Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 148 of 172
Found at i:48664460 original size:18 final size:18
Alignment explanation
Indices: 48664439--48664478 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
48664429 ATAATTTTAA
*
48664439 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
48664457 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
48664475 AAAA
1 AAAA
48664479 TAAATAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:48664653 original size:22 final size:23
Alignment explanation
Indices: 48664619--48664669 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
48664609 ACAATATCCA
48664619 AACAATAACAATAAAAT-AGTAGC
1 AACAATAACAATAAAATGA-TAGC
*
48664642 AACAA-AATAATAAAATGATAGC
1 AACAATAACAATAAAATGATAGC
48664664 AA-AATA
1 AACAATA
48664670 GGGAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.65, C:0.10, G:0.08, T:0.18
Consensus pattern (23 bp):
AACAATAACAATAAAATGATAGC
Found at i:48674465 original size:17 final size:18
Alignment explanation
Indices: 48674438--48674483 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
48674428 AAGCCAGTAT
48674438 TATAT-TATTATAAT-TG
1 TATATATATTATAATGTG
* *
48674454 TGTATATATTAT-GTGTG
1 TATATATATTATAATGTG
48674471 TATATATATTATA
1 TATATATATTATA
48674484 TGCATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TATATATATTATAATGTG
Found at i:48682143 original size:24 final size:26
Alignment explanation
Indices: 48682126--48682177 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
48682116 TATAATTTAT
48682126 TTATT-TTAAAAA-ACTATACATATA
1 TTATTATTAAAAATACTATACATATA
**
48682150 TTATTATTAAAAATACTATTTATATA
1 TTATTATTAAAAATACTATACATATA
48682176 TT
1 TT
48682178 TATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATTAAAAATACTATACATATA
Found at i:48682257 original size:24 final size:24
Alignment explanation
Indices: 48682225--48682292 Score: 91
Period size: 25 Copynumber: 2.8 Consensus size: 24
48682215 TATATATTTA
*
48682225 TATTATATTTTATTATATAACATT
1 TATTATATTTTATTATATAACACT
**
48682249 TATTATATTTTTATTATATATTACT
1 TATTATA-TTTTATTATATAACACT
*
48682274 TATTATTTTTTATTATATA
1 TATTATATTTTATTATATA
48682293 TTATGTATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATATTTTATTATATAACACT
Found at i:48682286 original size:35 final size:34
Alignment explanation
Indices: 48682202--48682356 Score: 91
Period size: 35 Copynumber: 4.4 Consensus size: 34
48682192 ATTTATCATA
* *
48682202 TATTATTTTCCTATATATATTTATATTATATTTTAT
1 TATTATTTT-TTAT-TATATTTATATTATATATTAT
*** *
48682238 TATATAACATTTATTATATTTTTATTATATATTACT
1 TAT-TATTTTTTATTATATTTATATTATATATTA-T
* **
48682274 TATTATTTTTTATTATATATTAT-GTATATCGTA-
1 TATTATTTTTTATTATAT-TTATATTATATATTAT
* * * *
48682307 TATTATCTATTA-TATTATTTATGTTTTATATTAT
1 TATTATTTTTTATTA-TATTTATATTATATATTAT
48682341 TCATTATATTATTTAT
1 T-ATTAT-TT-TTTAT
48682357 AATTTTAAAA
Statistics
Matches: 88, Mismatches: 21, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
32 6 0.07
33 19 0.22
34 1 0.01
35 42 0.48
36 14 0.16
37 6 0.07
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (34 bp):
TATTATTTTTTATTATATTTATATTATATATTAT
Found at i:48682293 original size:24 final size:24
