Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 23 of 144
Found at i:6978798 original size:18 final size:18
Alignment explanation
Indices: 6978747--6978798 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
6978737 AAAAAATTCG
6978747 TTTAAAAATTTAAAAAAAA
1 TTTAAAAA-TTAAAAAAAA
** *
6978766 TTTAAAAATCCAAAAATA
1 TTTAAAAATTAAAAAAAA
*
6978784 TTTAAAACTTAAAAA
1 TTTAAAAATTAAAAA
6978799 CTATGAAATC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
TTTAAAAATTAAAAAAAA
Found at i:6988914 original size:57 final size:58
Alignment explanation
Indices: 6988845--6988956 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
6988835 AAGGGTTAAA
* * *
6988845 TTTAGGTATCAAATTGGACCAAA-AAACTTAGATACCAATTTTTAAAAAAAAATGAAG
1 TTTAGATATCAAATTGGACCAAATAAACTTAGATACCAAATTATAAAAAAAAATGAAG
* * *
6988902 TTTAGATATCAAATTGGACCAAATAAATTTAGGTAGCAAATTATAAAAAAAAATG
1 TTTAGATATCAAATTGGACCAAATAAACTTAGATACCAAATTATAAAAAAAAATG
6988957 TGTTAAAGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.46
58 26 0.54
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (58 bp):
TTTAGATATCAAATTGGACCAAATAAACTTAGATACCAAATTATAAAAAAAAATGAAG
Found at i:6994388 original size:14 final size:15
Alignment explanation
Indices: 6994349--6994390 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6994339 TTTTAACATA
*
6994349 ATTATTATTAAATAT
1 ATTATAATTAAATAT
6994364 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
6994378 A-TATAATTTAATA
1 ATTATAATTAAATA
6994391 AAATTCTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:6994699 original size:24 final size:27
Alignment explanation
Indices: 6994648--6994700 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
6994638 TATATGTAAT
*
6994648 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
6994675 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
6994699 AT
1 AT
6994701 GCGGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:6997543 original size:13 final size:13
Alignment explanation
Indices: 6997525--6997549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6997515 GAATCGGTGG
6997525 AGACAGAAAGGTA
1 AGACAGAAAGGTA
6997538 AGACAGAAAGGT
1 AGACAGAAAGGT
6997550 GAGGAGAGTG
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:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (13 bp):
AGACAGAAAGGTA
Found at i:6997634 original size:10 final size:10
Alignment explanation
Indices: 6997619--6997676 Score: 116
Period size: 10 Copynumber: 5.8 Consensus size: 10
6997609 CAGAAGCGTG
6997619 AAAAAATTAT
1 AAAAAATTAT
6997629 AAAAAATTAT
1 AAAAAATTAT
6997639 AAAAAATTAT
1 AAAAAATTAT
6997649 AAAAAATTAT
1 AAAAAATTAT
6997659 AAAAAATTAT
1 AAAAAATTAT
6997669 AAAAAATT
1 AAAAAATT
6997677 TTGGTTTCGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 48 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:6998523 original size:2 final size:2
Alignment explanation
Indices: 6998516--6998545 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6998506 GGTTAAGGAG
6998516 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6998546 TCCATTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6999297 original size:22 final size:21
Alignment explanation
Indices: 6999272--6999316 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6999262 CAAAAAATTT
6999272 CTAAG-TTTCCAAAGTTTTTAAA
1 CTAAGCTTT-CAAAG-TTTTAAA
*
6999294 CTAAGCTTTCTAAGTTTTAAA
1 CTAAGCTTTCAAAGTTTTAAA
6999315 CT
1 CT
6999317 TTTCTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 9 0.43
23 3 0.14
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (21 bp):
CTAAGCTTTCAAAGTTTTAAA
Found at i:7005521 original size:27 final size:26
Alignment explanation
Indices: 7005472--7005539 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 26
7005462 TGGAGGGTTT
7005472 CTGATTGGCGGCACCAAATGTGCCATA
1 CTGATTGGCGGCACCAAATGTGCCA-A
*
7005499 CTGATTGGCGGCACC-GATGGTGCCAA
1 CTGATTGGCGGCACCAAAT-GTGCCAA
7005525 -TGAGGTTGGCGGCAC
1 CTGA--TTGGCGGCAC
7005540 TGCCCTTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
25 3 0.08
26 3 0.08
27 31 0.84
ACGTcount: A:0.21, C:0.25, G:0.34, T:0.21
Consensus pattern (26 bp):
CTGATTGGCGGCACCAAATGTGCCAA
Found at i:7005604 original size:4 final size:4
Alignment explanation
Indices: 7005587--7005784 Score: 67
Period size: 4 Copynumber: 48.0 Consensus size: 4
7005577 GAAGGAGAGG
* *
7005587 GAAA G-AA G-AA GAAA GAAA GAAA GAAA GAAAA GGAGAG GAGAG GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GA-AA GA-AA GAAA
* *
7005633 GAAA GAAAA GGAAA GGAGAG GAAA GAAA GTAAAA GAAG GAAA GAAAA GGAAA
1 GAAA G-AAA -GAAA -GA-AA GAAA GAAA G--AAA GAAA GAAA G-AAA -GAAA
* * *
7005685 GGAGAA GAAA -AAA -AAA GAAA G-AA -AAA GAAG GAAA G-GA GAAAA TAAA
1 -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA GAAA
* * * *
7005731 AAAA AAAA GAAA G-AA G-AA GAAA GGAAA GGAAG GAAA AAAA GAAA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GAAA -GAAA GAAA GAAA GAAA GAAA
7005778 -AAA GAAA
1 GAAA GAAA
7005785 TTTTTATTAA
Statistics
Matches: 157, Mismatches: 17, Indels: 40
0.73 0.08 0.19
Matches are distributed among these distances:
3 30 0.19
4 74 0.47
5 42 0.27
6 11 0.07
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:7005693 original size:24 final size:24
Alignment explanation
Indices: 7005605--7005667 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
7005595 AAGAAAGAAA
*
7005605 GAAAGAAAGAAAAGGAGAGGAGAG
1 GAAAGAAAGAAAAGGAAAGGAGAG
7005629 GAAAGAAAGAAAAGGAAAGGAGAG
1 GAAAGAAAGAAAAGGAAAGGAGAG
7005653 GAAAGAAAGTAAAAG
1 GAAAGAAAG-AAAAG
7005668 AAGGAAAGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 32 0.86
25 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.37, T:0.02
Consensus pattern (24 bp):
GAAAGAAAGAAAAGGAAAGGAGAG
Found at i:7005702 original size:44 final size:39
Alignment explanation
Indices: 7005654--7005784 Score: 140
Period size: 44 Copynumber: 3.2 Consensus size: 39
7005644 AAAGGAGAGG
*
7005654 AAAGAAAGTAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAA
1 AAAGAAAG-AAAAGAAGGAAAG--AAGGAAA--AAAAGAAAAAA
* *
7005698 AAAGAAAGAAAAAGAAGGAAAGGA-GAAAATAA-AAAAAA
1 AAAGAAAG-AAAAGAAGGAAAGAAGGAAAAAAAGAAAAAA
7005736 AAAGAAAGAAGAAGAAAGGAAAGGAAGGAAAAAAAGAAAAAA
1 AAAGAAAGAA-AAG-AAGGAAA-GAAGGAAAAAAAGAAAAAA
7005778 AAAGAAA
1 AAAGAAA
7005785 TTTTTATTAA
Statistics
Matches: 77, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
37 2 0.03
38 17 0.22
39 10 0.13
40 2 0.03
41 11 0.14
42 14 0.18
44 21 0.27
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (39 bp):
AAAGAAAGAAAAGAAGGAAAGAAGGAAAAAAAGAAAAAA
Found at i:7005734 original size:38 final size:42
Alignment explanation
Indices: 7005586--7005784 Score: 156
Period size: 48 Copynumber: 4.5 Consensus size: 42
7005576 AGAAGGAGAG
* * *
7005586 GGAAAGAAGAAGAAAGAAAGAAAGAAAGAAAAGGAGAGGAGAGGAA
1 GGAAA-AA-AAGAAA-AAA-AAAGAAAGAAAAAGAAAGGAAAGGAA
* * * *
7005632 AGAAAGAAAAGGAAAGGAGAGGAAAGAAAGTAAAAG-AAGGAAAGAAAA
1 GGAAA-AAAA-GAAA--A-A-AAAAGAAAGAAAAAGAAAGGAAAG-GAA
*
7005680 GGAAAGGAGAAGAAAAAAAAAGAAAGAAAAAG-AAGGAAAGG-A
1 GGAAA--AAAAGAAAAAAAAAGAAAGAAAAAGAAAGGAAAGGAA
* *
7005722 -GAAAATAA-AAAAAAAAAGAAAGAAGAAGAAAGGAAAGGAA
1 GGAAAAAAAGAAAAAAAAAGAAAGAAAAAGAAAGGAAAGGAA
7005762 GGAAAAAAAGAAAAAAAAAGAAA
1 GGAAAAAAAGAAAAAAAAAGAAA
7005785 TTTTTATTAA
Statistics
Matches: 128, Mismatches: 15, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
38 19 0.15
39 12 0.09
40 1 0.01
41 11 0.09
42 14 0.11
44 21 0.16
45 3 0.02
46 12 0.09
47 8 0.06
48 23 0.18
49 4 0.03
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (42 bp):
GGAAAAAAAGAAAAAAAAAGAAAGAAAAAGAAAGGAAAGGAA
Found at i:7005753 original size:34 final size:33
Alignment explanation
Indices: 7005629--7005755 Score: 141
Period size: 34 Copynumber: 3.6 Consensus size: 33
7005619 GAGAGGAGAG
7005629 GAAAGAAAGAAAAGGAAAGGAGAGGAAAGAAAGTAAAA
1 GAAAGAAAGAAAAGGAAAGGAGA--AAA-AAA--AAAA
*
7005667 GAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAAAA
1 GAAAGAAAGAAAAGGAAAGGAGAA-AAAAAAAAA
7005701 GAAAGAAA-AAGAAGGAAAGGAGAAAATAAAAAAA
1 GAAAGAAAGAA-AAGGAAAGGAGAAAA-AAAAAAA
*
7005735 AAAAGAAAGAAGAA-GAAAGGA
1 GAAAGAAAGAA-AAGGAAAGGA
7005756 AAGGAAGGAA
Statistics
Matches: 82, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
33 4 0.05
34 45 0.55
35 5 0.06
36 4 0.05
37 2 0.02
38 22 0.27
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (33 bp):
GAAAGAAAGAAAAGGAAAGGAGAAAAAAAAAAA
Found at i:7005768 original size:34 final size:35
Alignment explanation
Indices: 7005639--7005770 Score: 117
Period size: 38 Copynumber: 3.6 Consensus size: 35
7005629 GAAAGAAAGA
* **
7005639 AAAGGAAAGGAGAGGAAAGAAAGTA-AAAGAAGGAAAG
1 AAAGGAAAGGAGAAGAAA-AAAAAAGAAAGAA-G-AAG
*
7005676 AAAAGGAAAGGAGAAGAAAAAAAAAGAAAGAAAAAG
1 -AAAGGAAAGGAGAAGAAAAAAAAAGAAAGAAGAAG
*
7005712 -AAGGAAAGGAGAAAATAAAAAAAAAAAGAAAGAAGAAG
1 AAAGGAAAGGAG---A-AGAAAAAAAAAGAAAGAAGAAG
*
7005750 AAAGGAAAGGA-AGGAAAAAAA
1 AAAGGAAAGGAGAAGAAAAAAA
7005771 GAAAAAAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
34 18 0.22
35 1 0.01
36 3 0.04
37 5 0.06
38 43 0.54
39 10 0.12
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (35 bp):
AAAGGAAAGGAGAAGAAAAAAAAAGAAAGAAGAAG
Found at i:7006479 original size:162 final size:161
Alignment explanation
Indices: 7006288--7006798 Score: 500
Period size: 162 Copynumber: 3.2 Consensus size: 161
7006278 TTCACACAAA
7006288 ATGCACTGAAATAATATAAAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAA
1 ATGCACTGAAATAATATAAAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAA
* *
7006353 ATCGGGAAAATAATATGAGCAAAGGGTAATGATAAGGGTTTTTTTCTTACACCAAATTAATTTAA
