Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 57 of 208
Found at i:21835032 original size:30 final size:28
Alignment explanation
Indices: 21834996--21835083 Score: 86
Period size: 29 Copynumber: 2.9 Consensus size: 28
21834986 TATTTTTTTG
21834996 CATTTTAACCACTGTACTTTTCAAAATTTA
1 CATTTTAACC-CTG-ACTTTTCAAAATTTA
** *
21835026 CATTTTAACCCAAAATTTTCTAAAATTTA
1 CATTTTAACCCTGACTTTTC-AAAATTTA
*
21835055 CATTTTGACCCCTAGACTTTCTCAAAATT
1 CATTTT-AACCCT-GACTTT-TCAAAATT
21835084 GCACTTTGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
28 6 0.13
29 15 0.32
30 14 0.30
31 10 0.21
32 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (28 bp):
CATTTTAACCCTGACTTTTCAAAATTTA
Found at i:21835142 original size:29 final size:28
Alignment explanation
Indices: 21835109--21835210 Score: 80
Period size: 29 Copynumber: 3.5 Consensus size: 28
21835099 AAATCTCAAG
21835109 AAATTACATTTTGGCCTATATTTTTGCTA
1 AAATTACATTTTGGCCTATATTTTT-CTA
* * * * * * *
21835138 AAATTGCACTTTGACCCCTAAACTCTT-AA
1 AAATTACATTTTG--GCCTATATTTTTCTA
21835167 GAAATTACATTTTGGCCTATATTTTTACTA
1 -AAATTACATTTTGGCCTATATTTTT-CTA
21835197 AAATTACACTTTTG
1 AAATTACA-TTTTG
21835211 CCCCAAAAGC
Statistics
Matches: 53, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
28 8 0.15
29 20 0.38
30 17 0.32
31 8 0.15
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (28 bp):
AAATTACATTTTGGCCTATATTTTTCTA
Found at i:21835146 original size:59 final size:59
Alignment explanation
Indices: 21835078--21835208 Score: 226
Period size: 59 Copynumber: 2.2 Consensus size: 59
21835068 AGACTTTCTC
*
21835078 AAAATTGCACTTTGACCCCTAAAATCTCAAGAAATTACATTTTGGCCTATATTTTTGCT
1 AAAATTGCACTTTGACCCCTAAAATCTCAAGAAATTACATTTTGGCCTATATTTTTACT
* *
21835137 AAAATTGCACTTTGACCCCTAAACTCTTAAGAAATTACATTTTGGCCTATATTTTTACT
1 AAAATTGCACTTTGACCCCTAAAATCTCAAGAAATTACATTTTGGCCTATATTTTTACT
*
21835196 AAAATTACACTTT
1 AAAATTGCACTTT
21835209 TGCCCCAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 68 1.00
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (59 bp):
AAAATTGCACTTTGACCCCTAAAATCTCAAGAAATTACATTTTGGCCTATATTTTTACT
Found at i:21835598 original size:25 final size:24
Alignment explanation
Indices: 21835562--21835609 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
21835552 CCTACAACAC
*
21835562 AAGCAAAGAGAAAATAAAAAGCAAT
1 AAGCAAAAAGAAAA-AAAAAGCAAT
*
21835587 AAGCAAAAAGAAAAAAACAGCAA
1 AAGCAAAAAGAAAAAAAAAGCAA
21835610 CCCAAAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.04
Consensus pattern (24 bp):
AAGCAAAAAGAAAAAAAAAGCAAT
Found at i:21835778 original size:11 final size:12
Alignment explanation
Indices: 21835749--21835790 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
21835739 GAAGAGGAAG
*
21835749 GAAAAAAAAGAAA
1 GAAAAAGAAG-AA
21835762 GAAAAAGAAGAA
1 GAAAAAGAAGAA
21835774 GAAAAAGAGAGAA
1 GAAAAAGA-AGAA
21835787 GAAA
1 GAAA
21835791 GGAAGGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
GAAAAAGAAGAA
Found at i:21835786 original size:26 final size:25
Alignment explanation
Indices: 21835740--21835814 Score: 68
Period size: 26 Copynumber: 3.1 Consensus size: 25
21835730 TTTAGCCCCG
*
21835740 AAGAGGAAGGAAAAAAAAGAAAGAAA
1 AAGAAGAAGGAAAAAAAAG-AAGAAA
*
21835766 AAGAAGAA-GAAAAAGAGAGAAG-AA
1 AAGAAGAAGGAAAAA-AAAGAAGAAA
* *
21835790 AGGAAG--GGAAAAAAAAGAAAAAA
1 AAGAAGAAGGAAAAAAAAGAAGAAA
21835813 AA
1 AA
21835815 TATTTTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
22 5 0.12
23 9 0.22
24 7 0.17
25 9 0.22
26 10 0.25
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (25 bp):
AAGAAGAAGGAAAAAAAAGAAGAAA
Found at i:21835848 original size:5 final size:5
Alignment explanation
Indices: 21835838--21835869 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
21835828 TAGTCGGGTT
21835838 GACCC GACCC GCACCC GACCC GACCC GACCC G
1 GACCC GACCC G-ACCC GACCC GACCC GACCC G
21835870 CCTTGACAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.19, C:0.59, G:0.22, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:21835859 original size:16 final size:15
Alignment explanation
Indices: 21835838--21835869 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
21835828 TAGTCGGGTT
21835838 GACCCGACCCGCACCC
1 GACCCGACCCG-ACCC
21835854 GACCCGACCCGACCC
1 GACCCGACCCGACCC
21835869 G
1 G
21835870 CCTTGACAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.19, C:0.59, G:0.22, T:0.00
Consensus pattern (15 bp):
GACCCGACCCGACCC
Found at i:21835922 original size:21 final size:22
Alignment explanation
Indices: 21835898--21835939 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
21835888 CAGCAGCCCA
21835898 AAACAACAGC-CCAAAAAAAAG
1 AAACAACAGCACCAAAAAAAAG
* *
21835919 AAACAGCAGCAGCAAAAAAAA
1 AAACAACAGCACCAAAAAAAA
21835940 ACAGCAGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.67, C:0.21, G:0.12, T:0.00
Consensus pattern (22 bp):
AAACAACAGCACCAAAAAAAAG
Found at i:21835941 original size:19 final size:20
Alignment explanation
Indices: 21835912--21835949 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
21835902 AACAGCCCAA
21835912 AAAAAAGAAACAGCAGCAGC
1 AAAAAAGAAACAGCAGCAGC
21835932 AAAAAA-AAACAGCAGCAG
1 AAAAAAGAAACAGCAGCAG
21835950 ACCACCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.63, C:0.18, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAACAGCAGCAGC
Found at i:21837086 original size:453 final size:453
Alignment explanation
Indices: 21836239--21837151 Score: 1729
Period size: 453 Copynumber: 2.0 Consensus size: 453
21836229 AATTAATTTG
*
21836239 TATATTTAATTATTGTTTCATTTCAATTTAATTAGTATTTTTAAATAGCATATTTAGAAATATTA
1 TATATTTAATTATTGTTTCATTTCAATTTAATTACTATTTTTAAATAGCATATTTAGAAATATTA
21836304 TCACATTTATTTTACTTGCATTTTTAAAATAAAAAAAATATTTTAATGCACAAAGCAACGAACCG
66 TCACATTTATTTTACTTGCATTTTTAAAAT-AAAAAAATATTTTAATGCACAAAGCAACGAACCG
*
21836369 ATTTAATGTTAAGTCATCGAATTCATCGCTATGTTGGGTGAATATCGATGGCTCGTATTAAATAT
130 ATTTAATGTTAAGTCATCGAATTCATCGCTATGTTGGGTGAATATCGATGGCTCGTATTAAATAC
21836434 GGGACGCCCTTTTAAAAAAATAAAAATATTCAAAATTCTTCATATTTTAATAAAAATTCTCGTGT
195 GGGACGCCCTTTTAAAAAAATAAAAATATTCAAAATTCTTCATATTTTAATAAAAATTCTCGTGT
21836499 TTTATTAGAATCCCGATTAAATATTAAATTGAATTTATTTAACACTAATTCGATGGTTTCATCGC
260 TTTATTAGAATCCCGATTAAATATTAAATTGAATTTATTTAACACTAATTCGATGGTTTCATCGC
21836564 CATGTCGGGGTGAATATCATCGATTCGTGTTAAATACGGTATTTTTAAAATCGTGTTTCAAAAAT
325 CATGTCGGGGTGAATATCATCGATTCGTGTTAAATACGGTATTTTTAAAATCGTGTTTCAAAAAT
*
21836629 TTTCATGTCTTCAAAATTTCTCGTGTTTTAAAATAATAATAATAAAATTTCCCGTGTTTCAAAA
390 TTTCATGTCTTCAAAATTTCTCGTGTTTCAAAATAATAATAATAAAATTTCCCGTGTTTCAAAA
21836693 TATATTTAATTATTGTTTCATTTCAATTTAATTACTATTTTTAAATAGCATATTTAGAAATATTA
1 TATATTTAATTATTGTTTCATTTCAATTTAATTACTATTTTTAAATAGCATATTTAGAAATATTA
*
21836758 TCACATTTATTTTACTTGCATTTTTAAAAT-AAAAAATATTTTAATGCAGAAAGCAACGAACCGA
66 TCACATTTATTTTACTTGCATTTTTAAAATAAAAAAATATTTTAATGCACAAAGCAACGAACCGA
*
21836822 TTTAATGTTAAGTCATCGAATTCATCGCTATGTTGGGTGAATATCGATGGCTCGTGTTAAATACG
131 TTTAATGTTAAGTCATCGAATTCATCGCTATGTTGGGTGAATATCGATGGCTCGTATTAAATACG
* * *
21836887 GGACGCCTTTTTAAAAAAAATGAAAATATTCAAAATTCTTCGTATTTTAATAAAAATTCTCGTGT
196 GGACGCCCTTTT-AAAAAAATAAAAATATTCAAAATTCTTCATATTTTAATAAAAATTCTCGTGT
21836952 TTTATTAGAATCCCGATTAAATATTAAATTGAATTTATTTAACACTAATTCGATGGTTTCATCGC
260 TTTATTAGAATCCCGATTAAATATTAAATTGAATTTATTTAACACTAATTCGATGGTTTCATCGC
21837017 CATGTCGGGGTGAATATCATCGATTCGTGTTAAATACGGTATTTTTAAAATCGTGTTTCAAAAAT
325 CATGTCGGGGTGAATATCATCGATTCGTGTTAAATACGGTATTTTTAAAATCGTGTTTCAAAAAT
21837082 TTTCATGTCTTCAAAATTTCTCGTGTTTCAAAATAATAATAATAAAATTTCCCGTGTTTCAAAA
390 TTTCATGTCTTCAAAATTTCTCGTGTTTCAAAATAATAATAATAAAATTTCCCGTGTTTCAAAA
21837146 TATATT
1 TATATT
21837152 CGTGTTCCTT
Statistics
Matches: 450, Mismatches: 8, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
452 107 0.24
453 249 0.55
454 94 0.21
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (453 bp):
TATATTTAATTATTGTTTCATTTCAATTTAATTACTATTTTTAAATAGCATATTTAGAAATATTA
TCACATTTATTTTACTTGCATTTTTAAAATAAAAAAATATTTTAATGCACAAAGCAACGAACCGA
TTTAATGTTAAGTCATCGAATTCATCGCTATGTTGGGTGAATATCGATGGCTCGTATTAAATACG
GGACGCCCTTTTAAAAAAATAAAAATATTCAAAATTCTTCATATTTTAATAAAAATTCTCGTGTT
TTATTAGAATCCCGATTAAATATTAAATTGAATTTATTTAACACTAATTCGATGGTTTCATCGCC
ATGTCGGGGTGAATATCATCGATTCGTGTTAAATACGGTATTTTTAAAATCGTGTTTCAAAAATT
TTCATGTCTTCAAAATTTCTCGTGTTTCAAAATAATAATAATAAAATTTCCCGTGTTTCAAAA
Found at i:21837099 original size:17 final size:17
Alignment explanation
Indices: 21837070--21837115 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
21837060 TTTAAAATCG
21837070 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
*
21837087 TGTCTTCAAAATTTCTCG
1 TGT-TTCAAAATTTCTCA
21837105 TGTTTCAAAAT
1 TGTTTCAAAAT
21837116 AATAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:21837340 original size:20 final size:21
Alignment explanation
Indices: 21837305--21837345 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
21837295 TTTCATATTT
21837305 TCGTGTTTTCAAAAAAAATTC
1 TCGTGTTTTCAAAAAAAATTC
21837326 TCGTGTTTT-AAAAAAAATTC
1 TCGTGTTTTCAAAAAAAATTC
21837346 ATGTCTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
TCGTGTTTTCAAAAAAAATTC
Found at i:21837393 original size:17 final size:17
Alignment explanation
Indices: 21837363--21837411 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
21837353 AAAATAAATA
* *
21837363 AAAAAATTCATGTTTTC
1 AAAAATTTCGTGTTTTC
21837380 AAAAATTTCGTGTTTTTC
1 AAAAATTTCGTG-TTTTC
*
21837398 AAAATTTTTCGTGT
1 AAAA-ATTTCGTGT
21837412 CAAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 10 0.37
