Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 310 of 427
Found at i:90238690 original size:38 final size:38
Alignment explanation
Indices: 90238572--90238692 Score: 170
Period size: 38 Copynumber: 3.1 Consensus size: 38
90238562 ATATTTGATG
* * *
90238572 TATATCTGAGCTTAAAGGTCCGCAGGCTTCGTGCTGGTAT
1 TATATCTG-GGTTAAA-GCCCGCAGGCTTAGTGCTGGTAT
* *
90238612 TACATCTGGGTTAAAGCCCGCAGGCTTTGTGCTGGTAT
1 TATATCTGGGTTAAAGCCCGCAGGCTTAGTGCTGGTAT
*
90238650 TATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCTGGGTTAAAGCCCGCAGGCTTAGTGCTGGTAT
90238688 TATAT
1 TATAT
90238693 TCGAGCTTAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
38 61 0.82
39 6 0.08
40 7 0.09
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (38 bp):
TATATCTGGGTTAAAGCCCGCAGGCTTAGTGCTGGTAT
Found at i:90242484 original size:49 final size:48
Alignment explanation
Indices: 90242414--90242645 Score: 266
Period size: 49 Copynumber: 4.7 Consensus size: 48
90242404 TGAGGTCATG
* *
90242414 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGG-TCCA
* * * *
90242463 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA--TTGGTC-CA
* * * * * ** *
90242514 TGTATAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCCCG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GGT-CCA
*
90242564 TGTGTAGTACTAAGTGCAGGGTACTATGTGTACCGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTC-CA
90242613 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
90242646 TAGACAGCTT
Statistics
Matches: 152, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 75 0.49
50 39 0.26
51 37 0.24
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCCA
Found at i:90242597 original size:101 final size:98
Alignment explanation
Indices: 90242413--90242645 Score: 304
Period size: 101 Copynumber: 2.3 Consensus size: 98
90242403 GTGAGGTCAT
* **
90242413 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCCCATGTGTAGTACTAAGT
90242478 GCAGGCTACTATGCGTACCCGATAACTTTGATCAC
66 GCAGGCTACTATGCGTACCCGATAA--TTGATCAC
* * * ** *
90242513 GTGTATAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCCCGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCCCATGTGTAGTACTAAG
* * * *
90242578 TGCAGGGTACTATGTGTACCGGATAATTGGTCAC
65 TGCAGGCTACTATGCGTACCCGATAATTGATCAC
* *
90242612 ATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC
90242646 TAGACAGCTT
Statistics
Matches: 114, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
99 36 0.32
100 37 0.32
101 41 0.36
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCCCATGTGTAGTACTAAGT
GCAGGCTACTATGCGTACCCGATAATTGATCAC
Found at i:90242641 original size:26 final size:26
Alignment explanation
Indices: 90242564--90242644 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
90242554 TTAGGTCCCG
*
90242564 TGTGTAGTACTAAGTGCAGGGTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * *
90242590 TGTGTACCGGA-TAATTG--GTC-AC-A
1 TGTGTA--GTACTAAGTGCAGGCTACTA
90242613 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
90242639 TGTGTA
1 TGTGTA
90242645 CTAGACAGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
21 2 0.05
22 5 0.12
23 7 0.17
24 4 0.10
25 3 0.07
26 13 0.32
27 5 0.12
28 2 0.05
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:90247874 original size:49 final size:50
Alignment explanation
Indices: 90247629--90247861 Score: 245
Period size: 49 Copynumber: 4.7 Consensus size: 50
90247619 ATCTATTGTG
* *
90247629 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * ** *
90247679 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * ** * **
90247729 CGATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
90247779 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
90247829 -GGTCGCATGTATAGTTCTAAGTACAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
90247862 TGCGTACCGG
Statistics
Matches: 150, Mismatches: 31, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
49 69 0.46
50 45 0.30
51 36 0.24
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:90253743 original size:42 final size:42
Alignment explanation
Indices: 90253696--90253776 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
90253686 GTTACACGCG
90253696 TGTGTGAACAAACCGTGTGCCTCACACGGCTTTAGACACACC
1 TGTGTGAACAAACCGTGTGCCTCACACGGCTTTAGACACACC
* * *
90253738 TGTGTGAATAGATCGTGTGCCTCACACGGCTTTAGACAC
1 TGTGTGAACAAACCGTGTGCCTCACACGGCTTTAGACAC
90253777 GCCCGAGTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (42 bp):
TGTGTGAACAAACCGTGTGCCTCACACGGCTTTAGACACACC
Found at i:90254267 original size:25 final size:22
Alignment explanation
Indices: 90254212--90254254 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
90254202 TATTCACCAT
*
90254212 TCCAAATCATGCCAAATCATGA
1 TCCAAATCATGCCAAAACATGA
*
90254234 GCCAAAATCATGCCAAAACAT
1 TCC-AAATCATGCCAAAACAT
90254255 ATGATCCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.44, C:0.28, G:0.09, T:0.19
Consensus pattern (22 bp):
TCCAAATCATGCCAAAACATGA
Found at i:90255086 original size:42 final size:43
Alignment explanation
Indices: 90254995--90255157 Score: 188
Period size: 43 Copynumber: 3.8 Consensus size: 43
90254985 AATGACAACA
* * *
90254995 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACGTGGTCTTACACGAAATCAAATATCGATGCCAATG
90255038 TCCCAGACAG-GGTCTTACACGAAATCAAATA-CGATGCCAATG
1 TCCCAGAC-GTGGTCTTACACGAAATCAAATATCGATGCCAATG
* * *
90255080 TCCCAGACATGGTCTTACACATAAATCATAA-ATCGATGCCAACG
1 TCCCAGACGTGGTCTTACAC-GAAATCA-AATATCGATGCCAATG
* * * *
90255124 TCCTAGACGTGGTCTTACACAAAAACACATATCG
1 TCCCAGACGTGGTCTTACACGAAATCAAATATCG
90255158 GATCCTGTAA
Statistics
Matches: 103, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
42 29 0.28
43 43 0.42
44 31 0.30
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACACGAAATCAAATATCGATGCCAATG
Found at i:90261578 original size:8 final size:8
Alignment explanation
Indices: 90261561--90261610 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
90261551 ATGTATCGGT
90261561 AAAA-CCG
1 AAAAGCCG
*
90261568 AAATGCCG
1 AAAAGCCG
90261576 AAAAGCCG
1 AAAAGCCG
90261584 AAAAGCC-
1 AAAAGCCG
*
90261591 AAAATGCTG
1 AAAA-GCCG
*
90261600 AAAAGTCG
1 AAAAGCCG
90261608 AAA
1 AAA
90261611 GTTTGGCTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
7 7 0.20
8 24 0.69
9 4 0.11
ACGTcount: A:0.52, C:0.20, G:0.20, T:0.08
Consensus pattern (8 bp):
AAAAGCCG
Found at i:90261861 original size:28 final size:29
Alignment explanation
Indices: 90261821--90261944 Score: 146
Period size: 29 Copynumber: 4.3 Consensus size: 29
90261811 TTGAGCATGA
* *
90261821 ATATGAATGTGA-TTGGGCCTAATGGGAC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
90261849 ATATAAATGTGATTTGAGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
90261878 ATATACAA-GTGATTTGGGCCTAATGGGCC
1 ATATA-AATGTGATTTGGGCCTAATGGGCC
* * *
90261907 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
90261935 AGATACATGT
1 ATATAAATGT
90261945 ATGTGAAATT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
28 34 0.41
29 46 0.56
30 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:90264829 original size:16 final size:16
Alignment explanation
Indices: 90264808--90264838 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
90264798 TTGTAATGCC
90264808 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
90264824 CCAAAAATCCCGAAA
1 CCAAAAATCCCGAAA
90264839 ACTTGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.32, G:0.06, T:0.10
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:90266117 original size:16 final size:16
Alignment explanation
Indices: 90266096--90266138 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
90266086 ATGTATCGGT
90266096 AAAAGCCGAAATACCG
1 AAAAGCCGAAATACCG
* *
90266112 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATACCG
90266128 AAAAGCCGAAA
1 AAAAGCCGAAA
90266139 GTTTGGATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATACCG
Found at i:90266122 original size:8 final size:8
Alignment explanation
Indices: 90266096--90266138 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
90266086 ATGTATCGGT
90266096 AAAAGCCG
1 AAAAGCCG
90266104 AAATA-CCG
1 AAA-AGCCG
*
90266112 AAAAGCTG
1 AAAAGCCG
*
90266120 AAATGCCG
1 AAAAGCCG
90266128 AAAAGCCG
1 AAAAGCCG
90266136 AAA
1 AAA
90266139 GTTTGGATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 1 0.03
8 27 0.93
9 1 0.03
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (8 bp):
AAAAGCCG
Found at i:90266280 original size:18 final size:19
Alignment explanation
Indices: 90266247--90266295 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
90266237 ATTTGTCCAT
90266247 ATGGGCCAGAATGGGCTAA
1 ATGGGCCAGAATGGGCTAA
*
90266266 ATGGGCCCG-ATGGGCT-A
1 ATGGGCCAGAATGGGCTAA
*
90266283 TTGGGCCCAGAAT
1 ATGGG-CCAGAAT
90266296 AGACAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 10 0.40
ACGTcount: A:0.24, C:0.20, G:0.37, T:0.18
Consensus pattern (19 bp):
ATGGGCCAGAATGGGCTAA
Found at i:90266403 original size:29 final size:29
Alignment explanation
Indices: 90266362--90266438 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
90266352 TGAATGTGGC
* * *
90266362 TGGGCCTATTGGGATATATAAATGTGATT
1 TGGGCCTAATGGGACATATAAAGGTGATT
* *
90266391 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGACATATAAAGGTGATT
* *
90266420 TGGGTCTAATGGGCCATAT
1 TGGGCCTAATGGGACATAT
90266439 GAATATGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (29 bp):
TGGGCCTAATGGGACATATAAAGGTGATT
Found at i:90266447 original size:29 final size:28
Alignment explanation
Indices: 90266377--90266463 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 28
90266367 CTATTGGGAT
*
90266377 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATAT-AATGTGATTTGGGTCTAATGGGCC
*
90266406 ATATACAGGTGATTTGGGTCTAATGGGCC
1 ATATA-ATGTGATTTGGGTCTAATGGGCC
* * *
90266435 ATATGAATATGATTAGGCT-TAATGGGCC
1 ATAT-AATGTGATTTGGGTCTAATGGGCC
90266463 A
1 A
90266464 GATACTGGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
28 11 0.22
29 38 0.76
30 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
