Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 32 of 216
Found at i:9235149 original size:27 final size:28
Alignment explanation
Indices: 9235091--9235149 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
9235081 GCCTGATTAG
9235091 GCCAATCACATTGGAGGCACCAAAGGTC
1 GCCAATCACATTGGAGGCACCAAAGGTC
* * * *
9235119 -CCAATGAGATTGGCGGCACCAATGG-C
1 GCCAATCACATTGGAGGCACCAAAGGTC
9235145 GCCAA
1 GCCAA
9235150 AGGACTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.31, C:0.29, G:0.27, T:0.14
Consensus pattern (28 bp):
GCCAATCACATTGGAGGCACCAAAGGTC
Found at i:9235684 original size:19 final size:19
Alignment explanation
Indices: 9235660--9235718 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
9235650 TCTCATTAAG
9235660 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
9235679 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
9235697 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
9235716 TAA
1 TAA
9235719 AAAAATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:9235820 original size:19 final size:19
Alignment explanation
Indices: 9235796--9235889 Score: 111
Period size: 18 Copynumber: 5.1 Consensus size: 19
9235786 TCTAATTAAG
*
9235796 TAATAACTCTATTTTAATT
1 TAATAACACTATTTTAATT
* *
9235815 TAATAA-ACTATTCTCATT
1 TAATAACACTATTTTAATT
9235833 TAATAACACTATTTTAATT
1 TAATAACACTATTTTAATT
* *
9235852 TAATAA-ACTATTCTCATT
1 TAATAACACTATTTTAATT
**
9235870 TAATAACTTTATTTTAATT
1 TAATAACACTATTTTAATT
9235889 T
1 T
9235890 TAAAAATTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
18 31 0.50
19 31 0.50
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATAACACTATTTTAATT
Found at i:9235837 original size:37 final size:37
Alignment explanation
Indices: 9235796--9235889 Score: 170
Period size: 37 Copynumber: 2.5 Consensus size: 37
9235786 TCTAATTAAG
9235796 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
*
9235833 TAATAACACTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
*
9235870 TAATAACTTTATTTTAATTT
1 TAATAACTCTATTTTAATTT
9235890 TAAAAATTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:9235920 original size:136 final size:134
Alignment explanation
Indices: 9235645--9235921 Score: 387
Period size: 136 Copynumber: 2.0 Consensus size: 134
9235635 TAAGATATTT
* *
9235645 AGAATTCTCATTAAGTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
1 AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACACTATT
* * *
9235710 TTAATTTAAAAAAATTAAAAAAATTATTTTAATTTAATTTTTTTAAAATTAAAATAGAGTTATTA
66 TTAATTTAAAAAAATTAAAAAAATAACTTTAATTTAA-TTTTTAAAAATTAAAATAGAGTTATTA
9235775 AATGAG
130 AAT-AG
9235781 AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACACTATT
1 AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACACTATT
* * *** *
9235846 TTAATTTAATAAACTATTCTCATTTAATAACTTTATTTTAA-TTTTAAAAATTAAAATAGAGTTA
66 TTAATTTAA-AAA--AAT-TAAAAAAATAACTTTAATTTAATTTTTAAAAATTAAAATAGAGTTA
9235910 TTAAAT-G
127 TTAAATAG
9235917 AGAAT
1 AGAAT
9235922 AGTTTATTAA
Statistics
Matches: 126, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
136 78 0.62
137 3 0.02
138 28 0.22
139 2 0.02
140 15 0.12
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (134 bp):
AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACACTATT
TTAATTTAAAAAAATTAAAAAAATAACTTTAATTTAATTTTTAAAAATTAAAATAGAGTTATTAA
ATAG
Found at i:9235922 original size:19 final size:18
Alignment explanation
Indices: 9235893--9235986 Score: 98
Period size: 19 Copynumber: 5.1 Consensus size: 18
9235883 TTAATTTTAA
*
9235893 AAATTAAAATAGAGTTATT
1 AAATGAAAATAG-GTTATT
* *
9235912 AAATGAGAATAGTTTATT
1 AAATGAAAATAGGTTATT
*
9235930 AAATTAAAATAGTGTTATT
1 AAATGAAAATAG-GTTATT
* *
9235949 AAATGAGAATAGTTTATT
1 AAATGAAAATAGGTTATT
*
9235967 AAATTAAAATAGAGTTATT
1 AAATGAAAATAG-GTTATT
9235986 A
1 A
9235987 CTTAATTAGA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
18 30 0.49
19 31 0.51
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (18 bp):
AAATGAAAATAGGTTATT
Found at i:9235941 original size:37 final size:37
Alignment explanation
Indices: 9235893--9235986 Score: 179
Period size: 37 Copynumber: 2.5 Consensus size: 37
9235883 TTAATTTTAA
9235893 AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
1 AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
*
9235930 AAATTAAAATAGTGTTATTAAATGAGAATAGTTTATT
1 AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
9235967 AAATTAAAATAGAGTTATTA
1 AAATTAAAATAGAGTTATTA
9235987 CTTAATTAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (37 bp):
AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
Found at i:9235977 original size:18 final size:18
Alignment explanation
Indices: 9235893--9235978 Score: 109
Period size: 18 Copynumber: 4.7 Consensus size: 18
9235883 TTAATTTTAA
*
9235893 AAATTAAAATAGAGTTATT
1 AAATTAAAATAG-TTTATT
* *
9235912 AAATGAGAATAGTTTATT
1 AAATTAAAATAGTTTATT
9235930 AAATTAAAATAGTGTTATT
1 AAATTAAAATAGT-TTATT
* *
9235949 AAATGAGAATAGTTTATT
1 AAATTAAAATAGTTTATT
9235967 AAATTAAAATAG
1 AAATTAAAATAG
9235979 AGTTATTACT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
18 31 0.54
19 26 0.46
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (18 bp):
AAATTAAAATAGTTTATT
Found at i:9236266 original size:20 final size:20
Alignment explanation
Indices: 9236243--9236280 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9236233 TTATACTTTT
9236243 TAAAATAGT-TTTACTTTAGG
1 TAAAATA-TATTTACTTTAGG
9236263 TAAAATATATTTACTTTA
1 TAAAATATATTTACTTTA
9236281 ATAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (20 bp):
TAAAATATATTTACTTTAGG
Found at i:9236582 original size:27 final size:27
Alignment explanation
Indices: 9236543--9236601 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
9236533 TTTTAGTCCT
*
9236543 TTGGCGCCATTGGTGCCGCCAATCTCA
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * * *
9236570 TTGGCACCTTTGGTGCCTCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
9236597 TTGGC
1 TTGGC
9236602 CTGATCAGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.29, G:0.27, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:9236673 original size:26 final size:28
Alignment explanation
Indices: 9236642--9236705 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
9236632 GTTTTTTTTT
9236642 ATATTTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
9236668 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
9236696 ATATTTTGGT
1 ATATTTTGGT
9236706 TTTTTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 14 0.39
27 7 0.19
28 15 0.42
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:9239199 original size:24 final size:24
Alignment explanation
Indices: 9239172--9239245 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 24
9239162 AGCACACCAA
9239172 AACTATAAGAAGCATAAGACCCTT
1 AACTATAAGAAGCATAAGACCCTT
* **
9239196 AACTAT---AAGC---ACA-CCAA
1 AACTATAAGAAGCATAAGACCCTT
9239213 AACTATAAGAAGCATAAGACCCTT
1 AACTATAAGAAGCATAAGACCCTT
9239237 AACTATAAG
1 AACTATAAG
9239246 GCAATATACA
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
17 8 0.22
18 2 0.05
20 4 0.11
21 4 0.11
23 2 0.05
24 17 0.46
ACGTcount: A:0.49, C:0.22, G:0.11, T:0.19
Consensus pattern (24 bp):
AACTATAAGAAGCATAAGACCCTT
Found at i:9239218 original size:41 final size:41
Alignment explanation
Indices: 9239161--9239245 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
9239151 TCCTAAGCCA
9239161 AAGCACACCAAAACTATAAGAAGCATAAGACCCTTAACTAT
1 AAGCACACCAAAACTATAAGAAGCATAAGACCCTTAACTAT
9239202 AAGCACACCAAAACTATAAGAAGCATAAGACCCTTAACTAT
1 AAGCACACCAAAACTATAAGAAGCATAAGACCCTTAACTAT
9239243 AAG
1 AAG
9239246 GCAATATACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.49, C:0.24, G:0.11, T:0.16
Consensus pattern (41 bp):
AAGCACACCAAAACTATAAGAAGCATAAGACCCTTAACTAT
Found at i:9243324 original size:21 final size:21
Alignment explanation
Indices: 9243298--9243350 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
9243288 AACAGCGGTG
* *
9243298 GCGGTGAGATTGTATACTGTA
1 GCGGTGAGATTGGATACTATA
9243319 GCGGTGAGATTGGATACTATA
1 GCGGTGAGATTGGATACTATA
9243340 GCGGTGAGATT
1 GCGGTGAGATT
9243351 AGAAACAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTGGATACTATA
Found at i:9243361 original size:21 final size:21
Alignment explanation
Indices: 9243317--9243361 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9243307 TTGTATACTG
* * *
9243317 TAGCGGTGAGATTGGATACTA
1 TAGCGGTGAGATTAGAAACAA
9243338 TAGCGGTGAGATTAGAAACAA
1 TAGCGGTGAGATTAGAAACAA
9243359 TAG
1 TAG
9243362 TGGAGTGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.24
Consensus pattern (21 bp):
TAGCGGTGAGATTAGAAACAA
Found at i:9248948 original size:7 final size:7
Alignment explanation
Indices: 9248936--9248965 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
9248926 ATGCTTGTGA
9248936 TATATGG
1 TATATGG
9248943 TATATGG
1 TATATGG
9248950 TATATGG
1 TATATGG
9248957 TATATGG
1 TATATGG
9248964 TA
1 TA
9248966 CTAACCCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (7 bp):
TATATGG
Found at i:9250539 original size:20 final size:19
Alignment explanation
Indices: 9250499--9250539 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
9250489 TTACATGTGG
*
9250499 AAAATAATTAAATGAATAA
1 AAAATAATTAAATGAAAAA
*
9250518 AAAATACATTAAATTAAAAA
1 AAAATA-ATTAAATGAAAAA
9250538 AA
1 AA
9250540 TAACTCTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATAATTAAATGAAAAA
Found at i:9252604 original size:11 final size:12
Alignment explanation
Indices: 9252582--9252612 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
9252572 AAGATTCTTC
9252582 CTTTTCTTTTTT
1 CTTTTCTTTTTT
9252594 CTTTT-TTTTTT
1 CTTTTCTTTTTT
9252605 CTTTTCTT
1 CTTTTCTT
9252613 GTTGTACGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
CTTTTCTTTTTT
Found at i:9252698 original size:5 final size:5
Alignment explanation
Indices: 9252684--9252716 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
9252674 TTATCATGTG
*
9252684 TATA- TATAT TATAT TATAT TAAAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
9252717 AGGTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:9256700 original size:14 final size:14
Alignment explanation
Indices: 9256650--9256701 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
9256640 AGCTTAAGGT
* *
9256650 TTTAATTAATTTAG
1 TTTAATTAATTAAA
9256664 TTTAATTAAATTAAA
1 TTTAATT-AATTAAA
* * *
9256679 TATGATTAGTTAAA
1 TTTAATTAATTAAA
9256693 TTTAATTAA
1 TTTAATTAA
9256702 AGTATAAAAG
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:9257051 original size:13 final size:13
Alignment explanation
Indices: 9257033--9257057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9257023 GTGCATAAAT
9257033 TGAAAATTTTATG
1 TGAAAATTTTATG
9257046 TGAAAATTTTAT
1 TGAAAATTTTAT
9257058 AATTATAGAT
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:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TGAAAATTTTATG
Found at i:9260821 original size:26 final size:26
Alignment explanation
Indices: 9260792--9260851 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
9260782 ACATCATAGC
* *
9260792 TTGTACATTTTCTCTTTTTGATGTTA
1 TTGTACATTTTCTCTTTTCGATCTTA
9260818 TTGTACATTTTCTCTTTTCGATCTTA
1 TTGTACATTTTCTCTTTTCGATCTTA
*
9260844 CTGTACAT
1 TTGTACAT