18 10 0.37
19 7 0.26
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTC
Found at i:21837396 original size:18 final size:19
Alignment explanation
Indices: 21837375--21837411 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21837365 AAAATTCATG
21837375 TTTTCAAAA-ATTTCGTGT
1 TTTTCAAAATATTTCGTGT
*
21837393 TTTTCAAAATTTTTCGTGT
1 TTTTCAAAATATTTCGTGT
21837412 CAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (19 bp):
TTTTCAAAATATTTCGTGT
Found at i:21837708 original size:69 final size:67
Alignment explanation
Indices: 21837634--21837934 Score: 338
Period size: 69 Copynumber: 4.4 Consensus size: 67
21837624 AAAAAAAATA
*
21837634 GTGTTTCAAAAAATGTGTCGTGTTTTAAAAATTTCCCTGTTTTAAAAATTCCCGTATTCCAAAAA
1 GTGTTT-AAAAAAT-TTTCGTGTTTT-AAAATTTCCCTGTTTTAAAAATTCCCGTATTCCAAAAA
21837699 TTG-C
63 TTGTC
* * *
21837703 GTGTTTTAAAAATTTTCGTATTTTTAAAATTTCCCTGTTTTAAAAATTCCCGTATTCCAAAAAAA
1 GTGTTTAAAAAATTTTCGT-GTTTTAAAATTTCCCTGTTTTAAAAATTCCCGTATTCC-AAAAAT
21837768 TGTC
64 TGTC
* *
21837772 GTGTTTTAAAATTTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAAATTCCCGTATTCCAAAAATT
1 GTGTTTAAAAAATTTTCGTGTTT-TAAAATTTCCCTGTTTTAAAAATTCCCGTATTCCAAAAATT
21837837 GTC
65 GTC
* * * * * * *
21837840 GTGTTTTAAAAATTTTCCTGTTTTTAAAA-TT-CTTGTATTTCAAAAGTTTCCGTGTTTCAAAAA
1 GTGTTTAAAAAATTTTCGTG-TTTTAAAATTTCCCTGT-TTT-AAAAATTCCCGT-ATTC--CAA
*
21837903 AAATTCTC
60 AAATTGTC
*
21837911 GTGTTTCAAAAATTTTCGTGTTTT
1 GTGTTTAAAAAATTTTCGTGTTTT
21837935 TTTAATTGTA
Statistics
Matches: 205, Mismatches: 17, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
66 4 0.02
67 43 0.21
68 62 0.30
69 65 0.32
70 4 0.02
71 27 0.13
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (67 bp):
GTGTTTAAAAAATTTTCGTGTTTTAAAATTTCCCTGTTTTAAAAATTCCCGTATTCCAAAAATTG
TC
Found at i:21837747 original size:34 final size:34
Alignment explanation
Indices: 21837642--21837853 Score: 178
Period size: 34 Copynumber: 6.2 Consensus size: 34
21837632 TAGTGTTTCA
* * *
21837642 AAAAATGTGTCGTGTTTTAAAAATTTCCCTGTTTT
1 AAAAAT-TCTCGTATTTCAAAAATTTCCCTGTTTT
* * * *
21837677 AAAAATTCCCGTATTCCAAAAA-TTGCGTGTTTT
1 AAAAATTCTCGTATTTCAAAAATTTCCCTGTTTT
* **
21837710 AAAAATTTTCGTATTTTTAAAATTTCCCTGTTTT
1 AAAAATTCTCGTATTTCAAAAATTTCCCTGTTTT
* * * *
21837744 AAAAATTCCCGTATTCCAAAAAAATGT-CGTGTTTT
1 AAAAATTCTCGTATTTC--AAAAATTTCCCTGTTTT
* * * *
21837779 AAAATTTTTCGTGTTTCTAAAATTTCCCTGTTTT
1 AAAAATTCTCGTATTTCAAAAATTTCCCTGTTTT
* * *
21837813 AAAAATTCCCGTATTCCAAAAATTGT-CGTGTTTT
1 AAAAATTCTCGTATTTCAAAAATT-TCCCTGTTTT
21837847 AAAAATT
1 AAAAATT
21837854 TTCCTGTTTT
Statistics
Matches: 136, Mismatches: 36, Indels: 11
0.74 0.20 0.06
Matches are distributed among these distances:
33 32 0.24
34 72 0.53
35 26 0.19
36 6 0.04
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (34 bp):
AAAAATTCTCGTATTTCAAAAATTTCCCTGTTTT
Found at i:21837899 original size:17 final size:17
Alignment explanation
Indices: 21837634--21837933 Score: 144
Period size: 17 Copynumber: 17.4 Consensus size: 17
21837624 AAAAAAAATA
21837634 GTGTTTCAAAAAATGTGT-C
1 GTGTTTC-AAAAAT-T-TCC
*
21837653 GTGTTTTAAAAATTTCC
1 GTGTTTCAAAAATTTCC
* * *
21837670 CTGTTTTAAAAATTCCC
1 GTGTTTCAAAAATTTCC
* * *
21837687 GTATTCCAAAAA-TTGC
1 GTGTTTCAAAAATTTCC
* *
21837703 GTGTTTTAAAAATTTTC
1 GTGTTTCAAAAATTTCC
* **
21837720 GTATTTTTAAAATTTCC
1 GTGTTTCAAAAATTTCC
* * *
21837737 CTGTTTTAAAAATTCCC
1 GTGTTTCAAAAATTTCC
* * *
21837754 GTATTCCAAAAAAATGT-C
1 GTGTTTC--AAAAATTTCC
* * *
21837772 GTGTTTTAAAATTTTTC
1 GTGTTTCAAAAATTTCC
*
21837789 GTGTTTCTAAAATTTCC
1 GTGTTTCAAAAATTTCC
* * *
21837806 CTGTTTTAAAAATTCCC
1 GTGTTTCAAAAATTTCC
* *
21837823 GTATTCCAAAAATTGT-C
1 GTGTTTCAAAAATT-TCC
*
21837840 GTGTTTTAAAAATTTTCC
1 GTGTTTCAAAAA-TTTCC
** *
21837858 -TGTTTTTAAAA-TTCTT
1 GTGTTTCAAAAATTTC-C
* *
21837874 GTATTTCAAAAGTTTCC
1 GTGTTTCAAAAATTTCC
*
21837891 GTGTTTCAAAAAAAATTCTC
1 GTGTTTC--AAAAATTTC-C
*
21837911 GTGTTTCAAAAATTTTC
1 GTGTTTCAAAAATTTCC
21837928 GTGTTT
1 GTGTTT
21837934 TTTTAATTGT
Statistics
Matches: 208, Mismatches: 59, Indels: 30
0.70 0.20 0.10
Matches are distributed among these distances:
15 3 0.01
16 18 0.09
17 136 0.65
18 24 0.12
19 19 0.09
20 8 0.04
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.44
Consensus pattern (17 bp):
GTGTTTCAAAAATTTCC
Found at i:21837991 original size:19 final size:20
Alignment explanation
Indices: 21837950--21837993 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
21837940 TTGTATTTCT
* *
21837950 AAAATTCTCGTTTTTTTCAA
1 AAAATTCTCGTGTTTTTAAA
21837970 AAAATTC-CGTGTTTTTAAA
1 AAAATTCTCGTGTTTTTAAA
21837989 AAAAT
1 AAAAT
21837994 ATTGTGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (20 bp):
AAAATTCTCGTGTTTTTAAA
Found at i:21842471 original size:21 final size:22
Alignment explanation
Indices: 21842437--21842482 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
21842427 CCAGTATTTC
*
21842437 TCTATATTGTCATCCCTATATT
1 TCTATATTGCCATCCCTATATT
21842459 TCTA-ATTGCCATCCCTATATT
1 TCTATATTGCCATCCCTATATT
21842480 TCT
1 TCT
21842483 CTTGTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (22 bp):
TCTATATTGCCATCCCTATATT
Found at i:21847017 original size:2 final size:2
Alignment explanation
Indices: 21846941--21846998 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
21846931 ACTGAAAATA
21846941 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21846983 AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG
21846999 CTTACAGATC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21855720 original size:31 final size:31
Alignment explanation
Indices: 21855685--21855757 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
21855675 CTCGACTAAC
21855685 CAATTTTTCTTACATTTAATCTTCAACTTAG
1 CAATTTTTCTTACATTTAATCTTCAACTTAG
*
21855716 CAATTTTTCTTACATTTGATCTTCAACTTAG
1 CAATTTTTCTTACATTTAATCTTCAACTTAG
21855747 CAATTTTTCTT
1 CAATTTTTCTT
21855758 GAAATCTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.51
Consensus pattern (31 bp):
CAATTTTTCTTACATTTAATCTTCAACTTAG
Found at i:21855974 original size:20 final size:20
Alignment explanation
Indices: 21855951--21855995 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
21855941 AATTTAAACT
*
21855951 TTTTTATTATTTTTT-TATAA
1 TTTTTA-TATTTTTTAAATAA
21855971 TTTTTATATTTTTTAAATAA
1 TTTTTATATTTTTTAAATAA
21855991 TTTTT
1 TTTTT
21855996 TAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTATATTTTTTAAATAA
Found at i:21873644 original size:81 final size:79
Alignment explanation
Indices: 21873469--21873653 Score: 196
Period size: 81 Copynumber: 2.3 Consensus size: 79
21873459 TCAACAGTAG
* *
21873469 AAATGGATGTAATTTAAACAAAATAATCAATTTGTTTTTTATCTAACATATAAGATTTAATTTAT
1 AAATGGATGTATTTTAAACAAAATAATCAATTTGTTTTTTATCTAACATATAAGAATTAATTTAT
*
21873534 CTATTTTTAATTAA
66 CAATTTTTAATTAA
* * * * * *
21873548 AAATAGATATAATTTTAAACAAAATTATCAGTTT-TTTTATTAATCTTACATA-GAGAATTAATT
1 AAATGGATGT-ATTTTAAACAAAATAATCAATTTGTTTT-TT-ATCTAACATATAAGAATTAATT
*
21873611 TGTCCAATTTTTGAA-TAA
63 TAT-CAATTTTT-AATTAA
*
21873629 AAATGGATGTGATTTTAAATAAAAT
1 AAATGGATGT-ATTTTAAACAAAAT
21873654 GACAAGTTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
79 12 0.14
80 33 0.38
81 40 0.46
82 2 0.02
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (79 bp):
AAATGGATGTATTTTAAACAAAATAATCAATTTGTTTTTTATCTAACATATAAGAATTAATTTAT
CAATTTTTAATTAA
Found at i:21880284 original size:2 final size:2
Alignment explanation
Indices: 21880277--21880313 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
21880267 AGGAAAAGAA
21880277 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
21880314 TTAAACCAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21884993 original size:18 final size:19
Alignment explanation
Indices: 21884943--21884995 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
21884933 TTATAAATAA
*
21884943 TAAATTTTAGAAAAATTAT
1 TAAATTTTATAAAAATTAT
21884962 TAAATTTTAATAAAAA-T-T
1 TAAATTTT-ATAAAAATTAT
21884980 TAAATTTTACTAAAAA
1 TAAATTTTA-TAAAAA
21884996 ATAGAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 1 0.03
18 15 0.48
19 9 0.29
20 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
TAAATTTTATAAAAATTAT
Found at i:21884997 original size:19 final size:19
Alignment explanation
Indices: 21884937--21884998 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
21884927 AAAAAATTAT
* *
21884937 AAATAATAAATTTTAGAAA
1 AAATATTAAATTTTATAAA
*
21884956 AATTATTAAATTTTA-ATAA
1 AAATATTAAATTTTATA-AA
21884975 AAAT-TTAAATTTTACTAAA
1 AAATATTAAATTTTA-TAAA
21884994 AAATA
1 AAATA
21884999 GAATTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 11 0.31
19 24 0.67
20 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATATTAAATTTTATAAA
Found at i:21885003 original size:18 final size:18
Alignment explanation
Indices: 21884937--21885005 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
21884927 AAAAAATTAT
21884937 AAATAATAAATTTTAGA-AA
1 AAAT-ATAAATTTTA-ATAA
*
21884956 AATTATTAAATTTTAATAA
1 AAATA-TAAATTTTAATAA
* *
21884975 AAATTTAAATTTTACTAA
1 AAATATAAATTTTAATAA
21884993 AAA-ATAGAATTTT
1 AAATATA-AATTTT
21885006 TTTTATAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 2 0.05
18 23 0.55
19 17 0.40
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (18 bp):
AAATATAAATTTTAATAA
Found at i:21885160 original size:17 final size:18
Alignment explanation
Indices: 21885129--21885162 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21885119 GCATATGGTG
21885129 AAAATTGATAAAAAAATA
1 AAAATTGATAAAAAAATA