66 ATCGAGAAAATAATACGAGCAAAGGG-AATGATAAGGGTTTTTTTCTTACACCAAATTAATTTAA
7006418 AAAACACACTAAATTAACAAATTTCAAACATT
130 AAAACACACTAAATTAACAAATTTCAAACATT
* * * *
7006450 ATGCACTGAAATAATGTAAAATTATAAAATTA--AAACTTATAATATTTTCTA---AAA-TAAT-
1 ATGCACTGAAATAATATAAAATAATAAAA-TACGAAA-ATAAAATATTTT-TATTGAAAGTAATA
* * * * *
7006508 AAAATGCAGAGAAAA-AATACGAACAAATGGCCGAA-G-TAAGAG----TGTATTACA--AACTT
63 AAAAT-C-GAGAAAATAATACGAGCAAA-GG--GAATGATAAGGGTTTTTTTCTTACACCAAATT
* * * * **
7006564 -TTTTAAAAATTCAGA-AACAATTAATACAAATATTTCAAACAAA
123 AATTTAAAAA-ACACACTA-AATT-A-AC-AA-ATTTCAAACATT
* *
7006607 ATGCACTGGAATAATATAAACTAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAA
1 ATGCACTGAAATAATATAAAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAA
* * * * * *
7006672 ATCGAGAAAATAATACGAGAAAAGGGCAGTGATAATGATTTTTTTCTTACACCAATTTAATTTTA
66 ATCGAGAAAATAATACGAGCAAAGGG-AATGATAAGGGTTTTTTTCTTACACCAAATTAATTTAA
*
7006737 AAAACACACTAAATTAATAAATTTCAAACATT
130 AAAACACACTAAATTAACAAATTTCAAACATT
* *
7006769 ATGCACTGAAATAATGTAAAATTATAAAAT
1 ATGCACTGAAATAATATAAAATAATAAAAT
7006799 TAAAAATTAT
Statistics
Matches: 272, Mismatches: 44, Indels: 66
0.71 0.12 0.17
Matches are distributed among these distances:
152 9 0.03
153 11 0.04
154 1 0.00
155 9 0.03
156 6 0.02
157 46 0.17
158 9 0.03
159 33 0.12
160 30 0.11
161 10 0.04
162 74 0.27
163 6 0.02
164 8 0.03
165 1 0.00
166 11 0.04
167 8 0.03
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.30
Consensus pattern (161 bp):
ATGCACTGAAATAATATAAAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAA
ATCGAGAAAATAATACGAGCAAAGGGAATGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAA
AAACACACTAAATTAACAAATTTCAAACATT
Found at i:7006716 original size:319 final size:319
Alignment explanation
Indices: 7006111--7006887 Score: 1295
Period size: 319 Copynumber: 2.4 Consensus size: 319
7006101 AATTGTATAT
* *
7006111 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATGATAAAATTAAAAATTA-AGATAT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATA-ATAT
* * * * * *
7006175 TTTTTAAAATAATAAAATGTGGATAAAAAAATACAAACAAATGACCGAAGTAAGAGTGTATTACT
65 TTTCTAAAATAATAAAATGCGGA-GAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACA
* *
7006240 AACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCACACAAAATGCACTGAAATAATAT
129 AACTTTTTTAAAAATTCAGAAACAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATAT
* *
7006305 AAAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATATG
194 AAAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGAGAAAATAATACG
* * *
7006370 AGCAAAGGGTAATGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
259 AGAAAAGGGCAATGATAAGGATTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
* *
7006431 TTAACAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAACTTATAATATT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATT
*
7006496 TTCTAAAATAATAAAATGCAGAGAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACAAA
66 TTCTAAAATAATAAAATGCGGAGAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACAAA
*
7006561 CTTTTTTAAAAATTCAGAAACAATTAATACAAATATTTCAAACAAAATGCACTGGAATAATATAA
131 CTTTTTTAAAAATTCAGAAACAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATAA
*
7006626 ACTAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGAGAAAATAATACGAG
196 AATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGAGAAAATAATACGAG
* * * *
7006691 AAAAGGGCAGTGATAATGATTTTTTTCTTACACCAATTTAATTTTAAAAACACACTAAA
261 AAAAGGGCAATGATAAGGATTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
7006750 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATT
1 TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATT
*
7006815 TTCTAAAATAATAAAATACGGAGAGAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACAA
66 TTCTAAAATAATAAAATGCGGAGA-AAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACAA
7006880 ACTTTTTT
130 ACTTTTTT
7006888 TTCAACTTGC
Statistics
Matches: 427, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
319 300 0.70
320 126 0.30
321 1 0.00
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (319 bp):
TTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATT
TTCTAAAATAATAAAATGCGGAGAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACAAA
CTTTTTTAAAAATTCAGAAACAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATAA
AATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGAGAAAATAATACGAG
AAAAGGGCAATGATAAGGATTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
Found at i:7008910 original size:14 final size:14
Alignment explanation
Indices: 7008891--7008917 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7008881 TTTTTGTATA
7008891 AATTTAATATTTCT
1 AATTTAATATTTCT
7008905 AATTTAATATTTC
1 AATTTAATATTTC
7008918 CTTACTTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTAATATTTCT
Found at i:7012366 original size:13 final size:11
Alignment explanation
Indices: 7012340--7012379 Score: 66
Period size: 10 Copynumber: 3.8 Consensus size: 11
7012330 AAAAAAATAC
7012340 CTTCTTTTTCT
1 CTTCTTTTTCT
7012351 CTTCTTTTTCT
1 CTTCTTTTTCT
7012362 C-TCTTTTTCT
1 CTTCTTTTTCT
7012372 CTT-TTTTT
1 CTTCTTTTT
7012380 TTCTGCAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 15 0.54
11 13 0.46
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:7012507 original size:27 final size:27
Alignment explanation
Indices: 7012466--7012557 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
7012456 ACGAGTAGTC
* *
7012466 CCGCCAACCAGTATGGCACCATCGGTG
1 CCGCCAATCAATATGGCACCATCGGTG
7012493 CCGCCAATCAATATGGCACCATCGGTG
1 CCGCCAATCAATATGGCACCATCGGTG
* * * *
7012520 CCGCCAATCAGT-TAGGCATCTTTGGTG
1 CCGCCAATCAATAT-GGCACCATCGGTG
7012547 CCGCCAATCAA
1 CCGCCAATCAA
7012558 AAACCCTCCA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.02
27 56 0.98
ACGTcount: A:0.24, C:0.34, G:0.23, T:0.20
Consensus pattern (27 bp):
CCGCCAATCAATATGGCACCATCGGTG
Found at i:7018154 original size:23 final size:23
Alignment explanation
Indices: 7018098--7018154 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
7018088 ACAACACAAA
*
7018098 ACCAGCAGCAAGCTACTGTCAAG
1 ACCAGCAGCAGGCTACTGTCAAG
7018121 ACCAGCAGCAGGCTACTGTCAAG
1 ACCAGCAGCAGGCTACTGTCAAG
7018144 ACCAGCAGCAG
1 ACCAGCAGCAG
7018155 CAACTATCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.32, G:0.25, T:0.11
Consensus pattern (23 bp):
ACCAGCAGCAGGCTACTGTCAAG
Found at i:7022081 original size:28 final size:27
Alignment explanation
Indices: 7022033--7022110 Score: 74
Period size: 28 Copynumber: 3.0 Consensus size: 27
7022023 TATTAAGATG
*
7022033 AATATATAAAAATT-TTCAATAAATAAA
1 AATATAT-AAAATTATTAAATAAATAAA
*
7022060 AATTATATAAAATTATTAAAT--ATTAA
1 AA-TATATAAAATTATTAAATAAATAAA
* *
7022086 AATATATAAAA-AATTAAAAAAATAA
1 AATATATAAAATTATTAAATAAATAA
7022111 TATGGACGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
24 6 0.14
25 9 0.21
26 9 0.21
27 8 0.19
28 10 0.24
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (27 bp):
AATATATAAAATTATTAAATAAATAAA
Found at i:7022098 original size:27 final size:28
Alignment explanation
Indices: 7022033--7022101 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
7022023 TATTAAGATG
*
7022033 AATATAT-AAAAATT-TTCAATAAATAA
1 AATATATAAAAAATTATTAAATAAATAA
* *
7022059 AA-ATTATATAAAATTATTAAAT-ATTAA
1 AATA-TATAAAAAATTATTAAATAAATAA
7022086 AATATATAAAAAATTA
1 AATATATAAAAAATTA
7022102 AAAAAATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 23 0.66
28 6 0.17
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (28 bp):
AATATATAAAAAATTATTAAATAAATAA
Found at i:7022103 original size:17 final size:17
Alignment explanation
Indices: 7022033--7022104 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
7022023 TATTAAGATG
* **
7022033 AATATATAAAAATTTTC
1 AATATATAAAAAATTAA
*
7022050 AATAAATAAAAATTATATAA
1 AATATATAAAAA--AT-TAA
* *
7022070 AAT-TATTAAATATTAA
1 AATATATAAAAAATTAA
7022086 AATATATAAAAAATTAA
1 AATATATAAAAAATTAA
7022103 AA
1 AA
7022105 AAATAATATG
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
16 6 0.14
17 26 0.62
19 6 0.14
20 4 0.10
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (17 bp):
AATATATAAAAAATTAA
Found at i:7027257 original size:24 final size:24
Alignment explanation
Indices: 7027221--7027269 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
7027211 TATATGAAAA
7027221 AGTAAAACCGTTAGGATTTCATTG
1 AGTAAAACCGTTAGGATTTCATTG
*
7027245 AGTAAAACTGTTAGGATTTCATTG
1 AGTAAAACCGTTAGGATTTCATTG
7027269 A
1 A
7027270 CAAGGACGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (24 bp):
AGTAAAACCGTTAGGATTTCATTG
Found at i:7027484 original size:20 final size:20
Alignment explanation
Indices: 7027459--7027502 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7027449 AATTTTAAGA
*
7027459 ATTTTGGTAATATACTAGAT
1 ATTTTGGTAAAATACTAGAT
**
7027479 ATTTTGGTAAAATTTTAGAT
1 ATTTTGGTAAAATACTAGAT
7027499 ATTT
1 ATTT
7027503 AATAAATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (20 bp):
ATTTTGGTAAAATACTAGAT
Found at i:7027652 original size:41 final size:40
Alignment explanation
Indices: 7027580--7027664 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 40
7027570 GTAAAATATC
*
7027580 CATATAAAAATTGGTAAATTGATAGAAATATTGGTAAATT
1 CATATAAAAATTGGTAAATTGATAGAAATATTGGTAAACT
*
7027620 CATATAAAATTTGGTAAAATT-ATTAGAAATATTGGTAAACT
1 CATATAAAAATTGGT-AAATTGA-TAGAAATATTGGTAAACT
7027661 CATA
1 CATA
7027665 GAAGTTTTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
40 15 0.37
41 26 0.63
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (40 bp):
CATATAAAAATTGGTAAATTGATAGAAATATTGGTAAACT
Found at i:7027674 original size:41 final size:41