9260852 GCTTTGATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.57
Consensus pattern (26 bp):
TTGTACATTTTCTCTTTTCGATCTTA
Found at i:9264196 original size:31 final size:31
Alignment explanation
Indices: 9264097--9264201 Score: 90
Period size: 31 Copynumber: 3.4 Consensus size: 31
9264087 TTTAATAAAT
* * * *
9264097 TTAAATTAATGTTTATCTAGTTAGAT-TTTTA
1 TTAATTTAATATTTATCTTGATA-ATATTTTA
* * * **
9264128 TTAATTTAATATTAAT-ATGA-GATATTAAA
1 TTAATTTAATATTTATCTTGATAATATTTTA
9264157 TTTAATTTAATATTTATCTTGATAATATTTTA
1 -TTAATTTAATATTTATCTTGATAATATTTTA
9264189 TTAATTTAATATT
1 TTAATTTAATATT
9264202 AATGTCATTA
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
28 2 0.04
29 3 0.05
30 16 0.29
31 29 0.52
32 6 0.11
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (31 bp):
TTAATTTAATATTTATCTTGATAATATTTTA
Found at i:9266485 original size:6 final size:6
Alignment explanation
Indices: 9266470--9266550 Score: 54
Period size: 6 Copynumber: 13.5 Consensus size: 6
9266460 ACGTACAACT
* * * * * * *
9266470 GTAATA GTAATG GTAAGA ATAATA ATAATA ATAATA ATAATA ATAATA
1 GTAATA GTAATA GTAATA GTAATA GTAATA GTAATA GTAATA GTAATA
* * * * *
9266518 ATAATA ATAATA ATAATA ATAATA ATAATA GTA
1 GTAATA GTAATA GTAATA GTAATA GTAATA GTA
9266551 CGAAAACAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.32
Consensus pattern (6 bp):
GTAATA
Found at i:9266495 original size:3 final size:3
Alignment explanation
Indices: 9266487--9266547 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
9266477 TAATGGTAAG
9266487 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9266535 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
9266548 GTACGAAAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9268564 original size:130 final size:129
Alignment explanation
Indices: 9268265--9268647 Score: 572
Period size: 130 Copynumber: 3.0 Consensus size: 129
9268255 CTAAAACTTT
* * * * * *
9268265 AGGGAGATAGGA-TTATCGGCTTCAATCTGATTCCTTACAGTTGAAGATAAGATTCGCCATTTTC
1 AGGGACATAGGACTTGT-GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTC
* * *
9268329 GATCTGCTCCGCTACTACTTAGGGAGACAAGATC-TGTAATTTCCAACATATTCCACTGCTAACC
65 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTTGTAATTTCCAACCTATTCCACTGCGAACC
* * *
9268393 AGGGACATAAGACTTGTGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
1 AGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCG
* *
9268458 ATCTGCTCCGCTACTGCTTAGGGAGACATGATCTTGTAATTTCCTAACCTATTCCACTGCGGACC
66 ATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTTGTAATTTCC-AACCTATTCCACTGCGAACC
* *
9268523 AGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCATCTTTG
1 AGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCG
*
9268588 ATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTTGTAATTTCCCAACCTATTCCGCTGC
66 ATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTTGTAATTT-CCAACCTATTCCACTGC
9268648 AATCGAGGGA
Statistics
Matches: 230, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
128 83 0.36
129 13 0.06
130 132 0.57
131 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (129 bp):
AGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCG
ATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTTGTAATTTCCAACCTATTCCACTGCGAACC
Found at i:9268743 original size:88 final size:88
Alignment explanation
Indices: 9268644--9269120 Score: 686
Period size: 88 Copynumber: 5.4 Consensus size: 88
9268634 ACCTATTCCG
*
9268644 CTGCAATCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGA
1 CTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGA
*
9268709 TCTGCTATCTTTAACCTGCTCTA
66 TCTGCTATCTTTAACCTGCTCCA
* * * * * * *
9268732 CTGCAACCGAGGGAGGCAAGGCTGGTATCTTCAATCTGGTTCGTTGTTAGCGTAAGAAGGTAAGA
1 CTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGA
9268797 TCTGCTATCTTT-ACCTGCTCCA
66 TCTGCTATCTTTAACCTGCTCCA
* * * * * * *
9268819 CTGCAATCGAGGGAGGCATGGCTTTGTTTCTTCGATCTGCTTCACTGTCAGCGGAGGAAGGCAAT
1 CTGCAACCGAGGGAGGCAAGGC-TGGTATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAG
* *
9268884 ATTTGCTATCTTTAACCTGCTTCA
65 ATCTGCTATCTTTAACCTGCTCCA
* * *
9268908 CTGCAACCGAGGGAGGGAAGGCTGGTATCTTCGATCTGCTTCGCTGTCATCGCAAGAAGGCAAGA
1 CTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGA
** *
9268973 TCTATTATCTTTAACATGCTCCA
66 TCTGCTATCTTTAACCTGCTCCA
* **
9268996 CTGCAACCGAGGGAGCCAAGGCTGGTATCTTCGATCTGCTTCATTGTCAGCGCAGGAAGGCAAGA
1 CTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGA
9269061 TCTGCTATCTTTAACCTGCTCCA
66 TCTGCTATCTTTAACCTGCTCCA
*
9269084 CTGCAACCGAGGGAGGCAAGGCTGGTTTCTTCGATCT
1 CTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
9269121 TCACTAATCT
Statistics
Matches: 337, Mismatches: 50, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
87 29 0.09
88 280 0.83
89 28 0.08
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.27
Consensus pattern (88 bp):
CTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGA
TCTGCTATCTTTAACCTGCTCCA
Found at i:9269114 original size:264 final size:264
Alignment explanation
Indices: 9268644--9269120 Score: 767
Period size: 264 Copynumber: 1.8 Consensus size: 264
9268634 ACCTATTCCG
* *
9268644 CTGCAATCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGA
1 CTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAAGAAGGCAAGA
* * * * *
9268709 TCTGCTATCTTTAACCTGCTCTACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCAATCTGGTTC
66 TCTACTATCTTTAACATGCTCCACTGCAACCGAGGGAGCCAAGGCTGGTATCTTCAATCTGCTTC
* * * * * *
9268774 GTTGTTAGCGTAAGAAGGTAAGATCTGCTATCTTTACCTGCTCCACTGCAATCGAGGGAGGCATG
131 ATTGTCAGCGCAAGAAGGCAAGATCTGCTATCTTTACCTGCTCCACTGCAACCGAGGGAGGCAAG
*
9268839 GCTTTGTTTCTTCGATCTGCTTCACTGTCAGCGGAGGAAGGCAATATTTGCTATCTTTAACCTGC
196 GCTTGGTTTCTTCGATCTGCTTCACTGTCAGCGGAGGAAGGCAATATTTGCTATCTTTAACCTGC
9268904 TTCA
261 TTCA
* *
9268908 CTGCAACCGAGGGAGGGAAGGCTGGTATCTTCGATCTGCTTCGCTGTCATCGCAAGAAGGCAAGA
1 CTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAAGAAGGCAAGA
* *
9268973 TCTATTATCTTTAACATGCTCCACTGCAACCGAGGGAGCCAAGGCTGGTATCTTCGATCTGCTTC
66 TCTACTATCTTTAACATGCTCCACTGCAACCGAGGGAGCCAAGGCTGGTATCTTCAATCTGCTTC
*
9269038 ATTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
131 ATTGTCAGCGCAAGAAGGCAAGATCTGCTATCTTT-ACCTGCTCCACTGCAACCGAGGGAGGCAA
9269103 GGC-TGGTTTCTTCGATCT
195 GGCTTGGTTTCTTCGATCT
9269121 TCACTAATCT
Statistics
Matches: 193, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
264 163 0.84
265 30 0.16
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.27
Consensus pattern (264 bp):
CTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAAGAAGGCAAGA
TCTACTATCTTTAACATGCTCCACTGCAACCGAGGGAGCCAAGGCTGGTATCTTCAATCTGCTTC
ATTGTCAGCGCAAGAAGGCAAGATCTGCTATCTTTACCTGCTCCACTGCAACCGAGGGAGGCAAG
GCTTGGTTTCTTCGATCTGCTTCACTGTCAGCGGAGGAAGGCAATATTTGCTATCTTTAACCTGC
TTCA
Found at i:9275768 original size:3 final size:3
Alignment explanation
Indices: 9275746--9275782 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
9275736 TAATGGTAAG
* *
9275746 AAT AAT AAC AAT AAT GAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9275783 GTACGAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:9291410 original size:132 final size:132
Alignment explanation
Indices: 9291087--9291511 Score: 681
Period size: 132 Copynumber: 3.2 Consensus size: 132
9291077 TCAGTGAAAT
* *
9291087 CACAAGTCCTATATCCCTGACCAGTACTGGAATAGGTTTGGAAACTACAGATCTTATCTCCCTAA
1 CACAAGTCCTATATCCCTGGCCAGTAGTGGAATAGGTTTGGAAACTACAGATCTTATCTCCCTAA
*** * *
9291152 GCAATAGTGGAGCAGATCGAAGACGAAAAATCTTATCTTCCCCAAAATTAA-GAAGCAGATTTAA
66 GCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGAAGTAAGGAAGCAGATTTAA
9291216 GC
131 GC
* * * *
9291218 CACAAGTTCTATATCCCTGGCCAGCAATGGAATGGGTTTGGAAACTACAGATCTTATCTCCCTAA
1 CACAAGTCCTATATCCCTGGCCAGTAGTGGAATAGGTTTGGAAACTACAGATCTTATCTCCCTAA
* * *
9291283 GCAATAGTGAAGCAGATCGAAGACGGCGAATCTTATCTTCCCTAGAAGTAAGGAAGCAAATTTAA
66 GCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGAAGTAAGGAAGCAGATTTAA
9291348 GC
131 GC
*
9291350 CACAAGTCCTATATCCCTGGCCAGTAGTGGAATAGGTTTGGAAACTACAGATATTATCTCCCTAA
1 CACAAGTCCTATATCCCTGGCCAGTAGTGGAATAGGTTTGGAAACTACAGATCTTATCTCCCTAA
*
9291415 GCAATAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCCAGAAGTAAGGAAGCAGATTTAA
66 GCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGAAGTAAGGAAGCAGATTTAA
9291480 GC
131 GC
* *
9291482 CACAAGTCCTATGTCCCTGGTCAGTAGTGG
1 CACAAGTCCTATATCCCTGGCCAGTAGTGG
9291512 CAGATCTTGT
Statistics
Matches: 269, Mismatches: 24, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
131 104 0.39
132 165 0.61
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (132 bp):
CACAAGTCCTATATCCCTGGCCAGTAGTGGAATAGGTTTGGAAACTACAGATCTTATCTCCCTAA
GCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGAAGTAAGGAAGCAGATTTAA
GC
Found at i:9291797 original size:44 final size:40
Alignment explanation
Indices: 9291749--9291844 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 40
9291739 TTGAAGTTGC
* *
9291749 AGTGGGGCAGACCGAAAAACACAGATCTTATCTCCTTAAGCAGT
1 AGTGGAGCAGACCG--AAACA-AG-TCTTATCTCCCTAAGCAGT
* * *
9291793 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGACCGAAACAAGTCTTATCTCCCTAAGCAGT
9291833 AGTGGAGCAGAC
1 AGTGGAGCAGAC
9291845 AGAAGAAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 29 0.63
41 2 0.04
42 3 0.07
44 12 0.26
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (40 bp):
AGTGGAGCAGACCGAAACAAGTCTTATCTCCCTAAGCAGT
Found at i:9291883 original size:44 final size:44
Alignment explanation
Indices: 9291685--9292059 Score: 171
Period size: 44 Copynumber: 8.7 Consensus size: 44
9291675 TCGTATCAGG
* * * * *
9291685 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTG-AGTAAGCAGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCA-A
* * *
9291729 TCTTATC-CCCTTGAAGTTGCAGTGGGGCAGACCGAA-AAACACAGA
1 TCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACAGAAGAAA-TCA-A
* ** * *
9291774 TCTTATCT-CCTTAAGCAGTAGTGGAGCAGATC----G-CATCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAGAAGAAATCAA
** *
9291813 GTCTTATCTCCCT-AAGCAGTAGTGGAGCAGACAGAAGAAATCAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAA
* * *
9291857 TCCTATCTCCCTGAAGTTGCAGTGGAGC-GA-ATTAAAATAAT-AGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA-GAAGA-AATCA-A
* * * * **
9291901 TCTTATCTCCCT-AAGTAGTAGT--AG-AG-CAGATCG-CATCGGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGA-AGAAATC-AA
* *
9291941 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG-AGAAAACAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAA
* ** * * *
9291984 GTCTTATCCCCCTGAAGTCACAGTGGGGCAGAC-TAAGAAAACAAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATC-AA
* *
9292029 TCTTATCCCCCTGAGGTTGCAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
9292060 TTGAAGTCGA
Statistics
Matches: 254, Mismatches: 46, Indels: 62
0.70 0.13 0.17
Matches are distributed among these distances:
39 4 0.02
40 41 0.16
41 16 0.06
42 1 0.00
43 32 0.13
44 142 0.56
45 18 0.07
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.23
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAA
Found at i:9292055 original size:256 final size:257
Alignment explanation
Indices: 9291598--9292060 Score: 637
Period size: 256 Copynumber: 1.8 Consensus size: 257