ATATAATGTGATTTGGGTCTAATGGGCC
Found at i:90269568 original size:43 final size:43
Alignment explanation
Indices: 90269508--90269605 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 43
90269498 TAGACGTGGA
* * *
90269508 CTTACATGT-AATCAAATATCGATG-CCACTGTCCCAGATAGGGT
1 CTTACACGTAAATTAAATA-CGATGTCCA-TGTCCCAGACAGGGT
* * *
90269551 CTTATACG-AAATTAAATACGATGTCGATGTCCCAGACATGGT
1 CTTACACGTAAATTAAATACGATGTCCATGTCCCAGACAGGGT
90269593 CTTACACGTAAAT
1 CTTACACGTAAAT
90269606 CGTAAATTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
42 25 0.56
43 20 0.44
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (43 bp):
CTTACACGTAAATTAAATACGATGTCCATGTCCCAGACAGGGT
Found at i:90278214 original size:40 final size:40
Alignment explanation
Indices: 90278152--90278409 Score: 382
Period size: 40 Copynumber: 6.6 Consensus size: 40
90278142 ATTCGGATTG
*
90278152 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* **
90278191 ATATCCAAGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
90278231 ATAACTGGGCCAAGTCCCGAAGGTAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
90278271 ATAACCGGGCTAAGTCCCGAAGGCAATT-TGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
90278310 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
90278350 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
**
90278389 AT-ACC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
90278410 TACTTGGTTT
Statistics
Matches: 200, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
37 14 0.07
38 3 0.01
39 56 0.28
40 127 0.63
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:90278342 original size:79 final size:79
Alignment explanation
Indices: 90278152--90278409 Score: 373
Period size: 79 Copynumber: 3.3 Consensus size: 79
90278142 ATTCGGATTG
* * **
90278152 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCAAGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
90278216 ATTGTGCGAGTTACT
66 ATT-TGCGAGTTACT
* * *
90278231 ATAACTGGGCCAAGTCCCGAAGGTAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
90278296 ATTTGCGAGTTACT
66 ATTTGCGAGTTACT
90278310 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGC-
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
90278374 ATTTGAGCGAG-TACT
66 ATTT--GCGAGTTACT
**
90278389 AT-ACC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
90278410 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
77 14 0.09
78 7 0.04
79 90 0.55
80 53 0.32
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
ATTTGCGAGTTACT
Found at i:90278365 original size:119 final size:118
Alignment explanation
Indices: 90278152--90278409 Score: 378
Period size: 119 Copynumber: 2.2 Consensus size: 118
90278142 ATTCGGATTG
* *
90278152 ATAACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATATCCAAGCTAAGTCCCGAAGGCAA
1 ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCAAGCTAAGTCCCGAAGGCAA
* * *
90278217 TTGTGCGAGTTACTATAACTGGGCCAAGTCCCGAAGGTAATTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAG-TACT
**
90278271 ATAACCGGGCTAAGTCCCGAAGGCAATT-TGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTATAACCAAGCTAAGTCCCGAAGGCA
* *
90278335 ATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTACT
65 ATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTACT
*
90278389 AT-ACC-GGCTAAACCCCGAAGG
1 ATAACCGGGCT-AAGCCCGAAGG
90278410 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
116 12 0.09
117 5 0.04
118 6 0.05
119 92 0.72
120 12 0.09
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (118 bp):
ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCAAGCTAAGTCCCGAAGGCAA
TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTACT
Found at i:90286176 original size:40 final size:40
Alignment explanation
Indices: 90286107--90286366 Score: 366
Period size: 40 Copynumber: 6.6 Consensus size: 40
90286097 ATTCGGATTG
*
90286107 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
90286146 ATATCCGGGCTAAGTCCCAAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
90286186 ATAACTGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
90286226 ATAATCGTG-TAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
90286265 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
90286305 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* **
90286345 AT-ACCCGGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
90286367 TACTTGGTTT
Statistics
Matches: 198, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 68 0.34
40 130 0.66
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:90286257 original size:79 final size:80
Alignment explanation
Indices: 90286107--90286366 Score: 359
Period size: 79 Copynumber: 3.3 Consensus size: 80
90286097 ATTCGGATTG
* *
90286107 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAT-ATCCGGGCTAAGTCCCAAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAAT-CGGGCTAAGTCCCGAAGGC
90286170 AATTGTGCGAGTTACT
65 AATTGTGCGAGTTACT
* * *
90286186 ATAACTGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAATCGTG-TAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAATCGGGCTAAGTCCCGAAGGCA
90286250 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* *
90286265 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAATCGGGCTAAGTCCCGAAGGCA
* *
90286330 TTTGAGCGAG-TAGCT
66 ATTGTGCGAGTTA-CT
* **
90286345 AT-ACCCGGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
90286367 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
79 104 0.64
80 56 0.35
81 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAATCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:90286347 original size:119 final size:118
Alignment explanation
Indices: 90286117--90286340 Score: 367
Period size: 119 Copynumber: 1.9 Consensus size: 118
90286107 ATAACCGGGC
* *
90286117 TAAGCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAAGGCAATTGTGCGAGT
1 TAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCAATTGTGCGAGT
* *
90286182 TACTATAACTGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAATCGTG
66 TACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTTACTATAATCGTG
* *
90286235 TAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGTGTGAG
1 TAAG-CCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCAATTGTGCGAG
* *
90286300 TTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
65 TTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGT
90286341 AGCTATACCC
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
118 4 0.04
119 93 0.96
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCAATTGTGCGAGT
TACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTTACTATAATCGTG
Found at i:90286363 original size:119 final size:119
Alignment explanation
Indices: 90286121--90286366 Score: 352
Period size: 119 Copynumber: 2.1 Consensus size: 119
90286111 CCGGGCTAAG
* *
90286121 CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAAGGCAATTGTGCGAGTTACT
1 CCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCAATTGTGCGAGTTACT
* * * **
90286186 ATAACTGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAATCGTGTAAGT
66 ATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTTACTATAACCGTGTAAAC
* *
90286240 CCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 CCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCAATTGTGCGAGTTACT
* * *
90286305 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATACCCG-GCTAAAC
66 ATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTTA-CTATAACCGTG-TAAAC
90286359 CCCGAAGG
1 CCCGAAGG
90286367 TACTTGGTTT
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
118 3 0.03
119 110 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (119 bp):
CCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCAATTGTGCGAGTTACT
ATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTTACTATAACCGTGTAAAC
Found at i:90289746 original size:49 final size:50
Alignment explanation
Indices: 90289691--90289812 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 50
90289681 AGTCGATGCC
* *
90289691 ATGTCCCAGATAGGTCTTACACTGA-CTTACATA-CATCGAGGCCGACGCA
1 ATGTCCCAGACAGGTCTTACACTGAGCTTACATATC-TCGAGGCCGACACA
* * *
90289740 ATGTCCCAGACAGGTCTTACACT-AGCTTGCATATCTTGAGGCCGACACC
1 ATGTCCCAGACAGGTCTTACACTGAGCTTACATATCTCGAGGCCGACACA
* *
90289789 ATGTCCCAAACAGGACTTACACTG
1 ATGTCCCAGACAGGTCTTACACTG
90289813 GCTCTCACTT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 1 0.02
49 61 0.97
50 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (50 bp):
ATGTCCCAGACAGGTCTTACACTGAGCTTACATATCTCGAGGCCGACACA
Found at i:90292988 original size:18 final size:18
Alignment explanation
Indices: 90292952--90292988 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
90292942 ATTCGATAAC
* *
90292952 TGTATATATATTTATATA
1 TGTATATATATCTACATA
90292970 TGTATATATATCTACATA
1 TGTATATATATCTACATA
90292988 T
1 T
90292989 TTTTGTACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (18 bp):
TGTATATATATCTACATA
Found at i:90294748 original size:27 final size:28
Alignment explanation
Indices: 90294718--90294817 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
90294708 TTTAGTTTAC
90294718 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
90294745 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
90294772 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
90294799 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
90294818 CCGATTTATA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.11
27 54 0.86
28 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:90294800 original size:54 final size:54
Alignment explanation
Indices: 90294713--90294836 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 54
90294703 AATACTTTAG
* * *
90294713 TTTACTAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAA-TACCCTCGA
1 TTTA-TAAAATTACCGAAATACCCTTAGCTTGTAAAAATAC-CAAAGTACCCCCGA
* * * *
90294768 TTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTACCAAAGTACCCCCGA
1 TTTATAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACCAAAGTACCCCCGA
*