Alignment explanation
Indices: 7027580--7027676 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
7027570 GTAAAATATC
* * *
7027580 CATATAAAAATTGGT-AAATTGATAGAAATATTGGTAAATT
1 CATAGAAAATTTGGTAAAATTGATAGAAATATTGGTAAACT
*
7027620 CATATAAAATTTGGTAAAATT-ATTAGAAATATTGGTAAACT
1 CATAGAAAATTTGGTAAAATTGA-TAGAAATATTGGTAAACT
**
7027661 CATAGAAGTTTTGGTA
1 CATAGAAAATTTGGTA
7027677 CAGTCAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 15 0.30
41 35 0.70
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.36
Consensus pattern (41 bp):
CATAGAAAATTTGGTAAAATTGATAGAAATATTGGTAAACT
Found at i:7027676 original size:20 final size:20
Alignment explanation
Indices: 7027589--7027667 Score: 90
Period size: 20 Copynumber: 3.9 Consensus size: 20
7027579 CCATATAAAA
*
7027589 ATTGGTAAATTGATAGAAAT
1 ATTGGTAAATTCATAGAAAT
*
7027609 ATTGGTAAATTCATATAAA-
1 ATTGGTAAATTCATAGAAAT
7027628 ATTTGGTAAAATT-ATTAGAAAT
1 A-TTGGT-AAATTCA-TAGAAAT
*
7027650 ATTGGTAAACTCATAGAA
1 ATTGGTAAATTCATAGAA
7027668 GTTTTGGTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.02
20 32 0.64
21 16 0.32
22 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (20 bp):
ATTGGTAAATTCATAGAAAT
Found at i:7027850 original size:20 final size:20
Alignment explanation
Indices: 7027800--7027852 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
7027790 AATTTTGGTC
* *
7027800 GTTAGATATATTGGTAAATC
1 GTTAGATATATTGGGAAATA
* *
7027820 TTTAGAAATATTGGGAAATA
1 GTTAGATATATTGGGAAATA
*
7027840 GTTCGATATATTG
1 GTTAGATATATTG
7027853 TAAAATCCAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (20 bp):
GTTAGATATATTGGGAAATA
Found at i:7028004 original size:19 final size:20
Alignment explanation
Indices: 7027980--7028023 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7027970 ATAAATATTG
7027980 GTAAA-TGTTAGATATTTTA
1 GTAAATTGTTAGATATTTTA
* *
7027999 GTAAATTGTTAGATGTTTTG
1 GTAAATTGTTAGATATTTTA
7028019 GTAAA
1 GTAAA
7028024 ACTTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
GTAAATTGTTAGATATTTTA
Found at i:7028096 original size:20 final size:20
Alignment explanation
Indices: 7028055--7028180 Score: 78
Period size: 20 Copynumber: 6.2 Consensus size: 20
7028045 TAAATATACC
* * *
7028055 GGTAAATCGTTGGATATTTT
1 GGTAAATCTTTAGAAATTTT
*
7028075 GGTAAATCTTTAGAAATATT
1 GGTAAATCTTTAGAAATTTT
* * **
7028095 GGTAAAGTC-TCATAAATACT
1 GGTAAA-TCTTTAGAAATTTT
* **
7028115 GATAAAATCGATAGAAATTTT
1 GGT-AAATCTTTAGAAATTTT
*
7028136 GGTAAAT-TGTTAGATATTTT
1 GGTAAATCT-TTAGAAATTTT
*
7028156 GGTAAA-CTCATAGAAATTTT
1 GGTAAATCT-TTAGAAATTTT
7028176 GGTAA
1 GGTAA
7028181 TTGTTAGGAC
Statistics
Matches: 81, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
20 68 0.84
21 13 0.16
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.38
Consensus pattern (20 bp):
GGTAAATCTTTAGAAATTTT
Found at i:7028276 original size:20 final size:20
Alignment explanation
Indices: 7028253--7028347 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 20
7028243 GATAAAAAAA
* *
7028253 TAGAAATTTTGGCAACTTGT
1 TAGAAATATTGGTAACTTGT
* * *
7028273 TAGATATATTGGTAAGTTCT
1 TAGAAATATTGGTAACTTGT
* *
7028293 TAGAAATATTGGTAAATCGT
1 TAGAAATATTGGTAACTTGT
7028313 TA-AATATATTGGTAACTTGT
1 TAGAA-ATATTGGTAACTTGT
* *
7028333 TAGATATTTTGGTAA
1 TAGAAATATTGGTAA
7028348 ATCCCTAAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
19 2 0.03
20 57 0.95
21 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.42
Consensus pattern (20 bp):
TAGAAATATTGGTAACTTGT
Found at i:7028297 original size:40 final size:40
Alignment explanation
Indices: 7028253--7028367 Score: 122
Period size: 40 Copynumber: 2.9 Consensus size: 40
7028243 GATAAAAAAA
* * * *
7028253 TAGAAATTTTGGCAACTTGTTAGATATATTGGTAAGTTCT
1 TAGAAATTTTGGCAAATCGTTAAATATATTGGTAACTTCT
* * *
7028293 TAGAAATATTGGTAAATCGTTAAATATATTGGTAACTTGT
1 TAGAAATTTTGGCAAATCGTTAAATATATTGGTAACTTCT
* * ** *
7028333 TAGATATTTTGGTAAATCCCTAAATATTTTGGTAA
1 TAGAAATTTTGGCAAATCGTTAAATATATTGGTAA
7028368 AATTAGAGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (40 bp):
TAGAAATTTTGGCAAATCGTTAAATATATTGGTAACTTCT
Found at i:7028382 original size:40 final size:39
Alignment explanation
Indices: 7028276--7028383 Score: 101
Period size: 40 Copynumber: 2.7 Consensus size: 39
7028266 AACTTGTTAG
* * * **
7028276 ATATATTGGTAAGTTCTTAGAAATATTGGTAAATCGTTAA
1 ATATATTGGTAAATT-GTAGAAATTTTGGTAAATCCCTAA
* *
7028316 ATATATTGGTAACTTGTTAGATATTTTGGTAAATCCCTAA
1 ATATATTGGTAAATTG-TAGAAATTTTGGTAAATCCCTAA
*
7028356 ATATTTTGGTAAAATTAG-AGAAATTTTG
1 ATATATTGGT-AAATT-GTAGAAATTTTG
7028384 ATAATTGTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
40 51 0.91
41 4 0.07
42 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.42
Consensus pattern (39 bp):
ATATATTGGTAAATTGTAGAAATTTTGGTAAATCCCTAA
Found at i:7028492 original size:20 final size:19
Alignment explanation
Indices: 7028451--7028493 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7028441 GGCAAAAGGG
* * *
7028451 TAGAAATTTTGGTAAATCT
1 TAGAAAATTTGATAAATAT
7028470 TAGAAAATTTGATAAACTAT
1 TAGAAAATTTGATAAA-TAT
7028490 TAGA
1 TAGA
7028494 TATATTGGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (19 bp):
TAGAAAATTTGATAAATAT
Found at i:7028533 original size:20 final size:19
Alignment explanation
Indices: 7028451--7028538 Score: 63
Period size: 20 Copynumber: 4.5 Consensus size: 19
7028441 GGCAAAAGGG
7028451 TAGAAATTTTGGTAAATC-T
1 TAGAAA-TTTGGTAAATCAT
*
7028470 TAGAAAATTTGATAAA-CTAT
1 TAG-AAATTTGGTAAATC-AT
* * *
7028490 TAGATATATTGGTAAAACAA
1 TAGAAAT-TTGGTAAATCAT
*
7028510 TAGAAAGTTTGGTAAATCCT
1 TAGAAA-TTTGGTAAATCAT
*
7028530 TAGATATTT
1 TAGAAATTT
7028539 TCATAAACCC
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
18 1 0.02
19 17 0.31
20 34 0.63
21 2 0.04
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (19 bp):
TAGAAATTTGGTAAATCAT
Found at i:7030211 original size:21 final size:20
Alignment explanation
Indices: 7030197--7030252 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
7030187 TTGAGGATTG
7030197 AAAATTTGAAATTGAAAATT
1 AAAATTTGAAATTGAAAATT
*
7030217 AAAATTTAGAGATTGAAAATAT
1 AAAATTT-GAAATTGAAAAT-T
*
7030239 AAAATTAGAAATTG
1 AAAATTTGAAATTG
7030253 GGGATTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 17 0.55
22 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.32
Consensus pattern (20 bp):
AAAATTTGAAATTGAAAATT
Found at i:7030242 original size:28 final size:28
Alignment explanation
Indices: 7030205--7030283 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
7030195 TGAAAATTTG
7030205 AAATTGAAAATTAAAATTTAGAGATTGA
1 AAATTGAAAATTAAAATTTAGAGATTGA
* *
7030233 AAATAT-AAAATTAGAAA-TTGGGGATTGA
1 AAAT-TGAAAATTA-AAATTTAGAGATTGA
*
7030261 AAATTGAAGATTAAGAATTTAGA
1 AAATTGAAAATTAA-AATTTAGA
7030284 AAGAAAGAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
27 2 0.05
28 32 0.78
29 7 0.17
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (28 bp):
AAATTGAAAATTAAAATTTAGAGATTGA
Found at i:7030244 original size:35 final size:36
Alignment explanation
Indices: 7030176--7030249 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 36
7030166 AAAAAATATT
* *
7030176 AAAATAAATATTTGAGGATTGAAAATTTGAAATT-G
1 AAAATAAATATTTGAGGATTGAAAATATAAAATTAG
7030211 AAAATTAAA-ATTT-AGAGATTGAAAATATAAAATTAG
1 AAAA-TAAATATTTGAG-GATTGAAAATATAAAATTAG
7030247 AAA
1 AAA
7030250 TTGGGGATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 2 0.06
35 24 0.71
36 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (36 bp):
AAAATAAATATTTGAGGATTGAAAATATAAAATTAG
Found at i:7035005 original size:12 final size:12
Alignment explanation
Indices: 7034988--7035012 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7034978 CTTGAAATAC
7034988 TCTCTAATTTAT
1 TCTCTAATTTAT
7035000 TCTCTAATTTAT
1 TCTCTAATTTAT
7035012 T
1 T
7035013 TTTTTTGCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTCTAATTTAT
Found at i:7040665 original size:14 final size:14
Alignment explanation
Indices: 7040646--7040683 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7040636 ACCTATAATG
*
7040646 AAATTTAATTTTAT
1 AAATTTAACTTTAT
7040660 AAATTTAACTTTA-
1 AAATTTAACTTTAT
*
7040673 AATTTTAACTT
1 AAATTTAACTT
7040684 AAATTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
AAATTTAACTTTAT
Found at i:7040692 original size:13 final size:13
Alignment explanation
Indices: 7040649--7040690 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
7040639 TATAATGAAA
* *
7040649 TTTAATTTTATAAA
1 TTTAACTTTA-AAT
7040663 TTTAACTTTAAAT
1 TTTAACTTTAAAT
7040676 TTTAAC-TTAAAT
1 TTTAACTTTAAAT
7040688 TTT
1 TTT
7040691 TATTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 9 0.35
13 8 0.31
14 9 0.35
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTAACTTTAAAT
Found at i:7041908 original size:26 final size:26
Alignment explanation
Indices: 7041849--7041899 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
7041839 TAATGAAAAG
*
7041849 AAATTTGAGTTTCATGTACAATTAGT
1 AAATTTGGGTTTCATGTACAATTAGT
7041875 AAATTTGGGTTTCATGTACAATTAG
1 AAATTTGGGTTTCATGTACAATTAG
7041900 AACTTTTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (26 bp):
AAATTTGGGTTTCATGTACAATTAGT
Found at i:7048705 original size:8 final size:8
Alignment explanation
Indices: 7048682--7048717 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
7048672 TAATATTTTG
*
7048682 AAATATAT
1 AAATTTAT
7048690 ATAATTTAT
1 A-AATTTAT
7048699 AAATTTAT
1 AAATTTAT
7048707 AAATTTAT
1 AAATTTAT
7048715 AAA
1 AAA
7048718 AAAAATTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAATTTAT
Found at i:7050528 original size:26 final size:26