9291588 TGAAGTCGAT
* * * * * *
9291598 AATCCTATCTCCCTGAGGTTGTGTTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGAGTTGGAGCGAATTAAAATAATAGATCTTATCTCCCTAAAGTAG
** * * * *
9291663 CAGTAGAGTGGATCGTATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGTAAGCAG
66 CAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAACAA
* ** * * * *
9291728 GTCTTATCCCCTTGAAGTTGCAGTGGGGCAGACCGAAAAACACAGATCTTATCTCCTTAAGCAGT
131 GTCTTATCCCCCTGAAGTCACAGTGGGGCAGACCGAAAAACACAAATCTTATCCCCTGAAGCAGC
9291793 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATC
196 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATC
9291855 AATCCTATCTCCCTGAAGTTGCAG-TGGAGCGAATTAAAATAATAGATCTTATCTCCCT-AAGTA
1 AATCCTATCTCCCTGAAGTTG-AGTTGGAGCGAATTAAAATAATAGATCTTATCTCCCTAAAGTA
* * *
9291918 GTAGTAGAGCAGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGAAAACA
65 GCAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAACA
* * *
9291983 AGTCTTATCCCCCTGAAGTCACAGTGGGGCAGA-CTAAGAAA-ACAAATCTTATCCCCCTGAGGT
130 AGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACCGAA-AAACACAAATCTTAT-CCCCTGAAGC
*
9292046 TGCAGTGGAGCAGAT
193 AGCAGTGGAGCAGAT
9292061 TGAAGTCGAT
Statistics
Matches: 177, Mismatches: 26, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
255 13 0.07
256 112 0.63
257 51 0.29
258 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (257 bp):
AATCCTATCTCCCTGAAGTTGAGTTGGAGCGAATTAAAATAATAGATCTTATCTCCCTAAAGTAG
CAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAACAA
GTCTTATCCCCCTGAAGTCACAGTGGGGCAGACCGAAAAACACAAATCTTATCCCCTGAAGCAGC
AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATC
Found at i:9292090 original size:44 final size:43
Alignment explanation
Indices: 9291814--9292148 Score: 113
Period size: 44 Copynumber: 7.7 Consensus size: 43
9291804 TCGCATCAAG
** * * *
9291814 TCTTATCTCCCTAA-GCAGTAGTGGAGCAGA-CAGAAGAAATCAA
1 TCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTA-AAGTAAT-AA
* *
9291857 TCCTATCTCCCTGAA-GTTGCAGTGGAGC-GAATTAAAATAATAGA
1 TCTTATCTCCCT-AAGGTTGCAGTGGAGCAG-ATTAAAGTAATA-A
* * * *** ****
9291901 TCTTATCTCCCTAA-GTAGTAGTAGAGCAGATCGCA-T-CGGG
1 TCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTAAAGTAATAA
* *
9291941 TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGACTGAGAA--AACAA
1 TCTTATCTCCCT-AAGGTTGCAGTGGAGCAGA-TTA-AAGTAATAA
* ** * * * *
9291984 GTCTTATCCCCCTGAA-GTCACAGTGGGGCAGACT-AAGAAAACAAA
1 -TCTTATCTCCCT-AAGGTTGCAGTGGAGCAGATTAAAG-TAA-TAA
* * * *
9292029 TCTTATCCCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCGATAA
1 TCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTAAAGT-AATAA
* * *
9292073 TCCTATCTCCCTAAGGTTG-TGTTGGAGCGGATTAAAGTAATAGA
1 TCTTATCTCCCTAAGGTTGCAG-TGGAGCAGATTAAAGTAATA-A
* *
9292117 TCTTATCTCTCTGAA-GTTGCAGTAGAGCAGAT
1 TCTTATCTCCCT-AAGGTTGCAGTGGAGCAGAT
9292149 CGCATCAAGT
Statistics
Matches: 216, Mismatches: 55, Indels: 41
0.69 0.18 0.13
Matches are distributed among these distances:
40 12 0.06
41 17 0.08
42 2 0.01
43 34 0.16
44 141 0.65
45 10 0.05
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTAAAGTAATAA
Found at i:9312885 original size:19 final size:19
Alignment explanation
Indices: 9312863--9312919 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 19
9312853 CATAAAAATC
9312863 TTATAATTTTATAATTTTT
1 TTATAATTTTATAATTTTT
*
9312882 TTATAATATTTATGATTTTT
1 TTATAAT-TTTATAATTTTT
9312902 TTAGTAATTTT-TAATTTT
1 TTA-TAATTTTATAATTTT
9312920 AAAAGGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.38
20 17 0.50
21 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTATAATTTTATAATTTTT
Found at i:9322014 original size:18 final size:19
Alignment explanation
Indices: 9321977--9322020 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
9321967 AAATTGGAAT
9321977 TTCGAATTAAACGAAGTTA
1 TTCGAATTAAACGAAGTTA
* *
9321996 TTCGAGTTAATCG-AGTTA
1 TTCGAATTAAACGAAGTTA
9322014 TTCGAAT
1 TTCGAAT
9322021 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (19 bp):
TTCGAATTAAACGAAGTTA
Found at i:9322338 original size:30 final size:32
Alignment explanation
Indices: 9322287--9322347 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
9322277 AAACATTTTA
*
9322287 TTTTCCCCCAAAAATTTTTATTCCC-TCCCAC
1 TTTTCCCCCAAAAACTTTTATTCCCTTCCCAC
*
9322318 TTTT-CCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAAACTTTTATTCCCTTCCCA
9322348 TCCCACCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (32 bp):
TTTTCCCCCAAAAACTTTTATTCCCTTCCCAC
Found at i:9323109 original size:5 final size:5
Alignment explanation
Indices: 9323099--9323124 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9323089 CTCGAAAATT
9323099 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
9323125 CGAATGCTCA
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:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:9323477 original size:146 final size:146
Alignment explanation
Indices: 9323212--9324375 Score: 1328
Period size: 146 Copynumber: 8.0 Consensus size: 146
9323202 TTTTAAGTAA
* ** * * * *
9323212 AGTTTCCTTTTATTTGGTAAAAAATTAATTTTGGAGAACTGACGGTTATAATGTCACTGATCACG
1 AGTTTCTTTTTATTTATTAAAAAATTAATTTTGGAGAATTGACAGATATAGTGTCACTGATCACG
* * * * * * * * **
9323277 TAACAACTGAGAGAGAGACT-GGACCATAGATAGTTGAGAGTAAAAATACCATAATCACCCTAAT
66 TAACGACTGAGAGAGAGACTAGG-CGACAGAGAGTCGAGAGTAAAAAGATCATAATCGCCCTAGC
* *
9323341 AAAAAGGACCAAATTAG
130 AAAAAGGGCCACATTAG
* *
9323358 TGTTTCTTTTCATTTATTAAAAAATTAATTTTGGAGAATTGACAGATATAGTGTCACTGATCACG
1 AGTTTCTTTTTATTTATTAAAAAATTAATTTTGGAGAATTGACAGATATAGTGTCACTGATCACG
* * * *
9323423 TAACGATTGAGAGAGAGACTAGGCGACAGATAGCCTAGAGTAAAAAGATCATAATCGCCCTAGCA
66 TAACGACTGAGAGAGAGACTAGGCGACAGAGAGTCGAGAGTAAAAAGATCATAATCGCCCTAGCA
9323488 AAAAGGGCCACATTAG
131 AAAAGGGCCACATTAG
* * * * *
9323504 ATTTTCTTTTTCTTTATTAAAAAATTAATTTTGGAGAATTGACAGTTATAGTGTCATTGATCACA
1 AGTTTCTTTTTATTTATTAAAAAATTAATTTTGGAGAATTGACAGATATAGTGTCACTGATCACG
* * * * * * *
9323569 TAATGATTGAGAGAGACACTAGACCG-CAGATAGTCGAGAGTAAAAATATCATAATCGCCCTATC
66 TAACGACTGAGAGAGAGACTAG-GCGACAGAGAGTCGAGAGTAAAAAGATCATAATCGCCCTAGC
9323633 AAAAAGGGCCACATTAG
130 AAAAAGGGCCACATTAG
* * * * *
9323650 AGTTACTTTTTATTTATTAAAATATTAATTATGGAGAATTGACA-ATTATAATGTCACTTATCAC
1 AGTTTCTTTTTATTTATTAAAAAATTAATTTTGGAGAATTGACAGA-TATAGTGTCACTGATCAC
* * * * * * * *
9323714 GCAACGATTGAGAGAGAGACTGGGCGGCGGACAGTCGAGAGT--AAAGACCATAATCGTCCTAGC
65 GTAACGACTGAGAGAGAGACTAGGCGACAGAGAGTCGAGAGTAAAAAGATCATAATCGCCCTAGC
*
9323777 AAAAAGAGCCACATTAG
130 AAAAAGGGCCACATTAG
** * * *
9323794 AGTTTCTTTTTATTTGGT-AAAAATTAATTTTGGAGAACTGACAGTTATAGTGTCACTGATCATG
1 AGTTTCTTTTTATTTATTAAAAAATTAATTTTGGAGAATTGACAGATATAGTGTCACTGATCACG
*
9323858 TAACGACTGAGAGAGAGACTAGGCGACAGAGAGTCGAGAGTAAAAAGATCATAATCGCCTTAGCA
66 TAACGACTGAGAGAGAGACTAGGCGACAGAGAGTCGAGAGTAAAAAGATCATAATCGCCCTAGCA
*
9323923 AAAAGGGCCACATTAA
131 AAAAGGGCCACATTAG
* * * *
9323939 AATTTATTTTTATTTATTAAAAAA--AA--TTAGAGAATCGACA-ATTATAGTGTCACTGATCAC
1 AGTTTCTTTTTATTTATTAAAAAATTAATTTTGGAGAATTGACAGA-TATAGTGTCACTGATCAC
* * * * * * *
9323999 GTAACGACTGAGAAAGAGAGAGACTTGGCGATAGGGAGTCGGGAGTAGAAAGACCATAATCACCC
65 GTAACGACT--G--AGAGAGAGACTAGGCGACAGAGAGTCGAGAGTAAAAAGATCATAATCGCCC
*
9324064 TAGCAAAAAAGGCCACATTAG
126 TAGCAAAAAGGGCCACATTAG
* * * *
9324085 AGTTTCTTTTTATTTATTAAAAAATTAATTTTGGAGAATTGACCGTTATAGTGTTACTGATCACT
1 AGTTTCTTTTTATTTATTAAAAAATTAATTTTGGAGAATTGACAGATATAGTGTCACTGATCACG
* * *
9324150 TAACGACTGAGAGAGAGACTGGGCGACAGAGAGTTGAGAGTAAAAAGATCATAATCGCCTTAGCA
66 TAACGACTGAGAGAGAGACTAGGCGACAGAGAGTCGAGAGTAAAAAGATCATAATCGCCCTAGCA
*
9324215 AAAAGGGCCACATTAA
131 AAAAGGGCCACATTAG
* * * * *
9324231 AGTTTCTTTTTATTTATTAAAAAAATAATTTTGAAGAATTGATA-ATTAAAATGTCACTGATCAC
1 AGTTTCTTTTTATTTATTAAAAAATTAATTTTGGAGAATTGACAGA-TATAGTGTCACTGATCAC
* * * * *
9324295 GTAATGACTGAGAGAGAGACTAGGTGACAGACG-GTCGAGGGTAAAAAGACCATATTCGCCCTAG
65 GTAACGACTGAGAGAGAGACTAGGCGACAGA-GAGTCGAGAGTAAAAAGATCATAATCGCCCTAG
* * *
9324359 CGAAAATGGCCATATTA
129 CAAAAAGGGCCACATTA
9324376 CATCCCTTTC
Statistics
Matches: 860, Mismatches: 138, Indels: 40
0.83 0.13 0.04
Matches are distributed among these distances:
142 37 0.04
143 73 0.08
144 51 0.06
145 49 0.06
146 606 0.70
147 5 0.01
148 3 0.00
150 36 0.04
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (146 bp):
AGTTTCTTTTTATTTATTAAAAAATTAATTTTGGAGAATTGACAGATATAGTGTCACTGATCACG
TAACGACTGAGAGAGAGACTAGGCGACAGAGAGTCGAGAGTAAAAAGATCATAATCGCCCTAGCA
AAAAGGGCCACATTAG
Found at i:9329789 original size:75 final size:74
Alignment explanation
Indices: 9329632--9329789 Score: 180
Period size: 76 Copynumber: 2.1 Consensus size: 74
9329622 TAAAAAAAAA
* * *
9329632 AAAC-TTAAGCCCCTACTTTTTTTTTCACTCAGTTAGGTACTTAATCTTTTAAAATGTATAAAAA
1 AAACTTTAAGCCCCTACTTTTTTTTTCACTCAATTAGGTACTTAATCTTTCAAAATGCATAAAAA
9329696 AAGGCCCTC
66 AAGGCCCTC
* *
9329705 AAACATTTAAGCCCCTACTTTTTTCTTTTGTACTCAATTGGGTACTTGAA-C-TTCAAAATGCAT
1 AAAC-TTTAAGCCCCTAC-TTTTT-TTTT-CACTCAATTAGGTACTT-AATCTTTCAAAATGCAT
* *
9329768 -CAAAAAGGCTCTC
61 AAAAAAAGGCCCTC
9329781 AAACTTTAA
1 AAACTTTAA
9329790 AAAAAAAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
73 4 0.06
75 17 0.24
76 20 0.28
77 14 0.19
78 15 0.21
79 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (74 bp):
AAACTTTAAGCCCCTACTTTTTTTTTCACTCAATTAGGTACTTAATCTTTCAAAATGCATAAAAA
AAGGCCCTC
Found at i:9329963 original size:10 final size:10
Alignment explanation
Indices: 9329948--9330067 Score: 53
Period size: 10 Copynumber: 12.7 Consensus size: 10
9329938 ACACATGGCA
9329948 AAAAAATTAT
1 AAAAAATTAT
9329958 -AAAAA--AT
1 AAAAAATTAT
9329965 -AAAAATTAT
1 AAAAAATTAT
9329974 AAAAAAATT-T
1 -AAAAAATTAT
**
9329984 -AAATTTTAAT
1 AAAAAATT-AT
9329994 AAAAAA--AT
1 AAAAAATTAT
*
9330002 TAAAAA-TAT
1 AAAAAATTAT
**
9330011 CAAAATTTTAT
1 -AAAAAATTAT
* *
9330022 TAAAAATTAG
1 AAAAAATTAT
*
9330032 AAAAAATGAT
1 AAAAAATTAT
*
9330042 -AAAAATGAT
1 AAAAAATTAT
*
9330051 AAAAAATTGT
1 AAAAAATTAT
9330061 AAAAAAT
1 AAAAAAT
9330068 AATTTATCAA
Statistics
Matches: 82, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
7 7 0.09
8 12 0.15
9 18 0.22
10 32 0.39
11 13 0.16
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:9329970 original size:16 final size:16
Alignment explanation
Indices: 9329949--9329979 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9329939 CACATGGCAA
9329949 AAAAATTATAAAAAAT
1 AAAAATTATAAAAAAT
9329965 AAAAATTATAAAAAA
1 AAAAATTATAAAAAA
9329980 ATTTAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATTATAAAAAAT
Found at i:9329994 original size:29 final size:29
Alignment explanation
Indices: 9329962--9330037 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
9329952 AATTATAAAA
**
9329962 AATAAAAATTATAAAAAAATTTAAATTTT
1 AATAAAAATTATAAAAAAATCAAAATTTT
* *
9329991 AATAAAAA-AATTAAAAATATCAAAATTTT
1 AATAAAAATTA-TAAAAAAATCAAAATTTT
* *
9330020 ATTAAAAATTAGAAAAAA
1 AATAAAAATTATAAAAAA
9330038 TGATAAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
28 1 0.03
29 35 0.95
30 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (29 bp):
AATAAAAATTATAAAAAAATCAAAATTTT
Found at i:9330370 original size:10 final size:10
Alignment explanation
Indices: 9330357--9330455 Score: 66
Period size: 9 Copynumber: 10.3 Consensus size: 10
9330347 CTTTATAAAA
9330357 TTTTATAATT
1 TTTTATAATT
*