Alignment explanation
Indices: 48682225--48682295 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
48682215 TATATATTTA
* ** *
48682225 TATTATATTTTATTATATAACATT
1 TATTATTTTTTATTATATATTACT
48682249 TATTATATTTTTATTATATATTACT
1 TATTAT-TTTTTATTATATATTACT
48682274 TATTATTTTTTATTATATATTA
1 TATTATTTTTTATTATATATTA
48682296 TGTATATCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 22 0.52
25 20 0.48
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATTTTTTATTATATATTACT
Found at i:48682294 original size:7 final size:7
Alignment explanation
Indices: 48682215--48682349 Score: 56
Period size: 7 Copynumber: 19.7 Consensus size: 7
48682205 TATTTTCCTA
48682215 TATATAT
1 TATATAT
48682222 T-TATAT
1 TATATAT
*
48682228 TATATTT
1 TATATAT
48682235 TATTATAT
1 TA-TATAT
* *
48682243 AACAT-T
1 TATATAT
48682249 TATTATAT
1 TA-TATAT
*
48682257 T-TTTAT
1 TATATAT
48682263 TATATAT
1 TATATAT
48682270 TACT-TAT
1 TA-TATAT
48682277 TAT-T-T
1 TATATAT
48682282 T-T-TAT
1 TATATAT
48682287 TATATAT
1 TATATAT
48682294 TATGTATAT
1 TA--TATAT
**
48682303 CGTATAT
1 TATATAT
*
48682310 TATCTAT
1 TATATAT
48682317 TATATTAT
1 TATA-TAT
*
48682325 T-TATGT
1 TATATAT
*
48682331 TTTATAT
1 TATATAT
48682338 TAT-TCAT
1 TATAT-AT
48682345 TATAT
1 TATAT
48682350 TATTTATAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
4 2 0.02
5 4 0.04
6 20 0.21
7 52 0.54
8 13 0.14
9 5 0.05
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (7 bp):
TATATAT
Found at i:48682324 original size:28 final size:28
Alignment explanation
Indices: 48682289--48682357 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
48682279 TTTTTTATTA
*
48682289 TATATTATGTATATCGTATATTA-TCTAT
1 TATATTATTTATATCGTATATTATTC-AT
* **
48682317 TATATTATTTATGTTTTATATTATTCAT
1 TATATTATTTATATCGTATATTATTCAT
48682345 TATATTATTTATA
1 TATATTATTTATA
48682358 ATTTTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (28 bp):
TATATTATTTATATCGTATATTATTCAT
Found at i:48685367 original size:21 final size:20
Alignment explanation
Indices: 48685341--48685395 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
48685331 ATGTACCTAT
*
48685341 ATATATATTAAAGATATATAC
1 ATATATATTAAA-ACATATAC
*
48685362 ATATATAATAAAACATATAC
1 ATATATATTAAAACATATAC
48685382 -TA-ATATTAATAACA
1 ATATATATTAA-AACA
48685396 ATAATAAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 6 0.20
19 6 0.20
20 7 0.23
21 11 0.37
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:48685482 original size:24 final size:23
Alignment explanation
Indices: 48685415--48685496 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
48685405 ATAATATAAA
* * *
48685415 AAAATACATACATGAAATAGTAT
1 AAAATATATATATGAAATAATAT
* *
48685438 AAAAAATATATATAACTAATAATAT
1 AAAATATATATATGA--AATAATAT
*
48685463 AAATATATATATATGAAATAACAT
1 AAA-ATATATATATGAAATAATAT
48685487 AAAA-ATATAT
1 AAAATATATAT
48685497 GAATAGTATG
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
22 6 0.12
23 12 0.25
24 10 0.21
25 10 0.21
26 10 0.21
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAATATATATATGAAATAATAT
Found at i:48685492 original size:26 final size:26
Alignment explanation