Alignment explanation
Indices: 7050498--7050565 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
7050488 CAATATACGA
7050498 CTCTTCGTGAGCTTCCCAATTAAAGG
1 CTCTTCGTGAGCTTCCCAATTAAAGG
* * * *
7050524 GTCTTTGTGAGCTTCCTAATTAATGG
1 CTCTTCGTGAGCTTCCCAATTAAAGG
*
7050550 CTCTCCG-GAGCTTCCC
1 CTCTTCGTGAGCTTCCC
7050566 GATATGGCTC
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 8 0.24
26 26 0.76
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.34
Consensus pattern (26 bp):
CTCTTCGTGAGCTTCCCAATTAAAGG
Found at i:7050672 original size:73 final size:73
Alignment explanation
Indices: 7050532--7050672 Score: 160
Period size: 73 Copynumber: 1.9 Consensus size: 73
7050522 GGGTCTTTGT
* * * * * *
7050532 GAGCTTCCTAATTAATGGCTCTCCGGAGCTTCCCGATATGGCTCGCTTGAACTTCTCGATATCTG
1 GAGCTTCCTAATTAATGGCTCTCCAGAGCTACCCGATATGGCTCACATGAACTTCTCGAAATATG
7050597 GCTATTCG
66 GCTATTCG
* * * *
7050605 GAGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTATTGGCTCACAT-AAGCTT-TCTAAATA
1 GAGCTTCCTAATTAATGGCTCTCCAGAGCTACCCGATA-TGGCTCACATGAA-CTTCTCGAAATA
7050668 TGGCT
64 TGGCT
7050673 CTTATAAGCT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
73 45 0.80
74 11 0.20
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (73 bp):
GAGCTTCCTAATTAATGGCTCTCCAGAGCTACCCGATATGGCTCACATGAACTTCTCGAAATATG
GCTATTCG
Found at i:7070838 original size:38 final size:38
Alignment explanation
Indices: 7070787--7070862 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
7070777 GCCAAGAGCC
7070787 CAAGATCACATGCCAATGAACATTGGCTAACGCAGCAT
1 CAAGATCACATGCCAATGAACATTGGCTAACGCAGCAT
7070825 CAAGATCACATGCCAATGAACATTGGCTAACGCAGCAT
1 CAAGATCACATGCCAATGAACATTGGCTAACGCAGCAT
7070863 GTATTTCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (38 bp):
CAAGATCACATGCCAATGAACATTGGCTAACGCAGCAT
Found at i:7080650 original size:27 final size:27
Alignment explanation
Indices: 7080612--7080665 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
7080602 GAAACATTGA
*
7080612 ACCTGAACATCATAAGTTCTTTACTTT
1 ACCTGAACATCAGAAGTTCTTTACTTT
7080639 ACCTGAACATCAGAAGTTCTTTACTTT
1 ACCTGAACATCAGAAGTTCTTTACTTT
7080666 TTTAAGCTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (27 bp):
ACCTGAACATCAGAAGTTCTTTACTTT
Found at i:7086222 original size:13 final size:13
Alignment explanation
Indices: 7086172--7086222 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
7086162 CGATTTTTTC
7086172 TAATTATTTATT-
1 TAATTATTTATTA
7086184 TAATCTATTTATAATA
1 TAAT-TATTTAT--TA
7086200 TTAATT-TTTATTA
1 -TAATTATTTATTA
7086213 TAATTATTTA
1 TAATTATTTA
7086223 AACGTATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
12 9 0.27
13 13 0.39
15 6 0.18
16 1 0.03
17 4 0.12
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TAATTATTTATTA
Found at i:7086234 original size:28 final size:27
Alignment explanation
Indices: 7086172--7086247 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 27
7086162 CGATTTTTTC
7086172 TAATTATTTATTTAATCTATTTATAATAT
1 TAATT-TTTATTTAAT-TATTTATAATAT
7086201 TAATTTTTATTATAATTATTTA-AACGTAT
1 TAATTTTTATT-TAATTATTTATAA--TAT
*
7086230 T-ATTTGTATTTATATTAT
1 TAATTTTTATTTA-ATTAT
7086248 ATTTGAAGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
27 4 0.10
28 25 0.60
29 13 0.31
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (27 bp):
TAATTTTTATTTAATTATTTATAATAT
Found at i:7093877 original size:31 final size:31
Alignment explanation
Indices: 7093839--7093921 Score: 148
Period size: 31 Copynumber: 2.7 Consensus size: 31
7093829 AAAATATAAG
7093839 TTTAAGTACCAACTAGATACAAATAAAAAAA
1 TTTAAGTACCAACTAGATACAAATAAAAAAA
*
7093870 TTTAAGTACCAACTAGATACAAATAAAAAAT
1 TTTAAGTACCAACTAGATACAAATAAAAAAA
*
7093901 TTTAAGTACCAACTAGGTACA
1 TTTAAGTACCAACTAGATACA
7093922 TTTGGACAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.25
Consensus pattern (31 bp):
TTTAAGTACCAACTAGATACAAATAAAAAAA
Found at i:7094150 original size:15 final size:15
Alignment explanation
Indices: 7094130--7094163 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
7094120 CTCGTTGATG
7094130 CAATAGTAATCATGC
1 CAATAGTAATCATGC
7094145 CAATAGTAATCATGC
1 CAATAGTAATCATGC
7094160 CAAT
1 CAAT
7094164 TGAATTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (15 bp):
CAATAGTAATCATGC
Found at i:7097749 original size:23 final size:21
Alignment explanation
Indices: 7097723--7097764 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
7097713 TTTAGTTTTT
7097723 CTTTTAAATTTTCATATTTTTAG
1 CTTTTAAA-TTT-ATATTTTTAG
7097746 CTTTTAAATTTATATTTTT
1 CTTTTAAATTTATATTTTT
7097765 GATTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.64
Consensus pattern (21 bp):
CTTTTAAATTTATATTTTTAG
Found at i:7102325 original size:18 final size:19
Alignment explanation
Indices: 7102293--7102330 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
7102283 TAGTAAAAAT
*
7102293 ACATAAATAACAGTATTAA
1 ACATAAATAACAGTAGTAA
*
7102312 ACAT-AATAATAGTAGTAA
1 ACATAAATAACAGTAGTAA
7102330 A
1 A
7102331 AATACTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26
Consensus pattern (19 bp):
ACATAAATAACAGTAGTAA
Found at i:7107258 original size:23 final size:23
Alignment explanation
Indices: 7107232--7107329 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
7107222 ATAAGTGCCA
7107232 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
7107255 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
7107278 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
7107300 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
7107323 CACTGAT
1 CACTGAT
7107330 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:7107297 original size:45 final size:45
Alignment explanation
Indices: 7107239--7107327 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
7107229 CCACACTGAT
* *
7107239 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
7107284 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
7107328 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:7109012 original size:29 final size:29
Alignment explanation
Indices: 7108968--7109027 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
7108958 AAATTTAACA
*
7108968 TATGTGAGCTTCAGGATAGCGGAGAAGAC
1 TATGTGAGCTTCAGGATAGCGGAGAAAAC
*
7108997 TATGTGAGCTTGAGGATAGCGGAGAAAAC
1 TATGTGAGCTTCAGGATAGCGGAGAAAAC
7109026 TA
1 TA
7109028 CTCGATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (29 bp):
TATGTGAGCTTCAGGATAGCGGAGAAAAC
Found at i:7120871 original size:52 final size:51
Alignment explanation
Indices: 7120815--7120927 Score: 147
Period size: 52 Copynumber: 2.2 Consensus size: 51
7120805 ATATTAACGG
** *
7120815 AATGTATTGATATTG-TGGACTAAATTTATTAAATCAAATATCAAATTGATAA
1 AATGTATAAATATTGCTGG-CTAAATTTATTAAAT-AAATACCAAATTGATAA
* *
7120867 AATGTATAAATATTGCTGGCTAAATTTGTTAAATAAATACCAAATTGATAG
1 AATGTATAAATATTGCTGGCTAAATTTATTAAATAAATACCAAATTGATAA
*
7120918 AATGTGTAAA
1 AATGTATAAA
7120928 CGTTGAGGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
51 24 0.44
52 27 0.50
53 3 0.06
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.36
Consensus pattern (51 bp):
AATGTATAAATATTGCTGGCTAAATTTATTAAATAAATACCAAATTGATAA
Found at i:7121109 original size:13 final size:13
Alignment explanation
Indices: 7121091--7121115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7121081 CTTTTTTTTA
7121091 TTTTTAATTAATT
1 TTTTTAATTAATT
7121104 TTTTTAATTAAT
1 TTTTTAATTAAT
7121116 AAATATATTG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTAATTAATT
Found at i:7121159 original size:51 final size:51
Alignment explanation
Indices: 7121068--7121168 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
7121058 CTTTTATTTA
*
7121068 ATATTGTTTCAAGCTTTTTTTTATTTTTAATTAATTTTTTTAATTAATAAAT
1 ATATTGTTTCAAGC-TTTTTTTATTTTTAATTAATCTTTTTAATTAATAAAT
* *
7121120 ATATTGTTTTCAAG-TTTTTTTATTTTTTATTTATCTTTTTAATTAATAA
1 ATATTG-TTTCAAGCTTTTTTTATTTTTAATTAATCTTTTTAATTAATAA
7121169 CTCTTTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 32 0.71
52 6 0.13
53 7 0.16
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (51 bp):
ATATTGTTTCAAGCTTTTTTTATTTTTAATTAATCTTTTTAATTAATAAAT
Found at i:7122440 original size:7 final size:7
Alignment explanation
Indices: 7122428--7122465 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
7122418 AGGGAAGTCC
7122428 AATTGAA
1 AATTGAA
7122435 AATTGAA
1 AATTGAA
7122442 AATTGAA
1 AATTGAA
7122449 AATTGAA
1 AATTGAA
7122456 AATTGAA
1 AATTGAA
7122463 AAT
1 AAT
7122466 GCTAACAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (7 bp):
AATTGAA
Found at i:7122655 original size:13 final size:13
Alignment explanation
Indices: 7122637--7122669 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
7122627 TAAATTGATT
7122637 AAAATATAA-AAGA
1 AAAATA-AAGAAGA
7122650 AAAATAAAGAAGA
1 AAAATAAAGAAGA
7122663 AAAATAA
1 AAAATAA
7122670 TTATCTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 2 0.11
13 17 0.89
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (13 bp):
AAAATAAAGAAGA
Found at i:7126049 original size:393 final size:393
Alignment explanation
Indices: 7125324--7126104 Score: 1562
Period size: 393 Copynumber: 2.0 Consensus size: 393
7125314 TAAATTTTGC
7125324 AAAATGTTGAAAACTACAGATTTTTAACTCAGCATTCAGAAACTCAAAAGCTTATAGCATAAAGC
1 AAAATGTTGAAAACTACAGATTTTTAACTCAGCATTCAGAAACTCAAAAGCTTATAGCATAAAGC
7125389 ATACTGTAGAATTTACTGAGGATTTGGGGGTCGGCTATTGGCAGCAGAGACCCTAGACCCCCACT
66 ATACTGTAGAATTTACTGAGGATTTGGGGGTCGGCTATTGGCAGCAGAGACCCTAGACCCCCACT
7125454 CCAACAGCTCTTTGCTAGTATCATCCTTGTGAACCATCACTTCAATAAAGCATAAGCAGTCCTTC
131 CCAACAGCTCTTTGCTAGTATCATCCTTGTGAACCATCACTTCAATAAAGCATAAGCAGTCCTTC
