Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 77 of 199
Found at i:21987358 original size:19 final size:19
Alignment explanation
Indices: 21987338--21987375 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
21987328 GTTTTTTTTA
21987338 AAAATAT-TTTTAAAATTT
1 AAAATATATTTTAAAATTT
21987356 AAAATATGATTTTAAAATTT
1 AAAATAT-ATTTTAAAATTT
21987376 CTTAAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AAAATATATTTTAAAATTT
Found at i:21987539 original size:23 final size:22
Alignment explanation
Indices: 21987493--21987543 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
21987483 TGAAACATTA
21987493 TTTTAAAATAATTTTACAAGTT
1 TTTTAAAATAATTTTACAAGTT
* *
21987515 TTATTAAAATATTATTTATAA-TT
1 TT-TTAAAATAAT-TTTACAAGTT
21987538 TTTTAA
1 TTTTAA
21987544 TAAAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 6 0.24
23 13 0.52
24 6 0.24
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTAAAATAATTTTACAAGTT
Found at i:21987980 original size:19 final size:19
Alignment explanation
Indices: 21987952--21987997 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
21987942 CATTAAAATC
* *
21987952 TAAGATATAATAATATTTT
1 TAAGAGATAATAATAATTT
21987971 TAAGAGATAATAATAATTT
1 TAAGAGATAATAATAATTT
*
21987990 TAATAGAT
1 TAAGAGAT
21987998 TTATGATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
TAAGAGATAATAATAATTT
Found at i:21988866 original size:12 final size:12
Alignment explanation
Indices: 21988849--21988886 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21988839 TTCTTAAAAC
21988849 TTAAAAGATATT
1 TTAAAAGATATT
21988861 TTAAAAGA-ATAT
1 TTAAAAGATAT-T
*
21988873 TTAAAACATATT
1 TTAAAAGATATT
21988885 TT
1 TT
21988887 TGTAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (12 bp):
TTAAAAGATATT
Found at i:21989153 original size:43 final size:42
Alignment explanation
Indices: 21989089--21989343 Score: 314
Period size: 43 Copynumber: 6.0 Consensus size: 42
21989079 TTATAGAAAT
* *
21989089 AAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAG-GCATGTTCTTTAGCGGCGCTTTTCCCGC
* *
21989132 AAACGCCGCTAAAGGCAATGTTCTTTAGCGGCGCTTTTCCAGA
1 AAACGCCGCTAAAGGC-ATGTTCTTTAGCGGCGCTTTTCCCGC
* *
21989175 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTT-TCGC
1 AAACGCCGCTAAAGG-CATGTTCTTTAGCGGCGCTTTTCCCGC
* **
21989217 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTTCCAA
1 AAACGCCGCTAAAGG-CATGTTCTTTAGCGGCGCTTTTCCCGC
* * *
21989260 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCACTTTTTCCAC
1 AAACGCCGCTAAAGG-CATGTTCTTTAGCGGCGCTTTTCCCGC
* * *
21989303 AAACGCCGTTAAAGGTTATGTTCTTTAGCGGCACTTTTCCC
1 AAACGCCGCTAAAGG-CATGTTCTTTAGCGGCGCTTTTCCC
21989344 ATAAACACCG
Statistics
Matches: 190, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
42 38 0.20
43 151 0.79
44 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (42 bp):
AAACGCCGCTAAAGGCATGTTCTTTAGCGGCGCTTTTCCCGC
Found at i:21989250 original size:85 final size:84
Alignment explanation
Indices: 21989089--21989342 Score: 364
Period size: 85 Copynumber: 3.0 Consensus size: 84
21989079 TTATAGAAAT
* * *
21989089 AAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGGCAATGTT
1 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTT-TCGCAAACGCCGCTAAAGGCAATGTT
21989154 CTTTAGCGGCGCTTTTCCAGA
65 CTTTAGCGGCGCTTTTCCA-A
*
21989175 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCGCAAACGCCGCTAAAGGCCATGTTC
1 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCGCAAACGCCGCTAAAGGCAATGTTC
21989240 TTTAGCGGCGCTTTTTCCAA
66 TTTAGCGGCGC-TTTTCCAA
* * * * * **
21989260 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCACTTTTTCCACAAACGCCGTTAAAGGTTATGTT
1 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTTT-CGCAAACGCCGCTAAAGGCAATGTT
*
21989325 CTTTAGCGGCACTTTTCC
65 CTTTAGCGGCGCTTTTCC
21989343 CATAAACACC
Statistics
Matches: 154, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
85 79 0.51
86 75 0.49
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (84 bp):
AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCGCAAACGCCGCTAAAGGCAATGTTC
TTTAGCGGCGCTTTTCCAA
Found at i:21989252 original size:128 final size:128
Alignment explanation
Indices: 21989089--21989340 Score: 371
Period size: 128 Copynumber: 2.0 Consensus size: 128
21989079 TTATAGAAAT
* **
21989089 AAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGGCAATGTT
1 AAACGCCCCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGGCAATGTT
* *
21989154 CTTTAGCGGCGC-TTTTCCAGAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCGC
66 CTTTAGCGGCACTTTTTCCA-AAAACGCCACTAAAGGTCATGTTCTTTAGCGGCACTTTTTCGC
* * * *
21989217 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTTCCAAAAACGCCGCTAAAGGCCATGTT
1 AAACGCCCCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGGCAATGTT
* ** *
21989282 CTTTAGCGGCACTTTTTCCACAAACGCCGTTAAAGGTTATGTTCTTTAGCGGCACTTTT
66 CTTTAGCGGCACTTTTTCCAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCACTTTT
21989341 CCCATAAACA
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
128 103 0.94
129 7 0.06
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (128 bp):
AAACGCCCCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGGCAATGTT
CTTTAGCGGCACTTTTTCCAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCACTTTTTCGC
Found at i:21989355 original size:86 final size:85
Alignment explanation
Indices: 21989089--21989356 Score: 376
Period size: 86 Copynumber: 3.1 Consensus size: 85
21989079 TTATAGAAAT
* * *
21989089 AAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGGCAATGTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCGCAAACGCCGCTAAAGGCAATGTT
21989154 CTTTAGCGGCGCTTTTCCAGA
66 CTTTAGCGGCGCTTTTCCA-A
* *
21989175 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTTT-CGCAAACGCCGCTAAAGGCCATGTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCGCAAACGCCGCTAAAGGCAATGTT
21989239 CTTTAGCGGCGCTTTTTCCAA
66 CTTTAGCGGCGC-TTTTCCAA
* * * * **
21989260 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCACTTTTTCCACAAACGCCGTTAAAGGTTATGTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCGCAAACGCCGCTAAAGGCAATGTT
* *
21989325 CTTTAGCGGCACTTTTCCCAT
66 CTTTAGCGGCGCTTTT-CCAA
*
21989346 AAACACCGCTA
1 AAACGCCGCTA
21989357 TTGTTTGGTG
Statistics
Matches: 165, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
85 77 0.47
86 88 0.53
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (85 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCGCAAACGCCGCTAAAGGCAATGTT
CTTTAGCGGCGCTTTTCCAA
Found at i:21989915 original size:25 final size:26
Alignment explanation
Indices: 21989864--21989925 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
21989854 TTTTACAATG
* *
21989864 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
21989890 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
21989915 ATTAAGTTATG
1 ATTAAGTTATG
21989926 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:21989929 original size:17 final size:17
Alignment explanation
Indices: 21989864--21989935 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
21989854 TTTTACAATG
* *
21989864 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
21989881 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
21989898 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
21989915 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
21989932 ATTA
1 ATTA
21989936 TGTGAGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.70
18 8 0.19
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:21990050 original size:17 final size:17
Alignment explanation
Indices: 21990028--21990087 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
21990018 ATATATTTTA
21990028 AAATTATTAAGTTATGT
1 AAATTATTAAGTTATGT
** *
21990045 AAATTATGCGAGTTGT-T
1 AAATTAT-TAAGTTATGT
*
21990062 AAGTTATTAAGTTATGT
1 AAATTATTAAGTTATGT
*
21990079 AAGTTATTA
1 AAATTATTA
21990088 TGTGAATTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 5 0.15
17 24 0.71
18 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.45
Consensus pattern (17 bp):
AAATTATTAAGTTATGT
Found at i:21990073 original size:34 final size:36
Alignment explanation
Indices: 21990031--21990114 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 36
21990021 TATTTTAAAA
* *
21990031 TTATTAAGTTATGTAA-ATTATGCGAGTTGT-TAAG
1 TTATTAAGTTATGTAATATTATGCGAATTATATAAG
*
21990065 TTATTAAGTTATGTAAGTTATTATGTGAATTATATAAG
1 TTATTAAGTTATGTAA--TATTATGCGAATTATATAAG
21990103 TTATTAAGTTAT
1 TTATTAAGTTAT
21990115 ATGGTATGAC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 16 0.37
37 11 0.26
38 16 0.37
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.48
Consensus pattern (36 bp):
TTATTAAGTTATGTAATATTATGCGAATTATATAAG
Found at i:21990110 original size:46 final size:46
Alignment explanation
Indices: 21990055--21990213 Score: 140
Period size: 46 Copynumber: 3.3 Consensus size: 46
21990045 AAATTATGCG
*
21990055 AGTTGTTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
* * * * *
21990101 AGTTATTAAGTTATATGGTATGACATATATATATA-TGTATTATGTAAATTATGTG
1 AGTTATTAAG-T-TAT--TA--A-GT-TATGTA-AGT-TATTATGTGAATTATATA
* * *
21990156 AGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATGTGAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
21990202 AGTTATTAAGTT
1 AGTTATTAAGTT
21990214 GGACATTTTT
Statistics
Matches: 87, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
46 36 0.41
47 7 0.08
48 4 0.05
49 1 0.01
50 2 0.02
51 1 0.01
52 1 0.01
53 3 0.03
54 7 0.08
55 25 0.29
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (46 bp):
AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