9330367 TTTTCT-ATAT
1 TTTTATAAT-T
* *
9330377 TTCTAT-ATA
1 TTTTATAATT
9330386 TTTTATAATT
1 TTTTATAATT
*
9330396 TTTAATAA-T
1 TTTTATAATT
*
9330405 TTTTA-AATA
1 TTTTATAATT
9330414 TTTTA-AATT
1 TTTTATAATT
**
9330423 TTTTATTAAAA
1 TTTTA-TAATT
*
9330434 TTTAATAA-T
1 TTTTATAATT
9330443 TTTTATAATT
1 TTTTATAATT
9330453 TTT
1 TTT
9330456 ATTGATTTTT
Statistics
Matches: 68, Mismatches: 15, Indels: 12
0.72 0.16 0.13
Matches are distributed among these distances:
8 2 0.03
9 32 0.47
10 28 0.41
11 6 0.09
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:9330378 original size:19 final size:19
Alignment explanation
Indices: 9330356--9330454 Score: 66
Period size: 20 Copynumber: 5.3 Consensus size: 19
9330346 ACTTTATAAA
*
9330356 ATTTTATAATTTTTTCTAT
1 ATTTTATAATTTTTTATAT
*
9330375 ATTTCTAT-ATATTTTATA-
1 ATTT-TATAATTTTTTATAT
*
9330393 ATTTT-TAATAATTTTTAAAT
1 ATTTTATAAT--TTTTTATAT
*
9330413 ATTTTA-AATTTTTTATTAAA
1 ATTTTATAATTTTTTA-T-AT
*
9330433 ATTTAATAA-TTTTTATA-
1 ATTTTATAATTTTTTATAT
9330450 ATTTT
1 ATTTT
9330455 TATTGATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
16 1 0.02
17 7 0.11
18 11 0.17
19 19 0.30
20 23 0.37
21 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTATAATTTTTTATAT
Found at i:9330415 original size:38 final size:38
Alignment explanation
Indices: 9330348--9330456 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 38
9330338 TTTTTACGAC
* ** *
9330348 TTTA-TAAAATTTTATAATTTTTTCTATATTTCTATATAT
1 TTTATTAAAATTTAATAA-TTTTTAAATATTT-TAAATAT
** *
9330387 TTTA-TAATTTTTAATAATTTTTAAATATTTTAAATTT
1 TTTATTAAAATTTAATAATTTTTAAATATTTTAAATAT
9330424 TTTATTAAAATTTAATAATTTTTATAAT-TTTTA
1 TTTATTAAAATTTAATAATTTTTA-AATATTTTA
9330457 TTGATTTTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 9 0.15
38 33 0.56
39 17 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (38 bp):
TTTATTAAAATTTAATAATTTTTAAATATTTTAAATAT
Found at i:9330437 original size:28 final size:28
Alignment explanation
Indices: 9330356--9330455 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 28
9330346 ACTTTATAAA
* * *
9330356 ATTTTATAATTTTTT-CTATATTTCTATAT
1 ATTTTATAATTTTTTAATAAAATT-TA-AT
**
9330385 ATTTTATAA-TTTTTAATAATTTTTAAAT
1 ATTTTATAATTTTTTAATAAAATTT-AAT
*
9330413 ATTTTA-AATTTTTTATTAAAATTTAAT
1 ATTTTATAATTTTTTAATAAAATTTAAT
9330440 AATTTTTATAATTTTT
1 -A-TTTTATAATTTTT
9330456 ATTGATTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
27 5 0.08
28 27 0.46
29 20 0.34
30 7 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (28 bp):
ATTTTATAATTTTTTAATAAAATTTAAT
Found at i:9330456 original size:19 final size:19
Alignment explanation
Indices: 9330386--9330467 Score: 87
Period size: 19 Copynumber: 4.3 Consensus size: 19
9330376 TTTCTATATA
9330386 TTTTATAATTTTTAATAAT
1 TTTTATAATTTTTAATAAT
*
9330405 TTTTA-AATATTTTAA-ATT
1 TTTTATAAT-TTTTAATAAT
**
9330423 TTTTATTAAAATTTAATAAT
1 TTTTA-TAATTTTTAATAAT
* *
9330443 TTTTATAATTTTTATTGAT
1 TTTTATAATTTTTAATAAT
9330462 TTTTAT
1 TTTTAT
9330468 TTTTTTCATT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
18 10 0.20
19 32 0.63
20 9 0.18
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTAATAAT
Found at i:9330463 original size:10 final size:10
Alignment explanation
Indices: 9330386--9330468 Score: 61
Period size: 10 Copynumber: 8.7 Consensus size: 10
9330376 TTTCTATATA
9330386 TTTTA-TAAT
1 TTTTATTAAT
*
9330395 TTTTAATAAT
1 TTTTATTAAT
9330405 TTTTA--AAT
1 TTTTATTAAT
9330413 ATTTTA--AATT
1 -TTTTATTAA-T
*
9330423 TTTTATTAAA
1 TTTTATTAAT
* *
9330433 ATTTAATAAT
1 TTTTATTAAT
9330443 TTTTA-TAAT
1 TTTTATTAAT
*
9330452 TTTTATTGAT
1 TTTTATTAAT
9330462 TTTTATT
1 TTTTATT
9330469 TTTTTCATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
8 3 0.05
9 26 0.42
10 31 0.50
11 2 0.03
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATTAAT
Found at i:9330875 original size:26 final size:24
Alignment explanation
Indices: 9330839--9330898 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
9330829 ATTAATAATA
*
9330839 TAATTTTTTATGTTAAAAAAATCTT
1 TAATTTATTATGTTAAAAAAAT-TT
*
9330864 TATATTTATTATGTTAACAAAATTT
1 TA-ATTTATTATGTTAAAAAAATTT
*
9330889 TAAATTATTA
1 TAATTTATTA
9330899 ATTTGAAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.23
25 6 0.19
26 18 0.58
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (24 bp):
TAATTTATTATGTTAAAAAAATTT
Found at i:9332458 original size:20 final size:22
Alignment explanation
Indices: 9332435--9332476 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9332425 ATAATATATA
9332435 TTATA-TA-TAATATATTTTTT
1 TTATATTAGTAATATATTTTTT
9332455 TTATATTAGTAATATATTTTTT
1 TTATATTAGTAATATATTTTTT
9332477 CAACTATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATATTAGTAATATATTTTTT
Found at i:9344681 original size:22 final size:22
Alignment explanation
Indices: 9344617--9344684 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
9344607 TAGAAAGAGT
9344617 TGGTTTAAG-TTTGGT-CGAATA
1 TGGTTTAAGTTTTGGTACGAA-A
* * * *
9344638 TGGTTTAGGTTTAGTTATGAAA
1 TGGTTTAAGTTTTGGTACGAAA
*
9344660 TGGTATAAGTTTTGGTACGAAA
1 TGGTTTAAGTTTTGGTACGAAA
9344682 TGG
1 TGG
9344685 GTTTTTGATG
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
21 8 0.22
22 25 0.69
23 3 0.08
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.41
Consensus pattern (22 bp):
TGGTTTAAGTTTTGGTACGAAA
Found at i:9353758 original size:2 final size:2
Alignment explanation
Indices: 9353751--9353784 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9353741 TTGGGTCATA
9353751 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9353785 ATGGGTTCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:9355452 original size:40 final size:40
Alignment explanation
Indices: 9355397--9355530 Score: 103
Period size: 37 Copynumber: 3.4 Consensus size: 40
9355387 ACCAATTTGG
* *
9355397 CACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAATTGA
1 CACCCAGTACCTCATCGGATAATACGAAGTAGTAAATTGA
** * * * *
9355437 CACCCAGTGTCTCATCAGTTAA-ACTAA--AGTAAATTGG
1 CACCCAGTACCTCATCGGATAATACGAAGTAGTAAATTGA
* * * * *
9355474 CACCTAGCACCTCATCGAATAAATCCGAAGTAATAAAATTGA
1 CACCCAGTACCTCATCGGAT-AATACGAAGTAGT-AAATTGA
*
9355516 CACCCAGTATCTCAT
1 CACCCAGTACCTCAT
9355531 TGACTCGAAG
Statistics
Matches: 69, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
37 22 0.32
38 2 0.03
39 6 0.09
40 19 0.28
41 2 0.03
42 18 0.26
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (40 bp):
CACCCAGTACCTCATCGGATAATACGAAGTAGTAAATTGA
Found at i:9356716 original size:22 final size:22
Alignment explanation
Indices: 9356691--9356736 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
9356681 CACCTAACCA
9356691 AAACCTAATTAACTACACAACT
1 AAACCTAATTAACTACACAACT
9356713 AAACCTAATTAACTACACAACT
1 AAACCTAATTAACTACACAACT
9356735 AA
1 AA
9356737 CTTCGTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (22 bp):
AAACCTAATTAACTACACAACT
Found at i:9360099 original size:9 final size:9
Alignment explanation
Indices: 9360077--9360134 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
9360067 TTTGGTTAAA
9360077 AATTAACCG
1 AATTAACCG
*
9360086 TATTAATCC-
1 AATTAA-CCG
9360095 AATTAACCG
1 AATTAACCG
*
9360104 AATTAACTG
1 AATTAACCG
9360113 AATT-ACTCG
1 AATTAAC-CG
*
9360122 AATTAACTG
1 AATTAACCG
9360131 AATT
1 AATT
9360135 GAATCATTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
8 4 0.10
9 32 0.80
10 4 0.10
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (9 bp):
AATTAACCG
Found at i:9360109 original size:27 final size:27
Alignment explanation
Indices: 9360077--9360134 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
9360067 TTTGGTTAAA
*
9360077 AATTAACCGTATTAATCCAATTAACCG
1 AATTAACCGAATTAATCCAATTAACCG
* * * *
9360104 AATTAACTGAATTACTCGAATTAACTG
1 AATTAACCGAATTAATCCAATTAACCG
9360131 AATT
1 AATT
9360135 GAATCATTAC
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:0.17, G:0.09, T:0.33
Consensus pattern (27 bp):
AATTAACCGAATTAATCCAATTAACCG
Found at i:9360116 original size:18 final size:18
Alignment explanation
Indices: 9360077--9360134 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
9360067 TTTGGTTAAA
* *
9360077 AATTAACCGTATTAA-TCC
1 AATTAACCGAATTAACT-G
9360095 AATTAACCGAATTAACTG
1 AATTAACCGAATTAACTG
9360113 AATT-ACTCGAATTAACTG
1 AATTAAC-CGAATTAACTG
9360131 AATT
1 AATT
9360135 GAATCATTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.06
18 33 0.92
19 1 0.03
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (18 bp):
AATTAACCGAATTAACTG
Found at i:9360279 original size:18 final size:18
Alignment explanation
Indices: 9360256--9360299 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
9360246 AATTTTTATG
9360256 ATTGGGTTGGGTTAGG-TA
1 ATTGGGTTGGGTT-GGATA
9360274 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
9360292 CTTGGGTT
1 ATTGGGTT
9360300 TGGATTGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:9363247 original size:43 final size:43
Alignment explanation
Indices: 9363198--9363309 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 43
9363188 TGTTATTGTC
* * *
9363198 TAAGACCACGTCTAGGACGTTGGCATCGACT-TGTGTTTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGA-TATGTGATTACATG
9363241 TAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTACATG
1 TAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTACATG
* *
9363284 TAAGACCACCTCTGGGACATTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
9363310 TGTACAAGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
42 2 0.03
43 55 0.93
44 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATG
Found at i:9370722 original size:25 final size:26
Alignment explanation
Indices: 9370683--9370734 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
9370673 AGAAACTTTT
*
9370683 TAAACTTTTATAATTTTTAAAAAATA
1 TAAACTTTTAGAATTTTTAAAAAATA
* *
9370709 TAAA-TTTTAGAATTTTTTATAAATA
1 TAAACTTTTAGAATTTTTAAAAAATA
9370734 T
1 T
9370735 TTTGAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
TAAACTTTTAGAATTTTTAAAAAATA
Found at i:9370731 original size:19 final size:20
Alignment explanation
Indices: 9370707--9370746 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
9370697 TTTTAAAAAA
9370707 TATAAAT-TTTAGAATTTTT
1 TATAAATATTTAGAATTTTT
*
9370726 TATAAATATTTTGAATTTTT
1 TATAAATATTTAGAATTTTT
9370746 T
1 T
9370747 TTTTGTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TATAAATATTTAGAATTTTT
Found at i:9377771 original size:19 final size:20
Alignment explanation
Indices: 9377747--9377785 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9377737 TATTTTAAAA
9377747 TATAAAT-TTTAGAATTTTT
1 TATAAATATTTAGAATTTTT
*
9377766 TATAAATATTTTGAATTTTT
1 TATAAATATTTAGAATTTTT
9377786 GAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TATAAATATTTAGAATTTTT
Found at i:9378747 original size:13 final size:13
Alignment explanation
Indices: 9378700--9378754 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
9378690 CAAAGTTTTA
9378700 TATTTAGCATTTC
1 TATTTAGCATTTC
9378713 TAATTT--C-TGTTC
1 T-ATTTAGCAT-TTC
*
9378725 -ATTTATCATTTC
1 TATTTAGCATTTC
9378737 TATTTAGCATTTC
1 TATTTAGCATTTC
9378750 TATTT
1 TATTT
9378755 TCGGACAGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
10 4 0.11
11 1 0.03
12 8 0.23
13 18 0.51
14 4 0.11
ACGTcount: A:0.22, C:0.15, G:0.05, T:0.58