7125519 TTGGCTCCCGTTGCCGTCTCAATTGCTTCTATGAGCTCTTCCTCACAAAATACCTAAAACAATAT
196 TTGGCTCCCGTTGCCGTCTCAATTGCTTCTATGAGCTCTTCCTCACAAAATACCTAAAACAATAT
7125584 CAAATTTTTAGTATTATATCAAGCAATTTTGTCAATGTCGGGAACTTCATTTGATTCTTTCAACC
261 CAAATTTTTAGTATTATATCAAGCAATTTTGTCAATGTCGGGAACTTCATTTGATTCTTTCAACC
7125649 AATGTACTAAGTTTGAATTTGACTCACCTTGGCTGTCCAGCACTTGCCTTCACCATTATGAATGT
326 AATGTACTAAGTTTGAATTTGACTCACCTTGGCTGTCCAGCACTTGCCTTCACCATTATGAATGT
7125714 TGA
391 TGA
7125717 AAAATGTTGAAAACTACAGATTTTTAACTCAGCATTCAGAAACTCAAAAGCTTATAGCATAAAGC
1 AAAATGTTGAAAACTACAGATTTTTAACTCAGCATTCAGAAACTCAAAAGCTTATAGCATAAAGC
7125782 ATACTGTAGAATTTACTGAGGATTTGGGGGTCGGCTATTGGCAGCAGAGACCCTAGACCCCCACT
66 ATACTGTAGAATTTACTGAGGATTTGGGGGTCGGCTATTGGCAGCAGAGACCCTAGACCCCCACT
7125847 CCAACAGCTCTTTGCTAGTATCATCCTTGTGAACCATCACTTCAATAAAGCATAAGCAGTCCTTC
131 CCAACAGCTCTTTGCTAGTATCATCCTTGTGAACCATCACTTCAATAAAGCATAAGCAGTCCTTC
7125912 TTGGCTCCCGTTGCCGTCTCAATTGCTTCTATGAGCTCTTCCTCACAAAATACCTAAAACAATAT
196 TTGGCTCCCGTTGCCGTCTCAATTGCTTCTATGAGCTCTTCCTCACAAAATACCTAAAACAATAT
7125977 CAAATTTTTAGTATTATATCAAGCAATTTTGTCAATGTCGGGAACTTCATTTGATTCTTTCAACC
261 CAAATTTTTAGTATTATATCAAGCAATTTTGTCAATGTCGGGAACTTCATTTGATTCTTTCAACC
7126042 AATGTACTAAGTTTGAATTTGACTCACCTTGGCTGTCCAGCACTTGCCTTCACCATTATGAAT
326 AATGTACTAAGTTTGAATTTGACTCACCTTGGCTGTCCAGCACTTGCCTTCACCATTATGAAT
7126105 TGCATCAACC
Statistics
Matches: 388, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
393 388 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (393 bp):
AAAATGTTGAAAACTACAGATTTTTAACTCAGCATTCAGAAACTCAAAAGCTTATAGCATAAAGC
ATACTGTAGAATTTACTGAGGATTTGGGGGTCGGCTATTGGCAGCAGAGACCCTAGACCCCCACT
CCAACAGCTCTTTGCTAGTATCATCCTTGTGAACCATCACTTCAATAAAGCATAAGCAGTCCTTC
TTGGCTCCCGTTGCCGTCTCAATTGCTTCTATGAGCTCTTCCTCACAAAATACCTAAAACAATAT
CAAATTTTTAGTATTATATCAAGCAATTTTGTCAATGTCGGGAACTTCATTTGATTCTTTCAACC
AATGTACTAAGTTTGAATTTGACTCACCTTGGCTGTCCAGCACTTGCCTTCACCATTATGAATGT
TGA
Found at i:7127416 original size:98 final size:100
Alignment explanation
Indices: 7127270--7127468 Score: 314
Period size: 98 Copynumber: 2.0 Consensus size: 100
7127260 CACCCATTAC
* *
7127270 GGAAAAAAAGAATTACTTGGCGTGAAAATTAATCGCTGAACAATCTTGAAGTTGAACAGAAAAGA
1 GGAAAAAAAGAATTACTTGGCGTGAAAATTAATCACTGAACAATCTTGAACTTGAACAGAAAAGA
*
7127335 GGAAAA-ATAGA-TTACTTTGGAGAGAGTGAAAATG
66 GGAAAAGA-AAATTTACTTTGGAGAGAGTGAAAATG
* * *
7127369 GGAAAAAAA-ATTTACTTGGCGTGCAAATTAATCATTGAACAATCTTGAACTTGAACAGAAAAGA
1 GGAAAAAAAGAATTACTTGGCGTGAAAATTAATCACTGAACAATCTTGAACTTGAACAGAAAAGA
7127433 GGAAAAGAAAATTTACTTTGGAGAGAGTGAAAATG
66 GGAAAAGAAAATTTACTTTGGAGAGAGTGAAAATG
7127468 G
1 G
7127469 AACTGGCTCG
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
98 58 0.63
99 34 0.37
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (100 bp):
GGAAAAAAAGAATTACTTGGCGTGAAAATTAATCACTGAACAATCTTGAACTTGAACAGAAAAGA
GGAAAAGAAAATTTACTTTGGAGAGAGTGAAAATG
Found at i:7132693 original size:45 final size:46
Alignment explanation
Indices: 7132595--7132801 Score: 341
Period size: 46 Copynumber: 4.6 Consensus size: 46
7132585 TTTGAGTACT
* *
7132595 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
7132641 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
*
7132686 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
*
7132732 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAACTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
*
7132777 TCTGATC-AGAGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
7132802 ATCATACGTA
Statistics
Matches: 154, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
43 12 0.08
44 5 0.03
45 61 0.40
46 76 0.49
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
Found at i:7132750 original size:91 final size:91
Alignment explanation
Indices: 7132595--7132801 Score: 373
Period size: 91 Copynumber: 2.3 Consensus size: 91
7132585 TTTGAGTACT
7132595 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAAGT
*
7132660 GATAAGTGGTAGCCTAGCTACACTTA
66 GATAAGTGGTAGCCTAACTACACTTA
*
7132686 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAAGT
7132751 GATAAGTGGTAGCCTAACTACACTTA
66 GATAAGTGGTAGCCTAACTACACTTA
*
7132777 TCTGATC-AGAGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
7132802 ATCATACGTA
Statistics
Matches: 113, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
89 12 0.11
90 5 0.04
91 96 0.85
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (91 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAAGT
GATAAGTGGTAGCCTAACTACACTTA
Found at i:7133142 original size:86 final size:86
Alignment explanation
Indices: 7133039--7133207 Score: 293
Period size: 86 Copynumber: 2.0 Consensus size: 86
7133029 TCGATAAACG
*
7133039 TTGAGTTAAATGGTAAATACGTATTAGTGTTAAACTTAGTGACATTGAATTGTACGTGAATTAAA
1 TTGAGATAAATGGTAAATACGTATTAGTGTTAAACTTAGTGACATTGAATTGTACGTGAATTAAA
*
7133104 TGGAAATTGCTAGTGATAACA
66 TGGAAATTGCTAATGATAACA
* * *
7133125 TTGAGATAAATGGTAAATACGTATTAGTGTTGAACTTATTGTCATTGAATTGTACGTGAATTAAA
1 TTGAGATAAATGGTAAATACGTATTAGTGTTAAACTTAGTGACATTGAATTGTACGTGAATTAAA
7133190 TGGAAATTGCTAATGATA
66 TGGAAATTGCTAATGATA
7133208 TGATTTAAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.36
Consensus pattern (86 bp):
TTGAGATAAATGGTAAATACGTATTAGTGTTAAACTTAGTGACATTGAATTGTACGTGAATTAAA
TGGAAATTGCTAATGATAACA
Found at i:7133925 original size:21 final size:21
Alignment explanation
Indices: 7133901--7134014 Score: 138
Period size: 21 Copynumber: 5.4 Consensus size: 21
7133891 CAGTACATCG
*
7133901 TGAACAGAAGCTCGTACGAGC
1 TGAACAGAAGCTCGTAAGAGC
*
7133922 TGAACAGAAGCTCGTAAAAGC
1 TGAACAGAAGCTCGTAAGAGC
* *** *
7133943 TGAACAGAAACTTACAAGAGT
1 TGAACAGAAGCTCGTAAGAGC
* *
7133964 TGAACAGAAGCTTGAAAGAGC
1 TGAACAGAAGCTCGTAAGAGC
*
7133985 TGAATAGAAGCTCGTAAGAGC
1 TGAACAGAAGCTCGTAAGAGC
7134006 TGAACAGAA
1 TGAACAGAA
7134015 AGTAAAACAC
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.16
Consensus pattern (21 bp):
TGAACAGAAGCTCGTAAGAGC
Found at i:7135846 original size:16 final size:16
Alignment explanation
Indices: 7135801--7135848 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
7135791 CATCAATCAC
7135801 ATCAACATTTATTAACA
1 ATCAA-ATTTATTAACA
*
7135818 ATCAAATTAATTAACA
1 ATCAAATTTATTAACA
7135834 AT-AAATTTCATTAAC
1 ATCAAATTT-ATTAAC
7135849 GAGAAGGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 5 0.18
16 18 0.64
17 5 0.18
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (16 bp):
ATCAAATTTATTAACA
Found at i:7141027 original size:21 final size:22
Alignment explanation
Indices: 7141000--7141044 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7140990 ACAAAAGAGA
7141000 TAAAAAAACCAGAACATAGCAT
1 TAAAAAAACCAGAACATAGCAT
7141022 TAAAAAAACCAGAACATAGCAT
1 TAAAAAAACCAGAACATAGCAT
7141044 T
1 T
7141045 CATTACCGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.58, C:0.18, G:0.09, T:0.16
Consensus pattern (22 bp):
TAAAAAAACCAGAACATAGCAT
Found at i:7151698 original size:26 final size:25
Alignment explanation
Indices: 7151668--7151743 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 25
7151658 TTGGTTAAAA
7151668 ATTAATCGATTTAACCTATTTAACCG
1 ATTAA-CGATTTAACCTATTTAACCG
*
7151694 ATTAACTGATTTAACCAATTTAACCG
1 ATTAAC-GATTTAACCTATTTAACCG
*
7151720 ACTTAACCGACTTAA-CTGATTTAA
1 A-TTAA-CGATTTAACCT-ATTTAA
7151744 ATCACTATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
25 1 0.02
26 25 0.58
27 16 0.37
28 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.36
Consensus pattern (25 bp):
ATTAACGATTTAACCTATTTAACCG
Found at i:7151743 original size:9 final size:9
Alignment explanation
Indices: 7151669--7151743 Score: 80
Period size: 9 Copynumber: 8.4 Consensus size: 9
7151659 TGGTTAAAAA
*
7151669 TTAATCGAT
1 TTAACCGAT
*
7151678 TTAACCTAT
1 TTAACCGAT
7151687 TTAACCGA-
1 TTAACCGAT
*
7151695 TTAACTGAT
1 TTAACCGAT
*
7151704 TTAACCAAT
1 TTAACCGAT
*
7151713 TTAACCGAC
1 TTAACCGAT
*
7151722 TTAACCGAC
1 TTAACCGAT
*
7151731 TTAACTGAT
1 TTAACCGAT
7151740 TTAA
1 TTAA
7151744 ATCACTATAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
8 7 0.13
9 48 0.87
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (9 bp):
TTAACCGAT
Found at i:7151798 original size:37 final size:37
Alignment explanation
Indices: 7151743--7151852 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
7151733 AACTGATTTA
* * *
7151743 AATCACTATATAATTAAAAAAATTACACAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
* *
7151780 AATCACTACATAACTAAAAATATTACTTAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
7151817 AATCACTACATAATTAAAAATATTACATAAGTCTTT
1 AATCACTACATAATTAAAAATATTACATAAGTCTTT
7151853 AACACATAGA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.35
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:7152036 original size:26 final size:26
Alignment explanation
Indices: 7152001--7152072 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
7151991 TTGGGAAAGA
7152001 AAACATGAAACATGCAGTATTGCATG
1 AAACATGAAACATGCAGTATTGCATG
7152027 AAACATGAAACATGCAGTATTGCATG
1 AAACATGAAACATGCAGTATTGCATG
7152053 AAACATGAAACATGCAGTAT
1 AAACATGAAACATGCAGTAT
7152073 AATGCACTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.22
Consensus pattern (26 bp):
AAACATGAAACATGCAGTATTGCATG
Found at i:7152134 original size:7 final size:7
Alignment explanation
Indices: 7152122--7152166 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
7152112 GTACAGAAGA
7152122 AAACATG
1 AAACATG
7152129 AAACATG
1 AAACATG
* *
7152136 CAATATG
1 AAACATG
7152143 AAACATG
1 AAACATG
7152150 AAAACATG
1 -AAACATG
7152158 AAACATG
1 AAACATG
7152165 AA
1 AA
7152167 TTATTCTTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.16