*
21885147 AAAATT-ATAGAAAAAT
1 AAAATTGATAAAAAAAT
21885163 TATAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAATTGATAAAAAAATA
Found at i:21885218 original size:21 final size:21
Alignment explanation
Indices: 21885192--21885244 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
21885182 TACGATAATT
21885192 TTTATAATTTTTTT-TACAAAA
1 TTTATAATTTTTTTCTAC-AAA
*
21885213 TTTAT-ATTTTTTTCTACATA
1 TTTATAATTTTTTTCTACAAA
21885233 TTGTATAATTTT
1 TT-TATAATTTT
21885245 CTTACGACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 12 0.43
21 11 0.39
22 5 0.18
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTATAATTTTTTTCTACAAA
Found at i:21885374 original size:11 final size:11
Alignment explanation
Indices: 21885358--21885383 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21885348 TTTATTTTAA
21885358 TTTTTTATAAT
1 TTTTTTATAAT
21885369 TTTTTTATAAT
1 TTTTTTATAAT
21885380 TTTT
1 TTTT
21885384 AATAAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTATAAT
Found at i:21885380 original size:21 final size:20
Alignment explanation
Indices: 21885347--21885388 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
21885337 TATAGCTTTT
*
21885347 ATTTATTTTAATTTTTTATA
1 ATTTATTTTAATTTTTAATA
*
21885367 ATTTTTTTATAATTTTTAATA
1 ATTTATTT-TAATTTTTAATA
21885388 A
1 A
21885389 AAACATGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTATTTTAATTTTTAATA
Found at i:21885382 original size:9 final size:10
Alignment explanation
Indices: 21885355--21885388 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
21885345 TTATTTATTT
21885355 TAATTTTTTA
1 TAATTTTTTA
21885365 TAATTTTTTTA
1 TAA-TTTTTTA
*
21885376 TAATTTTTAA
1 TAATTTTTTA
21885386 TAA
1 TAA
21885389 AAACATGGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:21886848 original size:17 final size:14
Alignment explanation
Indices: 21886816--21886850 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
21886806 AAATATAAAA
21886816 TTATTTATATAATT
1 TTATTTATATAATT
21886830 TTATTATATATAATT
1 TTATT-TATATAATT
21886845 TT-TTTA
1 TTATTTA
21886851 ATTTTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 7 0.35
15 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTATATAATT
Found at i:21886860 original size:17 final size:18
Alignment explanation
Indices: 21886840--21886878 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
21886830 TTATTATATA
*
21886840 TAATTTTTTTAAT-TTTT
1 TAATTTTTCTAATATTTT
*
21886857 TAATTTTTCTATTATTTT
1 TAATTTTTCTAATATTTT
21886875 TAAT
1 TAAT
21886879 AGTGTTTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (18 bp):
TAATTTTTCTAATATTTT
Found at i:21892482 original size:215 final size:215
Alignment explanation
Indices: 21892111--21892542 Score: 864
Period size: 215 Copynumber: 2.0 Consensus size: 215
21892101 AAAAAAAAAG
21892111 AAAAAAAGCAAACAGATCAATAGAAAATGAAAATAATAATAAAATTGGAAACAAAAAGAATCAAA
1 AAAAAAAGCAAACAGATCAATAGAAAATGAAAATAATAATAAAATTGGAAACAAAAAGAATCAAA
21892176 CCTTTGATGAGATGAGGAAAATGATGGTAGGAGATAAATTGGGAATCTGAGGCAGGAGAATTTGG
66 CCTTTGATGAGATGAGGAAAATGATGGTAGGAGATAAATTGGGAATCTGAGGCAGGAGAATTTGG
21892241 AAGGTAAATAGATATTAGGGATTTTTCTTGGGGAGAAGAATTGAGAAGCTCTCAACTTTATACAC
131 AAGGTAAATAGATATTAGGGATTTTTCTTGGGGAGAAGAATTGAGAAGCTCTCAACTTTATACAC
21892306 GCCAACGAAGGGAAATGTGA
196 GCCAACGAAGGGAAATGTGA
21892326 AAAAAAAGCAAACAGATCAATAGAAAATGAAAATAATAATAAAATTGGAAACAAAAAGAATCAAA
1 AAAAAAAGCAAACAGATCAATAGAAAATGAAAATAATAATAAAATTGGAAACAAAAAGAATCAAA
21892391 CCTTTGATGAGATGAGGAAAATGATGGTAGGAGATAAATTGGGAATCTGAGGCAGGAGAATTTGG
66 CCTTTGATGAGATGAGGAAAATGATGGTAGGAGATAAATTGGGAATCTGAGGCAGGAGAATTTGG
21892456 AAGGTAAATAGATATTAGGGATTTTTCTTGGGGAGAAGAATTGAGAAGCTCTCAACTTTATACAC
131 AAGGTAAATAGATATTAGGGATTTTTCTTGGGGAGAAGAATTGAGAAGCTCTCAACTTTATACAC
21892521 GCCAACGAAGGGAAATGTGA
196 GCCAACGAAGGGAAATGTGA
21892541 AA
1 AA
21892543 CGCTAGGGCA
Statistics
Matches: 217, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
215 217 1.00
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.22
Consensus pattern (215 bp):
AAAAAAAGCAAACAGATCAATAGAAAATGAAAATAATAATAAAATTGGAAACAAAAAGAATCAAA
CCTTTGATGAGATGAGGAAAATGATGGTAGGAGATAAATTGGGAATCTGAGGCAGGAGAATTTGG
AAGGTAAATAGATATTAGGGATTTTTCTTGGGGAGAAGAATTGAGAAGCTCTCAACTTTATACAC
GCCAACGAAGGGAAATGTGA
Found at i:21893675 original size:158 final size:158
Alignment explanation
Indices: 21893447--21893769 Score: 493
Period size: 158 Copynumber: 2.0 Consensus size: 158
21893437 CAGGATTGCT
* * *
21893447 AACACTAGCTTGGTTCGATGCTACTAACATTAGCTTCAGAGAATTCGCAACATATGTTGGATCTC
1 AACACTAGCTTGGTTCGATGCTACTAACACTAGCTTCAAAGAATCCGCAACATATGTTGGATCTC
21893512 AAGCCATCAAATTAATTCCTGATCACAACACCCATTTATTCATACAAACTGATATACTCAGGCCG
66 AAGCCATCAAATTAATTCCTGATCACAACACCCATTTATTCATACAAACTGATATACTCAGGCCG
21893577 CTAACATTAGCTTCAAATCAAGGTCGCC
131 CTAACATTAGCTTCAAATCAAGGTCGCC
* * * *
21893605 AACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTTAAAGAATCCGCAACATATGTTGGATGTC
1 AACACTAGCTTGGTTCGATGCTACTAACACTAGCTTCAAAGAATCCGCAACATATGTTGGATCTC
* * * * * *
21893670 AAGCCATCGAATTAATTCTTGATCATAACACCCATTTATTCATACAGACTTATATACTCGGGCCG
66 AAGCCATCAAATTAATTCCTGATCACAACACCCATTTATTCATACAAACTGATATACTCAGGCCG
* * * *
21893735 CTAACATTAGCTTCAGATCAATGTTGCT
131 CTAACATTAGCTTCAAATCAAGGTCGCC
21893763 AACACTA
1 AACACTA
21893770 ACTTCAAAGA
Statistics
Matches: 148, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
158 148 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (158 bp):
AACACTAGCTTGGTTCGATGCTACTAACACTAGCTTCAAAGAATCCGCAACATATGTTGGATCTC
AAGCCATCAAATTAATTCCTGATCACAACACCCATTTATTCATACAAACTGATATACTCAGGCCG
CTAACATTAGCTTCAAATCAAGGTCGCC
Found at i:21894054 original size:33 final size:32
Alignment explanation
Indices: 21893994--21894055 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
21893984 CCGCCCATAT
**
21893994 TATTTTTTAATTTTTTTAAAATATTTATAATA
1 TATTTTTTAATTTTAATAAAATATTTATAATA
21894026 TATTATTTTAATATTTAATAAAAT-TTTATA
1 TATT-TTTTAAT-TTTAATAAAATATTTATA
21894056 TTTTTCTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 4 0.15
33 13 0.50
34 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
TATTTTTTAATTTTAATAAAATATTTATAATA
Found at i:21900782 original size:37 final size:37
Alignment explanation
Indices: 21900741--21900822 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
21900731 AAATATTTAT
* * *
21900741 TAATCAATGTTCAAACTTTGAACATGCTTTATTAAAC
1 TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
*
21900778 TAATCAATGCTAAAACTTTGAACATGCTTTAATGAAC
1 TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
21900815 TAATCAAT
1 TAATCAAT
21900823 ATATTTATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (37 bp):
TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
Found at i:21900902 original size:33 final size:33
Alignment explanation
Indices: 21900865--21900940 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
21900855 TTAAAACTTG
*
21900865 AATTATACATATACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
21900898 AATTATACATACACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
21900931 AATTATACAT
1 AATTATACAT
21900941 GCTTTATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (33 bp):
AATTATACATACACCAACAATTAATTTTAGGTC
Found at i:21904377 original size:121 final size:120
Alignment explanation
Indices: 21903963--21905186 Score: 2174
Period size: 121 Copynumber: 10.2 Consensus size: 120
21903953 TTTTCAAGTT
*
21903963 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
21904028 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
21904083 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
21904148 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
21904202 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
21904267 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAA
21904323 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
21904388 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
21904444 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
21904509 TAATATAA-AATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
21904562 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
21904627 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
21904682 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
21904747 TAATATAAGAATATT-ATCCAATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAA
21904803 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
21904868 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
21904923 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
21904988 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAA
21905044 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
21905109 TAATATAAGAATATTAATTATTAAGAGTTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
21905164 ATATATTCAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
21905187 TAAATATGAT
Statistics
Matches: 1072, Mismatches: 20, Indels: 24
0.96 0.02 0.02
Matches are distributed among these distances:
118 96 0.09
119 139 0.13
120 386 0.36
121 447 0.42
122 4 0.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:21904681 original size:18 final size:17
Alignment explanation
Indices: 21904653--21904687 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21904643 ATTATTAAGA
*
21904653 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21904670 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21904688 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21904874 original size:241 final size:241
