Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 31 of 221
Found at i:8514588 original size:17 final size:18
Alignment explanation
Indices: 8514562--8514613 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
8514552 ATTAACTCTA
*
8514562 TTAAATAATAAATGATATTT
1 TTAAATAAT--ATAATATTT
*
8514582 TTAAATAATATAATTTTT
1 TTAAATAATATAATATTT
8514600 TTAAAATAATATAA
1 TT-AAATAATATAA
8514614 AGAATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.31
19 11 0.38
20 9 0.31
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TTAAATAATATAATATTT
Found at i:8517150 original size:7 final size:7
Alignment explanation
Indices: 8517138--8517163 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8517128 GAAATTAATA
8517138 TTAAAAT
1 TTAAAAT
8517145 TTAAAAT
1 TTAAAAT
8517152 TTAAAAT
1 TTAAAAT
8517159 TTAAA
1 TTAAA
8517164 TCAAACTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TTAAAAT
Found at i:8521318 original size:21 final size:22
Alignment explanation
Indices: 8521294--8521344 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
8521284 ATATGCTCAG
* *
8521294 TATGATCTGTGTTATGATAA-T
1 TATGATCTGTATTATAATAAGT
*
8521315 TATGACCTGTATTATAATAAGT
1 TATGATCTGTATTATAATAAGT
8521337 T-TGATCTG
1 TATGATCTG
8521345 AATCTATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (22 bp):
TATGATCTGTATTATAATAAGT
Found at i:8522685 original size:3 final size:3
Alignment explanation
Indices: 8522677--8522721 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
8522667 ATAAATTTCA
*
8522677 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8522722 AATTGCTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8523537 original size:110 final size:110
Alignment explanation
Indices: 8523344--8523638 Score: 547
Period size: 110 Copynumber: 2.7 Consensus size: 110
8523334 CCAAAAAGGA
8523344 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
8523409 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
8523454 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
8523519 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
* * *
8523564 AAAAATTTCAAAATAAGGCAATGTTTAGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
8523628 GGTTTCGATTT
66 GGTGTCGATTT
8523639 CTCGTTTATC
Statistics
Matches: 181, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
109 28 0.15
110 153 0.85
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (110 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
Found at i:8525086 original size:19 final size:20
Alignment explanation
Indices: 8525046--8525089 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
8525036 GTCTCTTTAG
* *
8525046 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
8525065 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
8525084 GCATTA
1 GCATTA
8525090 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:8527155 original size:7 final size:7
Alignment explanation
Indices: 8527153--8527222 Score: 54
Period size: 7 Copynumber: 9.9 Consensus size: 7
8527143 AAAAAATAAA
8527153 AAAAAAT
1 AAAAAAT
*
8527160 CAAAAAT
1 AAAAAAT
*
8527167 CAAAAAT
1 AAAAAAT
*
8527174 TAAAAAT
1 AAAAAAT
8527181 AAAAAAAT
1 -AAAAAAT
8527189 CAAAAAAAT
1 --AAAAAAT
*
8527198 CAAAAA-
1 AAAAAAT
*
8527204 AATAAA-
1 AAAAAAT
8527210 AAAAAAT
1 AAAAAAT
8527217 AAAAAA
1 AAAAAA
8527223 AATCAAAGTC
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
6 9 0.17
7 30 0.57
8 6 0.11
9 8 0.15
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:8527157 original size:9 final size:9
Alignment explanation
Indices: 8527143--8527225 Score: 71
Period size: 9 Copynumber: 8.8 Consensus size: 9
8527133 GTTCAAACTC
8527143 AAAAAATAAA
1 AAAAAAT-AA
8527153 AAAAAATCAA
1 AAAAAAT-AA
8527163 AAATCAAA-AA
1 AAA--AAATAA
*
8527173 TTAAAAAT-A
1 -AAAAAATAA
*
8527182 AAAAAATCA
1 AAAAAATAA
*
8527191 AAAAAATCA
1 AAAAAATAA
8527200 AAAAAATAAA
1 AAAAAAT-AA
8527210 AAAAAATAA
1 AAAAAATAA
8527219 AAAAAAT
1 AAAAAAT
8527226 CAAAGTCAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
8 6 0.10
9 30 0.48
10 22 0.35
11 2 0.03
12 3 0.05
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAAATAA
Found at i:8527173 original size:14 final size:15
Alignment explanation
Indices: 8527152--8527215 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 15
8527142 CAAAAAATAA
8527152 AAAAAAATCAAAAAT
1 AAAAAAATCAAAAAT
* *
8527167 -CAAAAATTAAAAAT
1 AAAAAAATCAAAAAT
8527181 AAAAAAATCAAAAAAAT
1 AAAAAAATC--AAAAAT
8527198 CAAAAAAAT-AAAAA-
1 -AAAAAAATCAAAAAT
8527212 AAAA
1 AAAA
8527216 TAAAAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 4 0.10
14 12 0.29
15 11 0.27
17 6 0.15
18 8 0.20
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAAAATCAAAAAT
Found at i:8529922 original size:25 final size:25
Alignment explanation
Indices: 8529876--8529925 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8529866 CAGTTAAAAA
* * *
8529876 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
8529901 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
8529926 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:8529960 original size:125 final size:125
Alignment explanation
Indices: 8529751--8530387 Score: 1204
Period size: 125 Copynumber: 5.1 Consensus size: 125
8529741 CAATTCAAAC
* *
8529751 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
8529816 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTATTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
8529876 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
8529941 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
8530001 GATTAAAGCCACATCGATGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
8530066 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTGTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
8530126 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
8530191 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTT-AAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
8530250 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCCTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
8530315 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
8530375 GATTAAAGCCACA
1 GATTAAAGCCACA
8530388 ATGACGAATC
Statistics
Matches: 501, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
124 122 0.24
125 379 0.76
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (125 bp):
GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
Found at i:8530172 original size:25 final size:25
Alignment explanation
Indices: 8530126--8530175 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8530116 CAGTTAAAAA
* * *
8530126 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
8530151 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
8530176 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:8530296 original size:25 final size:25
Alignment explanation
Indices: 8530250--8530297 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
8530240 GCAGTTAAAA
* * *
8530250 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
8530275 GATTAAAGCTACAACAGCGAATC
1 GATTAAAGCCACAACAGCGAATC
8530298 CTACGCCCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:8531772 original size:3 final size:3
Alignment explanation
Indices: 8531764--8531799 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
8531754 ATAAATTTCA
*
8531764 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8531800 AATTGCTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8532620 original size:110 final size:110
Alignment explanation
Indices: 8532427--8532830 Score: 688
Period size: 110 Copynumber: 3.7 Consensus size: 110
8532417 CAAAAAAGAA
8532427 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
8532492 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
8532537 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
8532602 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
* *
8532647 AAAAATTTCAAAACAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * *
8532712 GGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATA-CC-CCTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
* * *
8532755 CAAAAATTTCAAAATAAGGCAATGGTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCT
1 -AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
8532819 GGGTTTCGATTT
65 GGGTGTCGATTT
8532831 CTCGTTTATC
Statistics
Matches: 281, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
108 31 0.11
109 43 0.15
110 207 0.74
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (110 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
Found at i:8534752 original size:22 final size:20
Alignment explanation
Indices: 8534734--8534804 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 20