90294822 TTTATAGAATTACCG
1 TTTATAAAATTACCG
90294837 TTTTACCCCC
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
53 8 0.14
54 46 0.81
55 3 0.05
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
TTTATAAAATTACCGAAATACCCTTAGCTTGTAAAAATACCAAAGTACCCCCGA
Found at i:90294843 original size:27 final size:27
Alignment explanation
Indices: 90294813--90294980 Score: 228
Period size: 27 Copynumber: 6.2 Consensus size: 27
90294803 ATTACCAAAG
* *
90294813 TACCCCCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
90294840 TACCCCCGATATACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
90294867 TACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
90294894 TACCCTCGACCTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
90294921 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
90294948 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
90294975 TACCCT
1 TACCCT
90294981 TACAAAATTA
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:90295023 original size:27 final size:27
Alignment explanation
Indices: 90294984--90295222 Score: 194
Period size: 27 Copynumber: 8.8 Consensus size: 27
90294974 TTACCCTTAC
* *
90294984 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
*
90295011 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
90295038 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * *
90295065 GAAATTACCAAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * **
90295092 AAAATTACCAAAATACCCCTAATTTAC
1 AAAATTACCAAAATACCCTTAGTTTGT
* * *
90295119 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCTT-AGTTTGT
* * **
90295147 AAAAATTA-TAGAAATACCATTAGTTTAC
1 -AAAATTACCA-AAATACCCTTAGTTTGT
** * *
90295175 AAAATTACTGAAATACCCTTGGTCTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * *
90295202 AGATTTACCAAAACACCCTTA
1 AAAATTACCAAAATACCCTTA
90295223 TAGGATGAAA
Statistics
Matches: 169, Mismatches: 39, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
26 2 0.01
27 141 0.83
28 9 0.05
29 17 0.10
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGTTTGT
Found at i:90295133 original size:81 final size:81
Alignment explanation
Indices: 90294985--90295135 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
90294975 TACCCTTACA
* *** * **
90294985 AAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCAAA
90295050 ATACCATTGGTTTGTG
66 ATACCATTGGTTTGTG
*
90295066 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTTA-CAGA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCA-A
90295130 AATACC
65 AATACC
90295136 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.03
81 59 0.97
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCAAA
ATACCATTGGTTTGTG
Found at i:90295282 original size:26 final size:27
Alignment explanation
Indices: 90295243--90295338 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 27
90295233 TGACTAAAAT
*
90295243 ACCCCTATTA-GGTAAA-AAACCGTCAA
1 ACCCCTA-TAGGGTAAAGAAACCGTAAA
* * **
90295269 GCCCCTGTAGGGTAAAGTGACCGTAAA
1 ACCCCTATAGGGTAAAGAAACCGTAAA
** *
90295296 ACCCCTATAGGGTAAAGTGACCGTAAT
1 ACCCCTATAGGGTAAAGAAACCGTAAA
* *
90295323 ACCCCTGTATGGTAAA
1 ACCCCTATAGGGTAAA
90295339 ATGACAAATA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
25 2 0.03
26 11 0.19
27 45 0.78
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (27 bp):
ACCCCTATAGGGTAAAGAAACCGTAAA
Found at i:90295300 original size:27 final size:27
Alignment explanation
Indices: 90295261--90295343 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
90295251 TAGGTAAAAA
* *
90295261 ACCGTCAAGCCCCTGTAGGGTAAAGTG
1 ACCGTAAAACCCCTGTAGGGTAAAGTG
*
90295288 ACCGTAAAACCCCTATAGGGTAAAGTG
1 ACCGTAAAACCCCTGTAGGGTAAAGTG
* * *
90295315 ACCGTAATACCCCTGTATGGTAAAATG
1 ACCGTAAAACCCCTGTAGGGTAAAGTG
90295342 AC
1 AC
90295344 AAATATGCCC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (27 bp):
ACCGTAAAACCCCTGTAGGGTAAAGTG
Found at i:90296181 original size:26 final size:26
Alignment explanation
Indices: 90296145--90296216 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
90296135 GAAGAAGTGC
* *
90296145 AAAAGGGCTTACGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
90296171 AAAAGGGCTTATACCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
90296197 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
90296217 ATTAAAGAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 9 0.21
26 33 0.79
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:90296420 original size:42 final size:42
Alignment explanation
Indices: 90296361--90296452 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
90296351 TAGTCTCCCC
* * ** *
90296361 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGAATACATCCATTGACATTACATGTGATATTG
90296403 AAATGGGCTTGAATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGAATACATCCATTGACATTACATGTGATATTG
90296445 AAATGGGC
1 AAATGGGC
90296453 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGAATACATCCATTGACATTACATGTGATATTG
Found at i:90296512 original size:31 final size:31
Alignment explanation
Indices: 90296476--90296554 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
90296466 CGTTTACAAT
*
90296476 AAAGGCTTCGGCCTAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* * *
90296507 AAAGGCTTTGGCCCAGTGATATGGTTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
90296538 AAAGGATTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
90296555 AATCGTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:90296579 original size:29 final size:30
Alignment explanation
Indices: 90296505--90296587 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
90296495 AATGATTTAT
* * *
90296505 GAAAAGGCTTTGGCCCAGTGATATGGTTTAT
1 GAAAAGGCTTTGGCCCAGT-ATATCGTTAAC
* *
90296536 GAAAAGGATTCGGCCCAGTA-ATCGTTAAAC
1 GAAAAGGCTTTGGCCCAGTATATCGTT-AAC
90296566 G-AAAGGCTTTGGCCCAGTATAT
1 GAAAAGGCTTTGGCCCAGTATAT
90296588 GTCAAGACTA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 21 0.49
30 5 0.12
31 17 0.40
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (30 bp):
GAAAAGGCTTTGGCCCAGTATATCGTTAAC
Found at i:90300715 original size:26 final size:26
Alignment explanation
Indices: 90300686--90300741 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
90300676 TGGTACAAAT
90300686 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90300712 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90300738 TGAT
1 TGAT
90300742 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90302837 original size:49 final size:49
Alignment explanation
Indices: 90302761--90302855 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
90302751 TTTTATTTTC
90302761 ATCCACGCAGGTAATCCCCAACCATAGTGGGCTTGGAGCTGTGAGGAAT
1 ATCCACGCAGGTAATCCCCAACCATAGTGGGCTTGGAGCTGTGAGGAAT
*
90302810 ATCCACGCAGGTAATCCCCAACTATAGTGGGCTTGGAGCTGTGAGG
1 ATCCACGCAGGTAATCCCCAACCATAGTGGGCTTGGAGCTGTGAGG
90302856 GAATTCAGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.21
Consensus pattern (49 bp):
ATCCACGCAGGTAATCCCCAACCATAGTGGGCTTGGAGCTGTGAGGAAT
Found at i:90306804 original size:26 final size:26
Alignment explanation
Indices: 90306775--90306932 Score: 248
Period size: 26 Copynumber: 6.2 Consensus size: 26
90306765 TGGTACAAAT
90306775 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
90306801 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90306827 TGATAAT-GGTTA-GAAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
90306851 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90306877 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90306903 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90306929 TGAT
1 TGAT
90306933 GGGCATTTCA
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
24 17 0.14
25 8 0.07
26 94 0.79
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90306868 original size:76 final size:78
Alignment explanation
Indices: 90306775--90306932 Score: 257
Period size: 76 Copynumber: 2.1 Consensus size: 78
90306765 TGGTACAAAT
* *
90306775 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATAATGG-TTA
1 TGATAATGGATTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCCATGATAATGGTTTA
90306839 -GAAAATGTTCCA
66 GGAAAATGTTCCA
* *
90306851 TGATAATGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTA
1 TGATAATGGATTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCCATGATAATGGTTTA
*
90306916 GGTAAATGTTCCA
66 GGAAAATGTTCCA
90306929 TGAT
1 TGAT
90306933 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
76 57 0.76
77 3 0.04
78 15 0.20
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (78 bp):
TGATAATGGATTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCCATGATAATGGTTTA
GGAAAATGTTCCA
Found at i:90321980 original size:28 final size:28
Alignment explanation
Indices: 90321937--90322001 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
90321927 ATGTACTAGA
*
90321937 ATACCCCTATGCATGCAAAATTACCAT-T
1 ATACCCCTATGCATGCAAAATGACC-TCT
*
90321965 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGCATGCAAAATGACCTCT
90321993 ATACCCCTA
1 ATACCCCTA
90322002 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.34, C:0.31, G:0.08, T:0.28
Consensus pattern (28 bp):
ATACCCCTATGCATGCAAAATGACCTCT
Found at i:90322207 original size:29 final size:28
Alignment explanation
Indices: 90322107--90322207 Score: 107
Period size: 28 Copynumber: 3.6 Consensus size: 28
90322097 AGGAAGCGTC
*
90322107 CTGGTGGCTATGCCA-AAAATTATCTGTT
1 CTGGTGGCTCTGCCACAAAA-TATCTGTT
**
90322135 CTGGTGGCTCTGCCAC-GTATATCTGTT
1 CTGGTGGCTCTGCCACAAAATATCTGTT
* *
90322162 TTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCTCTGCCACAAAATATCTGT-T
* *
90322191 CTGGTGACTCTGTCACA
1 CTGGTGGCTCTGCCACA
90322208 TTTTCTGTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
27 22 0.37
28 23 0.39
29 14 0.24
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAAAATATCTGTT
Found at i:90322684 original size:19 final size:19
Alignment explanation
Indices: 90322660--90322698 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
90322650 TTTTAATTAT
* *