Alignment explanation
Indices: 21903963--21905186 Score: 2221
Period size: 241 Copynumber: 5.1 Consensus size: 241
21903953 TTTTCAAGTT
*
21903963 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
21904028 TAATATAAGAATATTAAT--TATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTT
66 TAATATAAGAATATT-ATCCAATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTT
*
21904091 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAA
130 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
*
21904156 GAATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAA
195 GAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
21904202 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
21904267 TAATATAAGAATATTATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTA
66 TAATATAAGAATATTATCCAATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTA
21904332 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAG
131 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAG
* *
21904397 AATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
196 AATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
21904444 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
21904509 TAATATAA-AATATTAAT--TATTAAGAATTTT-TTAAATTATATAGTTTAATTAAAATATATTT
66 TAATATAAGAATATT-ATCCAATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTT
21904570 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
130 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
21904635 GAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
195 GAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
21904682 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
21904747 TAATATAAGAATATTATCCAATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTA
66 TAATATAAGAATATTATCCAATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTA
21904812 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAG
131 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAG
21904877 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
196 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
21904923 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
21904988 TAATATAAGAATATTATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTA
66 TAATATAAGAATATTATCCAATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTA
21905053 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAG
131 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAG
*
21905118 AATATTAATTATTAAGAGTTTTATTAAATTATATATTTTAATTAAA
196 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
21905164 ATATATTCAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
21905187 TAAATATGAT
Statistics
Matches: 953, Mismatches: 21, Indels: 20
0.96 0.02 0.02
Matches are distributed among these distances:
238 111 0.12
239 189 0.20
240 137 0.14
241 420 0.44
242 96 0.10
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (241 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTATCCAATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTA
ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAG
AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:21904922 original size:18 final size:17
Alignment explanation
Indices: 21904894--21904928 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21904884 ATTATTAAGA
*
21904894 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21904911 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21904929 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21905163 original size:18 final size:17
Alignment explanation
Indices: 21905136--21905169 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21905126 TTATTAAGAG
*
21905136 TTTTATTAAATTATATA
1 TTTTATTAAAATATATA
21905153 TTTTAATTAAAATATAT
1 TTTT-ATTAAAATATAT
21905170 TCAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATTAAAATATATA
Found at i:21905385 original size:44 final size:45
Alignment explanation
Indices: 21905336--21905426 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
21905326 ACCTCTATTC
* * *
21905336 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
21905380 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
21905425 CA
1 CA
21905427 CCTCTAATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:21905440 original size:17 final size:16
Alignment explanation
Indices: 21905407--21905459 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
21905397 GATTAGCTAT
21905407 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21905423 TACACCTCTAATTCCAA
1 TACACCTCTAA-TCCAA
*
21905440 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
21905456 TACA
1 TACA
21905460 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 19 0.56
17 15 0.44
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21915813 original size:20 final size:21
Alignment explanation
Indices: 21915786--21915831 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
21915776 AGGCTATTTC
21915786 CTTTTTTTTTCTTTTTGTGAA
1 CTTTTTTTTTCTTTTTGTGAA
21915807 CTTTTTTTTTCTTTTTGTGAA
1 CTTTTTTTTTCTTTTTGTGAA
21915828 CTTT
1 CTTT
21915832 GGCACAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.72
Consensus pattern (21 bp):
CTTTTTTTTTCTTTTTGTGAA
Found at i:21924001 original size:3 final size:3
Alignment explanation
Indices: 21923940--21923992 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
21923930 TTTGTTAACT
*
21923940 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
*
21923985 TTA GTA TT
1 TTA TTA TT
21923993 GGTATTATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 43 0.98
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:21924202 original size:36 final size:36
Alignment explanation
Indices: 21924123--21924202 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
21924113 AATTTGTTTA
* *
21924123 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
21924159 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
21924195 ATATATAT
1 ATATATAT
21924203 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:21936755 original size:62 final size:62
Alignment explanation
Indices: 21936653--21936777 Score: 187
Period size: 62 Copynumber: 2.0 Consensus size: 62
21936643 CTAAACTCGA
* * *
21936653 CGTACTTTTGGATTTTAGGAAATTTACTGTATGCAATGAAACGTAGTGTTGATGCATGAATG
1 CGTACTTTTGGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGAAGCATGAATG
* * * *
21936715 CGTATTTTTGGATTTTAGGAAATTTATTGCATGCGATGAAATGTAATGTTGAAGCATGAATG
1 CGTACTTTTGGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGAAGCATGAATG
21936777 C
1 C
21936778 AAAAAAAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.38
Consensus pattern (62 bp):
CGTACTTTTGGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGAAGCATGAATG
Found at i:21938699 original size:15 final size:15
Alignment explanation
Indices: 21938681--21938714 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21938671 GACAATTACG
* *
21938681 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
21938696 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
21938711 ATAA
1 ATAA
21938715 CAAAAGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:21938836 original size:22 final size:23
Alignment explanation
Indices: 21938814--21938873 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 23
21938804 AATGGACACA
21938814 TAAATAAATAAATAAATAA-ACA
1 TAAATAAATAAATAAATAATACA
21938836 TAAAGTAAA-ACAAT-AATAATA-A
1 TAAA-TAAATA-AATAAATAATACA
* *
21938858 TAAAGAAATGAATAAA
1 TAAATAAATAAATAAA
21938874 ATTATAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
21 6 0.19
22 17 0.55
23 8 0.26
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (23 bp):
TAAATAAATAAATAAATAATACA
Found at i:21939421 original size:14 final size:14
Alignment explanation
Indices: 21939402--21939428 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21939392 AAATAAAATA
21939402 TACATATATATATG
1 TACATATATATATG
21939416 TACATATATATAT
1 TACATATATATAT
21939429 ATAACTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (14 bp):
TACATATATATATG
Found at i:21946227 original size:33 final size:33
Alignment explanation
Indices: 21946185--21946252 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
21946175 AAATATTATA
*
21946185 ATCATAATAATTGGGGCCTACGAGACCCGATAC
1 ATCATAATAATTAGGGCCTACGAGACCCGATAC
21946218 ATCATAATAATTAGGGCCTACGAGACCCGATAC
1 ATCATAATAATTAGGGCCTACGAGACCCGATAC
21946251 AT
1 AT
21946253 ACTCATGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (33 bp):
ATCATAATAATTAGGGCCTACGAGACCCGATAC
Found at i:21946747 original size:46 final size:46
Alignment explanation
Indices: 21946644--21946795 Score: 247
Period size: 46 Copynumber: 3.4 Consensus size: 46
21946634 TACGTATGAT
* *
21946644 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
21946687 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
21946733 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGTTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
21946779 CACTTATCACTTTGTCA
1 CACTTATCACTTTGTCA
21946796 TTTATCACTG
Statistics
Matches: 102, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
43 10 0.10
44 5 0.05
45 20 0.20
46 67 0.66
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:21949618 original size:18 final size:17
Alignment explanation
Indices: 21949597--21949630 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21949587 AAAATATTAT
21949597 ATTAATAAGATTAAAATA
1 ATTAATAA-ATTAAAATA
*
21949615 ATTAATTAATTAAAAT
1 ATTAATAAATTAAAAT