Consensus pattern (13 bp):
TATTTAGCATTTC
Found at i:9378777 original size:38 final size:37
Alignment explanation
Indices: 9378700--9378777 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
9378690 CAAAGTTTTA
**
9378700 TATTTAGCATTTCTAATTTCTGTTCATTTATCATTTC
1 TATTTAGCATTTCTAATTTCTGGACATTTATCATTTC
*
9378737 TATTTAGCATTTCTATTTTC-GGACAGGTTTATCATTTC
1 TATTTAGCATTTCTAATTTCTGGACA--TTTATCATTTC
9378775 TAT
1 TAT
9378778 CAATTTCTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 3 0.08
37 19 0.53
38 14 0.39
ACGTcount: A:0.22, C:0.15, G:0.09, T:0.54
Consensus pattern (37 bp):
TATTTAGCATTTCTAATTTCTGGACATTTATCATTTC
Found at i:9380868 original size:21 final size:22
Alignment explanation
Indices: 9380844--9380895 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
9380834 ATAACATATG
*
9380844 ATATATATTATATA-ATGAAAA
1 ATATATATTATAAATATGAAAA
* *
9380865 ATATTTATTA-AAATATGATAA
1 ATATATATTATAAATATGAAAA
9380886 ATATA-ATTAT
1 ATATATATTAT
9380896 TTTTTACTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
ATATATATTATAAATATGAAAA
Found at i:9383830 original size:132 final size:126
Alignment explanation
Indices: 9383603--9383901 Score: 296
Period size: 127 Copynumber: 2.3 Consensus size: 126
9383593 CTATTTTGGT
* * * ** *
9383603 TTAATGAGAAAAATCGAAACCCCGTAAGTTAGGGTACGATTTCTCGGGTCACTAAAACACGAAAT
1 TTAACGAGAAAACT-GAAACCCCGTAAGTTAGGGTACGATCTCTCGAATCACTAAAACACAAAAT
* *
9383668 GTTACCTCATAACGAAATTTCTTTTATTTTTTTTAAAAAAATTTAAAAGGAT-TCTTTGCTATTT
65 ATTACCT-ATAACGAAATTTCTTTCA--TTTTTT--AAAAATTTAAAAGGATAT-TTTGCTA-TT
9383732 AGGA
123 AGGA
* **
9383736 TTAGCGAGAAAACTGAAACCCCGTAAGTTAGGGTACGATCTCTCGAATCACTAAAATGCAAAGAT
1 TTAACGAGAAAACTGAAACCCCGTAAGTTAGGGTACGATCTCTCGAATCACTAAAACACAAA-AT
* ** * * * **
9383801 ATTGCCT-TATTGAGATTTCTTTCATTTTTTGAAATTTTAAAAGGATATTTTGCTATTAGTT
65 ATTACCTATAACGAAATTTCTTTCATTTTTTAAAAATTTAAAAGGATATTTTGCTATTAGGA
* * *
9383862 TTAACGAGAAAGACCGAAACCTCGTAAGTTAGGGCACGAT
1 TTAACGAGAAA-ACTGAAACCCCGTAAGTTAGGGTACGAT
9383902 TTTCTCATAG
Statistics
Matches: 140, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
126 14 0.10
127 46 0.33
128 1 0.01
129 6 0.04
131 13 0.09
132 42 0.30
133 18 0.13
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (126 bp):
TTAACGAGAAAACTGAAACCCCGTAAGTTAGGGTACGATCTCTCGAATCACTAAAACACAAAATA
TTACCTATAACGAAATTTCTTTCATTTTTTAAAAATTTAAAAGGATATTTTGCTATTAGGA
Found at i:9385303 original size:13 final size:13
Alignment explanation
Indices: 9385285--9385311 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9385275 TTCCATTTTT
9385285 AAAATAAAAATAA
1 AAAATAAAAATAA
9385298 AAAATAAAAATAA
1 AAAATAAAAATAA
9385311 A
1 A
9385312 TCTAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:9388159 original size:104 final size:104
Alignment explanation
Indices: 9387976--9388179 Score: 300
Period size: 104 Copynumber: 2.0 Consensus size: 104
9387966 TGTCTGTTTT
9387976 TGTCCCCCCAAATAGCCCAGATTACACATGTTATTTCCTTGCACTTATCCTTAGAATGCACAAAG
1 TGTCCCCCCAAATAGCCCAGATTACACATGTTATTTCCTTGCACTTATCCTTAGAATGCACAAAG
* **
9388041 AACAAATAGTCCATCCACTATCAGTATCTCTCATTCGGC
66 AACAAACAAACCATCCACTATCAGTATCTCTCATTCGGC
* * * *
9388080 TGTCCTCCCAAATAGCCCAGATTGCACATGTTATTTCTTTGCACTTATCCTTAGAATGCACAAGG
1 TGTCCCCCCAAATAGCCCAGATTACACATGTTATTTCCTTGCACTTATCCTTAGAATGCACAAAG
* * * **
9388145 AACAACCAAACCATCCATTGTTTGTATCTCTCATT
66 AACAAACAAACCATCCACTATCAGTATCTCTCATT
9388180 AGACTAATCT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
104 88 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (104 bp):
TGTCCCCCCAAATAGCCCAGATTACACATGTTATTTCCTTGCACTTATCCTTAGAATGCACAAAG
AACAAACAAACCATCCACTATCAGTATCTCTCATTCGGC
Found at i:9388440 original size:100 final size:100
Alignment explanation
Indices: 9388320--9388517 Score: 378
Period size: 100 Copynumber: 2.0 Consensus size: 100
9388310 AAATAAATCA
9388320 TAATGATTTGTTTGTTTATGTCCTCTTTTATTTCATCAAAAGAAACAAAATCATAAAATAAAACA
1 TAATGATTTGTTTGTTTATGTCCTCTTTTATTTCATCAAAAGAAACAAAATCATAAAATAAAACA
*
9388385 GTTTAGTGAATTGGAGAAGTTATTTCTTTTTTTGG
66 ATTTAGTGAATTGGAGAAGTTATTTCTTTTTTTGG
*
9388420 TAATGATTTGTTTGTTTATGTGCTCTTTTATTTCATCAAAAGAAACAAAATCATAAAATAAAACA
1 TAATGATTTGTTTGTTTATGTCCTCTTTTATTTCATCAAAAGAAACAAAATCATAAAATAAAACA
9388485 ATTTAGTGAATTGGAGAAGTTATTTCTTTTTTT
66 ATTTAGTGAATTGGAGAAGTTATTTCTTTTTTT
9388518 CTTTTTTGGT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (100 bp):
TAATGATTTGTTTGTTTATGTCCTCTTTTATTTCATCAAAAGAAACAAAATCATAAAATAAAACA
ATTTAGTGAATTGGAGAAGTTATTTCTTTTTTTGG
Found at i:9394177 original size:35 final size:35
Alignment explanation
Indices: 9394134--9394204 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
9394124 TAAGGTGAAA
9394134 TGGTTGAAAGGGTCTCCATGAATTGGAAATTCGGT
1 TGGTTGAAAGGGTCTCCATGAATTGGAAATTCGGT
9394169 TGGTTGAAAGGGTCTCCATGAATTGGAAATTCGGT
1 TGGTTGAAAGGGTCTCCATGAATTGGAAATTCGGT
9394204 T
1 T
9394205 ATGTAATACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.11, G:0.31, T:0.32
Consensus pattern (35 bp):
TGGTTGAAAGGGTCTCCATGAATTGGAAATTCGGT
Found at i:9396009 original size:8 final size:8
Alignment explanation
Indices: 9395996--9396023 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
9395986 AGAAATGAAA
9395996 AAAAAAAG
1 AAAAAAAG
9396004 AAAAAAAG
1 AAAAAAAG
9396012 AAAAAAAG
1 AAAAAAAG
9396020 AAAA
1 AAAA
9396024 GAAAAGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:9400622 original size:21 final size:20
Alignment explanation
Indices: 9400596--9400634 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9400586 CTTTGATGTG
9400596 AGGGTTTCATATTTAAGGTTT
1 AGGGTTTCA-ATTTAAGGTTT
*
9400617 AGGGTTTCAATTTTAGGT
1 AGGGTTTCAATTTAAGGT
9400635 ACAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.46
Consensus pattern (20 bp):
AGGGTTTCAATTTAAGGTTT
Found at i:9409990 original size:50 final size:50
Alignment explanation
Indices: 9409880--9410129 Score: 270
Period size: 50 Copynumber: 4.9 Consensus size: 50
9409870 ACATTAAGAG
* * *
9409880 GATGAGA--TCCCATGTAAGACCATGTCTGTGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-C--CGA
* *
9409931 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCATCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGA
* *
9409984 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGA
** * *
9410034 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGA
* ** * * * *
9410084 TATGAGAACTCTCATGTAATACCATATCTGGGATATGACATTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
9410130 GTACAAGAAA
Statistics
Matches: 171, Mismatches: 23, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
50 127 0.74
51 1 0.01
53 3 0.02
54 6 0.04
56 34 0.20
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGA
Found at i:9410163 original size:49 final size:50
Alignment explanation
Indices: 9409946--9410168 Score: 171
Period size: 50 Copynumber: 4.5 Consensus size: 50
9409936 TGAGAGGTCC
* * * * * * ** *
9409946 CATGTAAGACCATGTCTGGGACATGACGTTGGCATCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGACATGGGCACCTACAAGAGAACTCT
* * * * * * ** *
9409996 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGACATGGGCACCTACAAGAGAACTCT
** * *
9410046 CCCGTAAGACCATGTCTGGGACATGACATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGACATGGGCACCTACAAGAGAACTCT
* * * * *
9410096 CATGTAATACCATATCTGGGATATGACATTGGCA-GTACAAGA-AACATCT
1 CATGTAAGACCATGTCTGGGACATGACATGGGCACCTACAAGAGAAC-TCT
*
9410145 CATGTAAGACTATGTCTGGGACAT
1 CATGTAAGACCATGTCTGGGACAT
9410169 AGCTTTGGCA
Statistics
Matches: 147, Mismatches: 25, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
48 3 0.02
49 28 0.19
50 116 0.79
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGACATGGGCACCTACAAGAGAACTCT
Found at i:9412047 original size:52 final size:51
Alignment explanation
Indices: 9411961--9412072 Score: 136
Period size: 52 Copynumber: 2.2 Consensus size: 51
9411951 AATAATGCAT
* **
9411961 AAGAGGACTATGACTCATCAAACTTTATCAAAAGTAAAGTTTAATAATTTAC
1 AAGAGGACGATGACTCATCAAACTTTAT-AAAAGTAAAGCATAATAATTTAC
* * *
9412013 AAGAGGACGATGATTCACTCATACTTTAGT-AAAGTAAAGCATAATAATTTAT
1 AAGAGGACGATGACTCA-TCAAACTTTA-TAAAAGTAAAGCATAATAATTTAC
9412065 AAGAGGAC
1 AAGAGGAC
9412073 AAAAGACTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
52 42 0.81
53 9 0.17
54 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (51 bp):
AAGAGGACGATGACTCATCAAACTTTATAAAAGTAAAGCATAATAATTTAC
Found at i:9423001 original size:6 final size:6
Alignment explanation
Indices: 9422990--9423026 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
9422980 TTATAGCCTC
* *
9422990 TCTCTT TCTCTT TCTCTT TCTCTC TCTCTC TCTCTT T
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT T
9423027 GTGTGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (6 bp):
TCTCTT
Found at i:9429040 original size:24 final size:24
Alignment explanation
Indices: 9429013--9429060 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
9429003 AATTGTGTTG
9429013 TTTTTATTCTCAATTCTTTTCCAC
1 TTTTTATTCTCAATTCTTTTCCAC
*
9429037 TTTTTATTCTCAATTTTTTTCCAC
1 TTTTTATTCTCAATTCTTTTCCAC
9429061 CTTGTTGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTTATTCTCAATTCTTTTCCAC
Found at i:9433379 original size:33 final size:33
Alignment explanation
Indices: 9433334--9433611 Score: 133
Period size: 33 Copynumber: 7.6 Consensus size: 33
9433324 CCAAGAGGGT
*
9433334 CTAAGTGTTGATTCCCCGAATCATTGGTGGTTG
1 CTAAGTGCTGATTCCCCGAATCATTGGTGGTTG
* * * *
9433367 CTAAGTGCTGATTCCAACGTATTTTAAATGTGAAGGGGGTTG
1 CTAAGTGCTGATTCC-CCG-A--AT-CAT-T---GGTGGTTG
9433409 CTAAGTGCTGATTCCCCGAATCATTGGTGGTTG
1 CTAAGTGCTGATTCCCCGAATCATTGGTGGTTG
* * * *
9433442 CTAAGTGCTGATTCTACCGTATTTTAAATGTGAAGGGGGTTG
1 CTAAGTGCTGATTC-CCCG-A--AT-CAT-T---GGTGGTTG
* * ** *
9433484 TTAAGTGCTGATTTCTTGACTCATTGGTGGTTG
1 CTAAGTGCTGATTCCCCGAATCATTGGTGGTTG
* * *
9433517 CTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTG
1 CTAAGTGCTGATTCC-CCGAATC----AT-TG---GTGGTTG
*
9433559 CTAAGTGCTGATTCCCCGAATCACTGGTGGTTG
1 CTAAGTGCTGATTCCCCGAATCATTGGTGGTTG
*
9433592 CTAAGTGCTGAATCCACCGA
1 CTAAGTGCTGATTCC-CCGA
9433612 TAACGGACAA
Statistics
Matches: 183, Mismatches: 34, Indels: 55
0.67 0.12 0.20
Matches are distributed among these distances:
33 74 0.40
34 12 0.07
35 2 0.01
36 4 0.02
37 7 0.04
38 8 0.04
39 4 0.02
40 2 0.01
41 9 0.05
42 61 0.33
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (33 bp):
CTAAGTGCTGATTCCCCGAATCATTGGTGGTTG
Found at i:9433421 original size:42 final size:41
Alignment explanation
Indices: 9433362--9433573 Score: 159
Period size: 42 Copynumber: 5.5 Consensus size: 41
9433352 AATCATTGGT
*
9433362 GGTTGCTAAGTGCTGATTCCAACGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTA-TTTAAATGTGAAGGG
* * *
9433404 GGTTGCTAAGTGCTGATTCC-CCG-A-AT-CAT-T---GGT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTGAAGGG
*
9433437 GGTTGCTAAGTGCTGATTCTACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTA-TTTAAATGTGAAGGG
* * ** * * *
9433479 GGTTGTTAAGTGCTGATTTC-TTG-A-CT-CAT-T---GGT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTGAAGGG
* *
9433512 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTAT-TTAAATGTGAAGGG
9433554 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
9433574 CCGAATCACT
Statistics
Matches: 126, Mismatches: 26, Indels: 36
