explanation
Indices: 312173--312215 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
312163 CAATTAAATT
312173 AATTTTCATAATTTTTA-A
1 AATTTT-ATAATTTTTATA
*
312191 AATTATTATTATTTTTATA
1 AATT-TTATAATTTTTATA
312210 AATTTT
1 AATTTT
312216 TACCATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTTTATAATTTTTATA
Found at i:312194 original size:27 final size:28
Alignment explanation
Indices: 312164--312217 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
312154 CAATTCAATC
312164 AATTA-AATTAATTTTCAT-AATTTTTAA
1 AATTATAATT-ATTTTCATAAATTTTTAA
* *
312191 AATTATTATTATTTTTATAAATTTTTA
1 AATTATAATTATTTTCATAAATTTTTA
312218 CCATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
AATTATAATTATTTTCATAAATTTTTAA
Found at i:319643 original size:17 final size:16
Alignment explanation
Indices: 319621--319662 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
319611 AATAATCTTT
319621 AAAAATATAATT-AATGA
1 AAAAAT-TAATTCAA-GA
319638 AAAAATTAATTCAAGA
1 AAAAATTAATTCAAGA
319654 AAAATATTA
1 AAAA-ATTA
319663 CATTAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAAATTAATTCAAGA
Found at i:327211 original size:5 final size:5
Alignment explanation
Indices: 327201--327226 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
327191 ATAAGCTCAC
327201 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
327227 TTTTCGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:327403 original size:25 final size:25
Alignment explanation
Indices: 327375--327422 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
327365 TATTAAGTAG
*
327375 TTTTAAATCATATATTATGTTATAC
1 TTTTAAACCATATATTATGTTATAC
327400 TTTTAAACCATATATTATGTTAT
1 TTTTAAACCATATATTATGTTAT
327423 TTTGAAGCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.52
Consensus pattern (25 bp):
TTTTAAACCATATATTATGTTATAC
Found at i:327772 original size:17 final size:16
Alignment explanation
Indices: 327743--327777 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
327733 AGTAAAAAGT
327743 AAAAATATAAAATTAA
1 AAAAATATAAAATTAA
*
327759 AAAAATTATGAAATTAA
1 AAAAA-TATAAAATTAA
327776 AA
1 AA
327778 CATTTCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAATATAAAATTAA
Found at i:327989 original size:21 final size:19
Alignment explanation
Indices: 327961--328024 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
327951 TTTAAAAAAA
327961 AAATTATTTTATAAATTTT
1 AAATTATTTTATAAATTTT
*
327980 GAATATTATTTGATAAAATTTT
1 -AA-ATTATTTTAT-AAATTTT
*
328002 AAATTTTTTTATAAATATTT
1 AAATTATTTTATAAAT-TTT
328022 AAA
1 AAA
328025 AAAAATTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.11
20 16 0.42
21 11 0.29
22 7 0.18
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
AAATTATTTTATAAATTTT
Found at i:328099 original size:18 final size:18
Alignment explanation
Indices: 328048--328099 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 18
328038 TAAGTATATA
328048 AAAAAT-TATAA-ATCTT
1 AAAAATATATAATATCTT
328064 ATAAAATATAT-AT-T-TT
1 A-AAAATATATAATATCTT
328080 AAAAATATATAATATCTT
1 AAAAATATATAATATCTT
328098 AA
1 AA
328100 TGTTATTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
15 9 0.30
16 6 0.20
17 8 0.27
18 7 0.23
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAATATATAATATCTT
Found at i:329647 original size:138 final size:137
Alignment explanation
Indices: 329407--329681 Score: 327
Period size: 138 Copynumber: 2.0 Consensus size: 137
329397 TGAAAGTGGA
*
329407 TAATGAGATTTTTCAGGAATTTTCCAGGTTCTTGATTATAACTTGAAATGTAGCCTACAAAAGTT
1 TAATGAGAATTTTCAGGAATTTTCCAGGTTCTTGATTATAACTTGAAATGTAGCCTACAAAAGTT
* ** * *
329472 GAAAGGCATTTGAAGGGCTAGGGTGTTTTAGTGTTGAATCCGGGCTATTTGGACTTTAATTATTG
66 GAAAGGCATGTGAAGGGCTAGGGTGTGGTAGTATTGAATCCGGGCTATTTAGACTTTAATTATTG
329537 ATGCTAG
131 ATGCTAG
* * * * * * * *
329544 TAATGGGAATTTTCAGGGATTTATCCGGGTTCTTGATTATAGCTTGTAATGTGGCTTACTAAAGT
1 TAATGAGAATTTTCAGGAATTT-TCCAGGTTCTTGATTATAACTTGAAATGTAGCCTACAAAAGT
* * * * * * *
329609 TGAATGGTATCGTG-ATGGTTTGGGTGTGGTAGTATTGAATCCGGGCTATTTAGATTTTAGTTAT
65 TGAAAGGCAT-GTGAAGGGCTAGGGTGTGGTAGTATTGAATCCGGGCTATTTAGACTTTAATTAT
*
329673 TGGTGCTAG
129 TGATGCTAG
329682 ATGGGTATAG
Statistics