21949631 TTTAAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
ATTAATAAATTAAAATA
Found at i:21951005 original size:21 final size:21
Alignment explanation
Indices: 21950963--21951010 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
21950953 ATTTTTATGA
* **
21950963 AATTAACATAAAATTTTTAAT
1 AATTAACATAAAACTTCAAAT
*
21950984 AATTAACATATAACTTCAAAT
1 AATTAACATAAAACTTCAAAT
21951005 AATTAA
1 AATTAA
21951011 TTGAAATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTAACATAAAACTTCAAAT
Found at i:21951521 original size:18 final size:19
Alignment explanation
Indices: 21951488--21951523 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21951478 GGATTTTTTA
*
21951488 TTTTAAATTTTTAAATTTG
1 TTTTAAATTATTAAATTTG
21951507 TTTTAAA-TATTAAATTT
1 TTTTAAATTATTAAATTT
21951524 TCATTCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTAAATTATTAAATTTG
Found at i:21958933 original size:22 final size:22
Alignment explanation
Indices: 21958902--21958944 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21958892 ATAAAACAAA
*
21958902 CTAAAGTTAAATAAAA-TAATAC
1 CTAAAATT-AATAAAATTAATAC
21958924 CTAAAATTAATAAAATTAATA
1 CTAAAATTAATAAAATTAATA
21958945 TAAACTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (22 bp):
CTAAAATTAATAAAATTAATAC
Found at i:21972105 original size:21 final size:24
Alignment explanation
Indices: 21972080--21972122 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
21972070 AATTTTGAAA
21972080 ATTTAAA-GGGC-TAAA-TAAATT
1 ATTTAAACGGGCTTAAACTAAATT
21972101 ATTTAAACGGGCTTAAACTAAA
1 ATTTAAACGGGCTTAAACTAAA
21972123 GACTTGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 4 0.21
24 4 0.21
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (24 bp):
ATTTAAACGGGCTTAAACTAAATT
Found at i:21979304 original size:30 final size:30
Alignment explanation
Indices: 21979260--21979320 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
21979250 TTTATTATGC
21979260 CAATATCTCGATACCCATATCTTTGACTTTT
1 CAATATCTCGATACCCATATCTTTGA-TTTT
*
21979291 CAATAT-TTGATACCCATATCTTTGATTTT
1 CAATATCTCGATACCCATATCTTTGATTTT
21979320 C
1 C
21979321 CATAAATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 5 0.17
30 18 0.62
31 6 0.21
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (30 bp):
CAATATCTCGATACCCATATCTTTGATTTT
Found at i:22015472 original size:3 final size:3
Alignment explanation
Indices: 22015464--22015499 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
22015454 GCAAAGCTGA
*
22015464 TTC TTC TTC TTC TTC TTC TTC TTC TTC GTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
22015500 CTTTTTCTTT
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:0.00, C:0.33, G:0.03, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:22018222 original size:23 final size:23
Alignment explanation
Indices: 22018187--22018254 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
22018177 AAAAAAAAGA
*
22018187 ATTGCTATCTTTTTTGTTGTTTT
1 ATTGCTATCTTTTTTATTGTTTT
* *
22018210 ATTGCTGTTTTTTTTATTGTTTT
1 ATTGCTATCTTTTTTATTGTTTT
* *
22018233 GA-TGCTAT-TTTCTTATTATTTT
1 -ATTGCTATCTTTTTTATTGTTTT
22018255 CTCATTGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 12 0.32
23 25 0.66
24 1 0.03
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.69
Consensus pattern (23 bp):
ATTGCTATCTTTTTTATTGTTTT
Found at i:22020609 original size:31 final size:31
Alignment explanation
Indices: 22020574--22020700 Score: 132
Period size: 31 Copynumber: 4.1 Consensus size: 31
22020564 AAGTTGAATT
22020574 GTTGGGTGACCAAAAAAGAAATTTACTAATA
1 GTTGGGTGACCAAAAAAGAAATTTACTAATA
*
22020605 GTTGGGTGACTAAAAAAGTAAATTTACTAATA
1 GTTGGGTGACCAAAAAAG-AAATTTACTAATA
* * **** * * **
22020637 GATGAGTGACC-ATTTTGTAATTT-TTCGTA
1 GTTGGGTGACCAAAAAAGAAATTTACTAATA
22020666 GTTGGGTGACCAAAAAAGAAATTTACTAATA
1 GTTGGGTGACCAAAAAAGAAATTTACTAATA
22020697 GTTG
1 GTTG
22020701 AGTGCCTTCT
Statistics
Matches: 71, Mismatches: 22, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
29 12 0.17
30 12 0.17
31 26 0.37
32 21 0.30
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (31 bp):
GTTGGGTGACCAAAAAAGAAATTTACTAATA
Found at i:22022628 original size:50 final size:50
Alignment explanation
Indices: 22022498--22022746 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
22022488 GATAATAACA
* * ** * *
22022498 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
22022549 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
22022599 CGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
22022649 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
22022704 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
22022747 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:22022675 original size:100 final size:104
Alignment explanation
Indices: 22022499--22022746 Score: 344
Period size: 100 Copynumber: 2.4 Consensus size: 104
22022489 ATAATAACAT
**
22022499 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGTC
1 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATGTC
* *
22022564 CCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG-C
65 CCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGGAC
* *
22022600 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATGTC
1 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATGTC
*
22022664 CCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGAT
65 CCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGGAC
* *
22022706 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22022747 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (104 bp):
GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGTCC
CAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGGAC
Found at i:22022862 original size:13 final size:13
Alignment explanation
Indices: 22022841--22022872 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
22022831 GCTTGGATCA
*
22022841 TCATCAAATAAAT
1 TCATAAAATAAAT
22022854 TCATAAAATAAAT
1 TCATAAAATAAAT
22022867 TCATAA
1 TCATAA
22022873 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:22023119 original size:30 final size:30
Alignment explanation
Indices: 22023084--22023140 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
22023074 CCTCGACTCT
*
22023084 AACTTTTTCAAAATTACAATTTTGCCCTTA
1 AACTTTTACAAAATTACAATTTTGCCCTTA
* *
22023114 AACTTTTACATAATTACATTTTTGCCC
1 AACTTTTACAAAATTACAATTTTGCCC
22023141 CAAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.44
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCTTA
Found at i:22030219 original size:50 final size:50
Alignment explanation
Indices: 22030089--22030337 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
22030079 AATAATAACA
* * ** * *
22030089 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
22030140 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
22030190 CGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
22030240 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
22030295 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
22030338 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:22030266 original size:100 final size:104
Alignment explanation
Indices: 22030090--22030337 Score: 344
Period size: 100 Copynumber: 2.4 Consensus size: 104
22030080 ATAATAACAT
**
22030090 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGTC
1 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATGTC
* *
22030155 CCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG-C
65 CCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGGAC
* *
22030191 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATGTC
1 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATGTC
*
22030255 CCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGAT
65 CCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGGAC
* *
22030297 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22030338 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (104 bp):
GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGTCC
CAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGGAC
Found at i:22030453 original size:13 final size:13
Alignment explanation
Indices: 22030432--22030463 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
22030422 GCTTGGATCA
*
22030432 TCATCAAATAAAT
1 TCATAAAATAAAT
22030445 TCATAAAATAAAT
1 TCATAAAATAAAT
22030458 TCATAA
1 TCATAA
22030464 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:22030709 original size:30 final size:30
Alignment explanation
Indices: 22030675--22030732 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
22030665 CCTCGACTCT
*
22030675 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
22030705 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
22030733 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:22032363 original size:21 final size:20
Alignment explanation
Indices: 22032333--22032380 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
22032323 TTTGTGGTGA
* *
22032333 AAATTAATAAATTTTAATAT
1 AAATTAATAAATATAAATAT
*
22032353 ATATTATATAAATATAAATAT
1 AAATTA-ATAAATATAAATAT
22032374 AAATTAA
1 AAATTAA
22032381 AATAATAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATTAATAAATATAAATAT
Found at i:22034588 original size:16 final size:16
Alignment explanation
Indices: 22034567--22034600 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
22034557 TGGTTCGCTA
22034567 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
22034583 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