Found at i:21990114 original size:8 final size:8
Alignment explanation
Indices: 21990031--21990087 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 8
21990021 TATTTTAAAA
21990031 TTATTAAG
1 TTATTAAG
*
21990039 TTATGTAAA
1 TTAT-TAAG
**
21990048 TTATGCGAG
1 TTAT-TAAG
*
21990057 TTGTTAAG
1 TTATTAAG
21990065 TTATTAAG
1 TTATTAAG
21990073 TTATGTAAG
1 TTAT-TAAG
21990082 TTATTA
1 TTATTA
21990088 TGTGAATTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 19 0.49
9 20 0.51
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (8 bp):
TTATTAAG
Found at i:21990116 original size:17 final size:17
Alignment explanation
Indices: 21990061--21990116 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
21990051 TGCGAGTTGT
*
21990061 TAAGTTATTAAGTTATG
1 TAAGTTATTAAGTTATA
*
21990078 TAAGTTATTATGTGAATTATA
1 TAAGTTATTA----AGTTATA
21990099 TAAGTTATTAAGTTATA
1 TAAGTTATTAAGTTATA
21990116 T
1 T
21990117 GGTATGACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 17 0.53
21 15 0.47
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (17 bp):
TAAGTTATTAAGTTATA
Found at i:21990852 original size:21 final size:21
Alignment explanation
Indices: 21990826--21990872 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
21990816 TTAACTATTT
* *
21990826 AAATTAGTTAATGATATTGTA
1 AAATTAGATAATGAAATTGTA
* *
21990847 AAATTAGATGATTAAATTGTA
1 AAATTAGATAATGAAATTGTA
21990868 AAATT
1 AAATT
21990873 TCAAATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (21 bp):
AAATTAGATAATGAAATTGTA
Found at i:21992610 original size:31 final size:31
Alignment explanation
Indices: 21992567--21992626 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
21992557 ACAGCCGCCC
*
21992567 CAATTTATTGGCTAAGCCTAACAATGCCTAA
1 CAATGTATTGGCTAAGCCTAACAATGCCTAA
21992598 CAATGTATTGGCTAAGCCTAACAATGCCT
1 CAATGTATTGGCTAAGCCTAACAATGCCT
21992627 CCGCATCGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (31 bp):
CAATGTATTGGCTAAGCCTAACAATGCCTAA
Found at i:21994464 original size:101 final size:105
Alignment explanation
Indices: 21994259--21994468 Score: 311
Period size: 101 Copynumber: 2.0 Consensus size: 105
21994249 GCAAATTTTT
* * *
21994259 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAAGTTTTTATTTTGTTTTTTTATAA
1 TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCT--AAAGTTTTTATTTTGATTTTTTATAA
21994324 ATTGATTTATTTTTTGCGGCGTTTCTATAAAAAACGCCGCTA
64 ATTGATTTATTTTTTGCGGCGTTTCTATAAAAAACGCCGCTA
*
21994366 TTTCATTTTGAACAAAATGACACCGTTTTGCTATGCT-AA-TTTTT-TTTT-ATTTTTTATAAAT
1 TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAAGTTTTTATTTTGATTTTTTATAAAT
* * *
21994427 TGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCCGCTA
66 TGATTTATTTTTTGCGGCGTTTCTATAAAAAACGCCGCTA
21994467 TT
1 TT
21994469 GCTTACAAAA
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
101 51 0.53
102 4 0.04
103 5 0.05
104 2 0.02
107 34 0.35
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (105 bp):
TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAAGTTTTTATTTTGATTTTTTATAAAT
TGATTTATTTTTTGCGGCGTTTCTATAAAAAACGCCGCTA
Found at i:21994496 original size:116 final size:114
Alignment explanation
Indices: 21994366--21994589 Score: 344
Period size: 116 Copynumber: 1.9 Consensus size: 114
21994356 AACGCCGCTA
*
21994366 TTTCATTTTGAACAAAATGACACCGTTTTGCTATGCT-AATTTTTTTT-TATTTTTTATAAATTG
1 TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAATTTTTTTTATATTTTTTATAAATTG
*
21994429 ATTTATTTTTTGCGGCGTTTTTATAGAAAATGCCGCTATTGCTTACAAAATTT
66 ATTTATTTTTTGCGGCG--TTT-TA-AAAACGCCGCTATTGCTTACAAAATTT
* * *
21994482 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTTTTTATAAATT
1 TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCT-AAATTTTTTTTATATTTTTTATAAATT
21994547 GATTTATTTTTTGCGGCGTTTTAAAAACGCCGCTATTGCTTAC
65 GATTTATTTTTTGCGGCGTTTTAAAAACGCCGCTATTGCTTAC
21994590 CTTTAGCGGC
Statistics
Matches: 100, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
115 19 0.19
116 36 0.36
117 3 0.03
118 10 0.10
119 32 0.32
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.49
Consensus pattern (114 bp):
TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAATTTTTTTTATATTTTTTATAAATTG
ATTTATTTTTTGCGGCGTTTTAAAAACGCCGCTATTGCTTACAAAATTT
Found at i:21994622 original size:144 final size:138
Alignment explanation
Indices: 21994474--21994834 Score: 577
Period size: 138 Copynumber: 2.6 Consensus size: 138
21994464 CTATTGCTTA
21994474 CAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTTTT
1 CAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTTTT
21994539 TATAAATTGATTTATTTTTTGCGGCGTTTTAAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTT
66 TATAAATTGATTTATTTTTTGC--C----TAAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTT
21994604 CT-TATA-AAGCGCCG
125 -TATA-AGAAGCGCCG
* *
21994618 CAAAATTTTTTCATGTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTTATTTTTTT
1 CAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTTTT
*
21994683 TATAAATTGATTTATTTTTTGCCTGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTTATAAG
66 TATAAATTGATTTATTTTTTGCCTAAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTTATAAG
21994748 AAGCGCCG
131 AAGCGCCG
*
21994756 CAAAATTTTTTCATTTTGAACAAAACGACGCCATTTTGCTATTCTAAAA-TTTTTTTA-TTTTTT
1 CAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTTTT
*
21994819 TATAAGTTGATTTATT
66 TATAAATTGATTTATT
21994835 ACCTTTAGCG
Statistics
Matches: 208, Mismatches: 7, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
136 21 0.10
137 10 0.05
138 91 0.44
142 1 0.00
144 85 0.41
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (138 bp):
CAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTTTT
TATAAATTGATTTATTTTTTGCCTAAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTTATAAG
AAGCGCCG
Found at i:21995028 original size:23 final size:22
Alignment explanation
Indices: 21994982--21995030 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
21994972 CCTAACTTTT
21994982 AACCCCTAACATCTAACCCATA
1 AACCCCTAACATCTAACCCATA
*
21995004 AACCCCTAAACCA-CTAACCCCTA
1 AACCCCT-AA-CATCTAACCCATA
21995027 AACC
1 AACC
21995031 TTAAATCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 7 0.29
23 15 0.62
24 2 0.08
ACGTcount: A:0.41, C:0.45, G:0.00, T:0.14
Consensus pattern (22 bp):
AACCCCTAACATCTAACCCATA
Found at i:21995293 original size:22 final size:23
Alignment explanation
Indices: 21995267--21995310 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
21995257 CCCTTGAATC
*
21995267 CCTAA-CTTTTAATCCCTAAACA
1 CCTAACCTTTTAACCCCTAAACA
21995289 CCTAACCTTTTAACCCCTAAAC
1 CCTAACCTTTTAACCCCTAAAC
21995311 CTTAAATCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (23 bp):
CCTAACCTTTTAACCCCTAAACA
Found at i:21995795 original size:114 final size:114
Alignment explanation
Indices: 21995595--21995965 Score: 577
Period size: 114 Copynumber: 3.3 Consensus size: 114
21995585 TAAAATATTT
*
21995595 TTAGCGGCGCTTT-TCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
1 TTAGCGGCGCTTTCTTC-AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
21995659 TTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
65 TTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
21995709 TTAGCGGCGCTTTCTTCAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
1 TTAGCGGCGCTTTCTTCAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
* * *
21995774 TAGGTTTTTTTGCAGCGCTTTCCCAAAAACGCCGCTAAATCCTTGAGCA
66 TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
* *
21995823 TTAGCGGTGCTTTCTT-ATAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
1 TTAGCGGCGCTTTCTTCA-AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
* * * * *
21995887 TTAGGTTTTTTTGCGGTGCTTTACGAAAAATGCCACTAAAG-CCTGAGCA
65 TTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
* * *
21995936 TTAGCGACGCTTACTTAAAAACGCCGCTAA
1 TTAGCGGCGCTTTCTTCAAAACGCCGCTAA
21995966 TGCTTATTTT
Statistics
Matches: 236, Mismatches: 18, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
113 32 0.14
114 202 0.86
115 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (114 bp):
TTAGCGGCGCTTTCTTCAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
Found at i:22001552 original size:159 final size:156
Alignment explanation
Indices: 22001265--22001573 Score: 345
Period size: 159 Copynumber: 2.0 Consensus size: 156
22001255 AGCAGTATCG
* * *
22001265 ACCTCACTAGTCTAGCCTTTTTTTTCTTCTTCATGACATATTTTAGGGTTGAATGGTCGTTGTAG
1 ACCTCACTAATCTAGCCTTTTTTTTCTTCTTCATGACATACTTTAGGGCTGAATGGTCGTTGTAG
* ** * * *
22001330 ATATATGCTTGATTCACCATCAAATATGGCCAAAATTTTTCACATGTAGAAATAACTACTAACAT
66 ATATATACTCAATTCACCATCAAATATGGCCAAAATTTTTCACATGCAAAAACAACTACTAACAT
* *
22001395 CTCATTTTTAGTGGTAGTGTGCACCC
131 CTCATTTTCAATGGTAGTGTGCACCC
*
22001421 ACCTCATTAATCTAGCCTTTGTTTCTTTCTTCTTCATGACATACTTTAGGGCTGAATTGGTCAG-
1 ACCTCACTAATCTAGCC-TT-TTT-TTTCTTCTTCATGACATACTTTAGGGCTGAA-TGGTC-GT
*** * ** * **
22001485 TGTAGATATATACTCAATT-TGTATCAAATCAT-GCTAGCATTTTTCACATGCAAAAACAATTGT
61 TGTAGATATATACTCAATTCACCATCAAAT-ATGGCCAAAATTTTTCACATGCAAAAACAACTAC
*
22001548 TAACATCTCCTTTTCAATGGTAGTGT
125 TAACATCTCATTTTCAATGGTAGTGT
22001574 AATTGCACTA
Statistics
Matches: 125, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
156 15 0.12
157 2 0.02
158 3 0.02
159 81 0.65
160 23 0.18
161 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (156 bp):
ACCTCACTAATCTAGCCTTTTTTTTCTTCTTCATGACATACTTTAGGGCTGAATGGTCGTTGTAG
ATATATACTCAATTCACCATCAAATATGGCCAAAATTTTTCACATGCAAAAACAACTACTAACAT
CTCATTTTCAATGGTAGTGTGCACCC
Found at i:22004487 original size:27 final size:26
Alignment explanation
Indices: 22004456--22004527 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 26