Matches: 114, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
137 19 0.17
138 93 0.82
139 2 0.02
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.39
Consensus pattern (137 bp):
TAATGAGAATTTTCAGGAATTTTCCAGGTTCTTGATTATAACTTGAAATGTAGCCTACAAAAGTT
GAAAGGCATGTGAAGGGCTAGGGTGTGGTAGTATTGAATCCGGGCTATTTAGACTTTAATTATTG
ATGCTAG
Found at i:330826 original size:29 final size:29
Alignment explanation
Indices: 330784--330839 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
330774 TATGTGATAT
* * * *
330784 TTTAGGTATTAAATTGAACATTAAAATAA
1 TTTAAGTATCAAATTAAAAATTAAAATAA
330813 TTTAAGTATCAAATTAAAAATTAAAAT
1 TTTAAGTATCAAATTAAAAATTAAAAT
330840 GTGAAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.38
Consensus pattern (29 bp):
TTTAAGTATCAAATTAAAAATTAAAATAA
Found at i:331438 original size:11 final size:11
Alignment explanation
Indices: 331422--331448 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
331412 CTTAAATGAA
331422 AATTTTTAAAT
1 AATTTTTAAAT
331433 AATTTTTAAAT
1 AATTTTTAAAT
331444 AATTT
1 AATTT
331449 AATAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTTTAAAT
Found at i:331466 original size:19 final size:19
Alignment explanation
Indices: 331427--331472 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
331417 ATGAAAATTT
331427 TTAAATAATTTTTAAATAA
1 TTAAATAATTTTTAAATAA
* *
331446 TTTAATAATTTTTTTAA-AA
1 TTAAATAA-TTTTTAAATAA
331465 TTAAATAA
1 TTAAATAA
331473 ATAAAACGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAAATAATTTTTAAATAA
Found at i:335094 original size:23 final size:23
Alignment explanation
Indices: 335005--335094 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 23
334995 ACCTGATCAG
*
335005 TATACGACACAT-AAGTGCCTGA
1 TATACGACAAATAAAGTGCCTGA
* * *
335027 -A-ACGACACATGAGGTGCCTGA
1 TATACGACAAATAAAGTGCCTGA
* *
335048 AATACGACAAATAAAGTGCTTGA
1 TATACGACAAATAAAGTGCCTGA
335071 TATACGACAAATAAAGTGCCTGA
1 TATACGACAAATAAAGTGCCTGA
335094 T
1 T
335095 CGCAAAGCCG
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.16
21 10 0.17
22 1 0.02
23 38 0.66
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (23 bp):
TATACGACAAATAAAGTGCCTGA
Found at i:336259 original size:24 final size:22
Alignment explanation
Indices: 336211--336255 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
336201 ACTAAAATTC
*
336211 TAAAATATTAATTTTATATTAA
1 TAAAATATTAATTTTATATAAA
336233 TAAAATGATTCAATTTTA-ATAAA
1 TAAAAT-ATT-AATTTTATATAAA
336256 ATAATTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 7 0.35
24 7 0.35
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TAAAATATTAATTTTATATAAA
Found at i:342921 original size:29 final size:28
Alignment explanation
Indices: 342889--342986 Score: 106
Period size: 28 Copynumber: 3.4 Consensus size: 28
342879 TAATTAATTT
*
342889 TTTTTAAAAAATAAAAGATTTAATGATAA
1 TTTTTAAAAAAT-AAAGATTTAATGAAAA
* *
342918 TTTTAAAAAAATAAAGATTTAATTAAAA
1 TTTTTAAAAAATAAAGATTTAATGAAAA
*
342946 TTTTTAAAAAAATTGAAAGGTTTAATGAAAA
1 TTTTT-AAAAAA-T-AAAGATTTAATGAAAA
* *
342977 GTTGTAAAAA
1 TTTTTAAAAA
342987 TGTTAGGGGA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 18 0.31
29 17 0.29
30 6 0.10
31 17 0.29
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (28 bp):
TTTTTAAAAAATAAAGATTTAATGAAAA
Found at i:342970 original size:31 final size:30
Alignment explanation
Indices: 342818--342986 Score: 146
Period size: 29 Copynumber: 5.7 Consensus size: 30
342808 TTTTGGATGC
* **
342818 TTAATTGAAATTTTTAAAAATTTTAAGAGGT
1 TTAATTAAAATTTTTAAAAAAATTAA-AGGT
* *
342849 TTAATTAGAATTTTTAAAAAAATT-AGGGT
1 TTAATTAAAATTTTTAAAAAAATTAAAGGT
* ** * * *
342878 CTAATTAATTTTTTTTAAAAAATAAAAGAT
1 TTAATTAAAATTTTTAAAAAAATTAAAGGT
* * *
342908 TTAATGATAA-TTTTAAAAAAA-TAAAGAT
1 TTAATTAAAATTTTTAAAAAAATTAAAGGT
342936 TTAATTAAAATTTTTAAAAAAATTGAAAGGT
1 TTAATTAAAATTTTTAAAAAAATT-AAAGGT
* * *
342967 TTAATGAAAAGTTGTAAAAA
1 TTAATTAAAATTTTTAAAAA
342987 TGTTAGGGGA
Statistics
Matches: 108, Mismatches: 26, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
28 14 0.13
29 42 0.39
30 10 0.09
31 42 0.39
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.40
Consensus pattern (30 bp):
TTAATTAAAATTTTTAAAAAAATTAAAGGT