8534724 ACCAAAAACT
8534734 TATTTTAAAAATTAAAAAAA
1 TATTTTAAAAATTAAAAAAA
* **
8534754 GATTTTAAAAGTATTTTAAAAA
1 TATTTTAAAA--ATTAAAAAAA
8534776 TATTTT-AAAATT-AAAAAA
1 TATTTTAAAAATTAAAAAAA
8534794 T-TTTTAAAAAT
1 TATTTTAAAAAT
8534805 ATTTTAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.09
18 11 0.26
19 3 0.07
20 9 0.21
21 3 0.07
22 13 0.30
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
TATTTTAAAAATTAAAAAAA
Found at i:8534769 original size:11 final size:11
Alignment explanation
Indices: 8534750--8534785 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
8534740 AAAAATTAAA
8534750 AAAAG-ATTTT
1 AAAAGTATTTT
8534760 AAAAGTATTTT
1 AAAAGTATTTT
*
8534771 AAAAATATTTT
1 AAAAGTATTTT
8534782 AAAA
1 AAAA
8534786 TTAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:8534791 original size:17 final size:17
Alignment explanation
Indices: 8534769--8534820 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
8534759 TAAAAGTATT
8534769 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
8534786 TTAAAAA-A-TTT----
1 TTAAAAATATTTTAAAA
8534797 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
8534814 TTAAAAA
1 TTAAAAA
8534821 AATAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
11 7 0.24
12 1 0.03
13 3 0.10
15 3 0.10
16 1 0.03
17 14 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:8534798 original size:28 final size:28
Alignment explanation
Indices: 8534767--8534821 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
8534757 TTTAAAAGTA
8534767 TTTTAAAAATATTTTAAAATTAAAAAAT
1 TTTTAAAAATATTTTAAAATTAAAAAAT
8534795 TTTTAAAAATATTTTAAAATTAAAAAA
1 TTTTAAAAATATTTTAAAATTAAAAAA
8534822 ATAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTTAAAAATATTTTAAAATTAAAAAAT
Found at i:8534814 original size:10 final size:10
Alignment explanation
Indices: 8534750--8534814 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 10
8534740 AAAAATTAAA
*
8534750 AAAAGATTTT
1 AAAATATTTT
8534760 AAAAGTATTTT
1 AAAA-TATTTT
8534771 AAAAATATTTT
1 -AAAATATTTT
**
8534782 -AAA-ATTAA
1 AAAATATTTT
8534790 AAAAT-TTTT
1 AAAATATTTT
8534799 AAAAATATTTT
1 -AAAATATTTT
8534810 AAAAT
1 AAAAT
8534815 TAAAAAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
8 3 0.07
9 8 0.18
10 14 0.32
11 15 0.34
12 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (10 bp):
AAAATATTTT
Found at i:8546181 original size:20 final size:19
Alignment explanation
Indices: 8546143--8546190 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
8546133 TTATGTATAT
*
8546143 TTTAATTAATCATATTTTA
1 TTTAATTAATCATAATTTA
*
8546162 GTTTAATTAATCTTAATTTA
1 -TTTAATTAATCATAATTTA
*
8546182 CTTAATTAA
1 TTTAATTAA
8546191 GCTTGACTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTAATTAATCATAATTTA
Found at i:8548444 original size:22 final size:22
Alignment explanation
Indices: 8548402--8548444 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8548392 TTCTATTGTT
*
8548402 TTGCTACCATTTTGTTATTATA
1 TTGCTACCATTTTATTATTATA
* *
8548424 TTGCTACTATTTTATTGTTAT
1 TTGCTACCATTTTATTATTAT
8548445 TATTTGGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (22 bp):
TTGCTACCATTTTATTATTATA
Found at i:8559018 original size:113 final size:113
Alignment explanation
Indices: 8558809--8559128 Score: 360
Period size: 113 Copynumber: 2.8 Consensus size: 113
8558799 TATGGGAAAA
* * ** * *
8558809 CGCCGCAAAATATCCTAACCAAAGCGCACCGTTTTGGTCTTG-GTGTATGTTACAGTTAGTGGCG
1 CGCCGCAAAATATCCTAACCAAAACGCA-AGTTTTGGTCTTGAG-GTATACTAGAATTAGTGGCG
* * * *
8558873 CTTAAGGGAAAACGTCGCTAAAGCATAATATTAGCGGCA-TTTTGTGAGAAG
64 C-AAAGGGAAAACGCCGCTAAAGCATACTATTAGCGGCACGTTTG-GAGAAG
*
8558924 CGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
1 CGCCGCAAAATATCCTAACCAAAACGCA-AGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
* *
8558988 AAAGGGAACACGCCGCTAAGGCATACTATTAGCGGCACGTTTGGAGAAG
65 AAAGGGAAAACGCCGCTAAAGCATACTATTAGCGGCACGTTTGGAGAAG
* * * * *
8559037 CGCCGCAAAGTTTCGTAACCAAAACGCAACGTTTTTGTCTTGATGTATAC-AGTAATTAGTGGCG
1 CGCCGCAAAATATCCTAACCAAAACGCAA-GTTTTGGTCTTGAGGTATACTAG-AATTAGTGGCG
**
8559101 CATACTGGAAAACGCCGCTAAAGCATAC
64 CA-AAGGGAAAACGCCGCTAAAGCATAC
8559129 AAAATATGTT
Statistics
Matches: 176, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
112 1 0.01
113 66 0.38
114 60 0.34
115 49 0.28
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (113 bp):
CGCCGCAAAATATCCTAACCAAAACGCAAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCA
AAGGGAAAACGCCGCTAAAGCATACTATTAGCGGCACGTTTGGAGAAG
Found at i:8559168 original size:199 final size:200
Alignment explanation
Indices: 8558929--8559327 Score: 545
Period size: 200 Copynumber: 2.0 Consensus size: 200
8558919 AGAAGCGCCG
8558929 CAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC-AAAGG
1 CAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCTAAAGG
* * * *
8558993 GA-ACACGCCGCTAAGGCATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAGTTTCGTAACC
66 GAGA-ACGCCGCTAAAGCATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATAGTAACC
** * *
8559057 AAAACGCAACGTTTTTGTCTTGATGTATACAGTAATTAGTGGCG-CATACTG-GAAAACGCCGCT
130 AAAACGCAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGTC-CAC-GAGAAAACGCCGCT
8559120 AAAGCATA
193 AAAGCATA
* * * * * *
8559128 CAAAATATGTTCACCAAAACGCAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGG
1 CAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCTAAAGG
** * *
8559193 GAGAACGCCGCTAAAGCATACTATTAGCGGCGTGTTTTGAGAAGCGCCGCAAAATATATTAACCA
66 GAGAACGCCGCTAAAGCATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATAGTAACCA
* * * *
8559258 AAACGTAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTCCACGAGAAATCGCCGCTAAA
131 AAACGCAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGTCCACGAGAAAACGCCGCTAAA
8559323 GCATA
196 GCATA
8559328 GTATTAGCGG
Statistics
Matches: 174, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
199 56 0.32
200 116 0.67
201 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (200 bp):
CAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCTAAAGG
GAGAACGCCGCTAAAGCATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATAGTAACCA
AAACGCAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGTCCACGAGAAAACGCCGCTAAA
GCATA
Found at i:8559200 original size:85 final size:86
Alignment explanation
Indices: 8559054--8559213 Score: 229
Period size: 85 Copynumber: 1.9 Consensus size: 86
8559044 AAGTTTCGTA
*
8559054 ACCAAAACGCAACGTTTTTGTCTTGATGTATACAGTAATTAGTGGCGCATACTGGAAAACGCCGC
1 ACCAAAACGCAACGTTTTTGTCTTGAGGTATACAGTAATTAGTGGCGCATACTGGAAAACGCCGC
8559119 TAAAGCATACAAAATATGTTC
66 TAAAGCATACAAAATATGTTC
* * *
8559140 ACCAAAACGCAGA-G-TTTTGTCTTGAGGTATATTAG-AATTAGTGGCGCTTA-TGGGAGAACGC
1 ACCAAAACGCA-ACGTTTTTGTCTTGAGGTATA-CAGTAATTAGTGGCGCATACT-GGAAAACGC
8559201 CGCTAAAGCATAC
63 CGCTAAAGCATAC
8559214 TATTAGCGGC
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
84 1 0.01
85 51 0.76
86 14 0.21
87 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (86 bp):
ACCAAAACGCAACGTTTTTGTCTTGAGGTATACAGTAATTAGTGGCGCATACTGGAAAACGCCGC
TAAAGCATACAAAATATGTTC
Found at i:8559392 original size:115 final size:114
Alignment explanation
Indices: 8559128--8559392 Score: 338
Period size: 115 Copynumber: 2.3 Consensus size: 114
8559118 CTAAAGCATA
* * * * * *
8559128 CAAAATATGTTCACCAAAACGCAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGG
1 CAAAATATATTAACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCTCACGA
8559193 GAGAACGCCGCTAAAGCATACTATTAGCGGCGTGTTTTGAGAAGCGCCG
66 GAGAACGCCGCTAAAGCATACTATTAGCGGCGTGTTTTGAGAAGCGCCG
* * * * *
8559242 CAAAATATATTAACCAAAACGTAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCG-TCCAC
1 CAAAATATATTAACCAAAACGCAGAGTTT-TGTCTTGAGGTATACTAGAATTAGTGGCGCT-CAC
*
8559306 GAGA-AATCGCCGCTAAAGCATAGTATTAGCGGCGCT-TTTTGAGAAGCGCCG
64 GAGAGAA-CGCCGCTAAAGCATACTATTAGCGGCG-TGTTTTGAGAAGCGCCG
* *
8559357 GAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTT
1 CAAAATATATTAACCAAAACGCAGAGTTTT-GTCTT
8559393 AACCATGCAT
Statistics
Matches: 129, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
114 28 0.22
115 100 0.78
116 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (114 bp):
CAAAATATATTAACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCTCACGA
GAGAACGCCGCTAAAGCATACTATTAGCGGCGTGTTTTGAGAAGCGCCG
Found at i:8559454 original size:7 final size:7
Alignment explanation
Indices: 8559442--8559527 Score: 50
Period size: 7 Copynumber: 12.0 Consensus size: 7
8559432 TTATTGTATT
8559442 TGGTTTA
1 TGGTTTA
8559449 TGGTTTA
1 TGGTTTA
8559456 TGGTTTAA
1 TGGTTT-A
* *
8559464 AGG-TTG
1 TGGTTTA
*
8559470 GGGTTTA
1 TGGTTTA
*
8559477 AGGTTTA
1 TGGTTTA
8559484 GTGG-TTA
1 -TGGTTTA
*
8559491 TGTGTTAA
1 TG-GTTTA
*
8559499 GGGTTTA
1 TGGTTTA
*