22004446 TATAGAGTAC
*
22004456 GCCACCAAGGCTATTCTTTCAGAGTTT
1 GCCACCAAAGCTATTCTTT-AGAGTTT
22004483 GCCA-CAAAGCTTATTCATTTAGAGTTT
1 GCCACCAAAGC-TATTC-TTTAGAGTTT
*
22004510 GCCACAAAAGCTATTCTT
1 GCCACCAAAGCTATTCTT
22004528 AGCTTTTGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 7 0.17
27 25 0.62
28 8 0.20
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (26 bp):
GCCACCAAAGCTATTCTTTAGAGTTT
Found at i:22007753 original size:30 final size:30
Alignment explanation
Indices: 22007718--22007780 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
22007708 TTTTATTCAG
*
22007718 TTTTCAATTTAGATTTGT-ATTCAATTTAGT
1 TTTTC-ATTAAGATTTGTCATTCAATTTAGT
* * *
22007748 TTTTCATTAAGTTTTTTCATTCAGTTTAGT
1 TTTTCATTAAGATTTGTCATTCAATTTAGT
22007778 TTT
1 TTT
22007781 CTTTTATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.22, C:0.08, G:0.10, T:0.60
Consensus pattern (30 bp):
TTTTCATTAAGATTTGTCATTCAATTTAGT
Found at i:22008205 original size:15 final size:15
Alignment explanation
Indices: 22008185--22008218 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22008175 CATGAATTTG
*
22008185 ACAGTACACCTTGTA
1 ACAGTACACCCTGTA
*
22008200 ACAGTACGCCCTGTA
1 ACAGTACACCCTGTA
22008215 ACAG
1 ACAG
22008219 CCCGCCTGGT
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:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (15 bp):
ACAGTACACCCTGTA
Found at i:22012648 original size:23 final size:23
Alignment explanation
Indices: 22012621--22012669 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
22012611 TTGCAAAAAG
22012621 AAACTA-AAAATTAAACTTGAAT-T
1 AAACTAGAAAA-TAAA-TTGAATGT
22012644 AAACTAGAAAATAAATTGAATGT
1 AAACTAGAAAATAAATTGAATGT
22012667 AAA
1 AAA
22012670 AATCTCAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (23 bp):
AAACTAGAAAATAAATTGAATGT
Found at i:22015926 original size:25 final size:25
Alignment explanation
Indices: 22015846--22015926 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
22015836 CTTGCCACCA
*
22015846 AGGCTTCCCAAATAATACGCCACAT
1 AGGCTTCTCAAATAATACGCCACAT
* * *
22015871 AGACCTT-TCAAGTAATTA-GCCACAA
1 AG-GCTTCTCAAATAA-TACGCCACAT
* *
22015896 AAGCTTCTGAAATAATACGCCACAT
1 AGGCTTCTCAAATAATACGCCACAT
22015921 AGGCTT
1 AGGCTT
22015927 TTTAGATAGA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
24 5 0.12
25 32 0.76
26 5 0.12
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (25 bp):
AGGCTTCTCAAATAATACGCCACAT
Found at i:22020691 original size:16 final size:16
Alignment explanation
Indices: 22020667--22020697 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22020657 TGTTTCTGAG
*
22020667 CATGGCATACTGCATA
1 CATGACATACTGCATA
22020683 CATGACATACTGCAT
1 CATGACATACTGCAT
22020698 GGGGTTAGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (16 bp):
CATGACATACTGCATA
Found at i:22033733 original size:50 final size:49
Alignment explanation
Indices: 22033650--22033758 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 49
22033640 GTACATGTAT
*
22033650 GCTCATACGAGCTATGAATCAGTATGCTCTCACGAGCTGGAAATCAGTAA
1 GCTCATACGAGCTATGAATCAGTAAGCTCTCACGAGCTGG-AATCAGTAA
* * * *
22033700 GCTCCTACGAGCTGA-GAATTAGTAAGTTCTCACGAGCTGGAATCGGTAA
1 GCTCATACGAGCT-ATGAATCAGTAAGCTCTCACGAGCTGGAATCAGTAA
22033749 GCTCATACGA
1 GCTCATACGA
22033759 TCTGTGGTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
49 17 0.33
50 34 0.65
51 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (49 bp):
GCTCATACGAGCTATGAATCAGTAAGCTCTCACGAGCTGGAATCAGTAA
Found at i:22033748 original size:24 final size:24
Alignment explanation
Indices: 22033656--22033752 Score: 106
Period size: 25 Copynumber: 3.9 Consensus size: 24
22033646 GTATGCTCAT
* *
22033656 ACGAGCTATGAATCAGTATGCTCTC
1 ACGAGCT-GGAATCAGTAAGCTCTC
22033681 ACGAGCTGGAAATCAGTAAGCTC-C
1 ACGAGCTGG-AATCAGTAAGCTCTC
* *
22033705 TACGAGCTGAGAATTAGTAAGTTCTC
1 -ACGAGCTG-GAATCAGTAAGCTCTC
*
22033731 ACGAGCTGGAATCGGTAAGCTC
1 ACGAGCTGGAATCAGTAAGCTC
22033753 ATACGATCTG
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
24 13 0.21
25 46 0.75
26 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.24
Consensus pattern (24 bp):
ACGAGCTGGAATCAGTAAGCTCTC
Found at i:22037009 original size:20 final size:19
Alignment explanation
Indices: 22036984--22037021 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
22036974 TTATTGCTAA
22036984 ACCATTCCATTGCAATTTAC
1 ACCATTCCATTGC-ATTTAC
22037004 ACCATTCCATTGCATTTA
1 ACCATTCCATTGCATTTA
22037022 GGTTAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (19 bp):
ACCATTCCATTGCATTTAC
Found at i:22045889 original size:15 final size:15
Alignment explanation
Indices: 22045869--22045898 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22045859 AAAAATTGTA
22045869 AAACAATAATTAGGG
1 AAACAATAATTAGGG
22045884 AAACAATAATTAGGG
1 AAACAATAATTAGGG
22045899 GTTTAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (15 bp):
AAACAATAATTAGGG
Found at i:22046970 original size:26 final size:26
Alignment explanation
Indices: 22046910--22046975 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
22046900 ACACCGCAGA
* *
22046910 TCTT-ATGAGCGTCCCGTTATATGGC
1 TCTTCATGAGCTTCCCGTTATAAGGC
22046935 TCTTCATGAGCTTCCCGGTTA-AAGGC
1 TCTTCATGAGCTTCCC-GTTATAAGGC
**
22046961 TCTTTGTGAGCTTCC
1 TCTTCATGAGCTTCC
22046976 TAATTAATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.11
26 27 0.77
27 4 0.11
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (26 bp):
TCTTCATGAGCTTCCCGTTATAAGGC
Found at i:22051800 original size:19 final size:18
Alignment explanation
Indices: 22051768--22051810 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
22051758 TGTTTAAAAA
22051768 TTTAAAGCCTAAATTCAAT
1 TTTAAAGCCTAAA-TCAAT
*
22051787 TTTAAAGCAC-AAATCATT
1 TTTAAAGC-CTAAATCAAT
22051805 TTTAAA
1 TTTAAA
22051811 AAACATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 11 0.50
20 1 0.05
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (18 bp):
TTTAAAGCCTAAATCAAT
Found at i:22061731 original size:49 final size:49
Alignment explanation
Indices: 22061673--22061770 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
22061663 TAATTGATCA
* *
22061673 AGAACATCTTTCCCTAATTAACATGTTATTAAAGACTAATTATAAGGGT
1 AGAACATCTTTCCATAATTAACATGTTATTAAAGAATAATTATAAGGGT
*
22061722 AGAACATCTTTCTATAATTAACATGTTATTAAAGAATAATTATAAGGGT
1 AGAACATCTTTCCATAATTAACATGTTATTAAAGAATAATTATAAGGGT
22061771 TCATTTACTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (49 bp):
AGAACATCTTTCCATAATTAACATGTTATTAAAGAATAATTATAAGGGT
Found at i:22064072 original size:12 final size:12
Alignment explanation
Indices: 22064055--22064092 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
22064045 TGTCTGGGAG
22064055 TGGCGTTGGCAT
1 TGGCGTTGGCAT
*
22064067 TGGCGTTGGCGT
1 TGGCGTTGGCAT
*
22064079 TGGCATTGGCAT
1 TGGCGTTGGCAT
22064091 TG
1 TG
22064093 ACCATCCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.08, C:0.16, G:0.42, T:0.34
Consensus pattern (12 bp):
TGGCGTTGGCAT
Found at i:22068075 original size:15 final size:15
Alignment explanation
Indices: 22068035--22068079 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
22068025 GGTCATAAAC
*
22068035 AAATAATAATAATAA
1 AAATAATAAAAATAA
22068050 AAATAATTAAAAATAA
1 AAATAA-TAAAAATAA
22068066 AAGA-AATAAAAATA
1 AA-ATAATAAAAATA
22068080 TTGTATCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 14 0.52
16 12 0.44
17 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (15 bp):
AAATAATAAAAATAA
Found at i:22071910 original size:20 final size:20
Alignment explanation
Indices: 22071871--22071910 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22071861 ACTTAATCTA
** *
22071871 AGATAATTAGTTATTTAATT
1 AGATAATTAGGGATTCAATT
22071891 AGATAATTAGGGATTCAATT
1 AGATAATTAGGGATTCAATT
22071911 GGTCATAGGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (20 bp):
AGATAATTAGGGATTCAATT
Found at i:22073001 original size:14 final size:15
Alignment explanation
Indices: 22072977--22073009 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
22072967 TTCAATTAAC
22072977 AATATTAAAGAAAAG
1 AATATTAAAGAAAAG
*
22072992 AATA-TAAAGAATAG
1 AATATTAAAGAAAAG
22073006 AATA
1 AATA
22073010 AAGGAAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (15 bp):
AATATTAAAGAAAAG
Found at i:22077894 original size:8 final size:8
Alignment explanation
Indices: 22077881--22077925 Score: 54
Period size: 8 Copynumber: 5.1 Consensus size: 8
22077871 TCATTTGAAC
22077881 ATAATTTT
1 ATAATTTT
22077889 ATAATTGTATAT
1 ATAA-T-T-T-T
22077901 ATAATTTT
1 ATAATTTT
22077909 ATAATTTT
1 ATAATTTT
22077917 ATAATTTT
1 ATAATTTT
22077925 A
1 A
22077926 GAAATTGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 22 0.67
9 2 0.06
10 2 0.06
11 2 0.06
12 5 0.15
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
ATAATTTT
Found at i:22077906 original size:20 final size:20
Alignment explanation
Indices: 22077881--22077919 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22077871 TCATTTGAAC
22077881 ATAATTTTATAATTGTATAT
1 ATAATTTTATAATTGTATAT
*
22077901 ATAATTTTATAATTTTATA
1 ATAATTTTATAATTGTATA
22077920 ATTTTAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
ATAATTTTATAATTGTATAT
Found at i:22086433 original size:27 final size:27
Alignment explanation
Indices: 22086403--22086460 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
22086393 TTGTCCTCCC
* *
22086403 CCTCATCATCA-TCTTCTTCTTCTTCAT
1 CCTCATCATCATTC-TCTTCCTCTTCAA
*
22086430 CCTCATCTTCATTCTCTTCCTCTTCAA
1 CCTCATCATCATTCTCTTCCTCTTCAA
22086457 CCTC
1 CCTC
22086461 TTTTTCCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.14, C:0.41, G:0.00, T:0.45