90322660 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
90322679 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
90322698 T
1 T
90322699 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:90328026 original size:22 final size:21
Alignment explanation
Indices: 90327998--90328044 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 21
90327988 AAAAATGCAA
90327998 AAAAAGAAA-AAAAACAACAAAG
1 AAAAAGAAACAAAAA-AA-AAAG
90328020 AAAAAGAAACCAAAAAAAAAAG
1 AAAAAGAAA-CAAAAAAAAAAG
90328042 AAA
1 AAA
90328045 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 16 0.70
23 2 0.09
24 5 0.22
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAAGAAACAAAAAAAAAAG
Found at i:90328041 original size:16 final size:16
Alignment explanation
Indices: 90327995--90328044 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
90327985 ATAAAAAATG
*
90327995 CAAAAAAAGAAAAAAAA
1 CAAAAAAA-AAAGAAAA
*
90328012 CAACAAAGAAAAAGAAAC
1 CAA-AAA-AAAAAGAAAA
90328030 CAAAAAAAAAAGAAA
1 CAAAAAAAAAAGAAA
90328045 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 9 0.31
17 6 0.21
18 12 0.41
19 2 0.07
ACGTcount: A:0.82, C:0.10, G:0.08, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAAGAAAA
Found at i:90328558 original size:42 final size:42
Alignment explanation
Indices: 90328462--90328598 Score: 141
Period size: 42 Copynumber: 3.3 Consensus size: 42
90328452 AAGGAAAGCA
* * * ***
90328462 TTCATTACATTTAGAGGCCCAAATGTGGAGGTCGGCTTACTT
1 TTCATTGCATTTAGAGACCCAGATGTGGAGGTCCATTTACTT
* * * *
90328504 TTTATTGTATTTAGAGACCTAGATGTGGAGGTCCATTTACCT
1 TTCATTGCATTTAGAGACCCAGATGTGGAGGTCCATTTACTT
* *
90328546 TTCATTGCATTTAGA-AGCCCAGGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGA-CCCAGATGTGGAGGTCCATTTACTT
*
90328588 TTAATTGCATT
1 TTCATTGCATT
90328599 GTATATGAAG
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 1 0.01
42 76 0.99
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (42 bp):
TTCATTGCATTTAGAGACCCAGATGTGGAGGTCCATTTACTT
Found at i:90329054 original size:3 final size:3
Alignment explanation
Indices: 90329046--90329140 Score: 73
Period size: 3 Copynumber: 31.3 Consensus size: 3
90329036 AAGGGCCCAA
* * * * * *
90329046 ATT ATT ATT ATC ATT ACT ACT ACT ACT ACT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
90329094 ATT ATT ATTT ACT ACT ACT ATT ACT ACT ATT ATT ATT ATT ACT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
90329140 A
1 A
90329141 AATATAGTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
3 78 0.96
4 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.54
Consensus pattern (3 bp):
ATT
Found at i:90329927 original size:148 final size:149
Alignment explanation
Indices: 90329477--90330089 Score: 890
Period size: 149 Copynumber: 4.1 Consensus size: 149
90329467 AAAAGTTTTA
* * *
90329477 ATTTTTTTTCAAAAAATAGAAACTTTAGATTTTTAAAAATAAAAAT-TGTTTTTAGTCATTTTAA
1 ATTTTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTAA
* * *
90329541 AGGAAAAGATT-AAATTTATAAAACAAAGTTTTCATCTTTTCCAACTATTTCGAAATAAAGTTTT
66 AGGAAAAGTTTAAAATTT-TAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTT
90329605 GATTTTTAAGAAAAATAGTG
130 GATTTTTAAGAAAAATAGTG
* * * * * * *
90329625 ACTTTTTTTAAAAAAAGTGAAATTTTATATTTTTAAATATAAAAATTTGTTTTTAATCATTTTAA
1 ATTTTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTAA
* * * * *
90329690 AGGAAATGTTTAAAATTTTAACATAAAGTTTTGATCTTTTTCAACTATTTTGAAATAAAGCTTTG
66 AGGAAAAGTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTG
90329755 ATTTTTAAGAAAAATAGTG
131 ATTTTTAAGAAAAATAGTG
*
90329774 ATTTTTTTTAAAAAAAGAGAAAGTTTAAATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTAA
1 ATTTTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTAA
* * ** * * *
90329839 AAGAAAAGTTCAATTTTTTAAAACAAAATTTTGAT-ATTTTCAACTATTTCGAAATAAAATTTTG
66 AGGAAAAGTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTG
90329903 ATTTTTAAGAAAAATAGTG
131 ATTTTTAAGAAAAATAGTG
*
90329922 ATTTTTTTAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTA
1 ATTTTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATG-TTTTTAGTCATTTTA
* *
90329987 AATGAAAAGTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCAAAATAAAGTTTT
65 AAGGAAAAGTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTT
*
90330052 GATTTTTAAGCAAAATAGTG
130 GATTTTTAAGAAAAATAGTG
*
90330072 ATTAATTTTTAAAGAAAA
1 ATT-TTTTTTAAA-AAAA
90330090 CTTTGATTTT
Statistics
Matches: 411, Mismatches: 48, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
148 130 0.32
149 217 0.53
150 53 0.13
151 7 0.02
152 4 0.01
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (149 bp):
ATTTTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTAA
AGGAAAAGTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTG
ATTTTTAAGAAAAATAGTG
Found at i:90331081 original size:27 final size:27
Alignment explanation
Indices: 90331051--90331105 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
90331041 TGGATTTAGG
90331051 TTAGTCTTTAAGATATTATCTACCATT
1 TTAGTCTTTAAGATATTATCTACCATT
90331078 TTAGTCTTTAAGATATTATCTACCATT
1 TTAGTCTTTAAGATATTATCTACCATT
90331105 T
1 T
90331106 ACCTTAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (27 bp):
TTAGTCTTTAAGATATTATCTACCATT
Found at i:90340288 original size:36 final size:36
Alignment explanation
Indices: 90340241--90340311 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
90340231 AATCCATTAG
* * * *
90340241 TAGGTCTACAGTCGTCTTGGGCGACTCGTGCAACCT
1 TAGGTCCACAGTCGTCTTGGACGACCCATGCAACCT
90340277 TAGGTCCACAGTCGTCTTGGACGACCCATGCAACC
1 TAGGTCCACAGTCGTCTTGGACGACCCATGCAACC
90340312 ATATCTGTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.20, C:0.31, G:0.25, T:0.24
Consensus pattern (36 bp):
TAGGTCCACAGTCGTCTTGGACGACCCATGCAACCT
Found at i:90340324 original size:36 final size:36
Alignment explanation
Indices: 90340245--90340324 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
90340235 CATTAGTAGG
* * * * *
90340245 TCTACAGTCGTCTTGGGCGACTCGTGCAACCTTAGG
1 TCTACAGTCGTCTTGGACGACCCATGCAACCATAGC
* *
90340281 TCCACAGTCGTCTTGGACGACCCATGCAACCATATC
1 TCTACAGTCGTCTTGGACGACCCATGCAACCATAGC
*
90340317 TGTACAGT
1 TCTACAGT
90340325 ACACTTCCTC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (36 bp):
TCTACAGTCGTCTTGGACGACCCATGCAACCATAGC
Found at i:90340500 original size:27 final size:27
Alignment explanation
Indices: 90340456--90340549 Score: 143
Period size: 27 Copynumber: 3.5 Consensus size: 27
90340446 AGGACAAATC
***
90340456 AGTCATTTTACTTTACAAGGGTATTAT
1 AGTCATTTTACCCCACAAGGGTATTAT
*
90340483 AGTAATTTTACCCCACAAGGGTATTAT
1 AGTCATTTTACCCCACAAGGGTATTAT
*
90340510 AGTCATTTTACCCCACAAGGGTATTAC
1 AGTCATTTTACCCCACAAGGGTATTAT
90340537 AGTCATTTTACCC
1 AGTCATTTTACCC
90340550 TATGGGGGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (27 bp):
AGTCATTTTACCCCACAAGGGTATTAT
Found at i:90340566 original size:27 final size:27
Alignment explanation
Indices: 90340454--90340568 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
90340444 GTAGGACAAA
***
90340454 TCAGTCATTTTACTTTACAAGGGTATT
1 TCAGTCATTTTACCCCACAAGGGTATT
*
90340481 AT-AGTAATTTTACCCCACAAGGGTATT
1 -TCAGTCATTTTACCCCACAAGGGTATT
90340508 AT-AGTCATTTTACCCCACAAGGGTATT
1 -TCAGTCATTTTACCCCACAAGGGTATT
* * ***
90340535 ACAGTCATTTTACCCTATGGGGGTATT
1 TCAGTCATTTTACCCCACAAGGGTATT
90340562 TCAGTCA
1 TCAGTCA
90340569 CTATTTCAGC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
27 74 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
TCAGTCATTTTACCCCACAAGGGTATT
Found at i:90343990 original size:27 final size:27
Alignment explanation
Indices: 90343960--90344053 Score: 152
Period size: 27 Copynumber: 3.5 Consensus size: 27
90343950 TATGGCAAAT
90343960 CAATCATTTTACCTTACAGGGGTATTA
1 CAATCATTTTACCTTACAGGGGTATTA
90343987 CAATCATTTTACCTTACAGGGGTATTA
1 CAATCATTTTACCTTACAGGGGTATTA
* * *
90344014 TAGTCATTTTACCCTACAGGGGTATTA
1 CAATCATTTTACCTTACAGGGGTATTA
*
90344041 CAGTCATTTTACC
1 CAATCATTTTACC
90344054 CATTTTACCC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (27 bp):
CAATCATTTTACCTTACAGGGGTATTA
Found at i:90344477 original size:26 final size:27
Alignment explanation
Indices: 90344443--90344497 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
90344433 GCCGAAATGG
*
90344443 TGACCGAAATACCCC-ATAGGGTAAAA
1 TGACCGAAATACCCCTATAGGGCAAAA
*
90344469 TGACTGAAATACCCCTATAGGGCAAAA
1 TGACCGAAATACCCCTATAGGGCAAAA
90344496 TG
1 TG
90344498 GGTAAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (27 bp):
TGACCGAAATACCCCTATAGGGCAAAA
Found at i:90344501 original size:36 final size:36
Alignment explanation
Indices: 90344461--90344533 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
90344451 ATACCCCATA
90344461 GGGTAAAATGACTGAAATACCCCTATAGGGCAAAAT
1 GGGTAAAATGACTGAAATACCCCTATAGGGCAAAAT
* * * *
90344497 GGGTAAAATGACTGTAATACCCTTGTAGGGTAAAAT
1 GGGTAAAATGACTGAAATACCCCTATAGGGCAAAAT
90344533 G
1 G
90344534 ACTGTAATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (36 bp):
GGGTAAAATGACTGAAATACCCCTATAGGGCAAAAT
Found at i:90344527 original size:27 final size:27
Alignment explanation
Indices: 90344497--90344561 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
90344487 AGGGCAAAAT
*
90344497 GGGTAAAATGACTGTAATACCCTTGTA
1 GGGTAAAATGACTGTAATACCCGTGTA
90344524 GGGTAAAATGACTGTAATACCCGTGTA
1 GGGTAAAATGACTGTAATACCCGTGTA
*
90344551 AGGTAAAATGA
1 GGGTAAAATGA
90344562 TTGATTTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (27 bp):
GGGTAAAATGACTGTAATACCCGTGTA
Found at i:90354816 original size:43 final size:43
Alignment explanation
Indices: 90354728--90354915 Score: 183
Period size: 43 Copynumber: 4.3 Consensus size: 43
90354718 CGACCACGTT
*
90354728 TGGGACGTTGGCATC-A-ACTTATGACTTACGTGTAAGACCCTGTC
1 TGGGACGTTGGCATCGATA-TT-TGA-TTACATGTAAGACCCTGTC
*
90354772 TGGGACAG-TGGCATTGATATTTGATTACATGTAAGACCAC-GTC
1 TGGGAC-GTTGGCATCGATATTTGATTACATGTAAGACC-CTGTC
* * * *
90354815 TGGGACGTTGGCATCGCCT-TATGACTTACGTGTAAGACCCTATC
1 TGGGACGTTGGCATCG-ATATTTGA-TTACATGTAAGACCCTGTC
*
90354859 TAGGACAG-TGGCATCGATATTTGATTACATGTAAGACCAC-GTC
1 TGGGAC-GTTGGCATCGATATTTGATTACATGTAAGACC-CTGTC