Consensus pattern (7 bp):
AAACATG
Found at i:7152145 original size:14 final size:15
Alignment explanation
Indices: 7152120--7152166 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
7152110 ATGTACAGAA
7152120 GAAAACATGAAACAT
1 GAAAACATGAAACAT
* *
7152135 G-CAATATGAAACAT
1 GAAAACATGAAACAT
7152149 GAAAACATGAAACAT
1 GAAAACATGAAACAT
7152164 GAA
1 GAA
7152167 TTATTCTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.57, C:0.13, G:0.15, T:0.15
Consensus pattern (15 bp):
GAAAACATGAAACAT
Found at i:7154691 original size:21 final size:21
Alignment explanation
Indices: 7154667--7154719 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
7154657 AATGGGAACG
7154667 TTATAATAATTTTAAA-TTAAA
1 TTATAATAATTTTAAAGTT-AA
*
7154688 TTATAATTATTTTTAAAGTTAA
1 TTATAA-TAATTTTAAAGTTAA
7154710 TT-TAATAATT
1 TTATAATAATT
7154720 CAAATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 4 0.14
21 9 0.32
22 13 0.46
23 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTATAATAATTTTAAAGTTAA
Found at i:7158981 original size:107 final size:107
Alignment explanation
Indices: 7158851--7159151 Score: 448
Period size: 107 Copynumber: 2.8 Consensus size: 107
7158841 CGGATATACG
*
7158851 AAAAAAAAACAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
1 AAAAAAATACAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
7158916 CAAAGAAAAAAAATTTTAATTTTTTTCGTGTCAGAATCAAAT
66 CAAAGAAAAAAAATTTTAATTTTTTTCGTGTCAGAATCAAAT
*
7158958 AAAAAAATACAAAAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
1 AAAAAAATACAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
*
7159023 CAAAG-AAAAAAA-TTT-ATTTTTTTCGTGTCAGAATCAGAT
66 CAAAGAAAAAAAATTTTAATTTTTTTCGTGTCAGAATCAAAT
** *
7159062 -AAAAAATACGAAAAAAATTAAAAAAAAAATTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTA
1 AAAAAAATAC-----AAA--AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
7159126 CACAGTACAAAGAAAAAAAAATTTTA
59 CACAGTACAAAG-AAAAAAAATTTTA
7159152 TTCTGACACG
Statistics
Matches: 176, Mismatches: 7, Indels: 15
0.89 0.04 0.08
Matches are distributed among these distances:
103 9 0.05
104 23 0.13
105 3 0.02
106 7 0.04
107 68 0.39
108 3 0.02
110 53 0.30
112 7 0.04
113 3 0.02
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (107 bp):
AAAAAAATACAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
CAAAGAAAAAAAATTTTAATTTTTTTCGTGTCAGAATCAAAT
Found at i:7159124 original size:110 final size:110
Alignment explanation
Indices: 7158854--7159144 Score: 425
Period size: 110 Copynumber: 2.6 Consensus size: 110
7158844 ATATACGAAA
7158854 AAAAAACAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAA
1 AAAAAA-AAAAAAAAAAA--TTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAA
7158919 AGAAAAAAAATTTTAATTTTTTTCGTGTCAGAATCAAATAAAAAAATAC
63 AG-AAAAAAATTTTAATTTTTTTCGTGTCAGAATCAAATAAAAAAATAC
** *
7158968 ----AAAAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGA
1 AAAAAAAAAAAAAAAAATTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGA
*
7159029 AAAAAA-TTT-ATTTTTTTCGTGTCAGAATCAGAT-AAAAAATAC
66 AAAAAATTTTAATTTTTTTCGTGTCAGAATCAAATAAAAAAATAC
*
7159071 GAAAAAAATTAAAAAAAAAATTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAA
1 -AAAAAAA--AAAAAAAAAATTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAA
7159136 AGAAAAAAA
63 AGAAAAAAA
7159145 AATTTTATTC
Statistics
Matches: 162, Mismatches: 8, Indels: 18
0.86 0.04 0.10
Matches are distributed among these distances:
103 9 0.06
104 23 0.14
105 3 0.02
106 7 0.04
107 46 0.28
108 3 0.02
109 9 0.06
110 62 0.38
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (110 bp):
AAAAAAAAAAAAAAAAATTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGA
AAAAAATTTTAATTTTTTTCGTGTCAGAATCAAATAAAAAAATAC
Found at i:7159311 original size:111 final size:113
Alignment explanation
Indices: 7159182--7159482 Score: 360
Period size: 111 Copynumber: 2.6 Consensus size: 113
7159172 TAAATTTTTT
*
7159182 TTCTTTGTACTGTATACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTT
1 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-TTTTTTTTATTTT
*
7159247 TTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAA-TAA-AAAAAAA
65 TTTCGTATTTTTTATCTGATTCTGACACAAAAAAAAATTAATAAAAAAA
* * * * *
7159294 TT-TTTGTACTGTGTACTGGGTGCCGGCCATTGATAGGCCAACACCCAAAAAAAAAATTTTCTAA
1 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-----AAAATTTTTTTTA
*******
7159358 TTTTTTTTCGTATTTTTTTATCTGATTCTGACACAAAAAAAAATTAATTTTTTTT
61 -TTTTTTTCGTA-TTTTTTATCTGATTCTGACACAAAAAAAAATTAATAAAAAAA
*
7159413 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCTAGCACCC--AATTTTTTTTATTTTT
1 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTATTTTT
7159476 TTCGTAT
66 TTCGTAT
7159483 ATCCGTATTT
Statistics
Matches: 159, Mismatches: 20, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
111 42 0.26
112 13 0.08
113 8 0.05
115 6 0.04
116 15 0.09
117 29 0.18
118 3 0.02
119 2 0.01
120 41 0.26
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (113 bp):
TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTATTTTT
TTCGTATTTTTTATCTGATTCTGACACAAAAAAAAATTAATAAAAAAA
Found at i:7164387 original size:16 final size:16
Alignment explanation
Indices: 7164366--7164400 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
7164356 TTCACTGTAT
7164366 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
7164382 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
7164398 TGG
1 TGG
7164401 CAAATCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.06, G:0.40, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:7164799 original size:116 final size:119
Alignment explanation
Indices: 7164611--7164966 Score: 639
Period size: 116 Copynumber: 3.0 Consensus size: 119
7164601 TTAATCATAT
*
7164611 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAA-ATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
7164676 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATTTAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
7164731 TTT-AA-AATAATTATTAAATATAATTTAATAAAAATATATAATTT-ATAAAATTCTTAATATTA
1 TTTAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
7164793 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
7164847 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTT-AAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
7164912 AAATATTATTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
7164966 T
1 T
7164967 ATATAATCTA
Statistics
Matches: 229, Mismatches: 3, Indels: 9
0.95 0.01 0.04
Matches are distributed among these distances:
116 74 0.32
117 38 0.17
118 3 0.01
119 45 0.20
120 69 0.30
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (119 bp):
TTTAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:7164861 original size:13 final size:12
Alignment explanation
Indices: 7164837--7164877 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
7164827 TATAATACTA
7164837 TAAAATATAATT
1 TAAAATATAATT
7164849 TAAAATAATAATT
1 TAAAAT-ATAATT
*
7164862 ATTAAATATAATT
1 -TAAAATATAATT
7164875 TAA
1 TAA
7164878 TAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:7168608 original size:60 final size:60
Alignment explanation
Indices: 7168495--7168608 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
7168485 GAGGAGCCGT
* * **
7168495 GGAGGTCAGACAAGGAAGGAGCAACTGGGGAGAGAAGGGTACCAGGAGCTGGGAAGCAAA
1 GGAGGTCAGACAAGAAAGGAGCAACTAGGGAGAGAAGGGTACCAGGAAATGGGAAGCAAA
* *
7168555 GGAGGTCAGACAAGAAAGGAGCAGA-TAGGGAGTGAGGGGTACCAGGAAATGGGA
1 GGAGGTCAGACAAGAAAGGAGCA-ACTAGGGAGAGAAGGGTACCAGGAAATGGGA
7168609 CGAAAAGGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 46 0.98
61 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.44, T:0.08
Consensus pattern (60 bp):
GGAGGTCAGACAAGAAAGGAGCAACTAGGGAGAGAAGGGTACCAGGAAATGGGAAGCAAA
Found at i:7170917 original size:20 final size:20
Alignment explanation
Indices: 7170790--7170917 Score: 89
Period size: 20 Copynumber: 6.4 Consensus size: 20
7170780 TGATTGAAAT
*
7170790 TTAGATATTTTAGTAAATCC
1 TTAGATATTTTGGTAAATCC
* * * *
7170810 TTAGAAATATTCGTAAACCC
1 TTAGATATTTTGGTAAATCC
* * *
7170830 TTATATCTTTTGGTAAATCG
1 TTAGATATTTTGGTAAATCC
* * *
7170850 TTACATATATTGGTAAGT--
1 TTAGATATTTTGGTAAATCC
* * *
7170868 TGTAAAAAGTTTTGGTAAATCA
1 T-TAGATA-TTTTGGTAAATCC
*
7170890 TTAAATATTTTGGTAAATCC
1 TTAGATATTTTGGTAAATCC
7170910 TTAGATAT
1 TTAGATAT
7170918 ACTAGTGTCA
Statistics
Matches: 82, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
18 1 0.01
19 4 0.05
20 71 0.87
21 5 0.06
22 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.42
Consensus pattern (20 bp):
TTAGATATTTTGGTAAATCC
Found at i:7171017 original size:14 final size:14
Alignment explanation
Indices: 7170998--7171029 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7170988 AGGTCATTTA
7170998 GCCCAACCAAACTG
1 GCCCAACCAAACTG
7171012 GCCCAACCAAACTG
1 GCCCAACCAAACTG
7171026 GCCC
1 GCCC
7171030 GGTGATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:7175730 original size:14 final size:14
Alignment explanation
Indices: 7175711--7175742 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7175701 AGGTCATTTA
7175711 GCCCAACCAAACTG
1 GCCCAACCAAACTG
7175725 GCCCAACCAAACTG
1 GCCCAACCAAACTG
7175739 GCCC
1 GCCC
7175743 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:7176450 original size:20 final size:20
Alignment explanation
Indices: 7176427--7176934 Score: 143
Period size: 20 Copynumber: 25.1 Consensus size: 20
7176417 GGTAAAACTG
* *
7176427 TAGAAATTTTGATAAATCAT
1 TAGAAATTTTGGTAAATCGT
*
7176447 TAG-ATTTATTGGTAAATC-T
1 TAGAAATT-TTGGTAAATCGT
* * *
7176466 TTGAACATTTTGGTAAACCCT