22034599 TA
1 TA
22034601 ATAGCAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TATTGGATTAGAGGTG
Found at i:22034859 original size:18 final size:17
Alignment explanation
Indices: 22034838--22034872 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22034828 TTATTATTAA
*
22034838 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22034856 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22034873 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22034929 original size:24 final size:24
Alignment explanation
Indices: 22034889--22034967 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 24
22034879 TAATTAGCAG
*
22034889 AAAT-TTGTT-TTGGTAAATTATT
1 AAATATTGTTATTGTTAAATTATT
22034911 AAATATTGTTATTGTTAAA-TATT
1 AAATATTGTTATTGTTAAATTATT
** *
22034934 -GTTATTGTTA-T-TTAATATATAAT
1 AAATATTGTTATTGTTAA-AT-TATT
22034957 AAATATTGTTA
1 AAATATTGTTA
22034968 ATAATTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 4 0.09
21 2 0.04
22 12 0.27
23 12 0.27
24 15 0.33
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (24 bp):
AAATATTGTTATTGTTAAATTATT
Found at i:22034930 original size:16 final size:16
Alignment explanation
Indices: 22034909--22034943 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22034899 TGGTAAATTA
22034909 TTAAATATTGTTATTG
1 TTAAATATTGTTATTG
22034925 TTAAATATTGTTATTG
1 TTAAATATTGTTATTG
22034941 TTA
1 TTA
22034944 TTTAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (16 bp):
TTAAATATTGTTATTG
Found at i:22035115 original size:16 final size:16
Alignment explanation
Indices: 22035078--22035119 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22035068 TTAATCATAT
*
22035078 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
22035094 TT-AAATATATTATAA
1 TTAAAATATATTATAA
22035109 TTAAAATATAT
1 TTAAAATATAT
22035120 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:22035126 original size:14 final size:15
Alignment explanation
Indices: 22035087--22035128 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22035077 TTTAAACATA
*
22035087 ATTATTATTAAATAT
1 ATTATAATTAAATAT
22035102 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
22035116 A-TATAATTTAATA
1 ATTATAATTAAATA
22035129 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:22035215 original size:120 final size:121
Alignment explanation
Indices: 22035076--22035373 Score: 489
Period size: 120 Copynumber: 2.5 Consensus size: 121
22035066 TTTTAATCAT
*
22035076 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
22035141 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTA-AAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATA--GTATAAATGA-AA
*
22035198 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTGATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
22035261 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATAGTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATAGTATAAATGAAA
* * *
22035317 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATTATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
22035374 TAAAATAATT
Statistics
Matches: 168, Mismatches: 4, Indels: 10
0.92 0.02 0.05
Matches are distributed among these distances:
118 3 0.02
119 7 0.04
120 153 0.91
121 4 0.02
122 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATAGTATAAATGAAA
Found at i:22035246 original size:14 final size:15
Alignment explanation
Indices: 22035197--22035248 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22035187 GTAAAATATA
22035197 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
22035212 TATTAAATATATTAT
1 AATTAAATATATTAT
22035227 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
22035240 AATTTAATA
1 AATTAAATA
22035249 AAATTCTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:22035386 original size:28 final size:27
Alignment explanation
Indices: 22035308--22035386 Score: 65
Period size: 28 Copynumber: 2.9 Consensus size: 27
22035298 TATGATAGTA
*
22035308 TAAATGAAAATTTGAAATAATTA-ATAT
1 TAAAT-AAAATTTAAAATAATTATATAT
* *
22035335 TAAATATATTTTAATTAA-AA-TATATTAT
1 TAAATAAAATTTAA--AATAATTATA-TAT
*
22035363 TTAATAAAATTTAAAATAATTATA
1 TAAATAAAATTTAAAATAATTATA
22035387 ACTAATAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
26 10 0.25
27 10 0.25
28 20 0.50
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (27 bp):
TAAATAAAATTTAAAATAATTATATAT
Found at i:22039034 original size:25 final size:25
Alignment explanation
Indices: 22038979--22039181 Score: 208
Period size: 25 Copynumber: 8.2 Consensus size: 25
22038969 TTTAAATTTA
* * *
22038979 TTTATTAAAATATTAAAATTTCTTGATT
1 TTTAATAAAATATT-AAAGTCCTT-A-T
22039007 TTTAATAAAATATTAAAGTCCTTAT
1 TTTAATAAAATATTAAAGTCCTTAT
* *
22039032 TTTAAT-TATTGATT--AGTCCTTAT
1 TTTAATAAAAT-ATTAAAGTCCTTAT
22039055 TTTAATAAAATATTAAAGTCCTTAT
1 TTTAATAAAATATTAAAGTCCTTAT
* *
22039080 TTTAAT-TATTGATT--AGTCCTTAT
1 TTTAATAAAAT-ATTAAAGTCCTTAT
22039103 TTTAATAAAATATTAAAGTCCTTAT
1 TTTAATAAAATATTAAAGTCCTTAT
* *
22039128 TTTAAT-TATTGATT--AGTCCTTAT
1 TTTAATAAAAT-ATTAAAGTCCTTAT
22039151 TTTAATAAAATATTAAAGTCCTTAT
1 TTTAATAAAATATTAAAGTCCTTAT
22039176 TTTAAT
1 TTTAAT
22039182 TATTGATGTA
Statistics
Matches: 148, Mismatches: 15, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
23 54 0.36
24 12 0.08
25 61 0.41
26 1 0.01
27 7 0.05
28 13 0.09
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.50
Consensus pattern (25 bp):
TTTAATAAAATATTAAAGTCCTTAT
Found at i:22039053 original size:23 final size:24
Alignment explanation
Indices: 22039022--22039188 Score: 184
Period size: 23 Copynumber: 7.0 Consensus size: 24
22039012 TAAAATATTA
22039022 AAGTCCTTATTTTAATTATTGATT
1 AAGTCCTTATTTTAATTATTGATT
* *
22039046 -AGTCCTTATTTTAATAAAAT-ATT
1 AAGTCCTTATTTTAAT-TATTGATT
22039069 AAAGTCCTTATTTTAATTATTGATT
1 -AAGTCCTTATTTTAATTATTGATT
* *
22039094 -AGTCCTTATTTTAATAAAAT-ATT
1 AAGTCCTTATTTTAAT-TATTGATT
22039117 AAAGTCCTTATTTTAATTATTGATT
1 -AAGTCCTTATTTTAATTATTGATT
* *
22039142 -AGTCCTTATTTTAATAAAAT-ATT
1 AAGTCCTTATTTTAAT-TATTGATT
22039165 AAAGTCCTTATTTTAATTATTGAT
1 -AAGTCCTTATTTTAATTATTGAT
22039189 GTAATTTTTA
Statistics
Matches: 119, Mismatches: 12, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
23 54 0.45
24 12 0.10
25 53 0.45
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.50
Consensus pattern (24 bp):
AAGTCCTTATTTTAATTATTGATT
Found at i:22039058 original size:48 final size:48
Alignment explanation
Indices: 22039006--22039188 Score: 366
Period size: 48 Copynumber: 3.8 Consensus size: 48
22038996 ATTTCTTGAT
22039006 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
22039054 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
22039102 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
22039150 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT
22039189 GTAATTTTTA
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 135 1.00
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (48 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
Found at i:22043404 original size:6 final size:6
Alignment explanation
Indices: 22043393--22043418 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
22043383 AGGTTATGGT
22043393 GGTGGC GGTGGC GGTGGC GGTGGC GG
1 GGTGGC GGTGGC GGTGGC GGTGGC GG
22043419 AGGTAGTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.69, T:0.15
Consensus pattern (6 bp):
GGTGGC
Found at i:22044548 original size:14 final size:14
Alignment explanation
Indices: 22044527--22044560 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
22044517 TGGTATGGGT
22044527 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
22044540 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
22044554 TTATAGG
1 TTATAGG
22044561 CAAATAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:22044715 original size:24 final size:25
Alignment explanation
Indices: 22044688--22044737 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
22044678 AGAGAAAAGT
22044688 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
22044712 TTAAATTACTTAAAACGAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
22044737 T
1 T
22044738 ATGGGATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.20
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:22046382 original size:36 final size:36
Alignment explanation
Indices: 22046342--22046421 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
22046332 TTTTAACCCC
* *
22046342 TAACTTTTCTAC-TCTTTTAAATTTTAAACTGAATTT
1 TAACTTTTCTACGT-TTTAAAAGTTTAAACTGAATTT
*
22046378 TAACTTTTCTACGTTTTAAAAGTTTACACTGAATTT
1 TAACTTTTCTACGTTTTAAAAGTTTAAACTGAATTT
22046414 TAACTTTT
1 TAACTTTT
22046422 TTTTTTGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 39 0.98
37 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (36 bp):
TAACTTTTCTACGTTTTAAAAGTTTAAACTGAATTT
Found at i:22063850 original size:20 final size:20
Alignment explanation
Indices: 22063813--22063862 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
22063803 TAATACTTAT
* *
22063813 CTTAATACT-ATTTTATTAA
1 CTTAATATTAATTTGATTAA
*
22063832 CTTAATATTAATTTGATTAT
1 CTTAATATTAATTTGATTAA
*
22063852 CTTATTATTAA
1 CTTAATATTAA
22063863 AATTAATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.54
Consensus pattern (20 bp):
CTTAATATTAATTTGATTAA
Found at i:22066366 original size:20 final size:20
Alignment explanation
Indices: 22066341--22066384 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
22066331 TTTAGACTAA
22066341 TTGGTAAGAGGCCTTTCTAT