Consensus pattern (27 bp):
CCTCATCATCATTCTCTTCCTCTTCAA
Found at i:22086435 original size:21 final size:21
Alignment explanation
Indices: 22086405--22086448 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
22086395 GTCCTCCCCC
22086405 TCATCATCATCTTC-TTCTTCT
1 TCATCATCATCTTCATTC-TCT
*
22086426 TCATCCTCATCTTCATTCTCT
1 TCATCATCATCTTCATTCTCT
22086447 TC
1 TC
22086449 CTCTTCAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.14, C:0.36, G:0.00, T:0.50
Consensus pattern (21 bp):
TCATCATCATCTTCATTCTCT
Found at i:22093023 original size:18 final size:18
Alignment explanation
Indices: 22092990--22093090 Score: 87
Period size: 18 Copynumber: 5.6 Consensus size: 18
22092980 GTGAACCTAT
*
22092990 TATGTTATTA-GCGAACC
1 TATGTTGTTAGGCGAACC
22093007 TATGTTGTTAGGCGAACC
1 TATGTTGTTAGGCGAACC
* * *
22093025 TATATTGCTATGCGAACC
1 TATGTTGTTAGGCGAACC
* * *
22093043 CATGTTATTATGCGAACC
1 TATGTTGTTAGGCGAACC
** *
22093061 TATAATGTTATGTGCAAACC
1 TATGTTGTTA-G-GCGAACC
22093081 TATGTTGTTA
1 TATGTTGTTA
22093091 TCCAAACCTT
Statistics
Matches: 65, Mismatches: 16, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
17 9 0.14
18 42 0.65
20 14 0.22
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (18 bp):
TATGTTGTTAGGCGAACC
Found at i:22093027 original size:38 final size:37
Alignment explanation
Indices: 22092976--22093090 Score: 126
Period size: 38 Copynumber: 3.1 Consensus size: 37
22092966 ACTTATCCCC
*
22092976 TTAGGTGAACCTATTATGTTATTAGCGAACCTATGTTG
1 TTAGGCGAACCTATTATGTTATT-GCGAACCTATGTTG
* * *
22093014 TTAGGCGAACCTA-TATTGCTA-TGCGAACCCATGTTA
1 TTAGGCGAACCTATTA-TGTTATTGCGAACCTATGTTG
* * *
22093050 TTATGCGAACCTATAATGTTATGTGCAAACCTATGTTG
1 TTAGGCGAACCTATTATGTTAT-TGCGAACCTATGTTG
22093088 TTA
1 TTA
22093091 TCCAAACCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
36 28 0.44
37 4 0.06
38 31 0.49
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (37 bp):
TTAGGCGAACCTATTATGTTATTGCGAACCTATGTTG
Found at i:22093099 original size:38 final size:37
Alignment explanation
Indices: 22092982--22093091 Score: 132
Period size: 36 Copynumber: 2.9 Consensus size: 37
22092972 CCCCTTAGGT
* *
22092982 GAACCTATTATGTTATTAGCGAACCTATGTTGTTAGGC
1 GAACCTATAATGTTATT-GCGAACCTATGTTGTTATGC
* * * *
22093020 GAACCTATATTGCTA-TGCGAACCCATGTTATTATGC
1 GAACCTATAATGTTATTGCGAACCTATGTTGTTATGC
*
22093056 GAACCTATAATGTTATGTGCAAACCTATGTTGTTAT
1 GAACCTATAATGTTAT-TGCGAACCTATGTTGTTAT
22093092 CCAAACCTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
36 30 0.51
37 1 0.02
38 28 0.47
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (37 bp):
GAACCTATAATGTTATTGCGAACCTATGTTGTTATGC
Found at i:22094138 original size:18 final size:19
Alignment explanation
Indices: 22094096--22094132 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
22094086 TGTATATGTA
*
22094096 TCATTTCTCATTTTCATTT
1 TCATTTCTCATTTCCATTT
22094115 TCATTTC-CATTTCCATTT
1 TCATTTCTCATTTCCATTT
22094133 CTATTTTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.59
Consensus pattern (19 bp):
TCATTTCTCATTTCCATTT
Found at i:22099452 original size:22 final size:22
Alignment explanation
Indices: 22099427--22099496 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
22099417 TATTGTTTAG
22099427 TGTTGTTTTGCTGTCATTTTGA
1 TGTTGTTTTGCTGTCATTTTGA
* * *
22099449 TGTTATTTTGTTGTCATTTTGC
1 TGTTGTTTTGCTGTCATTTTGA
* * * * *
22099471 TATTGTATTGCTATTATTTTGT
1 TGTTGTTTTGCTGTCATTTTGA
22099493 TGTT
1 TGTT
22099497 ATTGTTTGGA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.11, C:0.07, G:0.19, T:0.63
Consensus pattern (22 bp):
TGTTGTTTTGCTGTCATTTTGA
Found at i:22099498 original size:11 final size:11
Alignment explanation
Indices: 22099427--22099499 Score: 56
Period size: 11 Copynumber: 6.6 Consensus size: 11
22099417 TATTGTTTAG
*
22099427 TGTTGTTTTGC
1 TGTTATTTTGC
* *
22099438 TGTCATTTTGA
1 TGTTATTTTGC
*
22099449 TGTTATTTTGT
1 TGTTATTTTGC
*
22099460 TGTCATTTTGC
1 TGTTATTTTGC
* * *
22099471 TATTGTATTGC
1 TGTTATTTTGC
* *
22099482 TATTATTTTGT
1 TGTTATTTTGC
22099493 TGTTATT
1 TGTTATT
22099500 GTTTGGATAT
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 47 1.00
ACGTcount: A:0.12, C:0.07, G:0.18, T:0.63
Consensus pattern (11 bp):
TGTTATTTTGC
Found at i:22099524 original size:36 final size:33
Alignment explanation
Indices: 22099451--22099526 Score: 80
Period size: 36 Copynumber: 2.2 Consensus size: 33
22099441 CATTTTGATG
* **
22099451 TTATTTTGTTGTCATTTTGCTATTGTATTGCTA
1 TTATTTTGTTGTCATTTTGATATTGTATAACTA
* *
22099484 TTATTTTGTTGTTATTGTTTGGATATTGTATAACTC
1 TTATTTTGTTGTCA-T-TTT-GATATTGTATAACTA
22099520 TTATTTT
1 TTATTTT
22099527 ATTATAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 13 0.37
34 1 0.03
35 3 0.09
36 18 0.51
ACGTcount: A:0.17, C:0.07, G:0.14, T:0.62
Consensus pattern (33 bp):
TTATTTTGTTGTCATTTTGATATTGTATAACTA
Found at i:22103232 original size:12 final size:12
Alignment explanation
Indices: 22103217--22103248 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22103207 TAATGAAAAT
22103217 ATAAATAAAGAA
1 ATAAATAAAGAA
22103229 ATAAATAAAGAA
1 ATAAATAAAGAA
*
22103241 ATGAATAA
1 ATAAATAA
22103249 GGCTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (12 bp):
ATAAATAAAGAA
Found at i:22103922 original size:3 final size:3
Alignment explanation
Indices: 22103908--22103960 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
22103898 CAAATAAAAC
* *
22103908 TAA TAA TGA TAA TAAA TAA TAA TAA TAA TAA TAA -AA CTAA T-T TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
22103953 TAA TAA TA
1 TAA TAA TA
22103961 GAAATAACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 3 0.07
3 34 0.81
4 5 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22103929 original size:16 final size:16
Alignment explanation
Indices: 22103908--22103938 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22103898 CAAATAAAAC
*
22103908 TAATAATGATAATAAA
1 TAATAATAATAATAAA
22103924 TAATAATAATAATAA
1 TAATAATAATAATAA
22103939 TAAAACTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
TAATAATAATAATAAA
Found at i:22105359 original size:41 final size:41
Alignment explanation
Indices: 22105296--22105628 Score: 134
Period size: 43 Copynumber: 7.8 Consensus size: 41
22105286 TTTTAGTCTG
*
22105296 CTCCACTGTAACCTCA-AGGAGATAAGACCTGATGCGATCTA
1 CTCCACTGTAACCTCAGA-GAGATAAGACCTGATTCGATCTA
* * * ** **
22105337 CTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCG
1 CTCCACTGTAACCTCAGAGAGATAAGA-C-CTGA-TTCGATCTA
* * * * *
22105381 CTCCACTGTAA-CTTAGGGAGATAGGA--TTATATCTTTGATCTG
1 CTCCACTGTAACCTCAGAGAGATAAGACCTGAT-TC---GATCTA
* * * *
22105423 CTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGAGAGATAAGACCTG--A---TTCGATCTA
* * * *
22105469 CTCCGCTGTAACCTCAGGGGGATAAGACCTGATGCGATCTA
1 CTCCACTGTAACCTCAGAGAGATAAGACCTGATTCGATCTA
* * * ** **
22105510 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCCACTGTAACCTCAGAGAGATAAGA-CC-TGA-TTCGATCTA
* * * ** * *
22105554 CTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTG
1 CTCCACTGTAACCTCAGAGAGATAAGA-CCTG-ATTCGATCTA
* * *
22105597 CTCCGCTGTAACCTCAGGGAGATAAGATCTGA
1 CTCCACTGTAACCTCAGAGAGATAAGACCTGA
22105629 AATTTCCAAC
Statistics
Matches: 219, Mismatches: 53, Indels: 40
0.70 0.17 0.13
Matches are distributed among these distances:
38 1 0.00
39 3 0.01
41 52 0.24
42 21 0.10
43 60 0.27
44 44 0.20
45 1 0.00
46 33 0.15
47 1 0.00
49 2 0.01
50 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (41 bp):
CTCCACTGTAACCTCAGAGAGATAAGACCTGATTCGATCTA
Found at i:22105594 original size:87 final size:87
Alignment explanation
Indices: 22105330--22105633 Score: 301
Period size: 87 Copynumber: 3.5 Consensus size: 87
22105320 AGACCTGATG
* * *
22105330 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGTAACTT
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGTAACTT
*
22105395 -AGGGAGATAGGATTATATCTT
66 CAGGGAGATAGGATTATGTCTT
* * * * * ** ** *
22105416 TGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAAC
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCTGTAATT-TT-AATCCGCTCCACTGTAAC
* * * ** * *
22105481 CTCAGGGGGATAAGA-CCTG-ATG
64 TTCAGGGAGATAGGATTATGTCTT
* * *
22105503 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGAT-CTGTAATTTTAATCCGCTCCACTGTAACT
22105567 TCAGGGAGATAGGATTATGTCTT
65 TCAGGGAGATAGGATTATGTCTT
* * * *
22105590 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTT
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCTGTAATTT
22105634 CCAACCTATT
Statistics
Matches: 163, Mismatches: 48, Indels: 13
0.73 0.21 0.06
Matches are distributed among these distances:
85 25 0.15
86 41 0.25
87 70 0.43
88 17 0.10
89 10 0.06
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (87 bp):
CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGTAACTT
CAGGGAGATAGGATTATGTCTT
Found at i:22105874 original size:85 final size:85
Alignment explanation
Indices: 22105744--22106221 Score: 640
Period size: 85 Copynumber: 5.6 Consensus size: 85
22105734 CAACTAAGGG
* * * * * ** *
22105744 AGGCAAGGCTTGTGTCCTCGATCTACTTCGCTGTCAATGTAAGAAGATAAGATCTGCTTCTTTAA
1 AGGCAAGGCTTGT-T-TTCGATCTGCTTCGTTGTTAACGTTGGAAGACAAGATCTGCTTCTTTAA
22105809 CCAGCTCCACTGCAACCAATGA
64 CCAGCTCCACTGCAACCAATGA
* * ** *
22105831 AGGCAAGGCTTGTTTTCGATCTGCTTCGTGGTTAATGTAAGAAGATAAGATCTGCTTCTTTAACC
1 AGGCAAGGCTTGTTTTCGATCTGCTTCGTTGTTAACGTTGGAAGACAAGATCTGCTTCTTTAACC
22105896 AGCTCCACTGCAACCAATGA
66 AGCTCCACTGCAACCAATGA
*
22105916 AGGCAAGGCTTGTTTTCGATCTGCTTCGTTGTTAACGTTGGAAGGCAAGATCTGCTTCTTTAACC
1 AGGCAAGGCTTGTTTTCGATCTGCTTCGTTGTTAACGTTGGAAGACAAGATCTGCTTCTTTAACC
* * *
22105981 AACTCCATTGTAACCAATGA
66 AGCTCCACTGCAACCAATGA