0.67 0.14 0.19
Matches are distributed among these distances:
33 40 0.32
34 4 0.03
35 2 0.02
36 2 0.02
37 6 0.05
38 6 0.05
39 2 0.02
40 2 0.02
41 3 0.02
42 59 0.47
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.35
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTGAAGGG
Found at i:9433463 original size:75 final size:75
Alignment explanation
Indices: 9433334--9433610 Score: 437
Period size: 75 Copynumber: 3.7 Consensus size: 75
9433324 CCAAGAGGGT
* *
9433334 CTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCAACGTATTTTAAATGTG
1 CTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
9433399 AAGGGGGTTG
66 AAGGGGGTTG
*
9433409 CTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCTACCGTATTTTAAATGTG
1 CTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
9433474 AAGGGGGTTG
66 AAGGGGGTTG
* * ** * * *
9433484 TTAAGTGCTGATTTCTTGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
1 CTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
*
9433549 AAAGGGGTTG
66 AAGGGGGTTG
* *
9433559 CTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 CTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
9433611 ATAACGGACA
Statistics
Matches: 182, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 182 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (75 bp):
CTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
AAGGGGGTTG
Found at i:9441196 original size:3 final size:3
Alignment explanation
Indices: 9441190--9441232 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
9441180 CATAATAAAT
*
9441190 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9441233 ATTGATTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9446311 original size:34 final size:34
Alignment explanation
Indices: 9446266--9446340 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
9446256 GGTTTTTGGT
* * *
9446266 TCCACAAGGCCTAGCAACATGGGCATGTGAGATC
1 TCCACACGGCCTAGCAACACGAGCATGTGAGATC
* *
9446300 TCCACACGGCCTGGCCACACGAGCATGTGAGATC
1 TCCACACGGCCTAGCAACACGAGCATGTGAGATC
9446334 TCCACAC
1 TCCACAC
9446341 AACCGTGTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.24, T:0.16
Consensus pattern (34 bp):
TCCACACGGCCTAGCAACACGAGCATGTGAGATC
Found at i:9446968 original size:15 final size:15
Alignment explanation
Indices: 9446943--9446977 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9446933 GACTCTATTT
*
9446943 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
9446957 TAATTAATATTAAGA
1 TAATTAATATTAAGA
9446972 TAATTA
1 TAATTA
9446978 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:9448016 original size:270 final size:270
Alignment explanation
Indices: 9447522--9448051 Score: 880
Period size: 270 Copynumber: 2.0 Consensus size: 270
9447512 AGTGTTGATC
*
9447522 TAGCATAAGACGATCCCACAGAAGCGATTGTTGGCTAGAGTCAGGTTTCACTAAATCGTAAGTCT
1 TAGCATAAGACGATCCCACAGAAGCGATTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGTCT
* * *
9447587 AAATCATTGGAGTTGGTGGTCATAGGCGTCCTCTTCCACTATAACTGGCTTATTCGGTTTGGGAA
66 AAATCATTGAAGCTGGTGGTCATAGGCGTCCTCTTCCACTATAACTGGCTTATTCGATTTGGGAA
* * ***
9447652 GGATCATCTAAAGTCGAGGATTGAACCTAAGATGGAACGAGACAACTGGAGGCTGGAACCTCCCA
131 GGATCATCTAAAGCCGAGGATTGAACCCAAGACACAACGAGACAACTGGAGGCTGGAACCTCCCA
* * *
9447717 TAAGAATTTTCTTTCTCTCAACTCTATTTTTAATTTCTCAAATTTTCGATTCAATATTCTTAATT
196 AAAGAATTTCCTTTCTCTCAACACTATTTTTAATTTCTCAAATTTTCGATTCAATATTCTTAATT
9447782 CTGTTATTTT
261 CTGTTATTTT
*
9447792 TAGCATAAGATGATCCCACAGAAGCGATTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGTCT
1 TAGCATAAGACGATCCCACAGAAGCGATTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGTCT
* * *
9447857 AAATCCTTGAAGCTGGTGGTCGTAGGCTTCCTCTTCCACTATAACTGGCTTATTCGATTTGGGAA
66 AAATCATTGAAGCTGGTGGTCATAGGCGTCCTCTTCCACTATAACTGGCTTATTCGATTTGGGAA
*
9447922 GGATCATCTAAAGCCGAGGATTGAACCCAAGGCACAACGAGACAACTGGAGGCTGGAACCTCCCA
131 GGATCATCTAAAGCCGAGGATTGAACCCAAGACACAACGAGACAACTGGAGGCTGGAACCTCCCA
* * *
9447987 AAAGAATTTCCTTTCTTTCAACACTATTTTTAATTTCTCGAATTTTTGATTCAATATTCTTAATT
196 AAAGAATTTCCTTTCTCTCAACACTATTTTTAATTTCTCAAATTTTCGATTCAATATTCTTAATT
9448052 TTATTTTTAT
Statistics
Matches: 240, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
270 240 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (270 bp):
TAGCATAAGACGATCCCACAGAAGCGATTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGTCT
AAATCATTGAAGCTGGTGGTCATAGGCGTCCTCTTCCACTATAACTGGCTTATTCGATTTGGGAA
GGATCATCTAAAGCCGAGGATTGAACCCAAGACACAACGAGACAACTGGAGGCTGGAACCTCCCA
AAAGAATTTCCTTTCTCTCAACACTATTTTTAATTTCTCAAATTTTCGATTCAATATTCTTAATT
CTGTTATTTT
Found at i:9451194 original size:13 final size:13
Alignment explanation
Indices: 9451173--9451268 Score: 54
Period size: 12 Copynumber: 7.2 Consensus size: 13
9451163 GCAACCCAAT
9451173 TTTTATTTTTTAC
1 TTTTATTTTTTAC
* *
9451186 TTTTGTTTTTTAT
1 TTTTATTTTTTAC
*
9451199 TATTTATTTATTTATTA
1 T-TTTATTT-TTTA--C
9451216 TTTTATTTATTTA-
1 TTTTATTT-TTTAC
*
9451229 -TTTATTTATTA-
1 TTTTATTTTTTAC
* *
9451240 TTTTATTTATTAT
1 TTTTATTTTTTAC
*
9451253 TTATTATTTATTAC
1 TT-TTATTTTTTAC
9451267 TT
1 TT
9451269 ATTTGGATAT
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
11 3 0.04
12 18 0.26
13 14 0.20
14 18 0.26
15 4 0.06
16 12 0.17
17 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.75
Consensus pattern (13 bp):
TTTTATTTTTTAC
Found at i:9451207 original size:4 final size:4
Alignment explanation
Indices: 9451194--9451264 Score: 89
Period size: 4 Copynumber: 18.5 Consensus size: 4
9451184 ACTTTTGTTT
9451194 TTTA -TTA TTTA TTTA TTTA -TTA TTTTA TTTA TTTA TTTA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA
9451240 TTTTA TTTA -TTA TTTA -TTA TTTA TT
1 -TTTA TTTA TTTA TTTA TTTA TTTA TT
9451265 ACTTATTTGG
Statistics
Matches: 60, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
3 15 0.25
4 39 0.65
5 6 0.10
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:9451219 original size:24 final size:25
Alignment explanation
Indices: 9451175--9451265 Score: 109
Period size: 24 Copynumber: 3.7 Consensus size: 25
9451165 AACCCAATTT
* *
9451175 TTATTT-TTTACTT-TTGTTTTTTA
1 TTATTTATTTATTTATTATTTTTTA
*
9451198 TTATTTATTTATTTATTATTTTAT-
1 TTATTTATTTATTTATTATTTTTTA
9451222 TTATTTATTTATTTATTATTTTATTTA
1 TTATTTATTTATTTATTA-TTT-TTTA
9451249 TTATTTA-TTATTTATTA
1 TTATTTATTTATTTATTA
9451266 CTTATTTGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
23 6 0.10
24 24 0.41
25 10 0.17
26 12 0.20
27 7 0.12
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (25 bp):
TTATTTATTTATTTATTATTTTTTA
Found at i:9451262 original size:7 final size:7
Alignment explanation
Indices: 9451194--9451271 Score: 97
Period size: 7 Copynumber: 10.9 Consensus size: 7
9451184 ACTTTTGTTT
9451194 TTTATTA
1 TTTATTA
9451201 TTTATTTA
1 TTTA-TTA
9451209 TTTATTA
1 TTTATTA
9451216 TTTTATTTA
1 -TTTA-TTA
9451225 TTTATTTA
1 TTTA-TTA
9451233 TTTATTA
1 TTTATTA
9451240 -TT-TTA
1 TTTATTA
9451245 TTTATTA
1 TTTATTA
9451252 TTTATTA
1 TTTATTA
9451259 TTTATTA
1 TTTATTA
*
9451266 CTTATT
1 TTTATT
9451272 TGGATATTAA
Statistics
Matches: 65, Mismatches: 1, Indels: 10
0.86 0.01 0.13
Matches are distributed among these distances:
5 3 0.05
6 4 0.06
7 32 0.49
8 23 0.35
9 3 0.05
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTA
Found at i:9453057 original size:15 final size:15
Alignment explanation
Indices: 9453032--9453066 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9453022 GACTCTATTT
*
9453032 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
9453046 TAATTAATATTAAGA
1 TAATTAATATTAAGA
9453061 TAATTA
1 TAATTA
9453067 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:9453109 original size:10 final size:10
Alignment explanation
Indices: 9453091--9453138 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
9453081 ATTTTAGAAT
9453091 TTTAT-TTTA
1 TTTATCTTTA
9453100 TTTATCTTTA
1 TTTATCTTTA
9453110 TTTATCTTTA
1 TTTATCTTTA
* ** *
9453120 ATTAAATGTA
1 TTTATCTTTA
9453130 TTTATCTTT
1 TTTATCTTT
9453139 TGGGAGTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:9457610 original size:24 final size:25
Alignment explanation
Indices: 9457562--9457615 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
9457552 TAATACTTTA
9457562 TATATATGTATTAATGATTAGATAT
1 TATATATGTATTAATGATTAGATAT
*
9457587 TATATAT-TATGTAAT-ATTATATAT
1 TATATATGTAT-TAATGATTAGATAT
9457611 TATAT
1 TATAT
9457616 TATAATCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (25 bp):
TATATATGTATTAATGATTAGATAT
Found at i:9470160 original size:26 final size:26
Alignment explanation
Indices: 9470130--9470183 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
9470120 TACAAAGTAT
9470130 TATCAGACTTATAAATCAAACAATCA
1 TATCAGACTTATAAATCAAACAATCA
9470156 TATCAGACTTATAAATCAAACAATCA
1 TATCAGACTTATAAATCAAACAATCA
9470182 TA
1 TA
9470184 CATTTCACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.28
Consensus pattern (26 bp):
TATCAGACTTATAAATCAAACAATCA
Found at i:9471780 original size:25 final size:25
Alignment explanation
Indices: 9471737--9471808 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
9471727 ACAAGTGATA
* *
9471737 AACGGTAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCATACGAGCTGAAT
* *
9471762 AACGGTAAGCTCATACGAGTTGAGT
1 AACGGTAAGCTCATACGAGCTGAAT
* ** *
9471787 ATCAATAAGCTCATAAGAGCTG
1 AACGGTAAGCTCATACGAGCTG
9471809 GATTCGGTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTGAAT
Found at i:9472433 original size:25 final size:25
Alignment explanation
Indices: 9472390--9472461 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
9472380 ACAAGTGATA
* *
9472390 AACGGTAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCATACGAGCTGAAT
* *
9472415 AACGGTAAGCTCATACGAGTTGAGT
1 AACGGTAAGCTCATACGAGCTGAAT
* ** *
9472440 ATCAATAAGCTCATAAGAGCTG
1 AACGGTAAGCTCATACGAGCTG
9472462 GATTCGGTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTGAAT
Found at i:9472469 original size:653 final size:653
Alignment explanation
Indices: 9471224--9473184 Score: 3877
Period size: 653 Copynumber: 3.0 Consensus size: 653
9471214 AAAATATAAA
*
9471224 GTCCAAAGTGCCAAAATAACGTTTGATAGTATGATGAGATCCCTAACGACTTCCAATCCGAACGA
1 GTCCAAAGTGCCAAAATAACGTTTGATAGTATGATGAGATCCCTGACGACTTCCAATCCGAACGA
9471289 GCTTCTGAATCACTATAAAACACTAAAAAATAAACAGAGTAAGTAATTAAGCTTAGTAAATTCGT
66 GCTTCTGAATCACTATAAAACACTAAAAAATAAACAGAGTAAGTAATTAAGCTTAGTAAATTCGT
9471354 ATAACACAGAATTAAACTTACCATTTATCCACAATTTAGATAAGCAACTCAAAGCATAGCACAAT
131 ATAACACAGAATTAAACTTACCATTTATCCACAATTTAGATAAGCAACTCAAAGCATAGCACAAT
9471419 TCAATTTGGCTAAAGCCTATCACATAATCAATAACCAAGTTAGTCATGTATTCATATAAAAAATC
196 TCAATTTGGCTAAAGCCTATCACATAATCAATAACCAAGTTAGTCATGTATTCATATAAAAAATC
9471484 AAAAATCATGTATGAATTCAACAATTATTAAATTCCATATACATGTAACATCTATACCGTGTATC
261 AAAAATCATGTATGAATTCAACAATTATTAAATTCCATATACATGTAACATCTATACCGTGTATC
9471549 CATATATCATATATAAATCATTTCCATGTAAATACTTGTACTAGTTCGTATCGAACTTATATAAT
326 CATATATCATATATAAATCATTTCCATGTAAATACTTGTACTAGTTCGTATCGAACTTATATAAT
9471614 TTCGTAATAACACTATGTCCGTTGAACCACTTAGAATATCGTTAGATACATGGGTAGTACACGCG
391 TTCGTAATAACACTATGTCCGTTGAACCACTTAGAATATCGTTAGATACATGGGTAGTACACGCG
9471679 AGGTGTACTGAACTGTAAATCTATCAATTCTTGTACATGTATGCTTATACAAGTGATAAACGGTA
456 AGGTGTACTGAACTGTAAATCTATCAATTCTTGTACATGTATGCTTATACAAGTGATAAACGGTA