1 TTGGTAAGAGGCCTTTCTAT
22066361 TTGGTAAGAGGCCTTTCTAT
1 TTGGTAAGAGGCCTTTCTAT
22066381 TTGG
1 TTGG
22066385 GCAATTTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.41
Consensus pattern (20 bp):
TTGGTAAGAGGCCTTTCTAT
Found at i:22066906 original size:123 final size:124
Alignment explanation
Indices: 22066687--22067035 Score: 567
Period size: 123 Copynumber: 2.8 Consensus size: 124
22066677 TTATTTCAAG
22066687 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGT
* * * *
22066751 GAAATTGCGCCATTGTGGACGTGATTTTGCTACAGTAGGTCATGTAAGAAAT-AATTTTT
65 GAAATCGCGCCATCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAAATTTT
* * *
22066810 TTGACGTTTCTGAGCAAATAGTATAAAATTGGCTCTACCAAGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
22066875 AAATCGCGCCCTCGTGGACACGATTTTGCTACAGTAGGTCATGTAAGAAATAAAATTTT
66 AAATCGCGCCATCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAAATTTT
*
22066934 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGGGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
**
22066999 AAATCGCGTTATCGTGGACGCGATTTTGCTACAGTAG
66 AAATCGCGCCATCGTGGACGCGATTTTGCTACAGTAG
22067036 CAAGTTTGGG
Statistics
Matches: 207, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
123 106 0.51
124 101 0.49
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCATCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAAATTTT
Found at i:22069524 original size:29 final size:29
Alignment explanation
Indices: 22069465--22069723 Score: 172
Period size: 29 Copynumber: 8.9 Consensus size: 29
22069455 TATGCAGGCC
**
22069465 AGGGTTAGGGTTTTTAATTAGGTTAGGGTT
1 AGGGTTAGGGTTTTTAATTAAATTA-GGTT
22069495 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
22069524 AGGGTTAAGGTTTTTAATT--A--A-GTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
**
22069548 AGGGTT----TTTAATTAAGTTAGGTTAGGGTT
1 AGGGTTAGGGTTT--TTAA-TTAAATTA-GGTT
*
22069577 A--G----GGTTTTTAATTAAGTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
22069600 AGGGTTAGGGTTTTTAGGGTTTAAGATTTTTA-ATT
1 AGGGTTAGGGTTTTTA---ATTAA-A---TTAGGTT
*
22069635 AAGTTAGGTTAGGGTTTTTAATTAAATTAGGTT
1 -AG--GG-TTAGGGTTTTTAATTAAATTAGGTT
22069668 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
22069697 AGGGTTAGGGTTTTTAATTAAGTTAGG
1 AGGGTTAGGGTTTTTAATTAAATTAGG
22069724 GTTTTTAATT
Statistics
Matches: 187, Mismatches: 13, Indels: 59
0.72 0.05 0.23
Matches are distributed among these distances:
20 3 0.02
22 4 0.02
23 7 0.04
24 16 0.09
25 6 0.03
27 6 0.03
29 85 0.45
30 24 0.13
32 9 0.05
33 2 0.01
35 3 0.02
36 9 0.05
38 1 0.01
39 12 0.06
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:22069553 original size:18 final size:18
Alignment explanation
Indices: 22069527--22069568 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
22069517 TTAGGTTAGG
*
22069527 GTTAAGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
22069545 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
22069563 GTTAGG
1 GTTAGG
22069569 TTAGGGTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:22069669 original size:97 final size:97
Alignment explanation
Indices: 22069537--22069749 Score: 322
Period size: 97 Copynumber: 2.2 Consensus size: 97
22069527 GTTAAGGTTT
* * *
22069537 TTAA-TTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTA
1 TTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
*
22069601 GGGTTAGGGTTTTTAGGGT-TTAAGATTTTTAA
66 GGGTTAGGGTTTTTA-AGTATTAAGATTTTTAA
22069633 TTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
1 TTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
* * *
22069698 GGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAA
66 GGGTTAGGGTTTTTAAGT-A-TTAAGATTTTTAA
22069732 TTAAGTTAGGTTAGGGTT
1 TTAAGTTAGGTTAGGGTT
22069750 AGGGTTTTTA
Statistics
Matches: 106, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
96 5 0.05
97 72 0.68
99 29 0.27
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.46
Consensus pattern (97 bp):
TTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
GGGTTAGGGTTTTTAAGTATTAAGATTTTTAA
Found at i:22069725 original size:47 final size:47
Alignment explanation
Indices: 22069574--22069788 Score: 229
Period size: 47 Copynumber: 4.5 Consensus size: 47
22069564 TTAGGTTAGG
**
22069574 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTT-A--GG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
* * **** * * *
22069618 GTTTAAGATTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 G-TTAGGGTTTTTAATTAAGTTAGGTTAGGG-TTAGGGTT--TTTA-ATTA-A
*
22069671 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
22069718 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
* *
22069765 GTTAGGGTTTTTAAATAAATTAGG
1 GTTAGGGTTTTTAATTAAGTTAGG
22069789 GTTTTTATTA
Statistics
Matches: 140, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
44 1 0.01
45 27 0.19
46 4 0.03
47 68 0.49
48 5 0.04
49 3 0.02
51 4 0.03
52 26 0.19
53 2 0.01
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (47 bp):
GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:22069733 original size:144 final size:144
Alignment explanation
Indices: 22069492--22069759 Score: 384
Period size: 144 Copynumber: 1.9 Consensus size: 144
22069482 TTAGGTTAGG
* *
22069492 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAGGGTTTTT
1 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGGTTGTT
* *
22069557 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAGGGTTT
66 AATT-AGTTAGATTAGAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAGGGTTT
22069622 AAGATTTTTAATTAA
130 AAGATTTTTAATTAA
*
22069637 GTTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA-GGTTAGG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGGTT---
* *
22069700 GTTAGGGTT-TTTA-ATTA-AGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTA
63 GTTA--ATTAGTTAGATTAGAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTA
22069760 ATTAAGTTAG
Statistics
Matches: 111, Mismatches: 7, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
143 4 0.04
144 92 0.83
145 7 0.06
146 6 0.05
148 2 0.02
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (144 bp):
GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGGTTGTT
AATTAGTTAGATTAGAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAGGGTTTA
AGATTTTTAATTAA
Found at i:22069743 original size:17 final size:18
Alignment explanation
Indices: 22069700--22069795 Score: 107
Period size: 18 Copynumber: 5.7 Consensus size: 18
22069690 TTAGGTTAGG
22069700 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
22069718 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
22069736 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
22069747 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
22069765 GTTAGGGTTTTTAAATAA
1 GTTAGGGTTTTTAATTAA
*
22069783 ATTAGGGTTTTTA
1 GTTAGGGTTTTTA
22069796 TTACATCAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
11 4 0.06
12 2 0.03
13 1 0.02
14 2 0.03
15 2 0.03
16 1 0.02
17 2 0.03
18 51 0.78
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:22069843 original size:25 final size:26
Alignment explanation
Indices: 22069791--22069854 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
22069781 AAATTAGGGT
* *
22069791 TTTTATTACATCAAATTGAACTTCTA
1 TTTTATTACATCAAATTAAACTTATA
* *
22069817 TTTTATTATATTAAA-TAAACTTATA
1 TTTTATTACATCAAATTAAACTTATA
22069842 TTTTATTACATCA
1 TTTTATTACATCA
22069855 GATAATAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 19 0.59
26 13 0.41
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (26 bp):
TTTTATTACATCAAATTAAACTTATA
Found at i:22070290 original size:18 final size:18
Alignment explanation
Indices: 22070263--22070297 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22070253 CTGAAAAGGA
* *
22070263 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
22070281 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
22070298 AAACGCACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:22070959 original size:7 final size:7
Alignment explanation
Indices: 22070949--22070973 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22070939 TTATATACAT
22070949 AATACTA
1 AATACTA
22070956 AATACTA
1 AATACTA
22070963 AATACTA
1 AATACTA
22070970 AATA
1 AATA
22070974 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:22074532 original size:40 final size:40
Alignment explanation
Indices: 22074485--22074573 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
22074475 GAAATTGAGG
22074485 GGAAATTGAAATTAAATATGGATTTAAGAGAATTTTGGAA
1 GGAAATTGAAATTAAATATGGATTTAAGAGAATTTTGGAA
* *
22074525 GGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAA
1 GGAAATTGAAATTAAATATGGATTTAAGAGAATTTTGGAA
22074565 GGAAATTGA
1 GGAAATTGA
22074574 GAGGATTAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.31
Consensus pattern (40 bp):
GGAAATTGAAATTAAATATGGATTTAAGAGAATTTTGGAA
Found at i:22075215 original size:17 final size:17
Alignment explanation
Indices: 22075193--22075244 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
22075183 TAGTAAATAC
22075193 CTATTTTCGTAATTAAT
1 CTATTTTCGTAATTAAT
*
22075210 CTATTTTC--CA-T-AT
1 CTATTTTCGTAATTAAT
22075223 CT-TTTTCGTAATTAAT
1 CTATTTTCGTAATTAAT
22075239 -TATTTT
1 CTATTTT
22075245 TTATATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
12 5 0.18
13 4 0.14
14 2 0.07
15 3 0.11
16 6 0.21
17 8 0.29
ACGTcount: A:0.25, C:0.13, G:0.04, T:0.58
Consensus pattern (17 bp):
CTATTTTCGTAATTAAT
Found at i:22081706 original size:29 final size:29