* * *
22106001 AGGCAAGGTTTTGTTTTCGA--TGTTTCGTTGTTAACGTTGGAAGGCAAGATCTGCTTCTTTAAC
1 AGGCAAGG-CTTGTTTTCGATCTGCTTCGTTGTTAACGTTGGAAGACAAGATCTGCTTCTTTAAC
* * *
22106064 CAACTCCATTGTAACCAATGA
65 CAGCTCCACTGCAACCAATGA
* * *
22106085 AGGCAAGGTTTTGTTTTCGA--TGTTTCGTTGTTAACGTTGGAAGGCAAGATCTGCTTCTTTAAC
1 AGGCAAGG-CTTGTTTTCGATCTGCTTCGTTGTTAACGTTGGAAGACAAGATCTGCTTCTTTAAC
22106148 CAGCTCCACTGCAACCAATGA
65 CAGCTCCACTGCAACCAATGA
* *
22106169 AGGCAAGGCTTGTTTTCGATCTGCTTCGTTGTTAACGCTGGAAGGCAAGATCT
1 AGGCAAGGCTTGTTTTCGATCTGCTTCGTTGTTAACGTTGGAAGACAAGATCT
22106222 ATTGTCTTCA
Statistics
Matches: 366, Mismatches: 22, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
83 10 0.03
84 152 0.42
85 180 0.49
86 11 0.03
87 13 0.04
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (85 bp):
AGGCAAGGCTTGTTTTCGATCTGCTTCGTTGTTAACGTTGGAAGACAAGATCTGCTTCTTTAACC
AGCTCCACTGCAACCAATGA
Found at i:22106048 original size:41 final size:41
Alignment explanation
Indices: 22105999--22106132 Score: 112
Period size: 41 Copynumber: 3.2 Consensus size: 41
22105989 TGTAACCAAT
22105999 GAAGGCAAGGTTTTGTTTTCGATGTTTCGTTGTTAACGTTG
1 GAAGGCAAGGTTTTGTTTTCGATGTTTCGTTGTTAACGTTG
* * * * ** * * **
22106040 GAAGGCAAGATCTGCTTCTTTAACCA-ACTCCATTG-TAACCAAT-
1 GAAGGCAAGGT-T--TTGTTT-TCGATGTTTCGTTGTTAA-CGTTG
22106083 GAAGGCAAGGTTTTGTTTTCGATGTTTCGTTGTTAACGTTG
1 GAAGGCAAGGTTTTGTTTTCGATGTTTCGTTGTTAACGTTG
22106124 GAAGGCAAG
1 GAAGGCAAG
22106133 ATCTGCTTCT
Statistics
Matches: 65, Mismatches: 20, Indels: 16
0.64 0.20 0.16
Matches are distributed among these distances:
39 2 0.03
40 12 0.18
41 22 0.34
42 2 0.03
43 13 0.20
44 12 0.18
45 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (41 bp):
GAAGGCAAGGTTTTGTTTTCGATGTTTCGTTGTTAACGTTG
Found at i:22106065 original size:84 final size:84
Alignment explanation
Indices: 22105792--22106415 Score: 648
Period size: 85 Copynumber: 7.3 Consensus size: 84
22105782 GTAAGAAGAT
22105792 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTT
1 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGA-CTGCTT
* * ** **
22105857 CGTGGTTAATGTAAGAAGAT
65 CGTTGTTAACGTTGGAAGGC
22105877 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTT
1 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGA-CTGCTT
22105942 CGTTGTTAACGTTGGAAGGC
65 CGTTGTTAACGTTGGAAGGC
* * * * *
22105962 AAGATCTGCTTCTTTAACCAACTCCATTGTAACCAATGAAGGCAAGGTTTTGTTTTCGA-TGTTT
1 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGG-CTTGTTTTCGACTGCTT
22106026 CGTTGTTAACGTTGGAAGGC
65 CGTTGTTAACGTTGGAAGGC
* * * * *
22106046 AAGATCTGCTTCTTTAACCAACTCCATTGTAACCAATGAAGGCAAGGTTTTGTTTTCGA-TGTTT
1 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGG-CTTGTTTTCGACTGCTT
22106110 CGTTGTTAACGTTGGAAGGC
65 CGTTGTTAACGTTGGAAGGC
22106130 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTT
1 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGA-CTGCTT
*
22106195 CGTTGTTAACGCTGGAAGGC
65 CGTTGTTAACGTTGGAAGGC
** * * ** * *
22106215 AAGATCTATTGTCTTCAACC-GACTCTACCACAACCGA-GAGAGGCAAGGTTTGTCTTTTCGACC
1 AAGATCTGCT-TCTTTAACCAG-CTCCACTGCAACCAATGA-AGGCAAGGCTTG--TTTTCGA-C
* * * ** *
22106278 TGCTTCGCTGTCAATGCAGGAAAGC
60 TGCTTCGTTGTTAACGTTGGAAGGC
** * * * * *
22106303 AAGATCTTTTTTCTTCAACCAACTCCA-TCACAACCGA-GAGAGGCAAGGTTTGTGTCTTCGATC
1 AAGATC-TGCTTCTTTAACCAGCTCCACT-GCAACCAATGA-AGGCAAGGCTTGT-T-TTCGA-C
* * *
22106366 TGCTTCGCTGTTAATGTAGGAAGGC
60 TGCTTCGTTGTTAACGTTGGAAGGC
** *
22106391 AAGATCTTTTGTCTTCAACCAGCTC
1 AAGATCTGCT-TCTTTAACCAGCTC
22106416 TATCACAACC
Statistics
Matches: 485, Mismatches: 40, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
83 10 0.02
84 152 0.31
85 157 0.32
86 41 0.08
87 5 0.01
88 117 0.24
89 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (84 bp):
AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGACTGCTTC
GTTGTTAACGTTGGAAGGC
Found at i:22106306 original size:88 final size:87
Alignment explanation
Indices: 22106169--22106487 Score: 392
Period size: 88 Copynumber: 3.7 Consensus size: 87
22106159 CAACCAATGA
* * * * * * *
22106169 AGGCAAGGCTTG--TTTTCGATCTGCTTCGTTGTTAACGCTGGAAGGCAAGATCTATTGTCTTCA
1 AGGCAAGGTTTGTCTTTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
*
22106232 ACCGACTCTACCACAACCGAGAG
66 ACC-ACTCTATCACAACCGAGAG
* *
22106255 AGGCAAGGTTTGTCTTTTCGACCTGCTTCGCTGTCAATGCAGGAAAGCAAGATCTTTTTTCTTCA
1 AGGCAAGGTTTGTCTTTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
*
22106320 ACCAACTCCATCACAACCGAGAG
66 ACC-ACTCTATCACAACCGAGAG
* * * * *
22106343 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCA
1 AGGCAAGGTTTGTCTTTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
*
22106408 ACCAGCTCTATCACAACCGAAAG
66 ACCA-CTCTATCACAACCGAGAG
* * * *
22106431 AGGCAAGGTTTATGC-GTTCGACCTGCTTCACTATCAATGCAGGAAGGCAAGATCTTT
1 AGGCAAGGTTTGT-CTTTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
22106488 AACTTCATTG
Statistics
Matches: 200, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
86 11 0.05
87 1 0.00
88 188 0.94
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
AGGCAAGGTTTGTCTTTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
ACCACTCTATCACAACCGAGAG
Found at i:22106390 original size:176 final size:174
Alignment explanation
Indices: 22106169--22106487 Score: 473
Period size: 176 Copynumber: 1.8 Consensus size: 174
22106159 CAACCAATGA
*
22106169 AGGCAAGGCTTGTTTTCGATCTGCTTCGTTGTTAACGCTGGAAGGCAAGATCTATTGTCTTCAAC
1 AGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAACGCTGGAAGGCAAGATCTATTGTCTTCAAC
* * * * *
22106234 C-GACTCTACCACAACCGAGAGAGGCAAGGTTTGT-CTTTTCGACCTGCTTCGCTGTCAATGCAG
66 CAG-CTCTACCACAACCGAAAGAGGCAAGGTTTATGC-GTTCGACCTGCTTCACTATCAATGCAG
22106297 GAAAGCAAGATCTTTTTTCTTCAACCAACTCCATCACAACCGAGAG
129 GAAAGCAAGATCTTTTTTCTTCAACCAACTCCATCACAACCGAGAG
* * *
22106343 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATG-TAGGAAGGCAAGATCTTTTGTCTTC
1 AGGCAAGGCTTGT-T-TTCGATCTGCTTCGCTGTTAACGCT-GGAAGGCAAGATCTATTGTCTTC
*
22106407 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGCGTTCGACCTGCTTCACTATCAATGCA
63 AACCAGCTCTACCACAACCGAAAGAGGCAAGGTTTATGCGTTCGACCTGCTTCACTATCAATGCA
*
22106472 GGAAGGCAAGATCTTT
128 GGAAAGCAAGATCTTT
22106488 AACTTCATTG
Statistics
Matches: 129, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
174 12 0.09
175 2 0.02
176 113 0.88
177 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (174 bp):
AGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAACGCTGGAAGGCAAGATCTATTGTCTTCAAC
CAGCTCTACCACAACCGAAAGAGGCAAGGTTTATGCGTTCGACCTGCTTCACTATCAATGCAGGA
AAGCAAGATCTTTTTTCTTCAACCAACTCCATCACAACCGAGAG
Found at i:22110844 original size:19 final size:20
Alignment explanation
Indices: 22110815--22110863 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
22110805 CACTTCGTGA
* *
22110815 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
22110834 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
22110854 AAATG-AATGC
1 AAATGTAATGC
22110864 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:22112740 original size:12 final size:12
Alignment explanation
Indices: 22112725--22112756 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22112715 TAATGAAAAT
22112725 ATAAATAAAGAA
1 ATAAATAAAGAA
22112737 ATAAATAAAGAA
1 ATAAATAAAGAA
*
22112749 ATGAATAA
1 ATAAATAA
22112757 GGCTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (12 bp):
ATAAATAAAGAA
Found at i:22113431 original size:3 final size:3
Alignment explanation
Indices: 22113417--22113469 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
22113407 CAAATAAAAC
* *
22113417 TAA TAA TGA TAA TAAA TAA TAA TAA TAA TAA TAA -AA CTAA T-T TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
22113462 TAA TAA TA
1 TAA TAA TA
22113470 GAAATAACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 3 0.07
3 34 0.81
4 5 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22113438 original size:16 final size:16
Alignment explanation
Indices: 22113417--22113447 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22113407 CAAATAAAAC
*
22113417 TAATAATGATAATAAA
1 TAATAATAATAATAAA
22113433 TAATAATAATAATAA
1 TAATAATAATAATAA
22113448 TAAAACTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
TAATAATAATAATAAA
Found at i:22121771 original size:9 final size:9
Alignment explanation
Indices: 22121754--22121784 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22121744 TCGAGTTGAT
22121754 TCGAATAAC
1 TCGAATAAC
*
22121763 TCGATTAAC
1 TCGAATAAC
22121772 TCGAATAAC
1 TCGAATAAC
22121781 TCGA
1 TCGA
22121785 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:22130469 original size:14 final size:15
Alignment explanation
Indices: 22130441--22130473 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22130431 TTAAAATATT
22130441 TATTAAAATTAAAAA
1 TATTAAAATTAAAAA
*
22130456 TATTAAAATAAAAAA
1 TATTAAAATTAAAAA
22130471 TAT
1 TAT
22130474 GTAGAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TATTAAAATTAAAAA
Found at i:22130579 original size:14 final size:15
Alignment explanation
Indices: 22130552--22130585 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
22130542 CTTGACTTTG
22130552 TAAAAAGACATTTTC
1 TAAAAAGACATTTTC
*
22130567 TAAAAAG-CTTTTTC
1 TAAAAAGACATTTTC
22130581 TAAAA
1 TAAAA
22130586 TGTTGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (15 bp):
TAAAAAGACATTTTC
Found at i:22134648 original size:14 final size:14
Alignment explanation
Indices: 22134629--22134668 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
22134619 TTGATTGGCA
22134629 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
22134643 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