9471744 AGCTCCTCCGAGCTGAATAACGGTAAGCTCATACGAGTTGAGTATCAATAAGCTCATAAGAGCTG
521 AGCTCCTCCGAGCTGAATAACGGTAAGCTCATACGAGTTGAGTATCAATAAGCTCATAAGAGCTG
9471809 GATTCGGTAACCCTAATGACATGTCAATTTGTATCCTACGAATTTTTAAGGTTTAAATGGAGTTC
586 GATTCGGTAACCCTAATGACATGTCAATTTGTATCCTACGAATTTTTAAGGTTTAAATGGAGTTC
9471874 GGT
651 GGT
*
9471877 GTCCAAAGTGCCAAAATAACGTTTGATAGTATGATGAGATCCCTGACGACTTCCAATTCGAACGA
1 GTCCAAAGTGCCAAAATAACGTTTGATAGTATGATGAGATCCCTGACGACTTCCAATCCGAACGA
9471942 GCTTCTGAATCACTATAAAACACTAAAAAATAAACAGAGTAAGTAATTAAGCTTAGTAAATTCGT
66 GCTTCTGAATCACTATAAAACACTAAAAAATAAACAGAGTAAGTAATTAAGCTTAGTAAATTCGT
9472007 ATAACACAGAATTAAACTTACCATTTATCCACAATTTAGATAAGCAACTCAAAGCATAGCACAAT
131 ATAACACAGAATTAAACTTACCATTTATCCACAATTTAGATAAGCAACTCAAAGCATAGCACAAT
9472072 TCAATTTGGCTAAAGCCTATCACATAATCAATAACCAAGTTAGTCATGTATTCATATAAAAAATC
196 TCAATTTGGCTAAAGCCTATCACATAATCAATAACCAAGTTAGTCATGTATTCATATAAAAAATC
9472137 AAAAATCATGTATGAATTCAACAATTATTAAATTCCATATACATGTAACATCTATACCGTGTATC
261 AAAAATCATGTATGAATTCAACAATTATTAAATTCCATATACATGTAACATCTATACCGTGTATC
9472202 CATATATCATATATAAATCATTTCCATGTAAATACTTGTACTAGTTCGTATCGAACTTATATAAT
326 CATATATCATATATAAATCATTTCCATGTAAATACTTGTACTAGTTCGTATCGAACTTATATAAT
*
9472267 TTCGTAATAACACTATGTCCGTTGAACAACTTAGAATATCGTTAGATACATGGGTAGTACACGCG
391 TTCGTAATAACACTATGTCCGTTGAACCACTTAGAATATCGTTAGATACATGGGTAGTACACGCG
9472332 AGGTGTACTGAACTGTAAATCTATCAATTCTTGTACATGTATGCTTATACAAGTGATAAACGGTA
456 AGGTGTACTGAACTGTAAATCTATCAATTCTTGTACATGTATGCTTATACAAGTGATAAACGGTA
9472397 AGCTCCTCCGAGCTGAATAACGGTAAGCTCATACGAGTTGAGTATCAATAAGCTCATAAGAGCTG
521 AGCTCCTCCGAGCTGAATAACGGTAAGCTCATACGAGTTGAGTATCAATAAGCTCATAAGAGCTG
9472462 GATTCGGTAACCCTAATGACATGTCAATTTGTATCCTACGAATTTTTAAGGTTTAAATGGAGTTC
586 GATTCGGTAACCCTAATGACATGTCAATTTGTATCCTACGAATTTTTAAGGTTTAAATGGAGTTC
9472527 GGT
651 GGT
*
9472530 GTCCAAAGTGCCAAAATAACCTTTGATAGTATGATGAGATCCCTGACGACTTCCAATCCGAACGA
1 GTCCAAAGTGCCAAAATAACGTTTGATAGTATGATGAGATCCCTGACGACTTCCAATCCGAACGA
9472595 GCTTCTGAATCACTATAAAACACTAAAAAATAAACAGAGTAAGTAATTAAGCTTAGTAAATTCGT
66 GCTTCTGAATCACTATAAAACACTAAAAAATAAACAGAGTAAGTAATTAAGCTTAGTAAATTCGT
9472660 ATAACACAGAATTAAACTTACCATTTATCCACAATTTAGATAAGCAACTCAAAGCATAGCACAAT
131 ATAACACAGAATTAAACTTACCATTTATCCACAATTTAGATAAGCAACTCAAAGCATAGCACAAT
9472725 TCAATTTGGCTAAAGCCTATCACATAATCAATAACCAAGTTAGTCATGTATTCATATAAAAAATC
196 TCAATTTGGCTAAAGCCTATCACATAATCAATAACCAAGTTAGTCATGTATTCATATAAAAAATC
9472790 AAAAATCATGTATGAATTCAACAATTATTAAATTCCATATACATGTAACATCTATACCGTGTATC
261 AAAAATCATGTATGAATTCAACAATTATTAAATTCCATATACATGTAACATCTATACCGTGTATC
*
9472855 CATATATCATATATAAATTATTTCCATGTAAATACTTGTACTAGTTCGTATCGAACTTATATAAT
326 CATATATCATATATAAATCATTTCCATGTAAATACTTGTACTAGTTCGTATCGAACTTATATAAT
9472920 TTCGTAATAACACTATGTCCGTTGAACCACTTAGAATATCGTTAGATACATGGGTAGTACACGCG
391 TTCGTAATAACACTATGTCCGTTGAACCACTTAGAATATCGTTAGATACATGGGTAGTACACGCG
9472985 AGGTGTACTGAACTGTAAATCTATCAATTCTTGTACATGTATGCTTATACAAGTGATAAACGGTA
456 AGGTGTACTGAACTGTAAATCTATCAATTCTTGTACATGTATGCTTATACAAGTGATAAACGGTA
9473050 AGCTCCTCCGAGCTGAATAACGGTAAGCTCATACGAGTTGAGTATCAATAAGCTCATAAGAGCTG
521 AGCTCCTCCGAGCTGAATAACGGTAAGCTCATACGAGTTGAGTATCAATAAGCTCATAAGAGCTG
9473115 GATTCGGTAACCCTAATGACATGTCAATTTGTATCCTACGAATTTTTAAGGTTTAAATGGAGTTC
586 GATTCGGTAACCCTAATGACATGTCAATTTGTATCCTACGAATTTTTAAGGTTTAAATGGAGTTC
9473180 GGT
651 GGT
9473183 GT
1 GT
9473185 TCTTCATACT
Statistics
Matches: 1301, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
653 1301 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (653 bp):
GTCCAAAGTGCCAAAATAACGTTTGATAGTATGATGAGATCCCTGACGACTTCCAATCCGAACGA
GCTTCTGAATCACTATAAAACACTAAAAAATAAACAGAGTAAGTAATTAAGCTTAGTAAATTCGT
ATAACACAGAATTAAACTTACCATTTATCCACAATTTAGATAAGCAACTCAAAGCATAGCACAAT
TCAATTTGGCTAAAGCCTATCACATAATCAATAACCAAGTTAGTCATGTATTCATATAAAAAATC
AAAAATCATGTATGAATTCAACAATTATTAAATTCCATATACATGTAACATCTATACCGTGTATC
CATATATCATATATAAATCATTTCCATGTAAATACTTGTACTAGTTCGTATCGAACTTATATAAT
TTCGTAATAACACTATGTCCGTTGAACCACTTAGAATATCGTTAGATACATGGGTAGTACACGCG
AGGTGTACTGAACTGTAAATCTATCAATTCTTGTACATGTATGCTTATACAAGTGATAAACGGTA
AGCTCCTCCGAGCTGAATAACGGTAAGCTCATACGAGTTGAGTATCAATAAGCTCATAAGAGCTG
GATTCGGTAACCCTAATGACATGTCAATTTGTATCCTACGAATTTTTAAGGTTTAAATGGAGTTC
GGT
Found at i:9473086 original size:25 final size:25
Alignment explanation
Indices: 9473043--9473114 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
9473033 ACAAGTGATA
* *
9473043 AACGGTAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCATACGAGCTGAAT
* *
9473068 AACGGTAAGCTCATACGAGTTGAGT
1 AACGGTAAGCTCATACGAGCTGAAT
* ** *
9473093 ATCAATAAGCTCATAAGAGCTG
1 AACGGTAAGCTCATACGAGCTG
9473115 GATTCGGTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTGAAT
Found at i:9477938 original size:20 final size:20
Alignment explanation
Indices: 9477913--9477953 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9477903 TGCCATTGAG
9477913 AATCATCTTCATATGATTAT
1 AATCATCTTCATATGATTAT
*
9477933 AATCATCTTCGTATGATTAT
1 AATCATCTTCATATGATTAT
9477953 A
1 A
9477954 GATTATTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (20 bp):
AATCATCTTCATATGATTAT
Found at i:9493315 original size:22 final size:22
Alignment explanation
Indices: 9493260--9493324 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
9493250 TTGCAGTAAG
*
9493260 CCACGATATTTTATTTAAGTTC
1 CCACGATATTTTATTTTAGTTC
* * *
9493282 CCA-GAGT-GTTTATTTTTGTTT
1 CCACGA-TATTTTATTTTAGTTC
9493303 CCACGATATTTTATTTTAGTTC
1 CCACGATATTTTATTTTAGTTC
9493325 TCGGGCCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (22 bp):
CCACGATATTTTATTTTAGTTC
Found at i:9494591 original size:9 final size:9
Alignment explanation
Indices: 9494574--9494608 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
9494564 TTTATTTTTC
*
9494574 TTTCATATA
1 TTTCTTATA
9494583 TTTCTTATA
1 TTTCTTATA
9494592 TTTCTTATA
1 TTTCTTATA
9494601 TTTCTTAT
1 TTTCTTAT
9494609 GTTTATCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTCTTATA
Found at i:9495062 original size:113 final size:112
Alignment explanation
Indices: 9494909--9495567 Score: 527
Period size: 113 Copynumber: 5.8 Consensus size: 112
9494899 AAATCTCAAG
* * * *
9494909 ACCAACACGCAGCGTTCTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACGAACAAACGCCGG
1 ACCAAAACGCAGAGTT-TGGTCTTGATGTATATTAGAATTAGTGGCGCTTACGGA-AAACGCCGC
* *
9494974 TAATGCATAGTATTAGCGGCGCTTAGCAAAAGCGCCGCAAAAGATGTTA
64 TAATGCATAGTATTAGCGGCGCTTAGCGAAAGCGCCGCAAAAGATCTTA
* * **
9495023 ACCAAAACGCAGAGTTTGGTCTTCATGTATATTACAATTAGTGGCGCTTATAAAGAAAACGCCGC
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGC-T-TACGGAAAACGCCGC
* * * *
9495088 TAATGTATAGTATTAGCGGCGCTGAGCGTTCAA-CGCCGCAAAACATCTTA
64 TAATGCATAGTATTAGCGGCGCTTAGCG--AAAGCGCCGCAAAAGATCTTA
* * * * * * * **
9495138 ACCAAAACGCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGAGTTTAAGGAAAATGCCATT
1 ACCAAAACGCAGAG-TTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACGGAAAACGCCGCT
* * * * * * * * * *
9495203 AAAGCATAGTAATAGCAGTGTTTGGTGGTAAGCGCCTCAAAATATCTTA
65 AATGCATAGTATTAGCGGCGCTTAG-CGAAAGCGCCGCAAAAGATCTTA
* * * * *
9495252 ACCAAAATGCGGAGTATGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATTGGAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTA-CGGAAAACGCCGCT
* * * * *
9495317 AAAGTATAGTAGTAGCGGCG-TTTGTGGAAAGCGCCGC-AAAGTATCTTA
65 AATGCATAGTATTAGCGGCGCTTAG-CGAAAGCGCCGCAAAAG-ATCTTA
* * ** * * **
9495365 ACCAAAATGCAGAGTTTGGCCTTGACATATATTAGAGTTAGTGGTGCTTACTTCAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTAC-GGAAAACGCCGCT
* * * * * * *
9495430 AATGCTTACTATTTGCGGCACTTTTTG-GTAAGCGCCGCCAAAAGATATTA
65 AATGCATAGTATTAGCGGCGC--TTAGCGAAAGCGCCG-CAAAAGATCTTA
* * * * * * **
9495480 ACGAAAACACAGCGTTTAGTTCTTGATGTATACTGGAATTAGTGGCGCACACAGGAAAACGCCGC
1 ACCAAAACGCAGAGTTT-GGTCTTGATGTATATTAGAATTAGTGGCGCTTAC-GGAAAACGCCGC
9495545 TGAA-GCATAGTATTAGCGGCGCT
64 T-AATGCATAGTATTAGCGGCGCT
9495568 CTTCTCGAAA
Statistics
Matches: 431, Mismatches: 97, Indels: 34
0.77 0.17 0.06
Matches are distributed among these distances:
112 3 0.01
113 148 0.34
114 139 0.32
115 52 0.12
116 87 0.20
117 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (112 bp):
ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACGGAAAACGCCGCTA
ATGCATAGTATTAGCGGCGCTTAGCGAAAGCGCCGCAAAAGATCTTA
Found at i:9495693 original size:18 final size:18
Alignment explanation
Indices: 9495672--9495707 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
9495662 TCATTTTATA
9495672 TGTTT-TTTATATTTAATT
1 TGTTTATTTATA-TTAATT
9495690 TGTTTATTTATATTAATT
1 TGTTTATTTATATTAATT
9495708 AAAATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TGTTTATTTATATTAATT
Found at i:9496105 original size:81 final size:82
Alignment explanation
Indices: 9496008--9496165 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 82
9495998 TTCGGTGTCA
* * * *
9496008 GGTTAGGCTTTAGGGTTTAGATTAATTAGTGTGTTTAAATTT-T-TATAAAATATGGTTTAAGGG
1 GGTTAGGATTTAGGGTTTAGATTAATTAATATGTTTAAATTTATGTATAAAATAAGGTTT-AGGG
*
9496071 TTAGGGGTTAGGGATTCG
65 TTAGGAGTTAGGGATTCG
* * * *
9496089 GGTTAGGATTTAGGGTTTTGATTAATTAATATTTTTTAATTTATGTATTAAATAAGGTTTAGGGT
1 GGTTAGGATTTAGGGTTTAGATTAATTAATATGTTTAAATTTATGTATAAAATAAGGTTTAGGGT
*
9496154 TAGTAGTTAGGG
66 TAGGAGTTAGGG
9496166 CCGGGGTTAG
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 36 0.55
82 16 0.25
83 13 0.20
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.44
Consensus pattern (82 bp):
GGTTAGGATTTAGGGTTTAGATTAATTAATATGTTTAAATTTATGTATAAAATAAGGTTTAGGGT
TAGGAGTTAGGGATTCG
Found at i:9496594 original size:8 final size:7
Alignment explanation
Indices: 9496580--9496639 Score: 68
Period size: 7 Copynumber: 8.6 Consensus size: 7
9496570 GACTTTTAGT
9496580 GTTTGGG
1 GTTTGGG
9496587 GTTTTGGG
1 G-TTTGGG
9496595 GTTT-GG
1 GTTTGGG
9496601 GTTTGGG
1 GTTTGGG
*
9496608 GTTTAGG
1 GTTTGGG
*
9496615 GTTTGAG
1 GTTTGGG
*
9496622 GTTTGTG
1 GTTTGGG
*
9496629 GTTTGAG
1 GTTTGGG
9496636 GTTT
1 GTTT
9496640 AAGGTTTAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
6 6 0.13
7 33 0.72
8 7 0.15
ACGTcount: A:0.05, C:0.00, G:0.47, T:0.48
Consensus pattern (7 bp):
GTTTGGG
Found at i:9496602 original size:14 final size:14
Alignment explanation
Indices: 9496589--9496646 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
9496579 TGTTTGGGGT
9496589 TTTGGGGTTT-GGG
1 TTTGGGGTTTAGGG
9496602 TTTGGGGTTTAGGG
1 TTTGGGGTTTAGGG
*
9496616 TTTGAGGTTT-GTGG
1 TTTGGGGTTTAG-GG
* *
9496630 TTTGAGGTTTAAGG
1 TTTGGGGTTTAGGG
9496644 TTT
1 TTT
9496647 AGAAATTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
13 11 0.28
14 29 0.73
ACGTcount: A:0.09, C:0.00, G:0.43, T:0.48
Consensus pattern (14 bp):
TTTGGGGTTTAGGG
Found at i:9496606 original size:21 final size:22
Alignment explanation
Indices: 9496580--9496646 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 22
9496570 GACTTTTAGT
*
9496580 GTTTGGGGTTTTGGGGTTTG-G
1 GTTTGGGGTTTTAGGGTTTGAG
9496601 GTTTGGGG-TTTAGGGTTTGAG
1 GTTTGGGGTTTTAGGGTTTGAG
* * *
9496622 GTTTGTGGTTTGA-GGTTTAAG
1 GTTTGGGGTTTTAGGGTTTGAG
9496643 GTTT
1 GTTT
9496647 AGAAATTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.25
21 27 0.68
22 3 0.08
ACGTcount: A:0.07, C:0.00, G:0.45, T:0.48
Consensus pattern (22 bp):
GTTTGGGGTTTTAGGGTTTGAG
Found at i:9497257 original size:42 final size:42
Alignment explanation