8559506 TGATTTTA
1 TG-GTTTA
*
8559514 GGGTTTA
1 TGGTTTA
8559521 TGGTTTA
1 TGGTTTA
8559528 CAGTTTAGAT
Statistics
Matches: 59, Mismatches: 14, Indels: 12
0.69 0.16 0.14
Matches are distributed among these distances:
6 4 0.07
7 42 0.71
8 13 0.22
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.49
Consensus pattern (7 bp):
TGGTTTA
Found at i:8562185 original size:12 final size:12
Alignment explanation
Indices: 8562168--8562194 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8562158 TTTTACTTCA
8562168 TTTAACAGAATG
1 TTTAACAGAATG
8562180 TTTAACAGAATG
1 TTTAACAGAATG
8562192 TTT
1 TTT
8562195 TACTTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (12 bp):
TTTAACAGAATG
Found at i:8564676 original size:21 final size:20
Alignment explanation
Indices: 8564650--8564701 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
8564640 CGACAACTTA
*
8564650 AAGCAGAGGTGGCAGCGAGGG
1 AAGCAGAGGT-GCAGCGAGAG
8564671 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
8564692 AAGCAGAGGT
1 AAGCAGAGGT
8564702 TCAAAAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.46, T:0.06
Consensus pattern (20 bp):
AAGCAGAGGTGCAGCGAGAG
Found at i:8565181 original size:42 final size:42
Alignment explanation
Indices: 8565134--8565241 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
8565124 AAAGCGCCGT
*
8565134 TAAAGAACATGTTCTTTCGCGGTGCTTA-ATAAAAAACGCCAC
1 TAAAGAACATGTTCTTTCGCGGCGCTTAGA-AAAAAACGCCAC
* *
8565176 TAAAGATCATGTTC-TTCAGCGGCGCTTAGAAAAAAACGCCGC
1 TAAAGAACATGTTCTTTC-GCGGCGCTTAGAAAAAAACGCCAC
* *
8565218 TAAAGACCATGTTCTTTAGCGGCG
1 TAAAGAACATGTTCTTTCGCGGCG
8565242 TTTTTGTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
41 3 0.05
42 52 0.90
43 3 0.05
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (42 bp):
TAAAGAACATGTTCTTTCGCGGCGCTTAGAAAAAAACGCCAC
Found at i:8568021 original size:21 final size:21
Alignment explanation
Indices: 8567997--8568037 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8567987 AGCATATTAC
*
8567997 TTTCATATGGCATACACCATA
1 TTTCATATGGCACACACCATA
8568018 TTTCATATGGCACACACCAT
1 TTTCATATGGCACACACCAT
8568038 GAATGATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (21 bp):
TTTCATATGGCACACACCATA
Found at i:8574074 original size:15 final size:13
Alignment explanation
Indices: 8574041--8574065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8574031 CCCCCCAAAC
8574041 ACAGATACAAAAT
1 ACAGATACAAAAT
8574054 ACAGATACAAAA
1 ACAGATACAAAA
8574066 ATAACAGATT
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:0.64, C:0.16, G:0.08, T:0.12
Consensus pattern (13 bp):
ACAGATACAAAAT
Found at i:8585455 original size:26 final size:26
Alignment explanation
Indices: 8585405--8585456 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
8585395 TGTTAATTCA
* *
8585405 TTTTGTCACTTTAACCTTAATCTTTT
1 TTTTATCACTTTAACCTCAATCTTTT
8585431 TTTTATCACTTTAACCCTCAA-CTTTT
1 TTTTATCACTTTAA-CCTCAATCTTTT
8585457 AATAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.21, C:0.23, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTTATCACTTTAACCTCAATCTTTT
Found at i:8588539 original size:38 final size:38
Alignment explanation
Indices: 8588461--8588540 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
8588451 TTAAAAATTA
* *
8588461 TTTTAATAAAATAAAATATTTATTATATTTATTTGTGT
1 TTTTAATAAAATAAAACATTTATTATATTTATTGGTGT
*
8588499 TTTTAATACAATAAAACATTTATTATATTTA-TGGTAGT
1 TTTTAATAAAATAAAACATTTATTATATTTATTGGT-GT
8588537 TTTT
1 TTTT
8588541 TTTTAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 3 0.08
38 35 0.92
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54
Consensus pattern (38 bp):
TTTTAATAAAATAAAACATTTATTATATTTATTGGTGT
Found at i:8590666 original size:22 final size:23
Alignment explanation
Indices: 8590624--8590667 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8590614 TCATGATTGA
* *
8590624 AGATTCTCATTTGATTTCTTTGG
1 AGATTATCATGTGATTTCTTTGG
8590647 AGATTATCATGTG-TTTCTTTG
1 AGATTATCATGTGATTTCTTTG
8590668 TTTCTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (23 bp):
AGATTATCATGTGATTTCTTTGG
Found at i:8599185 original size:24 final size:22
Alignment explanation
Indices: 8599040--8599276 Score: 80
Period size: 24 Copynumber: 10.4 Consensus size: 22
8599030 TAATTTACAA
*
8599040 TAAATAATAT--ATAATAAATT
1 TAAATAATATACATGATAAATT
8599060 TGAAATAATAATACAT-ATAAAATT
1 T-AAATAAT-ATACATGAT-AAATT
* **
8599084 TAAA-AATTTTGATGAT-AATT
1 TAAATAATATACATGATAAATT
* *
8599104 CTAGAATAATCATACGTGATAAATCC
1 -TA-AATAAT-ATACATGATAAAT-T
* * * * *
8599130 AAAAGAACAGTATATAATAAATT
1 TAAATAATA-TACATGATAAATT
8599153 TAAA-AATATTA-ATGATAAATT
1 TAAATAATA-TACATGATAAATT
8599174 TGAAATAGATATACATGATAAATT
1 T-AAATA-ATATACATGATAAATT
* *
8599198 TAAAATAATGTTACA--ATGAATT
1 T-AAATAAT-ATACATGATAAATT
*
8599220 TAAAATAATAATA-TTGATAAATT
1 T-AAATAAT-ATACATGATAAATT
* * *
8599243 ACAAATAATAAAACGTGATAAATCT
1 -TAAATAAT-ATACATGATAAAT-T
*
8599268 AAAATAATA
1 TAAATAATA
8599277 ATATACAATA
Statistics
Matches: 164, Mismatches: 30, Indels: 43
0.69 0.13 0.18
Matches are distributed among these distances:
20 5 0.03
21 22 0.13
22 34 0.21
23 34 0.21
24 64 0.39
25 5 0.03
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.33
Consensus pattern (22 bp):
TAAATAATATACATGATAAATT
Found at i:8599238 original size:69 final size:67
Alignment explanation
Indices: 8599149--8599275 Score: 157
Period size: 69 Copynumber: 1.9 Consensus size: 67
8599139 GTATATAATA
* ** * *
8599149 AATTTAAAAATATTAATGATAAATTTGAAATAGAT-ATACATGATAAATTTAAAATAATGTTACA
1 AATTTAAAAATAATAATGATAAATTACAAATA-ATAAAACATGATAAATCTAAAATAATGTTACA
8599213 ATG
65 ATG
* *
8599216 AATTTAAAATAATAATATTGATAAATTACAAATAATAAAACGTGATAAATCTAAAATAAT
1 AATTT-AAA-AATAATAATGATAAATTACAAATAATAAAACATGATAAATCTAAAATAAT
8599276 AATATACAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
67 5 0.10
68 5 0.10
69 40 0.80
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (67 bp):
AATTTAAAAATAATAATGATAAATTACAAATAATAAAACATGATAAATCTAAAATAATGTTACAA
TG
Found at i:8599287 original size:24 final size:24
Alignment explanation
Indices: 8599177--8599288 Score: 74
Period size: 24 Copynumber: 4.7 Consensus size: 24
8599167 ATAAATTTGA
8599177 AATAGATATACATGATAAATTTAAAAT
1 AATA-ATATACA--ATAAATTTAAAAT
* *
8599204 AAT-GT-TACAATGAATTTAAAAT
1 AATAATATACAATAAATTTAAAAT
**
8599226 AATAATAT-TGATAAA-TTACAAAT
1 AATAATATACAATAAATTTA-AAAT
* *
8599249 AATAA-A-ACGTGATAAATCTAAAAT
1 AATAATATAC--AATAAATTTAAAAT
8599273 AATAATATACAATAAA
1 AATAATATACAATAAA
8599289 ATAACTTAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
22 19 0.28
23 14 0.21
24 25 0.37
25 4 0.06
26 2 0.03
27 3 0.04
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.31
Consensus pattern (24 bp):
AATAATATACAATAAATTTAAAAT
Found at i:8608727 original size:19 final size:21
Alignment explanation
Indices: 8608700--8608754 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 21
8608690 ATTTAACCCT
*
8608700 AAACTTTTATAAAATATT-A-
1 AAACATTTATAAAATATTAAC
8608719 AAACATTTA-AAAAT-TTAAC
1 AAACATTTATAAAATATTAAC
*
8608738 AAATATTTAT-AAATATT
1 AAACATTTATAAAATATT
8608755 TATATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 2 0.07
18 6 0.20
19 20 0.67
20 2 0.07
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
AAACATTTATAAAATATTAAC
Found at i:8611231 original size:15 final size:16
Alignment explanation
Indices: 8611211--8611246 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
8611201 AATTGGTTCT
8611211 TTTTTTGAG-ATTTTA
1 TTTTTTGAGTATTTTA
*
8611226 TTTTTTGGGTATTTTA
1 TTTTTTGAGTATTTTA
8611242 TTTTT
1 TTTTT
8611247 CCTTTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (16 bp):
TTTTTTGAGTATTTTA
Found at i:8611231 original size:16 final size:17
Alignment explanation
Indices: 8611210--8611246 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
8611200 TAATTGGTTC
8611210 TTTTTTTGAG-ATTTTA
1 TTTTTTTGAGTATTTTA
*
8611226 -TTTTTTGGGTATTTTA
1 TTTTTTTGAGTATTTTA
8611242 TTTTT
1 TTTTT
8611247 CCTTTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 6 0.33
17 4 0.22
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.73
Consensus pattern (17 bp):
TTTTTTTGAGTATTTTA
Found at i:8621438 original size:35 final size:35
Alignment explanation
Indices: 8621392--8621463 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
8621382 ACAAACTTGG
**
8621392 GATAAGCTCAAGCAGGTTTTCTAGGGATCACAGAA
1 GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
8621427 GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
1 GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
8621462 GA
1 GA
8621464 AAGATGATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (35 bp):
GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