Indices: 48685405--48685496 Score: 91
Period size: 26 Copynumber: 3.7 Consensus size: 26
48685395 AATAATAAGG
* * *
48685405 ATAATATAAAAAAATACATACATGAA
1 ATAATATAAAAATATATATATATGAA
* ***
48685431 ATAGTATAAAAA-ATATATATAACTA
1 ATAATATAAAAATATATATATATGAA
48685456 ATAATAT--AAATATATATATATGAA
1 ATAATATAAAAATATATATATATGAA
*
48685480 ATAACATAAAAATATAT
1 ATAATATAAAAATATAT
48685497 GAATAGTATG
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
23 3 0.06
24 16 0.31
25 14 0.27
26 19 0.37
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (26 bp):
ATAATATAAAAATATATATATATGAA
Found at i:48685578 original size:26 final size:23
Alignment explanation
Indices: 48685521--48685598 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
48685511 TTACAAATAT
*
48685521 ATACATAATATAAT-TATTTAAAA
1 ATACATAATATAATATA-TAAAAA
*
48685544 A-ACAT-A-AT-ATA-ATAAAAT
1 ATACATAATATAATATATAAAAA
48685562 ATACGAATAATATAATATATAAAAA
1 ATAC--ATAATATAATATATAAAAA
48685587 ATACATAATATA
1 ATACATAATATA
48685599 TGAAAAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
18 5 0.11
19 5 0.11
20 2 0.05
21 3 0.07
22 5 0.11
23 11 0.25
24 3 0.07
25 10 0.23
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (23 bp):
ATACATAATATAATATATAAAAA
Found at i:48685594 original size:18 final size:18
Alignment explanation
Indices: 48685573--48685635 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
48685563 TACGAATAAT
48685573 ATAATATATAAAAAATAC
1 ATAATATATAAAAAATAC
48685591 ATAATATATGAAAAATATA-
1 ATAATATAT-AAAAA-ATAC
* * *
48685610 ATATTTTAAAAAAAATAC
1 ATAATATATAAAAAATAC
*
48685628 CTAATATA
1 ATAATATA
48685636 AGAGTATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.08
18 19 0.53
19 11 0.31
20 3 0.08
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (18 bp):
ATAATATATAAAAAATAC
Found at i:48685779 original size:12 final size:12
Alignment explanation
Indices: 48685762--48685789 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
48685752 GAAAGTAAAT
48685762 AATATAATAATA
1 AATATAATAATA
48685774 AATATAATAATA
1 AATATAATAATA
48685786 AATA
1 AATA
48685790 CATATGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATATAATAATA
Found at i:48685854 original size:22 final size:19
Alignment explanation
Indices: 48685827--48685879 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 19
48685817 AGACATTTAA
48685827 AATAAATATACATATATATAT
1 AATAAATATA-ATATATA-AT
48685848 AACTAAATATAATA-ATAAT
1 AA-TAAATATAATATATAAT
48685867 AAT-AATATAATAT
1 AATAAATATAATAT
48685880 TAGAATAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 9 0.30
18 1 0.03
19 4 0.13
20 3 0.10
21 5 0.17
22 8 0.27
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AATAAATATAATATATAAT
Found at i:48685975 original size:24 final size:25
Alignment explanation
Indices: 48685934--48685989 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
48685924 ACATACATAT
*
48685934 ATAATAA-AACATACACTAAG-ATTA
1 ATAATAATAACATACACT-AGCAATA
*
48685958 ATAATAATAACA-ATACTAGCAATA
1 ATAATAATAACATACACTAGCAATA
48685982 ATAATAAT
1 ATAATAAT
48685990 TAGTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 22 0.79
25 4 0.14
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.27