Indices: 9497210--9497300 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
9497200 ATCAAATAGT
**
9497210 GGCGTTTGTGAAGTAAGCGCC-CTA-AAGAACACTACTTTTAGC
1 GGCGTTTGTG-ACCAAGCGCCGCTATAA-AACACTACTTTTAGC
* *
9497252 GGCGTTTTTGACCAAGCGCCGCTATAAAACATTACTTTTAGC
1 GGCGTTTGTGACCAAGCGCCGCTATAAAACACTACTTTTAGC
9497294 GGCGTTT
1 GGCGTTT
9497301 TCTTCCTAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 8 0.19
42 33 0.77
43 2 0.05
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (42 bp):
GGCGTTTGTGACCAAGCGCCGCTATAAAACACTACTTTTAGC
Found at i:9497344 original size:85 final size:84
Alignment explanation
Indices: 9497223--9497386 Score: 219
Period size: 85 Copynumber: 1.9 Consensus size: 84
9497213 GTTTGTGAAG
*
9497223 TAAGCGCCCTAAAGAACACTACTTTTAGCGGCGTTTTTGACCAAGCGCCGCTATAA-AACATTA-
1 TAAGCGCCCTAAAGAACACTACTTTTAGCGGCGTTTTTGACCAAGCGCCGCTA-AAGAACATGAT
9497286 CTTTTAGCGGCGTTTTCTTCC
65 C-TTTAGCGGCGTTTTCTTCC
* **
9497307 TAAGCGCCGCTAAAGAACA-TGA-TCTTTAGCGGTGTTTTTTCCCAAGCGCCGCTAAAGAACATG
1 TAAGCGCC-CTAAAGAACACT-ACT-TTTAGCGGCGTTTTTGACCAAGCGCCGCTAAAGAACATG
9497370 ATCTTTAGCGGCGTTTT
63 ATCTTTAGCGGCGTTTT
9497387 TTTTCTGTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
84 12 0.17
85 58 0.82
86 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (84 bp):
TAAGCGCCCTAAAGAACACTACTTTTAGCGGCGTTTTTGACCAAGCGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTTCTTCC
Found at i:9497388 original size:42 final size:42
Alignment explanation
Indices: 9497224--9497388 Score: 205
Period size: 42 Copynumber: 3.9 Consensus size: 42
9497214 TTTGTGAAGT
**
9497224 AAGCGCC-CTAAAGAACACT-ACTTTTAGCGGCGTTTTTGACC
1 AAGCGCCGCTAAAGAACA-TGACTTTTAGCGGCGTTTTTTCCC
* *
9497265 AAGCGCCGCTATAA-AACATTACTTTTAGCGGCGTTTTCTTCCT
1 AAGCGCCGCTA-AAGAACATGACTTTTAGCGGCGTTTT-TTCCC
*
9497308 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGTGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTCCC
9497350 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTT
9497389 TTCTGTAAGC
Statistics
Matches: 111, Mismatches: 7, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
41 8 0.07
42 69 0.62
43 34 0.31
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTCCC
Found at i:9497969 original size:8 final size:8
Alignment explanation
Indices: 9497949--9497977 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9497939 AATATTTTTT
9497949 AAAATAT-
1 AAAATATA
9497956 AAAATATA
1 AAAATATA
9497964 AAAATATA
1 AAAATATA
9497972 AAAATA
1 AAAATA
9497978 CATCAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATATA
Found at i:9498124 original size:17 final size:17
Alignment explanation
Indices: 9498072--9498161 Score: 69
Period size: 17 Copynumber: 5.3 Consensus size: 17
9498062 AGTTCTTATA
*
9498072 TATATATTTGTA-ATTT
1 TATATATTTATATATTT
* * *
9498088 TATAATTTTTTAGATCTTT
1 TAT-A-TATTTATATATTT
9498107 TATATATTTATATATTT
1 TATATATTTATATATTT
* *
9498124 TATAAATCTATAT-TTT
1 TATATATTTATATATTT
*
9498140 TAT-TAATTTATATATTA
1 TATAT-ATTTATATATTT
9498157 TATAT
1 TATAT
9498162 TTTTCAAAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
16 16 0.29
17 27 0.48
18 7 0.12
19 6 0.11
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TATATATTTATATATTT
Found at i:9513836 original size:2 final size:2
Alignment explanation
Indices: 9513831--9513860 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9513821 TCTCTTCTGT
9513831 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9513861 CGCGCGCTTT
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:9523403 original size:28 final size:27
Alignment explanation
Indices: 9523372--9523424 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
9523362 ACCAAAAATT
9523372 TATTTTAAAAATAAAAAAATTAAAAAAA
1 TATTTTAAAAATAAAAAAA-TAAAAAAA
*
9523400 TATTTTAAAATTAAAAAAATAAAAA
1 TATTTTAAAAATAAAAAAATAAAAA
9523425 TATTTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (27 bp):
TATTTTAAAAATAAAAAAATAAAAAAA
Found at i:9526923 original size:5 final size:5
Alignment explanation
Indices: 9526913--9526939 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
9526903 AGCTTGCTGG
9526913 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
9526940 GGGGGATGAA
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:9532526 original size:13 final size:13
Alignment explanation
Indices: 9532496--9532539 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
9532486 TTGGGTTGAG
*
9532496 AAATTAATTTAGTT
1 AAATTAA-TTAATT
9532510 AAATTAATTAATT
1 AAATTAATTAATT
*
9532523 AAATTAATTGATT
1 AAATTAATTAATT
9532536 AAAT
1 AAAT
9532540 AAATAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:9538609 original size:14 final size:14
Alignment explanation
Indices: 9538590--9538620 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9538580 AGCTTGGCAA
9538590 TTGGGAACTATTTG
1 TTGGGAACTATTTG
9538604 TTGGGAACTATTTG
1 TTGGGAACTATTTG
9538618 TTG
1 TTG
9538621 TTAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (14 bp):
TTGGGAACTATTTG
Found at i:9538902 original size:12 final size:12
Alignment explanation
Indices: 9538882--9538911 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9538872 TATGGTTAAT
*
9538882 TTCTTTAGCAGC
1 TTCTGTAGCAGC
9538894 TTCTGTAGCAGC
1 TTCTGTAGCAGC
9538906 TTCTGT
1 TTCTGT
9538912 TGTTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (12 bp):
TTCTGTAGCAGC
Found at i:9542990 original size:121 final size:121
Alignment explanation
Indices: 9542732--9543599 Score: 1594
Period size: 121 Copynumber: 7.2 Consensus size: 121
9542722 TCAAGTTATA
9542732 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
1 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
* * * *
9542797 TAT-AAGAACATTAATTATTAAGAATTTTATTAAATTATATTGTTCAATTAAAATA
66 TATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
* * *
9542852 TATTTAATCATATATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTG
1 TATTTAATAATA-ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTA
9542917 ATATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
65 ATATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
9542974 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
1 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
9543039 TATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
66 TATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
9543095 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
1 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
*
9543160 TATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATT
66 TATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
9543216 TATTTAATAATAAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTA
1 TATTTAATAAT-AATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTA
9543281 ATATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
65 ATATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
*
9543338 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAA
1 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
9543403 TATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
66 TATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
*
9543459 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAA
1 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
* * *
9543524 TATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTAAAATA
66 TATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
9543580 TATTTAATAATAATTATGTT
1 TATTTAATAATAATTATGTT
9543600 TAAATATGAT
Statistics
Matches: 729, Mismatches: 16, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
120 11 0.02
121 539 0.74
122 179 0.25
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.48
Consensus pattern (121 bp):
TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
TATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
Found at i:9543400 original size:364 final size:364
Alignment explanation
Indices: 9542732--9543599 Score: 1614
Period size: 364 Copynumber: 2.4 Consensus size: 364
9542722 TCAAGTTATA
9542732 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
1 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
* * * * *
9542797 TAT-AAGAACATTAATTATTAAGAATTTTATTAAATTATATTGTTCAATTAAAATATATTTAATC
66 TATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAATA
* *
9542861 ATATATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTGATATAAAGA
131 ATAAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAAGA
9542926 ATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATTTATTTAATAATAATTAT
196 ATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATTTATTTAATAATAATTAT
*
9542991 GTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAAGAATATTAATT
261 GTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAAGAATATTAATT
9543056 ATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
326 ATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
9543095 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
1 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
*
9543160 TATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATTTATTTAATA
66 TATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAATA
*
9543225 ATAAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAAGA
131 ATAAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAAGA
9543290 ATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATTTATTTAATAATAATTAT
196 ATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATTTATTTAATAATAATTAT
9543355 GTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAAGAATATTAATT
261 GTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAAGAATATTAATT
9543420 ATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
326 ATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
*
9543459 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAA
1 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
*
9543524 TATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTAAAATATATTTAATA
66 TATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAATA
9543589 AT-AATTATGTT
131 ATAAATTATGTT
9543600 TAAATATGAT
Statistics
Matches: 491, Mismatches: 13, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
363 77 0.16
364 414 0.84
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.48
Consensus pattern (364 bp):
TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAA
TATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAATA
ATAAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAAGA
ATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATTTATTTAATAATAATTAT
GTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAAGAATATTAATT
ATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATT
Found at i:9543812 original size:43 final size:45
Alignment explanation
Indices: 9543748--9543837 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 45
9543738 ACCTCTATTC
* * *
9543748 CATTCAACCAAACACAAGATTA-C-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
9543791 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
9543836 CA
1 CA
9543838 CCTCTAATCC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 19 0.49
44 1 0.03
45 19 0.49
ACGTcount: A:0.38, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Done.