1 TAGAA-ATTTTGGTAAATCGT
* * **
7176487 TATAAATATTGGTAAATTTT
1 TAGAAATTTTGGTAAATCGT
*
7176507 TAGAAATTTTAGTAAATCGT
1 TAGAAATTTTGGTAAATCGT
* *
7176527 TAG-ATTTGTTTGTGAAA---T
1 TAGAAATT-TTGGT-AAATCGT
*
7176545 TAGAAATATTGGTAAATCGT
1 TAGAAATTTTGGTAAATCGT
* * * *
7176565 TAG-TATTATTTGTAAACCCT
1 TAGAAATT-TTGGTAAATCGT
*
7176585 TAGAAATATTGGTAAATCGT
1 TAGAAATTTTGGTAAATCGT
* *
7176605 TA-AATATTTTAGTAAATCTT
1 TAGAA-ATTTTGGTAAATCGT
* *
7176625 TAGAAATTTTTGT-AATTGT
1 TAGAAATTTTGGTAAATCGT
* *
7176644 TA-ACA-CTTGGTATAAT-GT
1 TAGAAATTTTGGTA-AATCGT
7176662 TAGAAATTTTGAAAATATTAGTAAAATC-T
1 TAGAAATTTTG---------GT-AAATCGT
7176691 TAGAAATTTTGGTAAATTC-T
1 TAGAAATTTTGGTAAA-TCGT
* * * * * **
7176711 CATAAATATTGGCAAAACAA
1 TAGAAATTTTGGTAAATCGT
* *
7176731 TAGAAATTTTGATAAATCAT
1 TAGAAATTTTGGTAAATCGT
* ** *
7176751 TAGATATTTTTTATAAATCCT
1 TAGA-AATTTTGGTAAATCGT
* * * *
7176772 TAAAAATTCTGATAAAACGT
1 TAGAAATTTTGGTAAATCGT
* * *
7176792 TAGATATATTGGTAAATCCT
1 TAGAAATTTTGGTAAATCGT
* * *
7176812 TAAAAATATTAGTAAAAT-GT
1 TAGAAATTTTGGT-AAATCGT
* * * *
7176832 TAGATATATTGATAAATCCT
1 TAGAAATTTTGGTAAATCGT
* * *
7176852 TAAAAATATTGGTAAAACGT
1 TAGAAATTTTGGTAAATCGT
*
7176872 TA-AATATTTTAGTAAATTC-T
1 TAGAA-ATTTTGGTAAA-TCGT
* *
7176892 TAGAAATTTTGGTTAATCAT
1 TAGAAATTTTGGTAAATCGT
* *
7176912 TTGATAA-TTTGGTAAATCTT
1 TAGA-AATTTTGGTAAATCGT
7176932 TAG
1 TAG
7176935 GTAAATCATT
Statistics
Matches: 355, Mismatches: 94, Indels: 78
0.67 0.18 0.15
Matches are distributed among these distances:
17 7 0.02
18 14 0.04
19 38 0.11
20 240 0.68
21 38 0.11
29 17 0.05
30 1 0.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.41
Consensus pattern (20 bp):
TAGAAATTTTGGTAAATCGT
Found at i:7176457 original size:40 final size:39
Alignment explanation
Indices: 7176413--7176931 Score: 200
Period size: 40 Copynumber: 13.4 Consensus size: 39
7176403 CTCTAATAAG
* * *
7176413 TATTGGTAAAACTGTAGAAATTTTGATAAATCATTAGATT
1 TATTGGTAAATCT-TAGAAATTTTGGTAAATCGTTAGATT
* * * * **
7176453 TATTGGTAAATCTTTGAACATTTTGGTAAACCCTTATAAA
1 TATTGGTAAATCTTAGAA-ATTTTGGTAAATCGTTAGATT
* *
7176493 TATTGGTAAATTTTTAGAAATTTTAGTAAATCGTTAGATT
1 TATTGGTAAA-TCTTAGAAATTTTGGTAAATCGTTAGATT
* * *
7176533 TGTTTGTGAAA--TTAGAAATATTGGTAAATCGTTAG-TAT
1 TATTGGT-AAATCTTAGAAATTTTGGTAAATCGTTAGAT-T
* * * *
7176571 TATTTGTAAACCCTTAGAAATATTGGTAAATCGTTAAATAT
1 TATTGGTAAA-TCTTAGAAATTTTGGTAAATCGTTAGAT-T
* * *
7176612 T-TTAGTAAATCTTTAGAAATTTTTGT-AATTGTTA-A--
1 TATTGGTAAATC-TTAGAAATTTTGGTAAATCGTTAGATT
* * * *
7176647 CACTTGGTATAATGTTAGAAATTTT-GAAAAT-ATTAG---
1 TA-TTGGTA-AATCTTAGAAATTTTGGTAAATCGTTAGATT
* * **
7176683 TA-----AAATCTTAGAAATTTTGGTAAATTC-TCATAAA
1 TATTGGTAAATCTTAGAAATTTTGGTAAA-TCGTTAGATT
* * * * *
7176717 TATTGGCAAAACAATAGAAATTTTGATAAATCATTAGATAT
1 TATTGGTAAATC-TTAGAAATTTTGGTAAATCGTTAGAT-T
* ** * * * * *
7176758 TTTTTATAAATCCTTAAAAATTCTGATAAAACGTTAGATA
1 TATTGGTAAAT-CTTAGAAATTTTGGTAAATCGTTAGATT
* * * *
7176798 TATTGGTAAATCCTTAAAAATATTAGTAAAAT-GTTAGATA
1 TATTGGTAAAT-CTTAGAAATTTTGGT-AAATCGTTAGATT
* * * * *
7176838 TATTGATAAATCCTTAAAAATATTGGTAAAACGTTAAATAT
1 TATTGGTAAAT-CTTAGAAATTTTGGTAAATCGTTAGAT-T
* * * *
7176879 T-TTAGTAAATTCTTAGAAATTTTGGTTAATCATTTGA-T
1 TATTGGTAAA-TCTTAGAAATTTTGGTAAATCGTTAGATT
*
7176917 AATTTGGTAAATCTT
1 TA-TTGGTAAATCTT
7176932 TAGGTAAATC
Statistics
Matches: 365, Mismatches: 79, Indels: 71
0.71 0.15 0.14
Matches are distributed among these distances:
29 14 0.04
30 5 0.01
31 3 0.01
34 2 0.01
36 5 0.01
37 23 0.06
38 34 0.09
39 25 0.07
40 208 0.57
41 45 0.12
42 1 0.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (39 bp):
TATTGGTAAATCTTAGAAATTTTGGTAAATCGTTAGATT
Found at i:7176560 original size:38 final size:38
Alignment explanation
Indices: 7176506--7176606 Score: 125
Period size: 38 Copynumber: 2.6 Consensus size: 38
7176496 TGGTAAATTT
* * *
7176506 TTAGAAATTTTAGTAAATCGTTAG-ATTTGTTTGTGAAA-
1 TTAGAAATATTGGTAAATCGTTAGTA-TTATTTGT-AAAC
7176544 TTAGAAATATTGGTAAATCGTTAGTATTATTTGTAAACCC
1 TTAGAAATATTGGTAAATCGTTAGTATTATTTGTAAA--C
7176584 TTAGAAATATTGGTAAATCGTTA
1 TTAGAAATATTGGTAAATCGTTA
7176607 AATATTTTAG
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
37 3 0.05
38 29 0.52
39 1 0.02
40 23 0.41
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.42
Consensus pattern (38 bp):
TTAGAAATATTGGTAAATCGTTAGTATTATTTGTAAAC
Found at i:7176960 original size:32 final size:32
Alignment explanation
Indices: 7176906--7176966 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
7176896 AATTTTGGTT
* ** *
7176906 AATCATTTGATAATTTGGTAAATCTTTAGGTA
1 AATCATTAGATAATTTAATAAATCCTTAGGTA
*
7176938 AATCATTAGATATTTTAATAAATCCTTAG
1 AATCATTAGATAATTTAATAAATCCTTAG
7176967 ATTCATTGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (32 bp):
AATCATTAGATAATTTAATAAATCCTTAGGTA
Found at i:7177003 original size:21 final size:21
Alignment explanation
Indices: 7176971--7177019 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
7176961 CCTTAGATTC
7176971 ATTGGT-AAATCCTT-ATAAAT
1 ATTGGTAAAATCCTTCA-AAAT
7176991 ATTGGTAAAATCCTTCAAAAT
1 ATTGGTAAAATCCTTCAAAAT
*
7177012 TTTGGTAA
1 ATTGGTAA
7177020 TTGTTAAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.23
21 19 0.73
22 1 0.04
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
ATTGGTAAAATCCTTCAAAAT
Found at i:7177138 original size:20 final size:20
Alignment explanation
Indices: 7177110--7177211 Score: 71
Period size: 20 Copynumber: 5.1 Consensus size: 20
7177100 TGGTAAAAAG
*
7177110 AAATCATTAGAAATATTTGT
1 AAATCATTAGAAATATTGGT
* *
7177130 AAATTATTAGATATATTGGT
1 AAATCATTAGAAATATTGGT
* * * * *
7177150 AAACCGTTAGATATTTTGAT
1 AAATCATTAGAAATATTGGT
* *
7177170 AAAT-ATTTAGAAATTTTGAT
1 AAATCA-TTAGAAATATTGGT
* **
7177190 AAATCGTTAGACTTATTGGT
1 AAATCATTAGAAATATTGGT
7177210 AA
1 AA
7177212 GTTCTTAGAA
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.41
Consensus pattern (20 bp):
AAATCATTAGAAATATTGGT
Found at i:7177160 original size:40 final size:40
Alignment explanation
Indices: 7177116--7177200 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
7177106 AAAGAAATCA
* *
7177116 TTAGAAATATTTG-TAAAT-TATTAGATATATTGGTAAACCG
1 TTAGAAAT-TTTGATAAATAT-TTAGAAATATTGATAAACCG
* * *
7177156 TTAGATATTTTGATAAATATTTAGAAATTTTGATAAATCG
1 TTAGAAATTTTGATAAATATTTAGAAATATTGATAAACCG
7177196 TTAGA
1 TTAGA
7177201 CTTATTGGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
39 4 0.11
40 33 0.87
41 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (40 bp):
TTAGAAATTTTGATAAATATTTAGAAATATTGATAAACCG
Found at i:7179407 original size:143 final size:143
Alignment explanation
Indices: 7179149--7179407 Score: 421
Period size: 143 Copynumber: 1.8 Consensus size: 143
7179139 GGAGTTTTAC
* *
7179149 ACAAAAACAACATATGAGAAAATTGAAGCTTAAGAAGTTGAAAAAGTAATTGCATTATTCTAGGT
1 ACAAAAACAACATATGAGAAAATAGAAGCTTAAGAAGTTGAAAAAGTAATTGCATTATTCTAGGC
* * *
7179214 GACGATGTTTTCGTTGGAGTTGAATGCTATCCGTCACTATTTACAAGATGTACAACATGAAAGAA
66 CACGATGTTTTCGTTGGAGTAGAACGCTATCCGTCACTATTTACAAGATGTACAACATGAAAGAA
7179279 GGTTAGAGTAAAT
131 GGTTAGAGTAAAT
*
7179292 ACAAAAACAACATATGAGAAAATCAG-AGCTTAAGAAGTTGAAAAAGTAATTGCATTGTTCTAGG
1 ACAAAAACAACATATGAGAAAAT-AGAAGCTTAAGAAGTTGAAAAAGTAATTGCATTATTCTAGG
* * *
7179356 CCACGATGTTTTCGTTGGAGTAGAACGTTATCTGTCACTATTTATAAGATGT
65 CCACGATGTTTTCGTTGGAGTAGAACGCTATCCGTCACTATTTACAAGATGT
7179408 GTTCGTTGAA
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
143 105 0.99
144 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (143 bp):
ACAAAAACAACATATGAGAAAATAGAAGCTTAAGAAGTTGAAAAAGTAATTGCATTATTCTAGGC
CACGATGTTTTCGTTGGAGTAGAACGCTATCCGTCACTATTTACAAGATGTACAACATGAAAGAA
GGTTAGAGTAAAT
Found at i:7180134 original size:18 final size:18
Alignment explanation
Indices: 7180113--7180149 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7180103 TGAATTTTTG
7180113 AATTCGAAT-AACTCAAAT
1 AATTCGAATGAACT-AAAT
7180131 AATTCGAATGAACTAAAT
1 AATTCGAATGAACTAAAT
7180149 A
1 A
7180150 TTAACTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCGAATGAACTAAAT
Found at i:7189103 original size:22 final size:24
Alignment explanation
Indices: 7189068--7189116 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
7189058 ATTAAATATA
*
7189068 TAAAATAATAAAATAT-TATTTTT
1 TAAAATAATAAAATATATAGTTTT
*
7189091 TAAATTAAT-AAATATATAGTTTT
1 TAAAATAATAAAATATATAGTTTT
7189114 TAA
1 TAA
7189117 TTATTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TAAAATAATAAAATATATAGTTTT
Found at i:7189106 original size:37 final size:39
Alignment explanation
Indices: 7189006--7189106 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 39
7188996 ATATTATAAT
7189006 GTATAA-TATTAATATTAATAAA-ATAAAATAAAATAAAATA
1 GTATAACT-TTAA-ATTAATAAATATAAAAT-AAATAAAATA
* *
7189046 GTATAACTTTATATTAA-ATATATAAAAT-AATAAAATA
1 GTATAACTTTAAATTAATAAATATAAAATAAATAAAATA
* **
7189083 TTAT-TTTTTAAATTAATAAATATA
1 GTATAACTTTAAATTAATAAATATA
7189107 TAGTTTTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
36 9 0.18
37 18 0.35
38 2 0.04
39 12 0.24
40 9 0.18
41 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (39 bp):
GTATAACTTTAAATTAATAAATATAAAATAAATAAAATA
Found at i:7204126 original size:18 final size:18
Alignment explanation
Indices: 7204105--7204142 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7204095 CTTCTACCCT
7204105 TTCCCCTTTCCCTTCCCC
1 TTCCCCTTTCCCTTCCCC
*
7204123 TTCCCTTTTCCCTTCCCC
1 TTCCCCTTTCCCTTCCCC
7204141 TT
1 TT
7204143 GGATTGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (18 bp):
TTCCCCTTTCCCTTCCCC
Found at i:7204236 original size:25 final size:25
Alignment explanation