Consensus pattern (25 bp):
ATAATAATAACATACACTAGCAATA
Found at i:48687080 original size:257 final size:257
Alignment explanation
Indices: 48686624--48687137 Score: 1028
Period size: 257 Copynumber: 2.0 Consensus size: 257
48686614 TTTTTTTTGT
48686624 TAATGTTTTGGGTTGATGTTAGTGGGTTAGGGTTTGTTTAATTTGGGCTGGTAGTTTAGGTTTTA
1 TAATGTTTTGGGTTGATGTTAGTGGGTTAGGGTTTGTTTAATTTGGGCTGGTAGTTTAGGTTTTA
48686689 TTTTGTTTTGGGTTAAAGGTTGTAAATGGGCTTATGTAATGTAAATAAGCCCAAAATTGGCCTAC
66 TTTTGTTTTGGGTTAAAGGTTGTAAATGGGCTTATGTAATGTAAATAAGCCCAAAATTGGCCTAC
48686754 AACATAGACATCACATATATAATAAGGGTAATTACATGTTATTACTTACTATAATGATAGGTTAG
131 AACATAGACATCACATATATAATAAGGGTAATTACATGTTATTACTTACTATAATGATAGGTTAG
48686819 CCCAAATTAAAAGTGATCTAATTTGGTTAAAATTTTATTAGGTTTTAATTTTTAAATAATAG
196 CCCAAATTAAAAGTGATCTAATTTGGTTAAAATTTTATTAGGTTTTAATTTTTAAATAATAG
48686881 TAATGTTTTGGGTTGATGTTAGTGGGTTAGGGTTTGTTTAATTTGGGCTGGTAGTTTAGGTTTTA
1 TAATGTTTTGGGTTGATGTTAGTGGGTTAGGGTTTGTTTAATTTGGGCTGGTAGTTTAGGTTTTA
48686946 TTTTGTTTTGGGTTAAAGGTTGTAAATGGGCTTATGTAATGTAAATAAGCCCAAAATTGGCCTAC
66 TTTTGTTTTGGGTTAAAGGTTGTAAATGGGCTTATGTAATGTAAATAAGCCCAAAATTGGCCTAC
48687011 AACATAGACATCACATATATAATAAGGGTAATTACATGTTATTACTTACTATAATGATAGGTTAG
131 AACATAGACATCACATATATAATAAGGGTAATTACATGTTATTACTTACTATAATGATAGGTTAG
48687076 CCCAAATTAAAAGTGATCTAATTTGGTTAAAATTTTATTAGGTTTTAATTTTTAAATAATAG
196 CCCAAATTAAAAGTGATCTAATTTGGTTAAAATTTTATTAGGTTTTAATTTTTAAATAATAG
48687138 GCTAATTAGA
Statistics
Matches: 257, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
257 257 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (257 bp):
TAATGTTTTGGGTTGATGTTAGTGGGTTAGGGTTTGTTTAATTTGGGCTGGTAGTTTAGGTTTTA
TTTTGTTTTGGGTTAAAGGTTGTAAATGGGCTTATGTAATGTAAATAAGCCCAAAATTGGCCTAC
AACATAGACATCACATATATAATAAGGGTAATTACATGTTATTACTTACTATAATGATAGGTTAG
CCCAAATTAAAAGTGATCTAATTTGGTTAAAATTTTATTAGGTTTTAATTTTTAAATAATAG
Found at i:48693063 original size:21 final size:20
Alignment explanation
Indices: 48693039--48693078 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
48693029 ATTTAATATA
*
48693039 TGAATTTTGAATTAGTAAATT
1 TGAATTGTGAATTA-TAAATT
*
48693060 TGAATTGTGATTTATAAAT
1 TGAATTGTGAATTATAAAT
48693079 GTGTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (20 bp):
TGAATTGTGAATTATAAATT
Found at i:48697480 original size:55 final size:55
Alignment explanation
Indices: 48697396--48697506 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
48697386 GCCAGAACAA
*
48697396 TGGCGACAAGAAATTCAGGAGGAAAAGACGAGAGCTAATCAATGGAAAAAGAAAT
1 TGGCGACAAGAAATTCAGGAGGAAAAGACGAAAGCTAATCAATGGAAAAAGAAAT
* *
48697451 TGGCGACAAGAAATTCAGGAGGAAAAGACGAAAGTTAATCAATGGGAAAAGAAAT
1 TGGCGACAAGAAATTCAGGAGGAAAAGACGAAAGCTAATCAATGGAAAAAGAAAT
48697506 T
1 T
48697507 TCAGGATACT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.49, C:0.10, G:0.27, T:0.14
Consensus pattern (55 bp):
TGGCGACAAGAAATTCAGGAGGAAAAGACGAAAGCTAATCAATGGAAAAAGAAAT
Found at i:48697858 original size:59 final size:59
Alignment explanation
Indices: 48697785--48697902 Score: 191
Period size: 59 Copynumber: 2.0 Consensus size: 59
48697775 CGTCGGTCTC
* * * *
48697785 AAGAGCAGATTAGAGAAAGAGATTATATTATGGGAGAGGCGGTGGCTCAAGTGCGCGAA