Found at i:8622841 original size:17 final size:17
Alignment explanation
Indices: 8622798--8622861 Score: 76
Period size: 17 Copynumber: 3.7 Consensus size: 17
8622788 AACTACGAAC
*
8622798 TGTGAGCTCACCAAAAT
1 TGTGAGCTCACCAACAT
*
8622815 GTGCGAGCTCACCAACAT
1 -TGTGAGCTCACCAACAT
8622833 TGTGAGCTCACCAAGCA-
1 TGTGAGCTCACCAA-CAT
*
8622850 TGAGAGCTCACC
1 TGTGAGCTCACC
8622862 TGCAAGCTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
17 24 0.59
18 17 0.41
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (17 bp):
TGTGAGCTCACCAACAT
Found at i:8627893 original size:46 final size:44
Alignment explanation
Indices: 8627789--8627896 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
8627779 TGTCTTTGAC
** * * *
8627789 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
8627833 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
8627879 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
8627897 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:8628884 original size:19 final size:20
Alignment explanation
Indices: 8628862--8628902 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
8628852 TTCTATTCTG
*
8628862 TTTCTTTTCTTTCTTTT-TT
1 TTTCTATTCTTTCTTTTGTT
8628881 TTTCTATTCTTTCTTTTGTT
1 TTTCTATTCTTTCTTTTGTT
8628901 TT
1 TT
8628903 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTCTATTCTTTCTTTTGTT
Found at i:8628890 original size:15 final size:15
Alignment explanation
Indices: 8628852--8628897 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
8628842 GTTTCGTCTC
*
8628852 TTCTATTCTGTTTCTT
1 TTCTATTCT-TTTTTT
8628868 TTCT-TTCTTTTTTT
1 TTCTATTCTTTTTTT
8628882 TTCTATTCTTTCTTTT
1 TTCTATTCTTT-TTTT
8628898 GTTTTATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 9 0.33
15 10 0.37
16 8 0.30
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (15 bp):
TTCTATTCTTTTTTT
Found at i:8628919 original size:5 final size:5
Alignment explanation
Indices: 8628906--8628978 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
8628896 TTGTTTTATG
8628906 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
8628954 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
8628979 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:8628931 original size:19 final size:19
Alignment explanation
Indices: 8628907--8628949 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
8628897 TGTTTTATGT
8628907 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
8628926 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
8628945 ATATA
1 ATATA
8628950 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:8628959 original size:24 final size:24
Alignment explanation
Indices: 8628913--8628977 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
8628903 ATGTATATAT
* * *
8628913 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
8628937 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
8628961 ATTACTATAATATAATA
1 A-TAATATAATATAATA
8628978 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.56
25 12 0.35
26 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:8636377 original size:12 final size:12
Alignment explanation
Indices: 8636360--8636385 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8636350 AAAGAACACA
8636360 TAATTTCAGATT
1 TAATTTCAGATT
8636372 TAATTTCAGATT
1 TAATTTCAGATT
8636384 TA
1 TA
8636386 TTACATAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (12 bp):
TAATTTCAGATT
Found at i:8636953 original size:33 final size:32
Alignment explanation
Indices: 8636893--8636955 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
8636883 AGTTTTGGGT
* *
8636893 CCACACGGCCCAAATAGCCCAGCCCGTGTGGC
1 CCACACAGCCCAAATAGCCCAGACCGTGTGGC
*
8636925 CCACACAGCCCAAAATAGCCTAGACCGTGTG
1 CCACACAGCCC-AAATAGCCCAGACCGTGTG
8636956 TCACACACGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.27, C:0.40, G:0.22, T:0.11
Consensus pattern (32 bp):
CCACACAGCCCAAATAGCCCAGACCGTGTGGC
Found at i:8636963 original size:33 final size:32
Alignment explanation
Indices: 8636894--8636963 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 32
8636884 GTTTTGGGTC
* * *
8636894 CACACGGCCCAAATAGCCCAGCCCGTGTGGCC
1 CACACAGCCCAAATAGCCCAGACCGTGTGGCA
* *
8636926 CACACAGCCCAAAATAGCCTAGACCGTGTGTCA
1 CACACAGCCC-AAATAGCCCAGACCGTGTGGCA
8636959 CACAC
1 CACAC
8636964 GGTCCAGCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 9 0.28
33 23 0.72
ACGTcount: A:0.29, C:0.40, G:0.20, T:0.11
Consensus pattern (32 bp):
CACACAGCCCAAATAGCCCAGACCGTGTGGCA
Found at i:8650183 original size:36 final size:36
Alignment explanation
Indices: 8650131--8650214 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
8650121 ATATATAATT
* * * * *
8650131 ATCACTTTTAAATATTACAACTATATCATTATGCCGA
1 ATCACTTAT-AATATTACAAATACATCAATAGGCCGA
*
8650168 ATCACTTATAATATTACAAATACATCAATAGGCTGA
1 ATCACTTATAATATTACAAATACATCAATAGGCCGA
*
8650204 ATCATTTATAA
1 ATCACTTATAA
8650215 GTTCAATTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 32 0.80
37 8 0.20
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (36 bp):
ATCACTTATAATATTACAAATACATCAATAGGCCGA
Found at i:8650526 original size:42 final size:42
Alignment explanation
Indices: 8650422--8650526 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
8650412 CGTACAATGA
* * * * *
8650422 CAACGTCCCGGACGTGGTCTTACATGTAATCATATATTGATGC
1 CAACGTCCCAGACGTGGTC-TACACGTAAACATAAATCGATGC
8650465 C-ACTGTCCCAGACAG-GGTCTACACGTAAACA-AAAGTCGATGC
1 CAAC-GTCCCAGAC-GTGGTCTACACGTAAACATAAA-TCGATGC
8650507 CAACGTCCCAGACGTGGTCT
1 CAACGTCCCAGACGTGGTCT
8650527 TACATGAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
41 3 0.06
42 33 0.63
43 15 0.29
44 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (42 bp):
CAACGTCCCAGACGTGGTCTACACGTAAACATAAATCGATGC
Found at i:8658704 original size:19 final size:20
Alignment explanation
Indices: 8658677--8658717 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
8658667 ATGCAAGCAG
8658677 AAATAAAAATAGA-AATAAA
1 AAATAAAAATAGACAATAAA
* *
8658696 AAATGAAAATTGACAATAAA
1 AAATAAAAATAGACAATAAA
8658716 AA
1 AA
8658718 CAAGCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAGACAATAAA
Found at i:8659563 original size:138 final size:138
Alignment explanation
Indices: 8659313--8659565 Score: 391
Period size: 138 Copynumber: 1.8 Consensus size: 138
8659303 AAAAAGAATT
* * *
8659313 ATTTCCATGTCTTTTATATTTTGACTTAAATCAATTAATATAATTGTTTATATTAATAAATTCGG
1 ATTTCCATGTCTTTTATATTTTGACTAAAATCAATTAATATAACTATTTATATTAATAAATTCGG
* * * * *
8659378 TGATATATATACAATTAATATTTTGTATGAATCAAATTTATATATTAATTATATTCTTTCTAAAA
66 TAAAATATATACAATTAATATTTTGCATGAATCAAATTCATAAATTAATTATATTCTTTCTAAAA
8659443 TAATATTA
131 TAATATTA
* *
8659451 ATTTCCATGTCTTTTATATTTTGA-TCAAAATTAATTAATATAACTATTTTTATTAATAAATTCG
1 ATTTCCATGTCTTTTATATTTTGACT-AAAATCAATTAATATAACTATTTATATTAATAAATTCG
*
8659515 GTAAAATATATAGAATTAATATTTTGCATGAATCAAATTCATAAATTAATT
65 GTAAAATATATACAATTAATATTTTGCATGAATCAAATTCATAAATTAATT
8659566 TTATCTATGT
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
137 1 0.01
138 102 0.99
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (138 bp):
ATTTCCATGTCTTTTATATTTTGACTAAAATCAATTAATATAACTATTTATATTAATAAATTCGG
TAAAATATATACAATTAATATTTTGCATGAATCAAATTCATAAATTAATTATATTCTTTCTAAAA
TAATATTA
Found at i:8675850 original size:15 final size:15
Alignment explanation
Indices: 8675830--8675873 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
8675820 CCATAATAGT
8675830 CACATATCATATAAA
1 CACATATCATATAAA
*
8675845 CACATATCATAATACA
1 CACATATCAT-ATAAA
8675861 CACATATTCATAT
1 CACATA-TCATAT
8675874 TTTAAGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 10 0.38
16 12 0.46
17 4 0.15
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.30
Consensus pattern (15 bp):
CACATATCATATAAA
Found at i:8675865 original size:16 final size:16
Alignment explanation
Indices: 8675830--8675872 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
8675820 CCATAATAGT
8675830 CACATATCAT-ATAAA
1 CACATATCATAATAAA
*
8675845 CACATATCATAATACA
1 CACATATCATAATAAA
8675861 CACATATTCATA
1 CACATA-TCATA
8675873 TTTTAAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.40
16 10 0.40
17 5 0.20
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (16 bp):
CACATATCATAATAAA
Found at i:8677558 original size:15 final size:15
Alignment explanation
Indices: 8677538--8677566 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8677528 GAATCGAGTT
8677538 GAGTCAAAAAATTTC
1 GAGTCAAAAAATTTC
8677553 GAGTCAAAAAATTT
1 GAGTCAAAAAATTT
8677567 AAATTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (15 bp):
GAGTCAAAAAATTTC
Found at i:8685650 original size:16 final size:17
Alignment explanation
Indices: 8685618--8685660 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