90354902 TGGGACGTTGGCAT
1 TGGGACGTTGGCAT
90354916 TATACGAGCT
Statistics
Matches: 119, Mismatches: 13, Indels: 25
0.76 0.08 0.16
Matches are distributed among these distances:
42 2 0.02
43 61 0.51
44 50 0.42
45 5 0.04
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (43 bp):
TGGGACGTTGGCATCGATATTTGATTACATGTAAGACCCTGTC
Found at i:90354846 original size:87 final size:87
Alignment explanation
Indices: 90354714--90354915 Score: 341
Period size: 87 Copynumber: 2.3 Consensus size: 87
90354704 TGTGTTATCG
* * * *
90354714 TGTACGACCACGTTTGGGACGTTGGCATCAACTTATGACTTACGTGTAAGACCCTGTCTGGGACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCAACTTATGACTTACGTGTAAGACCCTATCTAGGACA
*
90354779 GTGGCATTGATATTTGATTACA
66 GTGGCATCGATATTTGATTACA
**
90354801 TGTAAGACCACGTCTGGGACGTTGGCATCGCCTTATGACTTACGTGTAAGACCCTATCTAGGACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCAACTTATGACTTACGTGTAAGACCCTATCTAGGACA
90354866 GTGGCATCGATATTTGATTACA
66 GTGGCATCGATATTTGATTACA
90354888 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
90354916 TATACGAGCT
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 108 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (87 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAACTTATGACTTACGTGTAAGACCCTATCTAGGACA
GTGGCATCGATATTTGATTACA
Found at i:90357666 original size:48 final size:48
Alignment explanation
Indices: 90357622--90357716 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
90357612 CTCAATGTAT
*
90357622 CTCACACCCGAAATGCTAATATCATGGCCTGAAACCAAACCAATGAAA
1 CTCACACCCGAAATGCCAATATCATGGCCTGAAACCAAACCAATGAAA
* * * *
90357670 CTCACACTCGAAGTGCCAATATCATGGCCTGAAGCCAAATCAATGAA
1 CTCACACCCGAAATGCCAATATCATGGCCTGAAACCAAACCAATGAA
90357717 TTTCCTAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (48 bp):
CTCACACCCGAAATGCCAATATCATGGCCTGAAACCAAACCAATGAAA
Found at i:90359751 original size:38 final size:38
Alignment explanation
Indices: 90359707--90359781 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
90359697 AAAATTCAAC
90359707 CTCGTGCCAAGAGCTTTTTGTAGTTTCTTCCAAAATCG
1 CTCGTGCCAAGAGCTTTTTGTAGTTTCTTCCAAAATCG
90359745 CTCGTGCCAAGAGCTTTTTGTAGTTTCTTCCAAAATC
1 CTCGTGCCAAGAGCTTTTTGTAGTTTCTTCCAAAATC
90359782 ATGGTGTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (38 bp):
CTCGTGCCAAGAGCTTTTTGTAGTTTCTTCCAAAATCG
Found at i:90363202 original size:70 final size:70
Alignment explanation
Indices: 90363083--90363350 Score: 421
Period size: 70 Copynumber: 3.8 Consensus size: 70
90363073 TTTATTTTTA
90363083 TGGCTATCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGCTGCTGTTATACTGTAA
1 TGGCTATCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGCTGCTGTTATACTGTAA
90363148 ATTAT
66 ATTAT
* * *
90363153 TGGTTCTCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGCTGCTGTTATACTATAA
1 TGGCTATCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGCTGCTGTTATACTGTAA
90363218 ATTAT
66 ATTAT
* * * * *
90363223 TGGCTATCCAAATTAGGACAAATTTATAGTGCTTAGCTAATTAATATGCTGCTATAATATTGTAA
1 TGGCTATCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGCTGCTGTTATACTGTAA
90363288 ATTAT
66 ATTAT
* * * *
90363293 TGGCTGTCCAAATTAGGACAAATTCATGGTGTTTAGCTAATTAAAATG-TGTTGTTATA
1 TGGCTATCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGCTGCTGTTATA
90363351 GATCAAGGAA
Statistics
Matches: 179, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
69 7 0.04
70 172 0.96
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (70 bp):
TGGCTATCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGCTGCTGTTATACTGTAA
ATTAT
Found at i:90363820 original size:48 final size:48
Alignment explanation
Indices: 90363749--90363871 Score: 192
Period size: 48 Copynumber: 2.6 Consensus size: 48
90363739 TGTGTGCTAG
* * *
90363749 TGTAAGACCATGTTTGGAACATGGCATTGGCCACATTATAAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATAGGCCACATTATAAGAGCCAA
* *
90363797 TGTAAGACCATGTCTGGGACATGGCATAGGCCACATTATAAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATAGGCCACATTATAAGAGCCAA
*
90363845 TGTAAGACCATGTCTAGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
90363872 CGGCATTGAG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATAGGCCACATTATAAGAGCCAA
Found at i:90363888 original size:48 final size:48
Alignment explanation
Indices: 90363788--90364023 Score: 217
Period size: 48 Copynumber: 4.8 Consensus size: 48
90363778 GCCACATTAT
* * * * *
90363788 AAGAGCCAATGTAAGACCATGTCTGGGACATGGCATAGGCCACATT---AT
1 AAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG---CATTGAGAC
90363836 AAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAC
1 AAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAC
90363884 AAGAGCTAGTGTAAGACCTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAC
1 AAGAGCTA--GT--G---TAAGACCATGTCTAGGACATGGCATCGGCATTGAGAC
* * * * * *
90363939 AAGAGCTAGTGTAAGACCATGTCTAGGACATGGTATCAGCCTCGACAT
1 AAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAC
** * * *
90363987 GTGAGCCAATGTAAGACCATGTCTAGGACATGACATC
1 AAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATC
90364024 AGTGATTTAC
Statistics
Matches: 161, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
45 4 0.02
48 106 0.66
50 2 0.01
51 1 0.01
52 1 0.01
53 2 0.01
55 45 0.28
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.21
Consensus pattern (48 bp):
AAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAC
Found at i:90363913 original size:55 final size:55
Alignment explanation
Indices: 90363847--90363956 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
90363837 AGAGCTAGTG
90363847 TAAGACCATGTCTAGGACATGGCATCGGCATTGAGACAAGAGCTAGTGTAAGACC
1 TAAGACCATGTCTAGGACATGGCATCGGCATTGAGACAAGAGCTAGTGTAAGACC
90363902 TAAGACCATGTCTAGGACATGGCATCGGCATTGAGACAAGAGCTAGTGTAAGACC
1 TAAGACCATGTCTAGGACATGGCATCGGCATTGAGACAAGAGCTAGTGTAAGACC
90363957 ATGTCTAGGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (55 bp):
TAAGACCATGTCTAGGACATGGCATCGGCATTGAGACAAGAGCTAGTGTAAGACC
Found at i:90364765 original size:42 final size:42
Alignment explanation
Indices: 90364718--90364803 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
90364708 ATATGACATA
90364718 AACATGTCAACAAATCTCTTATTATTTTCATATGGACTTACT
1 AACATGTCAACAAATCTCTTATTATTTTCATATGGACTTACT
*
90364760 AACATGTCAACAAATCTCTTATTATTTTTATATGGACTTACT
1 AACATGTCAACAAATCTCTTATTATTTTCATATGGACTTACT
90364802 AA
1 AA
90364804 GTTATATAGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (42 bp):
AACATGTCAACAAATCTCTTATTATTTTCATATGGACTTACT
Found at i:90366196 original size:43 final size:43
Alignment explanation
Indices: 90366147--90366346 Score: 174
Period size: 43 Copynumber: 4.7 Consensus size: 43
90366137 TATCCCAGAT
* * *
90366147 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAAAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAAC
* ** * * * *
90366190 AGGGTCTTGA-ACAAAATCAAATAACGATGCCAATGTCCCAGAT
1 ATGGTCTT-ACACGTAATCACATATCGATGCCAATGTCCCAAAC
* * *
90366233 ATGGTCTTACACGTAATCACA-ATACAATGTCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAAAC
* * *
90366276 ATGGTCTTAAACGTAATCACA-ATACAATGTCAATGT-CCAAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAA-AC
* *
90366319 ATGGTCTTACATGTAATCACATCTCGAT
1 ATGGTCTTACACGTAATCACATATCGAT
90366347 AACCTAATGT
Statistics
Matches: 128, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
42 5 0.04
43 121 0.95
44 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAAC
Found at i:90366294 original size:86 final size:87
Alignment explanation
Indices: 90366127--90366339 Score: 254
Period size: 86 Copynumber: 2.5 Consensus size: 87
90366117 ATAAAGCTTG
* * * *
90366127 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTGTCCCAAAC
1 TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAAAC
*
90366190 AGGGTCTTGAACAAAATCA-AA
66 AGGGTCTTAAACAAAATCACAA
* * * *
90366211 TAACGATGCCAATGTCCCAGATATGGTCTTACACGTAATCACAATA-CAATGTCAATGTCCCAGA
1 T-ACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAAA
* **
90366275 CATGGTCTTAAACGTAATCACAA
65 CAGGGTCTTAAACAAAATCACAA
* * *
90366298 TACAATGTCAATGTCCAAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACA
90366340 TCTCGATAAC
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
84 1 0.01
85 7 0.06
86 94 0.87
87 6 0.06
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (87 bp):
TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAAAC
AGGGTCTTAAACAAAATCACAA
Found at i:90376812 original size:48 final size:49
Alignment explanation
Indices: 90376760--90376890 Score: 162
Period size: 48 Copynumber: 2.7 Consensus size: 49
90376750 CGTACACTAG
* * * * **
90376760 GTGCTCAA-ATCAAGGCCCGAAGCCAACTCAATG-TGTCTCGCACCTGAA
1 GTGCTCAATATCATGGCCTGAAGCCAAATCAATGAAG-CTCGCACCCAAA
*
90376808 GTGCT-AATATCATGGCCTAAAGCCAAATCAATGAAGCTCGCACCCAAA
1 GTGCTCAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGCACCCAAA
90376856 GTGC-CAATATCATGGCCTGAAGCCAAATCAATGAA
1 GTGCTCAATATCATGGCCTGAAGCCAAATCAATGAA
90376891 TTTCCTAATG
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
47 2 0.03
48 69 0.96
49 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (49 bp):
GTGCTCAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGCACCCAAA
Found at i:90378584 original size:22 final size:22
Alignment explanation
Indices: 90378549--90378605 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
90378539 TCAAAAGGCA
* *
90378549 GTGTTGCGAGACCGGTCCTATG
1 GTGTTGCAACACCGGTCCTATG
*
90378571 GTGTTGTAACACCGGTCCTATG
1 GTGTTGCAACACCGGTCCTATG
90378593 GTGTTGCAACACC
1 GTGTTGCAACACC
90378606 AGGCGACGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.28
Consensus pattern (22 bp):
GTGTTGCAACACCGGTCCTATG
Found at i:90381183 original size:29 final size:30
Alignment explanation
Indices: 90381133--90381192 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
90381123 TCTACCTTAG
90381133 GAGCTGAAAATTATATAGCACTAAGTGTGC
1 GAGCTGAAAATTATATAGCACTAAGTGTGC
90381163 GAGCTGAAAA-TATATAGCACTAAGTGTGC
1 GAGCTGAAAATTATATAGCACTAAGTGTGC
90381192 G
1 G