22134657 GGAAAATGTTTT
1 GTAAAATGTTTT
22134669 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:22134681 original size:34 final size:35
Alignment explanation
Indices: 22134637--22134703 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
22134627 CAGTAAAATG
* * *
22134637 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTAGAAAATATTTTAC
*
22134671 TTTTCTGTAAAATGACTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTAGAAAATATTTT
22134704 CTAGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTAGAAAATATTTTAC
Found at i:22134690 original size:20 final size:20
Alignment explanation
Indices: 22134652--22134691 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22134642 CGTAAAATGA
**
22134652 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
22134672 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
22134692 AGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:22136079 original size:27 final size:27
Alignment explanation
Indices: 22136049--22136118 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
22136039 AATAATCAAT
*
22136049 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
22136076 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
22136104 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
22136119 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:22137769 original size:40 final size:40
Alignment explanation
Indices: 22137725--22137859 Score: 144
Period size: 40 Copynumber: 3.1 Consensus size: 40
22137715 TTTATTATTT
22137725 AAGTTACCATGACTTAAAATATATTGATCATGTATTTATA
1 AAGTTACCATGACTTAAAATATATTGATCATGTATTTATA
22137765 AAGTTACCATGACTTAAAATATATTGATCATAGTTAATAATATGTTTCTATA
1 AAGTTACCATGACTTAAAATATATTGATCAT-G-------TA---TT-TATA
* *
22137817 AAGTTACCATGACGTAAAATATATTGATAATGTATTTATA
1 AAGTTACCATGACTTAAAATATATTGATCATGTATTTATA
22137857 AAG
1 AAG
22137860 AGTTTTAAAT
Statistics
Matches: 81, Mismatches: 2, Indels: 24
0.76 0.02 0.22
Matches are distributed among these distances:
40 38 0.47
41 3 0.04
44 2 0.02
48 2 0.02
51 3 0.04
52 33 0.41
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (40 bp):
AAGTTACCATGACTTAAAATATATTGATCATGTATTTATA
Found at i:22145414 original size:49 final size:48
Alignment explanation
Indices: 22145191--22145414 Score: 234
Period size: 49 Copynumber: 4.6 Consensus size: 48
22145181 ATCACTAGGT
* * * * *
22145191 TGGTTAACAACTAACATGCCCTACCAGAGACCCAGCACT-TACACCAATC
1 TGGTTAGCAACTAACATGCCCTACCAGTGGCCCACCA-TATTCACC-ATC
* * * ** * *
22145240 TGGTTAGCAATTAACATGTCCTACTAGTATCCCACCTTATTCGCACATC
1 TGGTTAGCAACTAACATGCCCTACCAGTGGCCCACCATATTCAC-CATC
* * *
22145289 TGGTTAGCAACTAGCATGCCTTACCAGTGGCCCACCTTATTCACCCATC
1 TGGTTAGCAACTAACATGCCCTACCAGTGGCCCACCATATTCA-CCATC
* *
22145338 TGGTTAGCAACTAGCATGCCTTACCAGTGGCCCACCATATTCACCTATC
1 TGGTTAGCAACTAACATGCCCTACCAGTGGCCCACCATATTCACC-ATC
*
22145387 TGGTTAGCAACTAACATGCCCTGCCAGT
1 TGGTTAGCAACTAACATGCCCTACCAGT
22145415 AATCTATCTT
Statistics
Matches: 148, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.02
49 143 0.97
50 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (48 bp):
TGGTTAGCAACTAACATGCCCTACCAGTGGCCCACCATATTCACCATC
Found at i:22145414 original size:98 final size:98
Alignment explanation
Indices: 22145191--22145414 Score: 258
Period size: 98 Copynumber: 2.3 Consensus size: 98
22145181 ATCACTAGGT
* * *
22145191 TGGTTAACAACTAACATGCCCTACCAGAGACCCAGCACTTACACCAATCTGGTTAGCAATTAACA
1 TGGTTAGCAACTAACATGCCCTACCAGTGACCCAGCACTTACACCAATCTGGTTAGCAACTAACA
* * * *
22145256 TGTCCTACTAGTATCCCACCTTATTCGCACATC
66 TGTCCTACCAGTAGCCCACCATATTCACACATC
* * * * *
22145289 TGGTTAGCAACTAGCATGCCTTACCAGTGGCCCA-C-CTTATTCACCCATCTGGTTAGCAACTAG
1 TGGTTAGCAACTAACATGCCCTACCAGTGACCCAGCACTTA--CACCAATCTGGTTAGCAACTAA
*
22145352 CATG-CCTTACCAGTGGCCCACCATATTCAC-CTATC
64 CATGTCC-TACCAGTAGCCCACCATATTCACAC-ATC
*
22145387 TGGTTAGCAACTAACATGCCCTGCCAGT
1 TGGTTAGCAACTAACATGCCCTACCAGT
22145415 AATCTATCTT
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
96 4 0.04
97 4 0.04
98 98 0.92
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (98 bp):
TGGTTAGCAACTAACATGCCCTACCAGTGACCCAGCACTTACACCAATCTGGTTAGCAACTAACA
TGTCCTACCAGTAGCCCACCATATTCACACATC
Found at i:22147896 original size:15 final size:15
Alignment explanation
Indices: 22147878--22147910 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
22147868 AAATTATACT
22147878 AAAATAAAA-AAAATG
1 AAAA-AAAAGAAAATG
22147893 AAAAAAAAGAAAATG
1 AAAAAAAAGAAAATG
22147908 AAA
1 AAA
22147911 TAAGTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (15 bp):
AAAAAAAAGAAAATG
Found at i:22149188 original size:76 final size:75
Alignment explanation
Indices: 22149062--22149285 Score: 279
Period size: 76 Copynumber: 2.9 Consensus size: 75
22149052 AAGGAGTGAT
* * *
22149062 TGATATTGTCGGTTTATCCGACTAGCGCCG-AGCGCAAATCTTCGTTGGTATATCCAACTAATGC
1 TGATATCGTCGGTTTATCCGACTAGCG--GTAGCGCAAATCTTCGTTGGTATATCAAACTAGTGC
22149126 TGGGCACATATC
64 TGGGCACATATC
* * *
22149138 TGATATCGTCGGTTTATCCGACTAACGGTATGCACAAATCTTTGTTGGTATATCAAACTAGTGCT
1 TGATATCGTCGGTTTATCCGACTAGCGGTA-GCGCAAATCTTCGTTGGTATATCAAACTAGTGCT
* * *
22149203 GGACACATGTT
65 GGGCACATATC
* * * * *
22149214 TGATATCGTCAGTTTATCCGACTAGTGATGGGCGCAAATCTTCGTTGGTATATCTAACTAGTGCT
1 TGATATCGTCGGTTTATCCGACTAGCGGT-AGCGCAAATCTTCGTTGGTATATCAAACTAGTGCT
22149279 GGGCACA
65 GGGCACA
22149286 AATCATTGTC
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
74 1 0.01
75 1 0.01
76 125 0.98
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (75 bp):
TGATATCGTCGGTTTATCCGACTAGCGGTAGCGCAAATCTTCGTTGGTATATCAAACTAGTGCTG
GGCACATATC
Found at i:22149350 original size:40 final size:36
Alignment explanation
Indices: 22149218--22149363 Score: 114
Period size: 36 Copynumber: 3.9 Consensus size: 36
22149208 CATGTTTGAT
* * * * *
22149218 ATCGTCAGTTTATCCGACTAGTGATGGGCGCAAATC
1 ATCGTCGGTTTATTCAACTAGTGCTGGGCACAAATC
* * *
22149254 TTCGTTGGTATA-TCTAACTAGTGCTGGGCACAAATC
1 ATCGTCGGTTTATTC-AACTAGTGCTGGGCACAAATC
* *
22149290 ATTGTCGGTTTATTCAACTAGTGCTGGGCACACATTTGAC
1 ATCGTCGGTTTATTCAACTAGTGCTGGGCACA-A-AT--C
** * *
22149330 ATCGTCGGTTTATTTGACTAGCGCTGGACACAAA
1 ATCGTCGGTTTATTCAACTAGTGCTGGGCACAAA
22149364 ACTTTGTTAC
Statistics
Matches: 85, Mismatches: 19, Indels: 10
0.75 0.17 0.09
Matches are distributed among these distances:
35 1 0.01
36 51 0.60
37 3 0.04
38 1 0.01
39 1 0.01
40 28 0.33
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (36 bp):
ATCGTCGGTTTATTCAACTAGTGCTGGGCACAAATC
Found at i:22155496 original size:26 final size:26
Alignment explanation
Indices: 22155467--22155620 Score: 159
Period size: 26 Copynumber: 5.9 Consensus size: 26
22155457 TTTAGTAGGT
*
22155467 TATGAGCCAGTGATTATTTAGCAAGC
1 TATGAGCCGGTGATTATTTAGCAAGC
* * *
22155493 TATGAGTCGTTGATTATTTAGCAGGC
1 TATGAGCCGGTGATTATTTAGCAAGC
* *
22155519 TATGAGCTGGTGTTTATTTAGCAAGC
1 TATGAGCCGGTGATTATTTAGCAAGC
* *
22155545 TTTGAGCCGGTGATTATTTAGCAGGCC
1 TATGAGCCGGTGATTATTTAGCAAG-C
* *
22155572 T-TGAGCTGGTAATTATTTCAGCAAGC
1 TATGAGCCGGTGATTATTT-AGCAAGC
* *
22155598 TTTGAGCTGGTGAATTA-TTAGCA
1 TATGAGCCGGTG-ATTATTTAGCA
22155621 GGTATTGTGT
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 85 0.79
27 18 0.17
28 4 0.04
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.36
Consensus pattern (26 bp):
TATGAGCCGGTGATTATTTAGCAAGC
Found at i:22155525 original size:52 final size:52
Alignment explanation
Indices: 22155441--22155622 Score: 206
Period size: 52 Copynumber: 3.5 Consensus size: 52
22155431 TTGTCAGGCC
* * * * **
22155441 TTGAGCCGATGATTTTTTTAGTAGGTTATGAGCCAGTGATTATTTAGCAAGCT
1 TTGAGCCGGTGA-TTATTTAGCAGGCTATGAGCTGGTGATTATTTAGCAAGCT
* * * *
22155494 ATGAGTCGTTGATTATTTAGCAGGCTATGAGCTGGTGTTTATTTAGCAAGCT
1 TTGAGCCGGTGATTATTTAGCAGGCTATGAGCTGGTGATTATTTAGCAAGCT
*
22155546 TTGAGCCGGTGATTATTTAGCAGGCCT-TGAGCTGGTAATTATTTCAGCAAGCT
1 TTGAGCCGGTGATTATTTAGCAGG-CTATGAGCTGGTGATTATTT-AGCAAGCT
*
22155599 TTGAGCTGGTGAATTA-TTAGCAGG
1 TTGAGCCGGTG-ATTATTTAGCAGG
22155623 TATTGTGTAC
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
52 70 0.63
53 37 0.33
54 4 0.04
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.37
Consensus pattern (52 bp):
TTGAGCCGGTGATTATTTAGCAGGCTATGAGCTGGTGATTATTTAGCAAGCT
Found at i:22159804 original size:18 final size:18
Alignment explanation
Indices: 22159781--22159817 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22159771 GGAGTGCATT
22159781 ATATGAA-TGTGATAAGTG
1 ATATGAACT-TGATAAGTG
22159799 ATATGAACTTGATAAGTG
1 ATATGAACTTGATAAGTG
22159817 A
1 A
22159818 AAGTGTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (18 bp):
ATATGAACTTGATAAGTG
Found at i:22166629 original size:25 final size:25
Alignment explanation
Indices: 22166592--22166642 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
22166582 TTGGGGGTAA
*
22166592 TAGGTCAATTGTTGGAAATCGCCAT
1 TAGGTCAACTGTTGGAAATCGCCAT
*
22166617 TAGGTCAACTGTTGGAAATCGTCAT
1 TAGGTCAACTGTTGGAAATCGCCAT
22166642 T
1 T
22166643 TTAGAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (25 bp):
TAGGTCAACTGTTGGAAATCGCCAT
Found at i:22171288 original size:10 final size:10
Alignment explanation
Indices: 22171273--22171299 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
22171263 TATTATTTAT
22171273 TTAATTTAAA
1 TTAATTTAAA
22171283 TTAATTTAAA
1 TTAATTTAAA
22171293 TTAATTT
1 TTAATTT
22171300 TTCAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTAATTTAAA
Found at i:22171313 original size:16 final size:17
Alignment explanation
Indices: 22171288--22171320 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
22171278 TTAAATTAAT
22171288 TTAAATTAATTTTTCAA
1 TTAAATTAATTTTTCAA