8685608 CAGGTATGGT
*
8685618 GAGCTCACTATTTTTGTA
1 GAGCTCAC-AGTTTTGTA
8685636 -AGCTCACAGTTTTGTA
1 GAGCTCACAGTTTTGTA
8685652 GAGCTCACA
1 GAGCTCACA
8685661 CATTTGGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (17 bp):
GAGCTCACAGTTTTGTA
Found at i:8690768 original size:29 final size:29
Alignment explanation
Indices: 8690726--8690783 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
8690716 AACAGATAAT
*
8690726 AATATGTGGCATCCTAA-TCAACTTTCCAA
1 AATATGTGACATCC-AAGTCAACTTTCCAA
*
8690755 AATATGTGACATCCAAGTTAACTTTCCAA
1 AATATGTGACATCCAAGTCAACTTTCCAA
8690784 TTGGGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (29 bp):
AATATGTGACATCCAAGTCAACTTTCCAA
Found at i:8691243 original size:16 final size:16
Alignment explanation
Indices: 8691222--8691269 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
8691212 TAATTGGGTT
8691222 AGTTTGAGTAATTTTA
1 AGTTTGAGTAATTTTA
* *
8691238 AGTTTGAATAAATTTTG
1 AGTTTGAGT-AATTTTA
*
8691255 AGTTCGTAGTAATTT
1 AGTTTG-AGTAATTT
8691270 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 8 0.31
17 16 0.62
18 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (16 bp):
AGTTTGAGTAATTTTA
Found at i:8694002 original size:2 final size:2
Alignment explanation
Indices: 8693995--8694019 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8693985 TACAGTTAGT
8693995 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8694020 TGTTTCGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8710355 original size:19 final size:19
Alignment explanation
Indices: 8710331--8710371 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
8710321 TATTTTAAAG
8710331 TTATTTAAGTAGATAAATC
1 TTATTTAAGTAGATAAATC
*
8710350 TTATTTAGGTAGATAAATC
1 TTATTTAAGTAGATAAATC
8710369 TTA
1 TTA
8710372 GAATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAAGTAGATAAATC
Found at i:8710454 original size:41 final size:41
Alignment explanation
Indices: 8710409--8710490 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
8710399 ATATTTTATT
* **
8710409 TTATCTTTTTGTAATTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAATTTATTAGAATAAGAAAATTATTTTCC
*
8710450 TTATCTTTTAGTAGTTTATTAGAATAAGAAAATTATTTTCC
1 TTATCTTTTAGTAATTTATTAGAATAAGAAAATTATTTTCC
8710491 CAAATAGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (41 bp):
TTATCTTTTAGTAATTTATTAGAATAAGAAAATTATTTTCC
Found at i:8716299 original size:178 final size:174
Alignment explanation
Indices: 8715997--8716357 Score: 510
Period size: 178 Copynumber: 2.0 Consensus size: 174
8715987 GTATTCAGAT
8715997 ATTAGACGAAGCTCAATCAAAAGCAATATGAATAAAAAGACCACTTTATAAGCCAAAACATCTGA
1 ATTAGACGAAGCTCAATCAAAAGCAATATGAATAAAAAGACCACTTTATAAGCCAAAACA-CTGA
* *
8716062 CATTTAATACAAAGGAAATGAAAGAAGGCATATCAGCAGCATTAAAAAGGAAAGAGATAAGAAGC
65 CATTTAATACAAAAGAAATGAAAGAAGGCATACCAGCAGCATTAAAAAGGAAAGAGATAAGAAGC
* *
8716127 GAACACAACTG-CCTAATATCAAGGGAAACAAATAAAAAGGAGAA
130 AAACACAACTGACCTAATACCAAGGGAAACAAATAAAAAGGAGAA
* * *
8716171 ATTAGATGAAGCTCAGTCAAAAGCAATATGAATAAAATAATGAAGACCATTTTATAAGCCAAAAC
1 ATTAGACGAAGCTCAATCAAAAGCAATATGAAT---A-AA--AAGACCACTTTATAAGCCAAAAC
*
8716236 A-TGACATTTAATACAAAAGAAATGAAAGAAGGCATACCAGTAGCATTAAAAAGGAAAGAGATAA
60 ACTGACATTTAATACAAAAGAAATGAAAGAAGGCATACCAGCAGCATTAAAAAGGAAAGAGATAA
*
8716300 GAGGCAAACACAACTGTCAACTACCTAATACCAAGGGAAACAAATAAAAAGGAGAA
125 GAAGCAAACACAACTG------ACCTAATACCAAGGGAAACAAATAAAAAGGAGAA
8716356 AT
1 AT
8716358 CTAGTACACA
Statistics
Matches: 165, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
174 31 0.19
177 1 0.01
178 76 0.46
180 23 0.14
185 34 0.21
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (174 bp):
ATTAGACGAAGCTCAATCAAAAGCAATATGAATAAAAAGACCACTTTATAAGCCAAAACACTGAC
ATTTAATACAAAAGAAATGAAAGAAGGCATACCAGCAGCATTAAAAAGGAAAGAGATAAGAAGCA
AACACAACTGACCTAATACCAAGGGAAACAAATAAAAAGGAGAA
Found at i:8722449 original size:17 final size:17
Alignment explanation
Indices: 8722427--8722459 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8722417 TTTGAAAAAG
8722427 GATAAATTCTTAATTTT
1 GATAAATTCTTAATTTT
*
8722444 GATAAATTTTTAATTT
1 GATAAATTCTTAATTT
8722460 AGTCCTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (17 bp):
GATAAATTCTTAATTTT
Found at i:8728286 original size:15 final size:17
Alignment explanation
Indices: 8728258--8728293 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
8728248 TCTTTCTGTT
8728258 TTTTCTACTCTTT-CAA
1 TTTTCTACTCTTTCCAA
8728274 TTTTCTA-TCTTTCCAA
1 TTTTCTACTCTTTCCAA
8728290 TTTT
1 TTTT
8728294 GTGTCCATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTCTACTCTTTCCAA
Found at i:8730273 original size:14 final size:13
Alignment explanation
Indices: 8730239--8730279 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
8730229 ATATGTATTG
8730239 AAATTATAATAAA
1 AAATTATAATAAA
*
8730252 AAATTATAAT-TA
1 AAATTATAATAAA
*
8730264 AAATTGT-ATAAA
1 AAATTATAATAAA
8730276 AAAT
1 AAAT
8730280 ACTTTATACA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
11 2 0.08
12 12 0.50
13 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
AAATTATAATAAA
Found at i:8730821 original size:46 final size:46
Alignment explanation
Indices: 8730754--8730851 Score: 189
Period size: 46 Copynumber: 2.2 Consensus size: 46
8730744 TTGTACCTAT
8730754 TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
1 TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
8730800 TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
1 TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
8730846 -TGTATG
1 TTGTATG
8730852 AACCTTTCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 6 0.12
46 46 0.88
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (46 bp):
TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
Found at i:8731477 original size:98 final size:97
Alignment explanation
Indices: 8731390--8731913 Score: 743
Period size: 97 Copynumber: 5.4 Consensus size: 97
8731380 ATTTGAGGGA
* * *
8731390 TTTAAGGAAAAAAAATCAAATAAAATAAGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTT
1 TTTAAGG--AAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTT
*
8731455 AAAAAAATTAGATTAGGGTTTAGTGTTTAGAGTT
64 AAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTT
* * * *
8731489 TTTAAGAAAAAAAATCAAATAAATTAGGGTTTAGGATTATTTGAGTAAATTAATTATAAATTTTT
1 TTTAAG-GAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAA--TTT
* * *
8731554 TTAAAAAATTAGATTAAGGTTTAGTGTTTGGGGTT
63 TAAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTT
* * *
8731589 TTTAAGAAAAAAAAATTAAATAAATTAAGGTTTGGGGTTACTTGAGTAAATTAATTATAAA--TT
1 TTTAAG--GAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTT
*
8731652 AAAAAAA-TAGATTAGGGTTTGGTGTTTAGGGTT
64 AAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTT
* *
8731685 TTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTGTAAATTTTTA
1 TTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTTAA
*
8731750 AAAAATTAGATGAGGGTTTAGTGTTTAGGGTT
66 AAAAATTAGATTAGGGTTTAGTGTTTAGGGTT
* * *
8731782 TTTAAGGAAAAAATCAAATACATTTGGGTTTGGGTTTACTTGAGTAAATTAATTATAAATTTTAA
1 TTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTTAA
* *
8731847 AAAAATTAGATTAGAGTTTAGTGTTTAAGG-T
66 AAAAATTAGATTAGGGTTTAGTGTTTAGGGTT
8731878 TTTAAGG-AAAAATCAAATAAATTAGGGTTTGGGGTT
1 TTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTT
8731914 TAGAGTTACT
Statistics
Matches: 382, Mismatches: 36, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
94 49 0.13
95 26 0.07
96 45 0.12
97 119 0.31
98 48 0.13
99 6 0.02
100 40 0.10
101 49 0.13
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.38
Consensus pattern (97 bp):
TTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTTAA
AAAAATTAGATTAGGGTTTAGTGTTTAGGGTT
Found at i:8732175 original size:126 final size:125
Alignment explanation
Indices: 8731945--8732363 Score: 671
Period size: 126 Copynumber: 3.3 Consensus size: 125
8731935 TTTGTTAATT
*
8731945 TAAAA-AAGCTCCCACGTGGACGCTCTTTTGCTATAGTAG-TTCTTGAAAAAATAAATTTGAGAA
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTC-TGAAAAAAT-AATTTGAGAA
* * *
8732008 GACGTTTCTGAGCAAATAGTGCCAAAAACGCTTTAAGCAGGATGTATTGTCAGCAAAAGTAC
64 GACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTAC
* * *
8732070 TAAAAGAAGCTCCCACGCGAACGCTCTTTTGCTACAATAGTTTCTGAAAAAATAATTCTGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATT-TGAGAAG
*
8732135 ACGTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCAATGTCAGCAAAAGTAC
65 ACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTAC
* *
8732196 TGAAAGAAGCTCCCACGTGGACGCTCTTTTGATACAGTAGTTTCTGAAAAAATAATTTTGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAA-TTTGAGAAG
* *
8732261 ATGTTTCTGAGTAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTAC
65 ACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTAC
*
8732322 TGAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
8732364 CCTATTTGGC
Statistics
Matches: 273, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
125 9 0.03
126 259 0.95
127 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (125 bp):
TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTGAGAAGA
CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTAC
Found at i:8735642 original size:21 final size:21
Alignment explanation
Indices: 8735613--8735658 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
8735603 CTTTGTCCAG
*
8735613 CTTCTGGCGAGGG-TTGTGGTT
1 CTTCTGGCG-GGGATTCTGGTT
8735634 ACTTC-GGCGGGGATTCTGGTT
1 -CTTCTGGCGGGGATTCTGGTT
8735655 CTTC
1 CTTC
8735659 CGATAGGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 7 0.32
21 11 0.50
22 4 0.18
ACGTcount: A:0.07, C:0.20, G:0.37, T:0.37
Consensus pattern (21 bp):
CTTCTGGCGGGGATTCTGGTT
Found at i:8739083 original size:102 final size:103
Alignment explanation
Indices: 8738948--8739329 Score: 416
Period size: 104 Copynumber: 3.7 Consensus size: 103
8738938 CACTAAGAAA
* * ** * * * *
8738948 TTTTTTATTGATTTTAGTGTTTCCACATGAAGAGGCGACACCCAAAAAGT-AAAAAAAAATTATC
1 TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAGTCAAAAAAAAATTATT
* * * *
8739012 AGTGTCACCTCATTTAGAGTTAGCACCAGCGAAATAAT
66 AGTGCCACCACATTTAGAGTTGGCACCAGAGAAATAAT
* ** *
8739050 TTTTTTACTGATTTTGGTGCCTCTACATAAAGAGGCGGCACCGAAAATTTCAAAAAAAAAATTGT
1 TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAGTC-AAAAAAAAATTAT
* * * * *
8739115 TGGTGCCGCCACATTTAGAGTTGGCATCAGGGAAA-ATTT
65 TAGTGCCACCACATTTAGAGTTGGCACCAGAGAAATA-AT
** * *
8739154 TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCATTG-AAAATTCCAAAAAAAATTATT
1 TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAGTCAAAAAAAAATTATT
* *
8739218 AGTGCCACCACATTTGGAGTTGGCACTAGAGAAATAAAT
66 AGTGCCACCACATTTAGAGTTGGCACCAGAGAAAT-AAT
* * *
8739257 TATTTTTACAGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAGT--AACAAAAA-TAC
1 T-TTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAGTCAAAAAAAAATTAT
8739319 TAGTGCCACCA
65 TAGTGCCACCA
8739330 TTAGGGGTGA
Statistics
Matches: 234, Mismatches: 39, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
102 93 0.40
103 16 0.07
104 120 0.51
105 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (103 bp):
TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAGTCAAAAAAAAATTATT
AGTGCCACCACATTTAGAGTTGGCACCAGAGAAATAAT
Found at i:8740989 original size:34 final size:34
Alignment explanation
Indices: 8740935--8741021 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
8740925 AGCATTTAAT
* * * * *
8740935 TATGCTTTTAACAGAACAATA-CGATATCAATTAG
1 TATGCTTATAACAGATCAATATAGATA-CAAATAA
* *
8740969 TATGCTTATAACAGCTCAATATAGTTACAAATAA
1 TATGCTTATAACAGATCAATATAGATACAAATAA
8741003 TATGCTTATAACAGATCAA
1 TATGCTTATAACAGATCAA
8741022 CTCAATACCA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 41 0.93
35 3 0.07
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (34 bp):
TATGCTTATAACAGATCAATATAGATACAAATAA
Found at i:8741947 original size:11 final size:11
Alignment explanation
Indices: 8741927--8741960 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
8741917 AATATGGTGT
*
8741927 AAAGAGAATAG
1 AAAGAGAATAA
*
8741938 AAAGAAAATAA
1 AAAGAGAATAA
8741949 AAAGAGAATAA
1 AAAGAGAATAA
8741960 A
1 A
8741961 TAAAAGGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (11 bp):
AAAGAGAATAA
Found at i:8744416 original size:45 final size:46
Alignment explanation
Indices: 8744318--8744430 Score: 187
Period size: 46 Copynumber: 2.5 Consensus size: 46
8744308 TTTGAGTACT
*
8744318 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
8744364 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
*
8744409 TCTGATC-AGGGAC-AAGTGATAA
1 TCTGATCAAGTGACAAAGTGATAA
8744431 ATGATCATAT
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
43 9 0.14
44 5 0.08
45 19 0.29
46 32 0.49
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
Found at i:8746932 original size:23 final size:24
Alignment explanation
Indices: 8746896--8746941 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
8746886 ATTTATTTTC
*
8746896 TTTTTTGTTTCTCTATTTGTTTGA
1 TTTTTTGTTACTCTATTTGTTTGA
*
8746920 TTTTTT-TTACTCTTTTTGTTTG
1 TTTTTTGTTACTCTATTTGTTTG
8746942 GAGTATATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.07, C:0.09, G:0.11, T:0.74
Consensus pattern (24 bp):
TTTTTTGTTACTCTATTTGTTTGA
Found at i:8749347 original size:32 final size:33
Alignment explanation
Indices: 8749306--8749393 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
8749296 AATTTTTTTG
* *
8749306 GAAAATATTTT-CAGGAAATC-TGCCAAACAGCA
1 GAAAATATTTTACAGCAAATCAT-CCAAACACCA
*
8749338 GAAAATATTTTACA-CAGATTCATCCAAACACCA
1 GAAAATATTTTACAGCA-AATCATCCAAACACCA
* *
8749371 GAAAATATTTTCCAGTAAATCAT
1 GAAAATATTTTACAGCAAATCAT
8749394 TTTACAGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
32 12 0.26
33 32 0.70
34 2 0.04
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.26
Consensus pattern (33 bp):
GAAAATATTTTACAGCAAATCATCCAAACACCA
Found at i:8749426 original size:35 final size:35
Alignment explanation
Indices: 8749372--8749439 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
8749362 CAAACACCAG
*
8749372 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
8749407 AAAACATTTTCCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTT-CCAGTAAATCATTTTACAGAAAA
8749440 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 26 0.87
36 4 0.13
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:8749675 original size:16 final size:16
Alignment explanation
Indices: 8749654--8749701 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
8749644 CAATTCAAAT
8749654 TTAAAAATAATCTAAA
1 TTAAAAATAATCTAAA
8749670 TTAAAAATAATCTAAA
1 TTAAAAATAATCTAAA
* *
8749686 TTTAAAATAACCTAAA
1 TTAAAAATAATCTAAA
8749702 GCTAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAAAATAATCTAAA
Found at i:8749707 original size:16 final size:16
Alignment explanation
Indices: 8749673--8749711 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8749663 ATCTAAATTA
* **
8749673 AAAATAATCTAAATTT
1 AAAATAACCTAAAGCT
8749689 AAAATAACCTAAAGCT
1 AAAATAACCTAAAGCT
8749705 AAAATAA
1 AAAATAA
8749712 TCCATCATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAATAACCTAAAGCT
Found at i:8749709 original size:32 final size:33
Alignment explanation
Indices: 8749650--8749713 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
8749640 GCAACAATTC
* *
8749650 AAATTTAAAAATAATCTAAATTAAAAATAATCT
1 AAATTTAAAAATAACCTAAACTAAAAATAATCT
8749683 AAATTT-AAAATAACCTAAAGCT-AAAATAATC
1 AAATTTAAAAATAACCTAAA-CTAAAAATAATC
8749714 CATCATCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (33 bp):
AAATTTAAAAATAACCTAAACTAAAAATAATCT
Found at i:8751435 original size:29 final size:29
Alignment explanation
Indices: 8751401--8751456 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
8751391 TTGATTTTTT
* *
8751401 TTTAATAGTATAGGGATTAAATTGATCCA
1 TTTAATAGTAAAGGGACTAAATTGATCCA
*
8751430 TTTAATAGTAAAGGGACTAATTTGATC
1 TTTAATAGTAAAGGGACTAAATTGATC
8751457 TAGTCCTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (29 bp):
TTTAATAGTAAAGGGACTAAATTGATCCA
Found at i:8754536 original size:24 final size:22
Alignment explanation
Indices: 8754473--8754538 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 22
8754463 TCTACTTTTG
* *
8754473 TTTAAAAAAAACCATTTTTTCTT
1 TTTAAAAAAAACCCTTTTTGC-T
*
8754496 TCTTAAAAATAACCCCTTTTTAGCT
1 T-TTAAAAA-AAACCCTTTTT-GCT
8754521 TTTAAAAAAGAACCCTTT
1 TTTAAAAAA-AACCCTTT
8754539 GGTAATATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
23 2 0.06
24 21 0.60
25 11 0.31
26 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (22 bp):
TTTAAAAAAAACCCTTTTTGCT
Found at i:8778179 original size:7 final size:7
Alignment explanation
Indices: 8778169--8778209 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
8778159 AACTACAAAC
8778169 TAATATA
1 TAATATA
8778176 TAATATA
1 TAATATA
*
8778183 TAATAAA
1 TAATATA
*
8778190 TAATAAA
1 TAATATA
8778197 TAATA-A
1 TAATATA
8778203 -AATATA
1 TAATATA
8778209 T
1 T
8778210 TATTAAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 4 0.13
6 2 0.06
7 25 0.81
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
TAATATA
Found at i:8782759 original size:17 final size:19
Alignment explanation
Indices: 8782729--8782769 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
8782719 AAAATCAGTC
*
8782729 AAAAAAGTCAAAA-T-AAT
1 AAAAAAGACAAAATTCAAT
*
8782746 AAAAAAGACGAAATTCAAT
1 AAAAAAGACAAAATTCAAT
8782765 AAAAA
1 AAAAA
8782770 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 11 0.55
18 1 0.05
19 8 0.40