90381193 GATTCACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (30 bp):
GAGCTGAAAATTATATAGCACTAAGTGTGC
Found at i:90383726 original size:2 final size:2
Alignment explanation
Indices: 90383719--90383761 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
90383709 AGTTAAATGC
90383719 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90383761 T
1 T
90383762 TCTACTATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:90385181 original size:25 final size:25
Alignment explanation
Indices: 90385149--90385198 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
90385139 TGTATTGAAA
* *
90385149 ATATATATGTTTGTTTAT-TAAATT
1 ATATATATGATTGTATATGTAAATT
90385173 ATATAATATGATTGTATATGTAAATT
1 ATAT-ATATGATTGTATATGTAAATT
90385199 TGGTTGTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 12 0.55
26 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (25 bp):
ATATATATGATTGTATATGTAAATT
Found at i:90389937 original size:46 final size:46
Alignment explanation
Indices: 90389750--90389927 Score: 284
Period size: 46 Copynumber: 3.9 Consensus size: 46
90389740 ATATATATAT
* * * *
90389750 ATATACATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
*
90389796 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
* **
90389842 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGAATTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
90389888 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTT
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTT
90389928 CGCCACATAT
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 122 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
Found at i:90389966 original size:92 final size:91
Alignment explanation
Indices: 90389770--90389968 Score: 258
Period size: 92 Copynumber: 2.2 Consensus size: 91
90389760 CATACATATC
** *
90389770 TCACATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCT
1 TCACATTAGCCATTCGAATTTACCTCATATCCATCTCATACACATTTCGCATTAGCCATTCGGCT
* * *
90389835 TTACCTCATATCCATCTCATACACGTT
66 TCACCACATAT-CATCACATACACGTT
*
90389862 TCGCATTAGCCATTCGAATTTACCTCATATCCATCTCATACACATTTCGCATTAGCCATTCGGCT
1 TCACATTAGCCATTCGAATTTACCTCATATCCATCTCATACACATTTCGCATTAGCCATTCGGCT
* *
90389927 TCGCCACATAT-AT-ACACTTCACGTT
66 TCACCACATATCATCACA-TACACGTT
*
90389952 CATCACATTGGCCATTC
1 --TCACATTAGCCATTC
90389969 TACCTTATCA
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
89 2 0.02
90 9 0.10
92 82 0.88
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (91 bp):
TCACATTAGCCATTCGAATTTACCTCATATCCATCTCATACACATTTCGCATTAGCCATTCGGCT
TCACCACATATCATCACATACACGTT
Found at i:90389983 original size:92 final size:90
Alignment explanation
Indices: 90389770--90390167 Score: 245
Period size: 94 Copynumber: 4.3 Consensus size: 90
90389760 CATACATATC
* * * * * *
90389770 TCACATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCT
1 TCACATTGGCCATTCGACCTTATCACATATCCATCTCATACACATTTCGCATTAGCCATTCGGC-
* * *
90389835 TTACCTCATATCCATCTCATACACGTT--
65 TTACCACATAT--ATCAC-TTCACGTTCA
* * ** * *
90389862 TCGCATTAGCCATTCGAATTTACCTCATATCCATCTCATACACATTTCGCATTAGCCATTCGGCT
1 TCACATTGGCCATTCGACCTTATCACATATCCATCTCATACACATTTCGCATTAGCCATTCGGCT
*
90389927 TCGCCACATATATACACTTCACGTTCA
66 T-ACCACATATAT-CACTTCACGTTCA
* * * * *
90389954 TCACATTGGCCATTCTACCTTATCACATAT--ATGCAT-GTTCACATTCATCACATTGGCCATTC
1 TCACATTGGCCATTCGACCTTATCACATATCCAT-C-TCATACACATT--TCGCATTAGCCATTC
* * *
90390016 GGCCTTATCACATATATGCATGTTCACATTCA
62 GG-CTTACCACATATAT-CA-CTTCACGTTCA
* * * * * *
90390048 TCACATTGGCCATTCGGCCTTATCACACAT--ATGC-AAGTTCACATTCATCACATTGGCCATTC
1 TCACATTGGCCATTCGACCTTATCACATATCCAT-CTCA-TACACATT--TCGCATTAGCCATTC
* * * *
90390110 GGCCTTATCACGTATATGCATGTTCACATTCA
62 GG-CTTACCACATATAT-CA-CTTCACGTTCA
*
90390142 TCACATTGGCCATTCGGCCTTATCAC
1 TCACATTGGCCATTCGACCTTATCAC
90390168 GTATATGCAT
Statistics
Matches: 265, Mismatches: 29, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
90 11 0.04
91 12 0.05
92 91 0.34
93 26 0.10
94 125 0.47
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.33
Consensus pattern (90 bp):
TCACATTGGCCATTCGACCTTATCACATATCCATCTCATACACATTTCGCATTAGCCATTCGGCT
TACCACATATATCACTTCACGTTCA
Found at i:90390007 original size:47 final size:47
Alignment explanation
Indices: 90389931--90390237 Score: 526
Period size: 47 Copynumber: 6.6 Consensus size: 47
90389921 TCGGCTTCGC
* * * **
90389931 CACATATATACA-CTTCACGTTCATCACATTGGCCATTCTACCTTAT
1 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
90389977 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
90390024 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
90390071 CACACATATGCAAGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
*
90390118 CACGTATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
*
90390165 CACGTATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
90390212 CACATATATGCATGTTCACATTCATC
1 CACATATATGCATGTTCACATTCATC
90390238 TCATAAAATC
Statistics
Matches: 249, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
46 11 0.04
47 238 0.96
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
Found at i:90392429 original size:51 final size:51
Alignment explanation
Indices: 90392373--90392475 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
90392363 CATTTCAACA
90392373 TAGCCGATTGTCATTAAGCAATTAAGCCACAAACATTTAATTTTACCAAGC
1 TAGCCGATTGTCATTAAGCAATTAAGCCACAAACATTTAATTTTACCAAGC
90392424 TAGCCGATTGTCATTAAGCAATTAAGCCACAAACATTTAATTTTACCAAGC
1 TAGCCGATTGTCATTAAGCAATTAAGCCACAAACATTTAATTTTACCAAGC
90392475 T
1 T
90392476 CAACTCATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (51 bp):
TAGCCGATTGTCATTAAGCAATTAAGCCACAAACATTTAATTTTACCAAGC
Found at i:90398879 original size:40 final size:40
Alignment explanation
Indices: 90398834--90399001 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
90398824 CGGAATATAA
90398834 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
90398874 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
90398914 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
90398954 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
90398994 CCGGATAT
1 CCGGATAT
90399002 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:90406891 original size:40 final size:40
Alignment explanation
Indices: 90406846--90407013 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
90406836 CGGAATATAA
90406846 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
90406886 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
90406926 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
90406966 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
90407006 CCGGATAT
1 CCGGATAT
90407014 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:90410241 original size:20 final size:20
Alignment explanation
Indices: 90410216--90410253 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90410206 GTTTATTCGC
*
90410216 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
90410236 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
90410254 TTTGGATGTG
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:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:90416866 original size:46 final size:46
Alignment explanation
Indices: 90416811--90416991 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
90416801 TAGGATGGTT
90416811 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
90416857 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
90416903 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
90416950 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90416992 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:90416972 original size:93 final size:93
Alignment explanation
Indices: 90416813--90416983 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
90416803 GGATGGTTGA
* *
90416813 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90416878 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
90416906 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90416971 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
90416984 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90420901 original size:20 final size:20
Alignment explanation
Indices: 90420876--90420913 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90420866 GTTTATTCGC
*
90420876 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
90420896 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
90420914 TTTGGATGTG
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:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:90424442 original size:19 final size:19
Alignment explanation
Indices: 90424418--90424456 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
90424408 GGTTGTCTTA
90424418 ATTTTAGATAATTTATGTT
1 ATTTTAGATAATTTATGTT
90424437 ATTTTAGATAATTTATGTT
1 ATTTTAGATAATTTATGTT
90424456 A
1 A
90424457 ATTTGGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
ATTTTAGATAATTTATGTT
Found at i:90428576 original size:31 final size:31
Alignment explanation
Indices: 90428533--90428607 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
90428523 ACGATTACTG
90428533 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* * *
90428564 GGCCAAAGCCTTTTCATAAATCATTTCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
90428595 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
90428608 ACTGTAAACG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:90428684 original size:42 final size:42
Alignment explanation
Indices: 90428637--90428721 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
90428627 ATTTCATAAA
* ** *
90428637 TCAATATCACATGTAATGTCAATGGATGTATGCAAGCCCATT
1 TCAATATCACATGAAATACCAATGAATGTATGCAAGCCCATT
90428679 TCAATATCACATGAAATACCAATGAATGTATGCAAGCCCATT
1 TCAATATCACATGAAATACCAATGAATGTATGCAAGCCCATT
90428721 T
1 T
90428722 GGGGAGACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (42 bp):
TCAATATCACATGAAATACCAATGAATGTATGCAAGCCCATT
Found at i:90428905 original size:26 final size:26
Alignment explanation