Alignment explanation
Indices: 22081684--22081739 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
22081674 CTCTGTTTGT
* *
22081684 TTGAAGCACTTCGGTGCTACTCTGTTCAG
1 TTGAAGCACTTCAGTGCCACTCTGTTCAG
*
22081713 TTGAAGCATTTCAGTGCCACTCTGTTC
1 TTGAAGCACTTCAGTGCCACTCTGTTC
22081740 TAATAAAGCC
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:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (29 bp):
TTGAAGCACTTCAGTGCCACTCTGTTCAG
Found at i:22088092 original size:320 final size:319
Alignment explanation
Indices: 22087510--22088150 Score: 921
Period size: 320 Copynumber: 2.0 Consensus size: 319
22087500 AACCGAAGGT
* * * *
22087510 CAAGATTACAATACATCGATAGACGAGATTCATCCTATCTTTTAAATCATGGGATTTACAAGATA
1 CAAGATTACAATACATCGAGAGACGAGATTCATCCTATCCTTTAAATCATGAGATTTACAAGACA
*
22087575 TGCCATATCAAATCAAATCAAATCTTTACAAGATATGATTCTATCAATCTTCTAATATTAGTTAC
66 TGCCATATCAAATCAAATCAAATCTTTACAAGATATGATTCTATCAATCTTCTAAGATTAGTTAC
22087640 CAAAATAGCCTAAATTGCCATATCTTCATTATCGGGCCAACCAAGCTTCAATCTAATGGGCTTCT
131 CAAAATAGCCTAAATTGCCATATCTTCATTATCGGGCCAACCAAGCTTCAATCTAAT-GGCTTCT
* * * *
22087705 CCAATAAGTTACCGAATCAGGCCAGTTCTTACGGGCCAAATGATCCTTATCTACATAATAGACCT
195 CCAACAAGTTACCAAATCAGGCCAGTTCTTACGGGCCAAATGATCCTCATCTACACAATAGACCT
* * *
22087770 TCATTGGATGCATTTGGTGCGATGCTCACAAG-CTTTGAACTCTGGCCCGTGACATTCTCC
260 TCATCGGATGCATTTGGTGAGATGCTCA-AAGACTTTGAACTCCGGCCCGTGACATTCTCC
* **
22087830 CAAGATTACAATACATCGACGA-ACGAGATTCTTCCTATCCTTTAAATCATGAGATTTATGAGAC
1 CAAGATTACAATACATCGA-GAGACGAGATTCATCCTATCCTTTAAATCATGAGATTTACAAGAC
* * *
22087894 ATGTCATATGAAATCTAAT-ATAATCTTTACAAGATATGATTCTATCAATCTTCTAAGATTAGTT
65 ATGCCATATCAAATCAAATCA-AATCTTTACAAGATATGATTCTATCAATCTTCTAAGATTAGTT
* * * * * * * * *
22087958 ACCGAAATAGCCTAAGTTGTCATATTTTTATTATCGGGCTAACCAGGCTTTAATCTGGCAT-GCT
129 ACCAAAATAGCCTAAATTGCCATATCTTCATTATCGGGCCAACCAAGCTTCAATCT--AATGGCT
*
22088022 TCTCTAACAAGTTACCAAATCAGGCCAGTTCTTACGGGCCAAATGATCCTCATCTACACAATAGA
192 TCTCCAACAAGTTACCAAATCAGGCCAGTTCTTACGGGCCAAATGATCCTCATCTACACAATAGA
* * *
22088087 CCTTCATCGGATGCATTTGGTGAGATGGTCATAGACTTTGAACTCCGGCCCTTGACATTCTCC
257 CCTTCATCGGATGCATTTGGTGAGATGCTCAAAGACTTTGAACTCCGGCCCGTGACATTCTCC
22088150 C
1 C
22088151 CCACCCATTC
Statistics
Matches: 285, Mismatches: 31, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
319 3 0.01
320 279 0.98
321 1 0.00
322 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (319 bp):
CAAGATTACAATACATCGAGAGACGAGATTCATCCTATCCTTTAAATCATGAGATTTACAAGACA
TGCCATATCAAATCAAATCAAATCTTTACAAGATATGATTCTATCAATCTTCTAAGATTAGTTAC
CAAAATAGCCTAAATTGCCATATCTTCATTATCGGGCCAACCAAGCTTCAATCTAATGGCTTCTC
CAACAAGTTACCAAATCAGGCCAGTTCTTACGGGCCAAATGATCCTCATCTACACAATAGACCTT
CATCGGATGCATTTGGTGAGATGCTCAAAGACTTTGAACTCCGGCCCGTGACATTCTCC
Found at i:22091034 original size:50 final size:50
Alignment explanation
Indices: 22090845--22091085 Score: 378
Period size: 50 Copynumber: 4.8 Consensus size: 50
22090835 GATAATAACA
** * *
22090845 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTAATGTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* * *
22090896 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
22090945 TGCCAAAGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
22090994 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
22091044 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22091086 TTACCCAAAT
Statistics
Matches: 177, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
48 16 0.09
49 50 0.28
50 82 0.46
51 29 0.16
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:22091036 original size:99 final size:99
Alignment explanation
Indices: 22090845--22091085 Score: 385
Period size: 99 Copynumber: 2.4 Consensus size: 99
22090835 GATAATAACA
** * * *
22090845 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTAATGTCGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTAATCTCGGTGCCAACGCCATGT
22090910 CCCAGACATGGTCTTACGGGGACCTCTCATCTCGG
65 CCCAGACATGGTCTTACGGGGACCTCTCATCTCGG
*
22090945 TGCCAAAGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGGTGCCAACGCCATGTC
*
22091009 CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
66 CCAGACATGGTCTTAC-GGGGACCTCTCATCTCGG
*
22091044 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22091086 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
98 37 0.28
99 53 0.40
100 41 0.31
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (99 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGGTGCCAACGCCATGTC
CCAGACATGGTCTTACGGGGACCTCTCATCTCGG
Found at i:22091201 original size:13 final size:13
Alignment explanation
Indices: 22091180--22091210 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22091170 GCTTGGATAA
22091180 TCATAAAATAAAT
1 TCATAAAATAAAT
*
22091193 TCATGAAATAAAT
1 TCATAAAATAAAT
22091206 TCATA
1 TCATA
22091211 GTTGCTGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:22091473 original size:29 final size:29
Alignment explanation
Indices: 22091423--22091478 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
22091413 CCTCGACTCT
* *
22091423 AACTTTTTCAAAATTATGATTTTACCCCTA
1 AACTTTTGCAAAATTATCATTTT-CCCCTA
*
22091453 AACTTTTGCATAATTA-CATTTTCCCC
1 AACTTTTGCAAAATTATCATTTTCCCC
22091479 AAGGCTCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (29 bp):
AACTTTTGCAAAATTATCATTTTCCCCTA
Found at i:22092406 original size:5 final size:5
Alignment explanation
Indices: 22092396--22092467 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
22092386 GTGTTAAAAA
* *
22092396 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATTATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT A-TATT
22092442 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
22092468 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 32 0.57
6 11 0.20
7 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:22092449 original size:19 final size:19
Alignment explanation
Indices: 22092425--22092467 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
22092415 ATTATGTTTT
22092425 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
22092444 TATATTATATTATATTATA
1 TATATTATATTATATTATA
22092463 TATAT
1 TATAT
22092468 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:22092499 original size:17 final size:17
Alignment explanation
Indices: 22092477--22092510 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22092467 TACATAAAAC
*
22092477 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
22092494 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
22092511 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:22092506 original size:9 final size:9
Alignment explanation
Indices: 22092477--22092510 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
22092467 TACATAAAAC
22092477 AAAAGAAAG
1 AAAAGAAAG
*
22092486 AATAGAAA-
1 AAAAGAAAG
22092494 AAAAGAAAG
1 AAAAGAAAG
22092503 AAAAGAAA
1 AAAAGAAA
22092511 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:22093475 original size:44 final size:45
Alignment explanation
Indices: 22093380--22093513 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
22093370 ACAGGACAGA
* *
22093380 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
22093426 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
22093470 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
22093514 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:22098552 original size:5 final size:5
Alignment explanation
Indices: 22098542--22098613 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
22098532 TGTTAAAAAA
* *
22098542 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATTATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT A-TATT
22098588 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
22098614 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 32 0.57
6 11 0.20
7 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:22098595 original size:19 final size:19
Alignment explanation
Indices: 22098571--22098613 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
22098561 ATTATGTTTT
22098571 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
22098590 TATATTATATTATATTATA
1 TATATTATATTATATTATA
22098609 TATAT
1 TATAT
22098614 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:22098646 original size:18 final size:19
Alignment explanation
Indices: 22098618--22098657 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
22098608 ATATATACAT
*
22098618 AAAACAAAAGAAAGAATAG
1 AAAACAAAAGAAAGAAAAG
22098637 AAAA-AAAAGAAAGAAAAG
1 AAAACAAAAGAAAGAAAAG
22098655 AAA
1 AAA
22098658 CAGAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAACAAAAGAAAGAAAAG
Found at i:22099622 original size:44 final size:45
Alignment explanation
Indices: 22099527--22099660 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
22099517 ACAGGACAGA
* *
22099527 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
22099573 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
22099617 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
22099661 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:22102999 original size:4 final size:4
Alignment explanation
Indices: 22102990--22103069 Score: 160
Period size: 4 Copynumber: 20.0 Consensus size: 4
22102980 TACCAGATAT
22102990 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
22103038 CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
22103070 TGAAACTTTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 76 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Done.