Indices: 7204202--7204251 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
7204192 CAGGTAAGGC
*
7204202 TCCTTCTTCTTCTTCCGTTTTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
* *
7204227 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
7204252 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.30, G:0.04, T:0.62
Consensus pattern (25 bp):
TCCTTCTTCTTCTTCCGTTCTTCAT
Found at i:7206904 original size:15 final size:15
Alignment explanation
Indices: 7206866--7206917 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
7206856 GAACATTTGG
7206866 AATTTAATTAGATAAAA
1 AATTT-ATTA-ATAAAA
*
7206883 ACTTTTATTAATAAAA
1 A-ATTTATTAATAAAA
*
7206899 AATTTATTTATAAATA
1 AATTTATTAATAAA-A
7206915 AAT
1 AAT
7206918 CATTGCAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 11 0.37
16 11 0.37
17 5 0.17
18 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
AATTTATTAATAAAA
Found at i:7206991 original size:22 final size:20
Alignment explanation
Indices: 7206948--7206986 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7206938 TAATTTAAAA
7206948 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
7206968 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
7206987 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:7207110 original size:20 final size:20
Alignment explanation
Indices: 7207085--7207124 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7207075 AATATTTTCC
*
7207085 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
7207105 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
7207125 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:7207130 original size:34 final size:35
Alignment explanation
Indices: 7207073--7207139 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
7207063 CAAACACTAG
*
7207073 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
7207108 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
7207140 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:7207131 original size:14 final size:14
Alignment explanation
Indices: 7207108--7207147 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7207098 ACAGAAAAGT
*
7207108 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
7207122 AAATCATTTTACGG
1 AAAACATTTTACAG
7207136 AAAACATTTTAC
1 AAAACATTTTAC
7207148 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:7224438 original size:12 final size:13
Alignment explanation
Indices: 7224421--7224457 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
7224411 GAACCGGACA
7224421 CGAACCGAA-CTC
1 CGAACCGAAGCTC
7224433 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
7224445 CGAACCGTAGCTC
1 CGAACCGAAGCTC
7224458 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:7226528 original size:21 final size:21
Alignment explanation
Indices: 7226502--7226542 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7226492 GTGGTTGTTG
7226502 CTGCTGCTGATGATATTGATA
1 CTGCTGCTGATGATATTGATA
*
7226523 CTGCTGCTGCTGATATTGAT
1 CTGCTGCTGATGATATTGAT
7226543 GATGATGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (21 bp):
CTGCTGCTGATGATATTGATA
Found at i:7232599 original size:65 final size:65
Alignment explanation
Indices: 7232518--7232661 Score: 198
Period size: 65 Copynumber: 2.2 Consensus size: 65
7232508 TGCGGGGTAC
* * ** * *
7232518 CGCAGCTCTTTATGAGCGTCCTGTTATATGATCAATTGTGATCTTGCATATATAGCGGACACAAA
1 CGCAGCTCTTTGTGAGCGTCCTATTATATGATCAACAGTGATCCTGCATATATAGCAGACACAAA
* * * *
7232583 CGCAGCTCTTTGTGAGCGTCCTATTTTATGATCGACAGTGATCCTGCATATGTTGCAGACACAAA
1 CGCAGCTCTTTGTGAGCGTCCTATTATATGATCAACAGTGATCCTGCATATATAGCAGACACAAA
7232648 CGCAGCTCTTTGTG
1 CGCAGCTCTTTGTG
7232662 CAAGTCCTGA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (65 bp):
CGCAGCTCTTTGTGAGCGTCCTATTATATGATCAACAGTGATCCTGCATATATAGCAGACACAAA
Found at i:7232773 original size:26 final size:26
Alignment explanation
Indices: 7232708--7232816 Score: 84
Period size: 26 Copynumber: 4.3 Consensus size: 26
7232698 TGGCTATCCG
* *
7232708 GAGC-TCCTGACTAATGGCTCT-TCGT
1 GAGCTTCCTGATTAAAGGCTCTAT-GT
*
7232733 GAGCTT-CTCGTTTAAAGGCTCT-TCGT
1 GAGCTTCCT-GATTAAAGGCTCTAT-GT
***
7232759 GAGCTTCCTGATTAAAATTTCTATGT
1 GAGCTTCCTGATTAAAGGCTCTATGT
* *
7232785 GAACTTCCTGATT-ATGGCTCTATGT
1 GAGCTTCCTGATTAAAGGCTCTATGT
7232810 GAGCTTC
1 GAGCTTC
7232817 TCGTTATATA
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
25 20 0.30
26 44 0.66
27 3 0.04
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAGGCTCTATGT
Found at i:7234706 original size:25 final size:24
Alignment explanation
Indices: 7234628--7234706 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 24
7234618 CCATTAACAA
* * *
7234628 GAAGCTCCGGATAGCCATATATCTG
1 GAAGCTTCGGAGAGCCATA-ATCAG
* * *
7234653 GAAG-TTCAAGCGAGCCAT-ATCGG
1 GAAGCTTC-GGAGAGCCATAATCAG
7234676 GAAGCTTCGGAGAGCCATTAATCAG
1 GAAGCTTCGGAGAGCCA-TAATCAG
7234701 GAAGCT
1 GAAGCT
7234707 CACAAAGTGC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
23 15 0.36
24 6 0.14
25 21 0.50
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (24 bp):
GAAGCTTCGGAGAGCCATAATCAG
Found at i:7234751 original size:26 final size:26
Alignment explanation
Indices: 7234640--7234760 Score: 83
Period size: 26 Copynumber: 4.8 Consensus size: 26
7234630 AGCTCCGGAT
* * * *
7234640 AGCCATATATCTGGAAGTTCAAG-CG
1 AGCCATATATCGGGAAGCTCACGAAG
* *
7234665 AGCC--ATATCGGGAAGCT-TCGGAG
1 AGCCATATATCGGGAAGCTCACGAAG
* *
7234688 AGCCAT-TAATCAGGAAGCTCACAAAG
1 AGCCATAT-ATCGGGAAGCTCACGAAG
* *
7234714 TGCC-TTTAATCGGGAAGCTCACGAAG
1 AGCCATAT-ATCGGGAAGCTCACGAAG
*
7234740 AGCCATATATCGGGACGCTCA
1 AGCCATATATCGGGAAGCTCA
7234761 TAAGAGTTGT
Statistics
Matches: 74, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
22 1 0.01
23 16 0.22
24 1 0.01
25 15 0.20
26 39 0.53
27 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (26 bp):
AGCCATATATCGGGAAGCTCACGAAG
Found at i:7241230 original size:18 final size:18
Alignment explanation
Indices: 7241207--7241242 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7241197 GAGTTGACTC
*
7241207 GAATAATTTGATTAATTT
1 GAATAACTTGATTAATTT
*
7241225 GAATAACTTGATTCATTT
1 GAATAACTTGATTAATTT
7241243 AACTCGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (18 bp):
GAATAACTTGATTAATTT
Found at i:7241974 original size:23 final size:22
Alignment explanation
Indices: 7241931--7241978 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
7241921 TATATTCCAT
*
7241931 TTATTATTTTATTCTCTTAAATC
1 TTATTATTTTATTCTCGTAAA-C
*
7241954 TTATTATTTTGTAT-TCGTAAAC
1 TTATTATTTTAT-TCTCGTAAAC
7241976 TTA
1 TTA
7241979 ATTGAACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 17 0.77
24 1 0.05
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.58
Consensus pattern (22 bp):
TTATTATTTTATTCTCGTAAAC
Found at i:7246251 original size:17 final size:17
Alignment explanation
Indices: 7246229--7246262 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7246219 CACAGCTACC
7246229 AAGAGAGAAAGATAATA
1 AAGAGAGAAAGATAATA
7246246 AAGAGAGAAAGATAATA
1 AAGAGAGAAAGATAATA
7246263 TCAAGTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.12
Consensus pattern (17 bp):
AAGAGAGAAAGATAATA
Found at i:7246783 original size:27 final size:27
Alignment explanation
Indices: 7246752--7246809 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
7246742 TTGTGTAATT
7246752 GACATGTTGAAAATTAGTCACATATCC
1 GACATGTTGAAAATTAGTCACATATCC
7246779 GACATGTTGAAAATTAGTCACATATCC
1 GACATGTTGAAAATTAGTCACATATCC
7246806 GACA
1 GACA
7246810 ATGTCCGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (27 bp):
GACATGTTGAAAATTAGTCACATATCC
Found at i:7247019 original size:24 final size:25
Alignment explanation
Indices: 7246966--7247013 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
7246956 TTGGCTCTCA
*
7246966 CGAGCTTCCAGTTAAATGGTTCTTG
1 CGAGCTTCCAGTTAAATAGTTCTTG
*
7246991 CGAGCTTCCTGTT-AATAGTTCTT
1 CGAGCTTCCAGTTAAATAGTTCTT
7247014 TGGAGCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (25 bp):
CGAGCTTCCAGTTAAATAGTTCTTG
Found at i:7247101 original size:25 final size:25
Alignment explanation
Indices: 7247073--7247167 Score: 81
Period size: 25 Copynumber: 3.8 Consensus size: 25
7247063 AGCTCTTATG
*
7247073 AGCTTCCTGATATATGGCTCTTCGA
1 AGCTTCCCGATATATGGCTCTTCGA
*
7247098 AGCTTCCCGAT-TAAAGGCTCTTTCATGA
1 AGCTTCCCGATAT-ATGGCTC-TTC--GA
* * *
7247126 A-CTTCCCGATAAATGACT-TTCGG
1 AGCTTCCCGATATATGGCTCTTCGA
7247149 AGCTTCCCGATAT-TGGCTC
1 AGCTTCCCGATATATGGCTC
7247168 GCTTGTACTT
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
23 6 0.11
24 11 0.20
25 19 0.35
26 3 0.05
27 13 0.24
28 3 0.05
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
AGCTTCCCGATATATGGCTCTTCGA
Found at i:7247212 original size:24 final size:24
Alignment explanation
Indices: 7247185--7247255 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
7247175 CTTCCTGATT
7247185 ATGGCTCTAATGAGCTTCCCGTTA
1 ATGGCTCTAATGAGCTTCCCGTTA
* *
7247209 ATGGCT-TGAAAGAGCTTCCCGTTT
1 ATGGCTCT-AATGAGCTTCCCGTTA
7247233 ATGTGCTCGT-ATGAGCATTCCCG
1 ATG-GCTC-TAATGAGC-TTCCCG
7247256 AAAATAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.03
24 23 0.59
25 8 0.21
26 6 0.15
27 1 0.03
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (24 bp):
ATGGCTCTAATGAGCTTCCCGTTA
Found at i:7254299 original size:22 final size:21
Alignment explanation
Indices: 7254257--7254299 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7254247 AAATTTGATT
*
7254257 ATTAATCTTTTAAAAAGTTAA
1 ATTAATCTTTTAAAAAATTAA
*
7254278 ATTATTCTTTTAAAAATATTAA
1 ATTAATCTTTTAAAAA-ATTAA
7254300 CTAAAGCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAATCTTTTAAAAAATTAA
Done.