Indices: 90428866--90428989 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
90428856 CCTCTTTAAT
90428866 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* * *
90428891 ACCTGGAGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
90428917 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
90428943 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
90428969 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
90428990 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 8 0.09
26 80 0.91
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:90429883 original size:27 final size:27
Alignment explanation
Indices: 90429792--90429875 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
90429782 GGGCATATTC
* *
90429792 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
90429819 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
**
90429846 ACCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
90429873 GTC
1 GTC
90429876 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:90429967 original size:27 final size:27
Alignment explanation
Indices: 90429914--90430220 Score: 197
Period size: 27 Copynumber: 11.3 Consensus size: 27
90429904 TTTCATCCTA
* * * * * *
90429914 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
90429941 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
90429968 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* *
90429997 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* * *
90430024 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** * * * *
90430051 TGAGGGTATTTCAGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
90430078 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
90430104 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTAGTAATTTTATAAAT
*
90430132 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* **** * *
90430159 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*** *
90430186 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
90430213 CAAGGGTA
1 CAAGGGTA
90430221 AAACGGTAAT
Statistics
Matches: 228, Mismatches: 45, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.01
27 195 0.86
28 16 0.07
29 15 0.07
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:90430165 original size:81 final size:79
Alignment explanation
Indices: 90429914--90430166 Score: 233
Period size: 81 Copynumber: 3.1 Consensus size: 79
90429904 TTTCATCCTA
* * * * * ** *
90429914 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
90429979 CTA-TAATTTTTAGAAAGT
65 -TAGTAATTTTT--AAA-T
* ***
90429997 CAAGGGTATTTCT-GTAACTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTAT
1 CAAGGGTATTT-TGGTAA-TTT-TACAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTAT
* ** *
90430060 TTCAGTAATTTCACAAAC
63 TTTAGTAATTT-TTAAAT
90430078 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
90430143 TAGTAATTTTGTAAAT
65 TAGTAATTTT-TAAAT
*
90430159 CGAGGGTA
1 CAAGGGTA
90430167 AAACAGTAAT
Statistics
Matches: 136, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
79 2 0.01
80 7 0.05
81 67 0.49
82 4 0.03
83 50 0.37
84 4 0.03
85 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (79 bp):
CAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
AGTAATTTTTAAAT
Found at i:90430193 original size:81 final size:80
Alignment explanation
Indices: 90429941--90430258 Score: 201
Period size: 81 Copynumber: 3.9 Consensus size: 80
90429931 ATCTACAAAC
** *
90429941 CAAGGGTATTTTAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTT-TAGAAAGTCAAGGGT
1 CAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTC-AGTAATTTTGT--AAA-TCAAGGGT
*** *
90430004 ATTTCTGTAACTTTGTAAAT
62 AAAACGGTAA-TTTGTAAAT
* * *** *** * ***
90430024 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTGTAAATCAAGGGTAAAA
* *
90430089 TGGTAATTT-TACAAA
66 CGGTAATTTGTA-AAT
* * * *
90430104 CTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAA
1 C-AAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTGTAAATCAAGGGTAAA
*
90430169 ACAGTAATTCTGTAAAT
65 ACGGTAATT-TGTAAAT
*** * * * *** * * *
90430186 CAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
1 CAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTGTAAATCAAGGGTAAAA
90430251 CGGTAATT
66 CGGTAATT
90430259 CAGTAAGTCG
Statistics
Matches: 185, Mismatches: 44, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
79 2 0.01
80 6 0.03
81 130 0.70
82 8 0.04
83 39 0.21
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (80 bp):
CAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTGTAAATCAAGGGTAAAA
CGGTAATTTGTAAAT
Found at i:90430221 original size:27 final size:27
Alignment explanation
Indices: 90430144--90430348 Score: 214
Period size: 27 Copynumber: 7.6 Consensus size: 27
90430134 AGGGTATTTT
* *
90430144 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
90430171 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
90430198 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
90430225 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * * * *
90430252 GGTAATTCAGTAAGTCGAGAGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* **
90430279 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* * ***
90430306 GGTAATTATGTAAATTGGGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
90430333 GGTAATTCTGTAAATC
1 AGTAATTCTGTAAATC
90430349 GGGAGTACTT
Statistics
Matches: 157, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 155 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:90430259 original size:81 final size:81
Alignment explanation
Indices: 90430145--90430348 Score: 266
Period size: 81 Copynumber: 2.5 Consensus size: 81
90430135 GGGTATTTTA
* * * *
90430145 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAG-TAATTCTAT
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGAGTAAAA-AGATAATTATAT
90430209 AAATCAAGGGTAAAACG
65 AAATCAAGGGTAAAACG
* * * * * *
90430226 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCAGTAAGTCGAGAGTAAAACGATAATTATGTA
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGAGTAAAAAGATAATTATATA
**
90430291 AATCGGGGGTAAAACG
66 AATCAAGGGTAAAACG
* *
90430307 GTAATTATGTAAATTGGGGGTAAAACGGTAATTCTGTAAATC
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC
90430349 GGGAGTACTT
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 1 0.01
81 105 0.99
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (81 bp):
GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGAGTAAAAAGATAATTATATA
AATCAAGGGTAAAACG
Found at i:90430351 original size:54 final size:54
Alignment explanation
Indices: 90430145--90430349 Score: 259
Period size: 54 Copynumber: 3.8 Consensus size: 54
90430135 GGGTATTTTA
* * * **
90430145 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * *
90430199 GTAATTCTATAAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * *
90430253 GTAATTCA-GTAAGTCGAGAGTAAAACGATAATTATGTAAATCGGGGGTAAAACG
1 GTAATT-ATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
90430307 GTAATTATGTAAATTGGGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
90430350 GGAGTACTTT
Statistics
Matches: 128, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 127 0.99
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:90430436 original size:27 final size:27
Alignment explanation
Indices: 90430361--90430427 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
90430351 GAGTACTTTG
* * * *
90430361 GTAATTTCACAAGTCCAAGGTATTTCA
1 GTAATTTTACAAATCAAAGGTACTTCA
90430388 GTAATTTTACAAATCAAAGGTACTTCA
1 GTAATTTTACAAATCAAAGGTACTTCA
*
90430415 GTATTTTTACAAA
1 GTAATTTTACAAA
90430428 CTAAGGGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (27 bp):
GTAATTTTACAAATCAAAGGTACTTCA
Found at i:90430449 original size:27 final size:27
Alignment explanation
Indices: 90430377--90430465 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
90430367 TCACAAGTCC
90430377 AAGGTATTTCAGTAATTTTACAAA-TCA
1 AAGGTATTTCAGTAATTTTACAAACT-A
* *
90430404 AAGGTACTTCAGTATTTTTACAAACTA
1 AAGGTATTTCAGTAATTTTACAAACTA
* *
90430431 AGGGTATTTC-GATAATTTTAGTAAACTA
1 AAGGTATTTCAG-TAATTTTA-CAAACTA
90430459 AA-GTATT
1 AAGGTATT
90430466 CTAAACAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.02
27 43 0.83
28 8 0.15
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (27 bp):
AAGGTATTTCAGTAATTTTACAAACTA
Found at i:90432887 original size:29 final size:28
Alignment explanation
Indices: 90432853--90432955 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
90432843 TAATCGATCA
*
90432853 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
90432882 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
90432911 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
90432940 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
90432956 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 61 0.91
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:90440939 original size:29 final size:28
Alignment explanation
Indices: 90440905--90441007 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
90440895 TAATCGATCA
*
90440905 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
90440934 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
90440963 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
90440992 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
90441008 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 61 0.91
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:90444470 original size:17 final size:17
Alignment explanation
Indices: 90444445--90444480 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
90444435 TACCCAAGCC
*
90444445 TAGCTGAATATTAAACA
1 TAGCCGAATATTAAACA
90444462 TAGCCGAATATTAAACA
1 TAGCCGAATATTAAACA
90444479 TA
1 TA
90444481 CTTATAGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (17 bp):
TAGCCGAATATTAAACA
Found at i:90445980 original size:93 final size:93
Alignment explanation
Indices: 90445868--90446038 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
90445858 GCCCATAAGT
* *