Found at i:343184 original size:17 final size:17
Alignment explanation
Indices: 343150--343185 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
343140 ATCCTTGTTA
**
343150 TTATTTATTTATGTATT
1 TTATTTATTTATCCATT
343167 TTATTTATTTATCCATT
1 TTATTTATTTATCCATT
343184 TT
1 TT
343186 TAATTACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (17 bp):
TTATTTATTTATCCATT
Found at i:352996 original size:20 final size:21
Alignment explanation
Indices: 352951--352997 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
352941 TAATATATAT
* *
352951 ATAATTACTAAATATTAAATA
1 ATAATAACTAAATATTAAAAA
*
352972 A-AATAACTATAT-TTAAAAA
1 ATAATAACTAAATATTAAAAA
352991 ATAATAA
1 ATAATAA
352998 TAATATAGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 7 0.32
20 14 0.64
21 1 0.05
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAATAACTAAATATTAAAAA
Found at i:361391 original size:58 final size:58
Alignment explanation
Indices: 361301--361413 Score: 149
Period size: 58 Copynumber: 1.9 Consensus size: 58
361291 GAAATATTAG
*
361301 GGACTAACTTGGACAAAAAAGAGTCAAGCCCTAATGTAAGAACAATTGACAAGTTTAA
1 GGACTAAATTGGACAAAAAAGAGTCAAGCCCTAATGTAAGAACAATTGACAAGTTTAA
* ** *
361359 GGACTAAATTGGACAAAAAA-AGTTTC-GGCCCTAATGTGGGAACAATTGCCAAGTT
1 GGACTAAATTGGACAAAAAAGAG--TCAAGCCCTAATGTAAGAACAATTGACAAGTT
361414 CAGGTACTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 2 0.04
58 44 0.92
59 2 0.04
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (58 bp):
GGACTAAATTGGACAAAAAAGAGTCAAGCCCTAATGTAAGAACAATTGACAAGTTTAA
Found at i:365466 original size:2 final size:2
Alignment explanation
Indices: 365459--365483 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
365449 TTTTAGGATC
365459 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
365484 TCTACTTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:384012 original size:18 final size:18
Alignment explanation
Indices: 383986--384021 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
383976 ACCAAAATTT
383986 ATTGGTAGCACCAATAAA
1 ATTGGTAGCACCAATAAA
*
384004 ATTGTTAGCACCAATAAA
1 ATTGGTAGCACCAATAAA
384022 GAGAAAAAAA
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:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (18 bp):
ATTGGTAGCACCAATAAA
Found at i:391812 original size:23 final size:23
Alignment explanation
Indices: 391782--391825 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
391772 TTAATATTTT
391782 TGTTAAAAAAATAA-TTTAACTC
1 TGTTAAAAAAATAAGTTTAACTC
391804 TGTTAAAAAAATAAGTTTAACT
1 TGTTAAAAAAATAAGTTTAACT
391826 GAAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (23 bp):
TGTTAAAAAAATAAGTTTAACTC
Found at i:395650 original size:39 final size:39
Alignment explanation
Indices: 395596--395727 Score: 203
Period size: 39 Copynumber: 3.4 Consensus size: 39
395586 TGCATGGTAT
395596 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
*
395635 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* * * *
395674 TGGAAATATATCCAGACTTAAAGTCCGCAGGC-TAAGTGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
395713 TGGAAAAATATCCGG
1 TGGAAAAATATCCGG
395728 GTAAGTCCCG
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
38 2 0.02
39 84 0.98
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:395784 original size:39 final size:39
Alignment explanation
Indices: 395720--395963 Score: 382
Period size: 39 Copynumber: 6.3 Consensus size: 39
395710 TGCTGGAAAA
* *
395720 ATATCCGGG-TAAGTCCCGAAAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* *
395758 ATATCCGGGCTAAGTCCTGAAGGCATTCGTACTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* *
395797 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGATATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* **
395836 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* *
395875 ATATCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
395914 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
395953 ATATCCGGGCT
1 ATATCCGGGCT
395964 TAAAGTCCTG
Statistics
Matches: 189, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
38 9 0.05
39 180 0.95
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Done.