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.15
Consensus pattern (19 bp):
AAAAAAGACAAAATTCAAT
Found at i:8786605 original size:21 final size:21
Alignment explanation
Indices: 8786579--8786619 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8786569 GACGAGTAAC
8786579 AGATCAGACAAATCATATCAT
1 AGATCAGACAAATCATATCAT
* * *
8786600 AGATCATACATATCGTATCA
1 AGATCAGACAAATCATATCA
8786620 CACCATATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (21 bp):
AGATCAGACAAATCATATCAT
Found at i:8788085 original size:25 final size:25
Alignment explanation
Indices: 8788050--8788117 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
8788040 TACCAAATCT
*
8788050 AGCTCTTATGAGCTTACCGATACTC
1 AGCTCATATGAGCTTACCGATACTC
* * * *
8788075 AGTTCATATGAGCTTATCGTTATTC
1 AGCTCATATGAGCTTACCGATACTC
* *
8788100 AGCTCAGAGGAGCTTACC
1 AGCTCATATGAGCTTACC
8788118 ATTTATCGCT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (25 bp):
AGCTCATATGAGCTTACCGATACTC
Found at i:8793884 original size:40 final size:40
Alignment explanation
Indices: 8793825--8793954 Score: 153
Period size: 40 Copynumber: 3.4 Consensus size: 40
8793815 GAGATTTGTG
8793825 CTAGTCGGATAAACAGACGAGATCGAATGTGTGCCCAGCA
1 CTAGTCGGATAAACAGACGAGATCGAATGTGTGCCCAGCA
* * *
8793865 CTAGTTGGATAAACTGACGAGATCGAATGTGTGCCC-GATA
1 CTAGTCGGATAAACAGACGAGATCGAATGTGTGCCCAG-CA
* * * *
8793905 GTAGTCGAATAAACCGAC-A-AT-G-ATTTGTGCCCAGCA
1 CTAGTCGGATAAACAGACGAGATCGAATGTGTGCCCAGCA
8793941 CTAGTCGGATAAAC
1 CTAGTCGGATAAAC
8793955 CGACAATTAC
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
36 22 0.29
37 2 0.03
38 2 0.03
39 2 0.03
40 49 0.64
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (40 bp):
CTAGTCGGATAAACAGACGAGATCGAATGTGTGCCCAGCA
Found at i:8795792 original size:13 final size:14
Alignment explanation
Indices: 8795766--8795794 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8795756 TTTTTTATCA
8795766 AATAAAATTTAATT
1 AATAAAATTTAATT
8795780 AATAAAA-TTAATT
1 AATAAAATTTAATT
8795793 AA
1 AA
8795795 AATAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAAATTTAATT
Found at i:8795903 original size:19 final size:19
Alignment explanation
Indices: 8795862--8795923 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
8795852 ATTGAATTTG
* * * *
8795862 AAAATTGGACTTGAGATCG
1 AAAATTAGACTCGAGAACC
8795881 AAAATTAGACTCGAGAACC
1 AAAATTAGACTCGAGAACC
*
8795900 AAAAATTGAGA-TCGAGACCC
1 -AAAATT-AGACTCGAGAACC
8795920 AAAA
1 AAAA
8795924 CTAGTTGAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 19 0.53
20 14 0.39
21 3 0.08
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (19 bp):
AAAATTAGACTCGAGAACC
Found at i:8795906 original size:20 final size:20
Alignment explanation
Indices: 8795881--8795923 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
8795871 CTTGAGATCG
8795881 AAAATT-AGACTCGAGAACCA
1 AAAATTGAGA-TCGAGAACCA
*
8795901 AAAATTGAGATCGAGACCCA
1 AAAATTGAGATCGAGAACCA
8795921 AAA
1 AAA
8795924 CTAGTTGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (20 bp):
AAAATTGAGATCGAGAACCA
Found at i:8796588 original size:31 final size:31
Alignment explanation
Indices: 8796548--8796647 Score: 114
Period size: 31 Copynumber: 3.3 Consensus size: 31
8796538 TATTAAATTA
*
8796548 AATTAAATATTTATCTTGATAGTATTTTATT
1 AATTTAATATTTATCTTGATAGTATTTTATT
* * * **
8796579 AATTTAATATTAAT-GTGAGA-TATTAAATTT
1 AATTTAATATTTATCTTGATAGTATTTTA-TT
*
8796609 GATTTAATATTTATCTTGATAGTATTTTATT
1 AATTTAATATTTATCTTGATAGTATTTTATT
8796640 AATTTAAT
1 AATTTAAT
8796648 GTGAGTAATT
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
29 5 0.09
30 18 0.34
31 25 0.47
32 5 0.09
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (31 bp):
AATTTAATATTTATCTTGATAGTATTTTATT
Found at i:8801768 original size:63 final size:63
Alignment explanation
Indices: 8801669--8801794 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 63
8801659 TTATCTACCC
* * * *
8801669 TTAATGCTCTCGTCTTATGCATTTTGAAATTAAACCGGTCAGTCTTTACTTGAGCACAAAAAA
1 TTAATGCTCTCGCCATACGCATTTTGAAATTAAACCGGTCAATCTTTACTTGAGCACAAAAAA
* *
8801732 TTAATGCTCTCGCCATACGCATTTTGAAATTAAACCGGTCAATTTTTACTTGAGCATAAAAAA
1 TTAATGCTCTCGCCATACGCATTTTGAAATTAAACCGGTCAATCTTTACTTGAGCACAAAAAA
8801795 ATTATTTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (63 bp):
TTAATGCTCTCGCCATACGCATTTTGAAATTAAACCGGTCAATCTTTACTTGAGCACAAAAAA
Found at i:8803971 original size:22 final size:20
Alignment explanation
Indices: 8803946--8803991 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
8803936 AATTAATGAT
8803946 ATTATAAAATTAAAGAGATTAA
1 ATTATAAAATT--AGAGATTAA
8803968 ATTATTAAAATGTAGAGATTAA
1 ATTA-TAAAAT-TAGAGATTAA
8803990 AT
1 AT
8803992 ATCAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 15 0.68
23 6 0.27
24 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (20 bp):
ATTATAAAATTAGAGATTAA
Found at i:8809592 original size:27 final size:28
Alignment explanation
Indices: 8809524--8809594 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
8809514 AACCCTGTGA
* *
8809524 CAAGTGGTATCCGAG-CTAGATTCAAAC
1 CAAGTGGTATCCAAGCCAAGATTCAAAC
* *
8809551 CAAGTAAGTATCCAAGCCAAG-TTCGAAC
1 CAAGT-GGTATCCAAGCCAAGATTCAAAC
8809579 CAAGTGGTATCCAAGC
1 CAAGTGGTATCCAAGC
8809595 TGTTGGTTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 15 0.41
28 19 0.51
29 3 0.08
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (28 bp):
CAAGTGGTATCCAAGCCAAGATTCAAAC
Found at i:8809629 original size:29 final size:29
Alignment explanation
Indices: 8809571--8809635 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
8809561 TCCAAGCCAA
* *
8809571 GTTCGAACCAAGTGGTATCCAAGCTGTTG
1 GTTCGAACCAAGTGATATCCAAGCTATTG
** *
8809600 GTTCGAACCAAGTGATATCTGAGTTATTG
1 GTTCGAACCAAGTGATATCCAAGCTATTG
8809629 GTTCGAA
1 GTTCGAA
8809636 GGCACCGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (29 bp):
GTTCGAACCAAGTGATATCCAAGCTATTG
Found at i:8810676 original size:17 final size:18
Alignment explanation
Indices: 8810649--8810682 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8810639 CCACAAGTTG
*
8810649 GGAAGAAGAAACTCAAGA
1 GGAAGAAGAAACACAAGA
8810667 GGAA-AAGAAACACAAG
1 GGAAGAAGAAACACAAG
8810683 TTGGTAACGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.12, G:0.26, T:0.03
Consensus pattern (18 bp):
GGAAGAAGAAACACAAGA
Found at i:8822618 original size:24 final size:24
Alignment explanation
Indices: 8822591--8822640 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
8822581 TTTTCTTCTT
*
8822591 TTAA-CTTTTAACTTTTCATCTTTC
1 TTAATCTTTTAACATTT-ATCTTTC
* *
8822615 TTAATTTTTTACCATTTATCTTTC
1 TTAATCTTTTAACATTTATCTTTC
8822639 TT
1 TT
8822641 TTAACCCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.62
Consensus pattern (24 bp):
TTAATCTTTTAACATTTATCTTTC
Found at i:8823803 original size:23 final size:22
Alignment explanation
Indices: 8823777--8823820 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
8823767 ATCCCAAAAA
* *
8823777 TGATGAAATGAAGGAAAATTTTT
1 TGAT-AAAAGAAGAAAAATTTTT
*
8823800 TGATAAAAGATGAAAAATTTT
1 TGATAAAAGAAGAAAAATTTT
8823821 ACTATGATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.34
Consensus pattern (22 bp):
TGATAAAAGAAGAAAAATTTTT
Found at i:8825087 original size:9 final size:9
Alignment explanation
Indices: 8825073--8825148 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
8825063 TTTGGTTAAA
8825073 AATTAACCG
1 AATTAACCG
*
8825082 AATTAACCT
1 AATTAACCG
*
8825091 AATTAACCA
1 AATTAACCG
*
8825100 AATTACCCG
1 AATTAACCG
*
8825109 AATTAACTG
1 AATTAACCG
*
8825118 AATTACCCG
1 AATTAACCG
*
8825127 AATTACCCG
1 AATTAACCG
8825136 AATTAACCG
1 AATTAACCG
8825145 AATT
1 AATT
8825149 GAATCACTAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:8825272 original size:18 final size:18
Alignment explanation
Indices: 8825246--8825295 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
8825236 TTTATGATTA
* *
8825246 GGTTGGGTTGGGTAATTG
1 GGTTTGGTTGGATAATTG
* *
8825264 GGTTTGGTTGAATACTTG
1 GGTTTGGTTGGATAATTG
8825282 GGTTTGGATTGGAT
1 GGTTTGG-TTGGAT
8825296 TTAGGTGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.14, C:0.02, G:0.42, T:0.42
Consensus pattern (18 bp):
GGTTTGGTTGGATAATTG
Found at i:8828227 original size:25 final size:25
Alignment explanation
Indices: 8828118--8828244 Score: 89
Period size: 25 Copynumber: 5.1 Consensus size: 25
8828108 GTACATGTAT
* *
8828118 GCTCATACGAGTTGTA-AACG-GAAA
1 GCTCATACGAGCTGAATAACGAG-AA
* * * *
8828142 GCTCCTCCGATCTGAATAACAAGAA
1 GCTCATACGAGCTGAATAACGAGAA
* * * *
8828167 GCTCATGCAAGCTAAATAACGGGAA
1 GCTCATACGAGCTGAATAACGAGAA
*
8828192 GCTCA-AGCGAGCTGAATATCGAGAA
1 GCTCATA-CGAGCTGAATAACGAGAA
** *
8828217 GCTCATACGAGCTGTTTAACGGGAA
1 GCTCATACGAGCTGAATAACGAGAA
8828242 GCT
1 GCT
8828245 TATGTGAGCT
Statistics