90445868 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90445933 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
90445961 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90446026 CGAGTTCGGATGC
66 CGAGTTCGGATGC
90446039 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:90446035 original size:46 final size:46
Alignment explanation
Indices: 90445860--90446035 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
90445850 TGTAACCCGC
* * *
90445860 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
90445906 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
90445956 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
90445999 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
90446036 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:90448473 original size:15 final size:15
Alignment explanation
Indices: 90448415--90448493 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
90448405 CAAAGATAAC
*
90448415 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
90448429 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
90448444 GAGAAA-CTC-GAATA
1 AAGAAATC-CAGAATA
90448458 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
90448473 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
90448488 AAGAAA
1 AAGAAA
90448494 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:90448502 original size:15 final size:15
Alignment explanation
Indices: 90448426--90448502 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
90448416 AGAAAACCGA
90448426 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
90448441 ATAGAGAAA-CTCGA-
1 ATAAAGAAATC-CAAG
90448455 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
90448469 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
90448485 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
90448500 ATA
1 ATA
90448503 CGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:90451755 original size:93 final size:93
Alignment explanation
Indices: 90451643--90451814 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
90451633 CGCCCATAAG
* *
90451643 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
90451708 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
90451736 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
90451801 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
90451815 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:90451811 original size:46 final size:46
Alignment explanation
Indices: 90451636--90451811 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
90451626 TGTAACCCGC
* * *
90451636 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
90451682 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
90451732 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
90451775 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
90451812 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:90455146 original size:25 final size:25
Alignment explanation
Indices: 90455117--90455164 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
90455107 TTATAATATG
* *
90455117 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
90455142 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
90455165 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:90455361 original size:24 final size:25
Alignment explanation
Indices: 90455310--90455364 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
90455300 GGCTTTACCG
*
90455310 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTATAA
90455335 AAAAGGGCTTTGCCC-AG-TTATTAA
1 AAAAGGGCTTTGCCCTAGTTTA-TAA
90455359 AAAAGG
1 AAAAGG
90455365 CTAGGCCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 3 0.11
24 10 0.36
25 15 0.54
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTATAA
Found at i:90455610 original size:31 final size:31
Alignment explanation
Indices: 90455572--90455656 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
90455562 TAATTTACAA
90455572 TAAAGGCTTCGGCCCAGTGATATGAATAATG
1 TAAAGGCTTCGGCCCAGTGATATGAATAATG
* *
90455603 -AAGAGGCTTCAGCCCAGTGACATGAATAATG
1 TAA-AGGCTTCGGCCCAGTGATATGAATAATG
90455634 TAAAGGCTTCGGCCCAGT-ATATG
1 TAAAGGCTTCGGCCCAGTGATATG
90455657 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 6 0.12
31 40 0.83
32 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (31 bp):
TAAAGGCTTCGGCCCAGTGATATGAATAATG
Found at i:90460316 original size:15 final size:16
Alignment explanation
Indices: 90460290--90460320 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
90460280 TCTCTCTTGC
90460290 TTTTAGATCATATATA
1 TTTTAGATCATATATA
90460306 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
90460321 AGACAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:90463194 original size:18 final size:18
Alignment explanation
Indices: 90463171--90463224 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
90463161 TGAGAAAGGC
90463171 TGAGAAAGAAAAGGGAAT
1 TGAGAAAGAAAAGGGAAT
*
90463189 TGAGAAAGAAAAGGAAAT
1 TGAGAAAGAAAAGGGAAT
*
90463207 TGGGAAAGAAAAGGGAAT
1 TGAGAAAGAAAAGGGAAT
90463225 GGGGGGAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.56, C:0.00, G:0.33, T:0.11
Consensus pattern (18 bp):
TGAGAAAGAAAAGGGAAT
Found at i:90463800 original size:8 final size:7
Alignment explanation
Indices: 90463783--90463902 Score: 55
Period size: 7 Copynumber: 16.9 Consensus size: 7
90463773 CTAATTAATC
90463783 TAAACCT
1 TAAACCT
90463790 TAAACCCT
1 TAAA-CCT
90463798 TAACACC-
1 TAA-ACCT
**
90463805 TATCCCT
1 TAAACCT
90463812 TAAACCT
1 TAAACCT
* *
90463819 TAAATCA
1 TAAACCT
* *
90463826 TAAAACA
1 TAAACCT
*
90463833 TAAACCC
1 TAAACCT
*
90463840 TAAACCCC
1 TAAA-CCT
*
90463848 TAACCCT
1 TAAACCT
* *
90463855 TAACCCC
1 TAAACCT
90463862 TAACACC-
1 TAA-ACCT
90463869 TAAACCT
1 TAAACCT
*
90463876 TAAACCC
1 TAAACCT
* *
90463883 CAACCCT
1 TAAACCT
*
90463890 TAAACCA
1 TAAACCT
90463897 TAAACC
1 TAAACC
90463903 ATAATCACTA
Statistics
Matches: 87, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
6 5 0.06
7 65 0.75
8 16 0.18
9 1 0.01
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCT
Found at i:90463852 original size:14 final size:14
Alignment explanation
Indices: 90463835--90463874 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
90463825 ATAAAACATA
90463835 AACCCTAAACCCCT
1 AACCCTAAACCCCT
*
90463849 AACCCTTAACCCCT
1 AACCCTAAACCCCT
90463863 AACACCTAAACC
1 AAC-CCTAAACC
90463875 TTAAACCCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.15
Consensus pattern (14 bp):
AACCCTAAACCCCT
Found at i:90463880 original size:43 final size:43
Alignment explanation
Indices: 90463782--90463882 Score: 114
Period size: 43 Copynumber: 2.3 Consensus size: 43
90463772 ACTAATTAAT
* * *
90463782 CTAAACCTTAAACCCTTAACACCTATCCCTTAAACCTTAAATC
1 CTAAACCTTAAACCCTAAACACCTAACCCTTAAACCCTAAATC
* * * * *
90463825 ATAAAACATAAACCCTAAACCCCTAACCCTTAACCCCTAACA-C
1 CTAAACCTTAAACCCTAAACACCTAACCCTTAAACCCTAA-ATC
90463868 CTAAACCTTAAACCC
1 CTAAACCTTAAACCC
90463883 CAACCCTTAA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.22
Consensus pattern (43 bp):
CTAAACCTTAAACCCTAAACACCTAACCCTTAAACCCTAAATC
Found at i:90463986 original size:14 final size:14
Alignment explanation
Indices: 90463953--90464006 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
90463943 AATAGTAACT
90463953 CCTAAATCT-TAAAC
1 CCTAAA-CTATAAAC
* *
90463967 CTTAAACTATATAC
1 CCTAAACTATAAAC
*
90463981 CCTAAACCATAAAC
1 CCTAAACTATAAAC
*
90463995 CCTAAAATATAA
1 CCTAAACTATAA
90464007 TGATAATTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
13 2 0.06
14 30 0.94
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (14 bp):
CCTAAACTATAAAC
Found at i:90463993 original size:28 final size:28
Alignment explanation
Indices: 90463930--90464006 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 28
90463920 AATTCATAAT
90463930 CCATAAACCTTAAAATAGTAACTCCTAAA
1 CCATAAACCTTAAAATA-TAACTCCTAAA
* * *
90463959 TCTTAAACCTTAAACTATATAC-CCTAAA
1 CCATAAACCTTAAAATATA-ACTCCTAAA
*
90463987 CCATAAACCCTAAAATATAA
1 CCATAAACCTTAAAATATAA
90464007 TGATAATTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.03
28 23 0.57
29 16 0.40
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (28 bp):
CCATAAACCTTAAAATATAACTCCTAAA
Found at i:90464486 original size:40 final size:40
Alignment explanation
Indices: 90464430--90464572 Score: 169
Period size: 40 Copynumber: 3.6 Consensus size: 40
90464420 TTTGTGGCAT
* *
90464430 TTTTCAAAAAGCGCCGCTAATGGTCAACCTATAGCGGCGA
1 TTTTCAAAAAGCGCCGCTAATGCTCAAACTATAGCGGCGA
* * * * * *
90464470 TTTTCAGAAAGTGCCGCTAATGCTCGATCTATAACGGTGA
1 TTTTCAAAAAGCGCCGCTAATGCTCAAACTATAGCGGCGA
* * ** *
90464510 TTTTCAAAAAGCGTCGCTACTGCTCAAACTATAGCATCGT
1 TTTTCAAAAAGCGCCGCTAATGCTCAAACTATAGCGGCGA
90464550 TTTTCAAAAAGCGCCGCTAATGC
1 TTTTCAAAAAGCGCCGCTAATGC
90464573 CACTAAAGTT
Statistics
Matches: 83, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (40 bp):
TTTTCAAAAAGCGCCGCTAATGCTCAAACTATAGCGGCGA
Found at i:90467073 original size:22 final size:21
Alignment explanation
Indices: 90467043--90467108 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
90467033 TACAAATTAA
90467043 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
90467065 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
90467086 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
90467105 ATCT
1 ATCT
90467109 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:90467095 original size:19 final size:19
Alignment explanation
Indices: 90467060--90467157 Score: 137
Period size: 19 Copynumber: 5.2 Consensus size: 19
90467050 AGATTACAAG
90467060 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
90467081 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
90467100 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
* * *
90467117 ATCATATCTGATATTGTAT
1 ATCATATCTAAGATTGCAT
90467136 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
90467155 ATC
1 ATC
90467158 CTTAAAGATT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
17 15 0.21
19 46 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Done.