22171305 TTAAA-TAATTTTTCAA
1 TTAAATTAATTTTTCAA
22171321 CCTAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATTAATTTTTCAA
Found at i:22188914 original size:15 final size:16
Alignment explanation
Indices: 22188889--22188918 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22188879 ATGACATTTA
22188889 TTTATTAAATAAAACT
1 TTTATTAAATAAAACT
22188905 TTTA-TAAATAAAAC
1 TTTATTAAATAAAAC
22188919 AATTTAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTATTAAATAAAACT
Found at i:22189471 original size:20 final size:20
Alignment explanation
Indices: 22189446--22189483 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22189436 TAATTTTTCT
22189446 TTTTATACGAATTTTTATAA
1 TTTTATACGAATTTTTATAA
* *
22189466 TTTTATATGTATTTTTAT
1 TTTTATACGAATTTTTAT
22189484 TAAATCTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTATACGAATTTTTATAA
Found at i:22190145 original size:20 final size:22
Alignment explanation
Indices: 22190112--22190151 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
22190102 GTTATAAAAT
22190112 TAATTATATATATATTAAATAA
1 TAATTATATATATATTAAATAA
22190134 TAATTAT-T-TATATTAAAT
1 TAATTATATATATATTAAAT
22190152 TACTAACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATTATATATATATTAAATAA
Found at i:22190302 original size:39 final size:39
Alignment explanation
Indices: 22190253--22190338 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
22190243 AAAATATATT
* * *
22190253 TAATACAATAAAATATTTATTATATTTATTTGT-GTTTTG
1 TAATATAATAAAACATTTATTATATTTA-TGGTAGTTTTG
* *
22190292 TAATATAATAAAACATTTATTGTATTTATGGTAGTTTTT
1 TAATATAATAAAACATTTATTATATTTATGGTAGTTTTG
22190331 TAATATAA
1 TAATATAA
22190339 ATATTTTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
38 3 0.07
39 38 0.93
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.51
Consensus pattern (39 bp):
TAATATAATAAAACATTTATTATATTTATGGTAGTTTTG
Found at i:22192108 original size:26 final size:26
Alignment explanation
Indices: 22192079--22192128 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
22192069 AATTAGAGTA
*
22192079 AGAGTTAGAGAATTCCTTGATTTTCT
1 AGAGTTAGAGAATTCCTCGATTTTCT
*
22192105 AGAGTTAGAGAATTTCTCGATTTT
1 AGAGTTAGAGAATTCCTCGATTTT
22192129 GCTAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (26 bp):
AGAGTTAGAGAATTCCTCGATTTTCT
Found at i:22193207 original size:3 final size:3
Alignment explanation
Indices: 22193195--22193241 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
22193185 TATTATATAT
*
22193195 TAA TATA TAA TAA -AA TAA -AG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22193239 TAA
1 TAA
22193242 AGAATTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 3 0.08
3 33 0.85
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:22193272 original size:16 final size:16
Alignment explanation
Indices: 22193248--22193288 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
22193238 ATAAAGAATT
22193248 AAAAAGAAACA-AAGC
1 AAAAAGAAACAGAAGC
*
22193263 AAAAACGAAACAGAAGG
1 AAAAA-GAAACAGAAGC
22193280 AAAAAGAAA
1 AAAAAGAAA
22193289 GAAAAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 10 0.43
17 8 0.35
ACGTcount: A:0.73, C:0.10, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAGAAACAGAAGC
Found at i:22194274 original size:25 final size:26
Alignment explanation
Indices: 22194246--22194334 Score: 71
Period size: 25 Copynumber: 3.5 Consensus size: 26
22194236 ATGAGCGTCT
22194246 CGATATATGGCT-TTTCGGAGCTTTC
1 CGATATATGGCTCTTTCGGAGCTTTC
** *
22194271 CGATGA-AAAGCTCTTTCACGAGC-TTC
1 CGAT-ATATGGCTCTTTC-GGAGCTTTC
* *
22194297 CTGAAATATGGCTCTTT-GGAGCTTCC
1 C-GATATATGGCTCTTTCGGAGCTTTC
22194323 CGATAT-TGGCTC
1 CGATATATGGCTC
22194335 GCTTGAACTT
Statistics
Matches: 49, Mismatches: 9, Indels: 13
0.69 0.13 0.18
Matches are distributed among these distances:
24 6 0.12
25 16 0.33
26 13 0.27
27 14 0.29
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
CGATATATGGCTCTTTCGGAGCTTTC
Found at i:22194399 original size:24 final size:23
Alignment explanation
Indices: 22194290--22194396 Score: 83
Period size: 24 Copynumber: 4.4 Consensus size: 23
22194280 GCTCTTTCAC
* *
22194290 GAGCTTCCTGAAATATGGCTCTTTG
1 GAGCTTCCCGATA-ATGGCTC-TTG
*
22194315 GAGCTTCCCGATATTGGCTCGCTT-
1 GAGCTTCCCGATAATGGCT--CTTG
* *
22194339 GAACTTCCCGATATTGGCTCGTAT-
1 GAGCTTCCCGATAATGGCTC-T-TG
*
22194363 GAGCTTCCCGTTAATGGCTCTTCG
1 GAGCTTCCCGATAATGGCTCTT-G
22194387 GAGCTTCCCG
1 GAGCTTCCCG
22194397 TTATACAGCT
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
22 2 0.03
23 2 0.03
24 51 0.74
25 13 0.19
26 1 0.01
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (23 bp):
GAGCTTCCCGATAATGGCTCTTG
Found at i:22194432 original size:25 final size:25
Alignment explanation
Indices: 22194315--22194433 Score: 111
Period size: 24 Copynumber: 4.9 Consensus size: 25
22194305 TGGCTCTTTG
* *
22194315 GAGCTTCCCGATAT-TGGCTCGCTT
1 GAGCTTCCCGTTATATGGCTCGCAT
* * *
22194339 GAACTTCCCGATAT-TGGCTCGTAT
1 GAGCTTCCCGTTATATGGCTCGCAT
* *
22194363 GAGCTTCCCGTTA-ATGGCTCTTC-G
1 GAGCTTCCCGTTATATGGCTC-GCAT
** *
22194387 GAGCTTCCCGTTATACAGCTCACAT
1 GAGCTTCCCGTTATATGGCTCGCAT
22194412 GAGCTTCCCGTTATATGGCTCG
1 GAGCTTCCCGTTATATGGCTCG
22194434 AAAAAGCTTC
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
24 52 0.68
25 24 0.32
ACGTcount: A:0.17, C:0.29, G:0.23, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCGCAT
Found at i:22196075 original size:27 final size:27
Alignment explanation
Indices: 22196037--22196113 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
22196027 CCCTGGGTGG
22196037 AGGGAAGCAGGTTGGCGGCACCAAACA
1 AGGGAAGCAGGTTGGCGGCACCAAACA
****
22196064 AGGGAAGCAGGTTGGCGGCACCAGTGG
1 AGGGAAGCAGGTTGGCGGCACCAAACA
*
22196091 AGGGAACCAGGTTGGCGGCACCA
1 AGGGAAGCAGGTTGGCGGCACCA
22196114 CCCTTGAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.27, C:0.22, G:0.42, T:0.09
Consensus pattern (27 bp):
AGGGAAGCAGGTTGGCGGCACCAAACA
Found at i:22196182 original size:18 final size:17
Alignment explanation
Indices: 22196159--22196236 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 17
22196149 GAAGGAGAGG
22196159 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
22196177 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
22196194 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
22196210 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
22196228 GGAAAGAAA
1 GG-AAGAAA
22196237 AGGACAGGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
15 9 0.18
16 4 0.08
17 4 0.08
18 20 0.39
19 14 0.27
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:22196192 original size:10 final size:10
Alignment explanation
Indices: 22196161--22196232 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
22196151 AGGAGAGGGG
*
22196161 AAGAAGAAGA
1 AAGAAAAAGA
22196171 AAGAAAGGAAGA
1 AAGAAA--AAGA
22196183 AAGAAAAAGA
1 AAGAAAAAGA
* *
22196193 AGGAAAAGGA
1 AAGAAAAAGA
22196203 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
22196217 AAGAAAAAGA
1 AAGAAAAAGA
*
22196227 AGGAAA
1 AAGAAA
22196233 GAAAAGGACA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:22196192 original size:22 final size:23
Alignment explanation
Indices: 22196161--22196237 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
22196151 AGGAGAGGGG
*
22196161 AAGAAGAAGAAAG-AAAGGAAGA
1 AAGAAAAAGAAAGAAAAGGAAGA
*
22196183 AAGAAAAAGAAGGAAAAGGAA-A
1 AAGAAAAAGAAAGAAAAGGAAGA
* * *
22196205 GGAGAGGAAAGAAAGAAAAAGAAGGA
1 -AAGA-AAAAGAAAGAAAAGGAA-GA
22196231 AAGAAAA
1 AAGAAAA
22196238 GGACAGGGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
22 12 0.29
23 10 0.24
24 16 0.38
25 3 0.07
26 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAAGGAAGA
Found at i:22196198 original size:14 final size:13
Alignment explanation
Indices: 22196164--22196237 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 13
22196154 AGAGGGGAAG
22196164 AAGAAGAAAG-AA
1 AAGAAGAAAGAAA
*
22196176 AGGAAGAAAGAAA
1 AAGAAGAAAGAAA
22196189 AAGAAGGAAAAGGAAA
1 AAGAA-G-AAA-GAAA
22196205 GGAGAGGAAAGAAAGAAA
1 --A-A-G-AAGAAAGAAA
22196223 AAGAAGGAAAGAAA
1 AAGAA-GAAAGAAA
22196237 A
1 A
22196238 GGACAGGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.18
13 8 0.16
14 11 0.22
15 4 0.08
16 5 0.10
18 5 0.10
19 4 0.08
20 2 0.04
21 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:22196237 original size:38 final size:35
Alignment explanation
Indices: 22196179--22196267 Score: 117
Period size: 38 Copynumber: 2.5 Consensus size: 35
22196169 GAAAGAAAGG
22196179 AAGAAAGAAAAAGAA-GGAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGGAAAAGGAAAGGAGAGGA
* *
22196213 AAGAAAGAAAAAGAAGGAAAGAAAAGGACAGGGGAGGA
1 AAGAAAGAAAAAGAAGG---GAAAAGGAAAGGAGAGGA
*
22196251 AAGAAAGAAAAATAAGG
1 AAGAAAGAAAAAGAAGG
22196268 CGTTTGAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
34 15 0.31
35 1 0.02
38 32 0.67
ACGTcount: A:0.64, C:0.01, G:0.34, T:0.01
Consensus pattern (35 bp):
AAGAAAGAAAAAGAAGGGAAAAGGAAAGGAGAGGA
Found at i:22196239 original size:10 final size:10
Alignment explanation
Indices: 22196181--22196240 Score: 54
Period size: 10 Copynumber: 6.2 Consensus size: 10
22196171 AAGAAAGGAA
*
22196181 GAAAGAAAAA
1 GAAAGAAAAG
*
22196191 GAAGGAAAAG
1 GAAAGAAAAG
* *
22196201 GAAAGGAGAG
1 GAAAGAAAAG
22196211 GAAAG-AAA-
1 GAAAGAAAAG
22196219 GAAA-AAGAAG
1 GAAAGAA-AAG
22196229 GAAAGAAAAG
1 GAAAGAAAAG
22196239 GA
1 GA
22196241 CAGGGGAGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 5 0.12
9 4 0.10
10 29 0.73
11 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:22196240 original size:28 final size:28
Alignment explanation
Indices: 22196164--22196240 Score: 79