Matches: 77, Mismatches: 22, Indels: 7
0.73 0.21 0.07
Matches are distributed among these distances:
24 11 0.14
25 64 0.83
26 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGAGAA
Found at i:8828237 original size:50 final size:50
Alignment explanation
Indices: 8828183--8828281 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
8828173 GCAAGCTAAA
*
8828183 TAACGGGAAGCTCAAGCGAGCTGA-ATATCGAGAAGCTCATACGAGCTGTT
1 TAACGGGAAGCTCAAGCGAGCT-ATAAATCGAGAAGCTCATACGAGCTGTT
* * * * *
8828233 TAACGGGAAGCTTATGTGAGCTATAAATCGGGAAGCTCATATGAGCTGT
1 TAACGGGAAGCTCAAGCGAGCTATAAATCGAGAAGCTCATACGAGCTGT
8828282 GGTGTGTCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 1 0.02
50 41 0.98
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.23
Consensus pattern (50 bp):
TAACGGGAAGCTCAAGCGAGCTATAAATCGAGAAGCTCATACGAGCTGTT
Found at i:8828253 original size:25 final size:26
Alignment explanation
Indices: 8828209--8828281 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 26
8828199 CGAGCTGAAT
* * *
8828209 ATCGAGAAGCTCATACGAGCTGTTTA
1 ATCGGGAAGCTCATATGAGCTGTTAA
* * *
8828235 A-CGGGAAGCTTATGTGAGCT-ATAA
1 ATCGGGAAGCTCATATGAGCTGTTAA
8828259 ATCGGGAAGCTCATATGAGCTGT
1 ATCGGGAAGCTCATATGAGCTGT
8828282 GGTGTGTCCA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
24 3 0.08
25 32 0.89
26 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (26 bp):
ATCGGGAAGCTCATATGAGCTGTTAA
Found at i:8831870 original size:24 final size:24
Alignment explanation
Indices: 8831826--8831896 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
8831816 TTCGTTATAA
* * *
8831826 TTAACTTTTTACCTTTCATCTTCC
1 TTAACTTTTCACTTTTTATCTTCC
**
8831850 TTAACTTTTCACTTTTTATCTTTTT
1 TTAACTTTTCACTTTTTATC-TTCC
*
8831875 TTAACTCTTCACCTTTTTATCT
1 TTAACTTTTCA-CTTTTTATCT
8831897 CATTGTATCC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 17 0.44
25 13 0.33
26 9 0.23
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (24 bp):
TTAACTTTTCACTTTTTATCTTCC
Found at i:8838482 original size:21 final size:22
Alignment explanation
Indices: 8838457--8838501 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
8838447 AGAAAGTTGC
8838457 AAAAATATAA-AAAAATT-TAAA
1 AAAAAT-TAATAAAAATTGTAAA
*
8838478 AAAAATTAATTAAAATTGTAAA
1 AAAAATTAATAAAAATTGTAAA
8838500 AA
1 AA
8838502 TTATAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 12 0.57
22 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAAATTAATAAAAATTGTAAA
Found at i:8844569 original size:9 final size:9
Alignment explanation
Indices: 8844555--8844597 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
8844545 AATTTAAATA
8844555 AAAATAATT
1 AAAATAATT
8844564 AAAATAATT
1 AAAATAATT
*
8844573 AAAATAACT
1 AAAATAATT
*
8844582 -AATTAATT
1 AAAATAATT
*
8844590 AACATAAT
1 AAAATAAT
8844598 ATTAAATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATAATT
Found at i:8847711 original size:9 final size:9
Alignment explanation
Indices: 8847699--8847775 Score: 64
Period size: 9 Copynumber: 8.4 Consensus size: 9
8847689 AAATAAAAAA
8847699 AATTCGGGT
1 AATTCGGGT
8847708 AATTCGGGT
1 AATTCGGGT
* **
8847717 ATTTTTTGGT
1 A-ATTCGGGT
*
8847727 AATTCGGTT
1 AATTCGGGT
***
8847736 AATTCAATT
1 AATTCGGGT
*
8847745 AATTCGGTT
1 AATTCGGGT
8847754 AATTCGGGT
1 AATTCGGGT
*
8847763 AACTCGGGT
1 AATTCGGGT
8847772 AATT
1 AATT
8847776 TTTAAGCAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
9 47 0.89
10 6 0.11
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:8851763 original size:52 final size:52
Alignment explanation
Indices: 8851609--8851768 Score: 146
Period size: 54 Copynumber: 3.0 Consensus size: 52
8851599 AATAGCCAGA
* * *
8851609 ACCCACTTTATCAGATAAAAAAATTTTGGGTTGGGGGTACTAGATGGTTGGC
1 ACCCACTTTATCAGATAAAAAATTTTTGGGTTGGGGGAACTAGATGGTCGGC
* * * ** ** *
8851661 A-TCACCTTTTTCATATTAAAAAATATTTT-TTTATGCTGGCAC-AGTAATGGTCGGC
1 ACCCA-CTTTATCAGA-TAAAAAAT-TTTTGGGT-TGGGGGAACTAG--ATGGTCGGC
8851716 ACCCACTTTATCAGATAAAAAATTTTTGGGTTGGGGGAACTAGATGGTCGGC
1 ACCCACTTTATCAGATAAAAAATTTTTGGGTTGGGGGAACTAGATGGTCGGC
8851768 A
1 A
8851769 TCAGCTATTT
Statistics
Matches: 81, Mismatches: 18, Indels: 18
0.69 0.15 0.15
Matches are distributed among these distances:
51 2 0.02
52 19 0.23
53 20 0.25
54 21 0.26
55 17 0.21
56 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (52 bp):
ACCCACTTTATCAGATAAAAAATTTTTGGGTTGGGGGAACTAGATGGTCGGC
Found at i:8852252 original size:3 final size:3
Alignment explanation
Indices: 8852244--8852277 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
8852234 AAATTAGTCT
8852244 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
8852278 CTTGAGACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:8864003 original size:15 final size:15
Alignment explanation
Indices: 8863983--8864034 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
8863973 ACACACGGCC
8863983 GTGTCACCTGACCGT
1 GTGTCACCTGACCGT
* *
8863998 GTGTCACAC--ACGGCC
1 GTGTCAC-CTGACCG-T
8864013 GTGTCACCTGACCGT
1 GTGTCACCTGACCGT
8864028 GTGTCAC
1 GTGTCAC
8864035 ACACGACTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 4 0.14
15 21 0.72
16 4 0.14
ACGTcount: A:0.15, C:0.35, G:0.27, T:0.23
Consensus pattern (15 bp):
GTGTCACCTGACCGT
Found at i:8864008 original size:30 final size:30
Alignment explanation
Indices: 8863973--8864039 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
8863963 GCCAAAGGGG
8863973 ACACACGGCCGTGTCACCTGACCGTGTGTC
1 ACACACGGCCGTGTCACCTGACCGTGTGTC
8864003 ACACACGGCCGTGTCACCTGACCGTGTGTC
1 ACACACGGCCGTGTCACCTGACCGTGTGTC
8864033 ACACACG
1 ACACACG
8864040 ACTGAGACAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.19, C:0.37, G:0.25, T:0.18
Consensus pattern (30 bp):
ACACACGGCCGTGTCACCTGACCGTGTGTC
Found at i:8868106 original size:43 final size:43
Alignment explanation
Indices: 8868048--8868149 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 43
8868038 CCCAGACATA
* ** *
8868048 GTCTTACATGGAAATCTCGTATCGATGCTAATAGCCCAGCTATG
1 GTCTTACA-CGAAATCTCAAATCGATGCCAATAGCCCAGCTATG
*
8868092 GTCTTACACGAAATCTCAAATCGATGCCAATAGCTCAGCTATG
1 GTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCTATG
*
8868135 GTATTACACGAAATC
1 GTCTTACACGAAATC
8868150 ACACCTCGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 44 0.85
44 8 0.15
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
GTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCTATG
Found at i:8869376 original size:40 final size:40
Alignment explanation
Indices: 8869332--8869414 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
8869322 AATATATTCG
* *
8869332 AATGTACTCAAATCCCTCGTTCAATCCAAACTGCGGATTA
1 AATGTACTCAAATCCCGCGTTCAATCCAAACTGCGCATTA
8869372 AATGTACTCAAATCCCGCGTTCAATCCAAACTGCGCATTA
1 AATGTACTCAAATCCCGCGTTCAATCCAAACTGCGCATTA
8869412 AAT
1 AAT
8869415 TCAATAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.27
Consensus pattern (40 bp):
AATGTACTCAAATCCCGCGTTCAATCCAAACTGCGCATTA
Found at i:8881085 original size:11 final size:11
Alignment explanation
Indices: 8881071--8881095 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8881061 AATTTTATAA
8881071 AAATTATTTTT
1 AAATTATTTTT
8881082 AAATTATTTTT
1 AAATTATTTTT
8881093 AAA
1 AAA
8881096 CTTTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
AAATTATTTTT
Found at i:8881086 original size:22 final size:20
Alignment explanation
Indices: 8881033--8881086 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
8881023 TTATTTTAAC
* *
8881033 TTTTTAAAGTTTAAAATATA
1 TTTTTAAATTTTAAAAAATA
8881053 TATTTTAGAATTTTATAAAAATTA
1 T-TTTTA-AATTTTA-AAAAA-TA
8881077 TTTTTAAATT
1 TTTTTAAATT
8881087 ATTTTTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 1 0.04
21 5 0.18
22 10 0.36
23 9 0.32
24 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTTTAAATTTTAAAAAATA
Found at i:8881411 original size:8 final size:8
Alignment explanation
Indices: 8881400--8881450 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
8881390 AAAGTTTAAA
8881400 AAAATTAT
1 AAAATTAT
8881408 AAAATTAT
1 AAAATTAT
8881416 AAAATT-T
1 AAAATTAT
*
8881423 ATAATTAT
1 AAAATTAT
*
8881431 AAACTT-T
1 AAAATTAT
8881438 AAAAATTA-
1 -AAAATTAT
8881446 AAAAT
1 AAAAT
8881451 AATATATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
7 12 0.33
8 24 0.67
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (8 bp):
AAAATTAT
Found at i:8881430 original size:15 final size:15
Alignment explanation
Indices: 8881400--8881450 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
8881390 AAAGTTTAAA
8881400 AAAATTATAAAATTAT
1 AAAATT-TAAAATTAT
*
8881416 AAAATTTATAATTAT
1 AAAATTTAAAATTAT
*
8881431 AAACTTTAAAAATTA-
1 AAAATTT-AAAATTAT
8881446 AAAAT
1 AAAAT
8881451 AATATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATTTAAAATTAT
Done.