Period size: 34 Copynumber: 2.6 Consensus size: 28
22196154 AGAGGGGAAG
22196164 AAGAA-GAAAG-AAAGG-AAGAAAGAAA
1 AAGAAGGAAAGAAAAGGAAAGAAAGAAA
22196189 AAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAAA
1 AAGAAGG-AAA-G-AA--A-AGGAAAGAAAGAAA
22196223 AAGAAGGAAAGAAAAGGA
1 AAGAAGGAAAGAAAAGGA
22196241 CAGGGGAGGA
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
25 5 0.12
26 1 0.02
27 3 0.07
28 5 0.12
29 1 0.02
30 1 0.02
31 2 0.05
32 2 0.05
33 6 0.14
34 17 0.40
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (28 bp):
AAGAAGGAAAGAAAAGGAAAGAAAGAAA
Found at i:22197412 original size:17 final size:17
Alignment explanation
Indices: 22197390--22197426 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
22197380 AGTAAGATGT
22197390 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
22197407 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
22197424 CAT
1 CAT
22197427 CTTACCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (17 bp):
CATGAATATTAGAATAG
Found at i:22198803 original size:27 final size:29
Alignment explanation
Indices: 22198773--22198842 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
22198763 TTTTTTTTTG
22198773 ATATATTTTGGTAAAT-AAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
22198800 ATATATTTTGGTAAATAAAAAAAAAGTTAT
1 ATATATTTTGGTAAAT-AAAAAAAAGTTAT
22198830 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
22198843 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
27 16 0.40
29 19 0.47
30 5 0.12
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:22198906 original size:18 final size:18
Alignment explanation
Indices: 22198885--22198920 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22198875 AACCCAGTAC
*
22198885 AAAAATAATAAAATATTA
1 AAAAATAACAAAATATTA
*
22198903 AAAAATACCAAAATATTA
1 AAAAATAACAAAATATTA
22198921 TATATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAATAACAAAATATTA
Found at i:22199661 original size:34 final size:34
Alignment explanation
Indices: 22199591--22199706 Score: 105
Period size: 35 Copynumber: 3.3 Consensus size: 34
22199581 ATTACCTTAT
22199591 TTTCTTTTTTTTTCCTTC-CTTC-CCTCTT-CTTCTTC
1 TTTCTTTTTTTTT--TTCTCTTCTCCT-TTCCTT-TTC
22199626 TTTCTTTTTTTTTTTCTCTTCTCCTTTCCTTTTC
1 TTTCTTTTTTTTTTTCTCTTCTCCTTTCCTTTTC
*
22199660 TTTCCTTATTTTTCTTTCT-TTCCTCCCCTTTCCTTTTC
1 TTT-CTT-TTTTTTTTTCTCTT-CT--CCTTTCCTTTTC
*
22199698 CTTCTTTTT
1 TTTCTTTTT
22199707 CTTTCTCCCT
Statistics
Matches: 71, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
33 3 0.04
34 12 0.17
35 24 0.34
36 15 0.21
37 3 0.04
38 14 0.20
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (34 bp):
TTTCTTTTTTTTTTTCTCTTCTCCTTTCCTTTTC
Found at i:22199672 original size:38 final size:39
Alignment explanation
Indices: 22199585--22199703 Score: 102
Period size: 38 Copynumber: 3.0 Consensus size: 39
22199575 ATAAAAATTA
* * *
22199585 CCTTATTTTCTTTTTTTTTC-CTTCCTTCCCTCTTCTTCTT
1 CCTTATTTT-TTTTTTTCTCTC-TCCTTTCCTTTTCTTCTT
* *
22199625 CTTTCTTTTTTTTTTTCTCTTCTCCTTTCCTTTTC-T-TT
1 CCTTATTTTTTTTTTTCTC-TCTCCTTTCCTTTTCTTCTT
*
22199663 CCTTATTTTTCTTTCTTTC-CTCCCCTTTCCTTTTCCTTCTT
1 CCTTATTTTT-TTT-TTTCTCTCTCCTTTCCTTTT-CTTCTT
22199704 TTTCTTTCTC
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
38 23 0.36
39 15 0.23
40 23 0.36
41 3 0.05
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (39 bp):
CCTTATTTTTTTTTTTCTCTCTCCTTTCCTTTTCTTCTT
Found at i:22199729 original size:28 final size:31
Alignment explanation
Indices: 22199656--22199732 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 31
22199646 CTCCTTTCCT
* *
22199656 TTTCTTTCCTTATTTTTCTTTCTTTCCTCCCC
1 TTTCTTT-CTTCTTCTTCTTTCTTTCCTCCCC
*
22199688 TTTCCTTT-TCCTTCTT-TTTCTTT-CT-CCC
1 TTT-CTTTCTTCTTCTTCTTTCTTTCCTCCCC
22199716 TTTCTTTCTTCTTCTTC
1 TTTCTTTCTTCTTCTTC
22199733 CCCTCTCCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
27 4 0.11
28 13 0.34
29 2 0.05
30 7 0.18
31 5 0.13
32 3 0.08
33 4 0.11
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTCTTTCTTCTTCTTCTTTCTTTCCTCCCC
Found at i:22199885 original size:17 final size:17
Alignment explanation
Indices: 22199863--22199903 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
22199853 GTTCAGGTTT
22199863 TTTTTTTCTGTTTTTTA
1 TTTTTTTCTGTTTTTTA
*
22199880 TTTTTTTCTGTTTTTTG
1 TTTTTTTCTGTTTTTTA
22199897 TTTTTTT
1 TTTTTTT
22199904 TGGTAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.02, C:0.05, G:0.07, T:0.85
Consensus pattern (17 bp):
TTTTTTTCTGTTTTTTA
Found at i:22202023 original size:21 final size:22
Alignment explanation
Indices: 22201999--22202047 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
22201989 TTATTTTGTC
*
22201999 TTTTTAAAAATTAATTTTA-AT
1 TTTTTAAAAATTAACTTTAGAT
* * *
22202020 TTTTTTAGAATTAACTTTAGGT
1 TTTTTAAAAATTAACTTTAGAT
22202042 TTTTTA
1 TTTTTA
22202048 GTAAAAGGGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (22 bp):
TTTTTAAAAATTAACTTTAGAT
Found at i:22206336 original size:21 final size:21
Alignment explanation
Indices: 22206307--22206347 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
22206297 AGTCGTTGGT
*
22206307 AGGCTATGTCTCGAGACATGC
1 AGGCCATGTCTCGAGACATGC
22206328 AGGCCATGTCTCGAGACATG
1 AGGCCATGTCTCGAGACATG
22206348 TAGCCCCTGA
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:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (21 bp):
AGGCCATGTCTCGAGACATGC
Found at i:22208589 original size:13 final size:13
Alignment explanation
Indices: 22208573--22208614 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
22208563 AAATCTCAAA
22208573 ATTTACTTATAAT
1 ATTTACTTATAAT
* *
22208586 ATTTA-ATAT-GT
1 ATTTACTTATAAT
22208597 ATTTACTTATAAT
1 ATTTACTTATAAT
22208610 ATTTA
1 ATTTA
22208615 AAAAAATTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
11 6 0.26
12 6 0.26
13 11 0.48
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (13 bp):
ATTTACTTATAAT
Found at i:22216355 original size:15 final size:15
Alignment explanation
Indices: 22216299--22216356 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
22216289 ATAAATTTTG
* *
22216299 CAGCACCTACAACTA
1 CAGCAACTACGACTA
** *
22216314 CAGCAACTGTGACAA
1 CAGCAACTACGACTA
* *
22216329 CAGCGACAACGACTA
1 CAGCAACTACGACTA
22216344 CAGCAACTACGAC
1 CAGCAACTACGAC
22216357 AGCAGCAAGA
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.40, C:0.34, G:0.16, T:0.10
Consensus pattern (15 bp):
CAGCAACTACGACTA
Found at i:22219599 original size:4 final size:4
Alignment explanation
Indices: 22219590--22219616 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
22219580 CAAAACCAGC
22219590 AGTG AGTG AGTG AGTG AGTG AGTG AGT
1 AGTG AGTG AGTG AGTG AGTG AGTG AGT
22219617 CAGAGGCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.48, T:0.26
Consensus pattern (4 bp):
AGTG
Found at i:22221149 original size:14 final size:14
Alignment explanation
Indices: 22221130--22221160 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22221120 AACATTTTAA
*
22221130 TGGAATGTAATTTT
1 TGGAATGTAATTGT
22221144 TGGAATGTAATTGT
1 TGGAATGTAATTGT
22221158 TGG
1 TGG
22221161 GGGAAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (14 bp):
TGGAATGTAATTGT
Found at i:22229837 original size:44 final size:44
Alignment explanation
Indices: 22229774--22229864 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
22229764 ACTCATCATG
22229774 GGCGATAGACTGTGGAGGCCTCCATGAGCATTTTTATGAGCTTA
1 GGCGATAGACTGTGGAGGCCTCCATGAGCATTTTTATGAGCTTA
22229818 GGCGATAGACTGTGGAGGCCTCCATGAGCATTTTTATGAGCTTA
1 GGCGATAGACTGTGGAGGCCTCCATGAGCATTTTTATGAGCTTA
22229862 GGC
1 GGC
22229865 TATAATGGGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.29
Consensus pattern (44 bp):
GGCGATAGACTGTGGAGGCCTCCATGAGCATTTTTATGAGCTTA
Found at i:22230185 original size:27 final size:27
Alignment explanation
Indices: 22230154--22230240 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
22230144 CTAAAATATA
* *
22230154 TAAAATGACCAAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
22230181 TAAAATGACCGAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
*
22230208 TAAAATGATCGAAATACCCCCACT-GGG
1 TAAAATGACCGAAATACCCCCA-TAGGG
22230235 TAAAAT
1 TAAAAT
22230241 ACCTTATAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCATAGGG
Found at i:22230311 original size:71 final size:72
Alignment explanation
Indices: 22230164--22230297 Score: 198
Period size: 71 Copynumber: 1.9 Consensus size: 72
22230154 TAAAATGACC
* *
22230164 AAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCC
1 AAAATACCCTCATAGGGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCC
22230229 ACTGGGT
66 ACTGGGT
* ** * *
22230236 AAAATA-CCTTATAGGGTAAAATAATTGAAATACCCTCGTAGGGTAAAATGACCGAAATACCC
1 AAAATACCCTCATAGGGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCC
22230298 TTATAGGGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
71 49 0.89
72 6 0.11
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (72 bp):
AAAATACCCTCATAGGGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCC
ACTGGGT
Found at i:22230312 original size:27 final size:27
Alignment explanation
Indices: 22230237--22230314 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
22230227 CCACTGGGTA
* **
22230237 AAATA-CCTTATAGGGTAAAATAATTG
1 AAATACCCTTATAGGGTAAAATGACCG
**
22230263 AAATACCCTCGTAGGGTAAAATGACCG
1 AAATACCCTTATAGGGTAAAATGACCG
22230290 AAATACCCTTATAGGGTAAAATGAC
1 AAATACCCTTATAGGGTAAAATGAC
22230315 TATTATACCC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 5 0.11
27 39 0.89
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.24
Consensus pattern (27 bp):
AAATACCCTTATAGGGTAAAATGACCG
Done.