1 AAGAGCAGATTAGAGAAAGAGATTATATTATGGGAGAAGCAGTGACTCAAGTACGCGAA
*
48697844 AAGAGCAGGTTAGAGAAAGAGATTATATTATGGGAGAAGCAGTGACTCAAGTACGCGAA
1 AAGAGCAGATTAGAGAAAGAGATTATATTATGGGAGAAGCAGTGACTCAAGTACGCGAA
48697903 GTAGCTGATC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.38, C:0.10, G:0.33, T:0.19
Consensus pattern (59 bp):
AAGAGCAGATTAGAGAAAGAGATTATATTATGGGAGAAGCAGTGACTCAAGTACGCGAA
Found at i:48700426 original size:10 final size:9
Alignment explanation
Indices: 48700402--48700429 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
48700392 GAGGCAAAGG
48700402 AGTTTTTGA
1 AGTTTTTGA
48700411 AGTTTTTGA
1 AGTTTTTGA
48700420 AGTTTTTGA
1 AGTTTTTGA
48700429 A
1 A
48700430 ACACAGCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (9 bp):
AGTTTTTGA
Found at i:48702815 original size:58 final size:58
Alignment explanation
Indices: 48702720--48702835 Score: 196
Period size: 58 Copynumber: 2.0 Consensus size: 58
48702710 GAGATCGAAG
* * *
48702720 TCTATGTTGGCGATATGATCGCAAAGTCTAGATCGGAATAAGAGCATGTTCAGGTCTT
1 TCTATGTTGACGATATGATCGCAAAGTCTAGAACGGAAGAAGAGCATGTTCAGGTCTT
*
48702778 TCTATGTTGACGATATGATCGCGAAGTCTAGAACGGAAGAAGAGCATGTTCAGGTCTT
1 TCTATGTTGACGATATGATCGCAAAGTCTAGAACGGAAGAAGAGCATGTTCAGGTCTT
48702836 GAAAAGGTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (58 bp):
TCTATGTTGACGATATGATCGCAAAGTCTAGAACGGAAGAAGAGCATGTTCAGGTCTT
Found at i:48706970 original size:87 final size:85
Alignment explanation
Indices: 48706709--48706999 Score: 231
Period size: 87 Copynumber: 3.4 Consensus size: 85
48706699 AAGAATTGCA
* *
48706709 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAGATT
1 GATCTTATCTCCCTGAAG-TTACAGCAGAGCAGATTGAA-ACA-T-ATCCTATCTCCCTGAGATT
*
48706773 ACAGTAGAGCGGA-T----TAAAG
62 ACAGTGGAGCGGATTAAAATAAAG
* * * * * ** * * *
48706792 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCGTGAGATTACAG
1 GATCTTATCTCCCTGAAGTTACAGCAGAGCAGATTGAAACATATCCTATCTCCCTGAGATTACAG
* * * **
48706857 TGGAACAGACTAAAGAATTTCA-
66 TGGAGCGGA-TTAA-AA-TAAAG
*
48706879 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGACACTATCCTATCTCCCTGA-AGTT
1 GATCTTATCTCCCTGAAG-TTACAGCAGAGCAGATTGAA-ACA-TATCCTATCTCCCTGAGA-TT
*
48706942 ATAGTGGAGCGGATTAAAATAAAG
62 ACAGTGGAGCGGATTAAAATAAAG
*
48706966 GATCTTATCTCCCTGAAGTTACAGCAGAGTAGAT
1 GATCTTATCTCCCTGAAGTTACAGCAGAGCAGAT
48707000 CGCATCAAGT
Statistics
Matches: 156, Mismatches: 37, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
80 25 0.16
82 1 0.01
83 30 0.19
84 2 0.01
86 4 0.03
87 61 0.39
88 10 0.06
89 23 0.15
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (85 bp):
GATCTTATCTCCCTGAAGTTACAGCAGAGCAGATTGAAACATATCCTATCTCCCTGAGATTACAG
TGGAGCGGATTAAAATAAAG
Found at i:48712003 original size:22 final size:20
Alignment explanation
Indices: 48711954--48712013 Score: 50
Period size: 23 Copynumber: 2.8 Consensus size: 20
48711944 TTTTACACAT
48711954 TATTTA-TATATATATTTAAA
1 TATTTATTATATAT-TTTAAA
*
48711974 TTTATTATTATATATTTTGGAAA
1 TAT-TTATTATATATTTT--AAA
*
48711997 TATTTATGTATTTATTT
1 TATTTAT-TATATATTT
48712014 AATTTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 2 0.06
21 6 0.19
22 11 0.34
23 13 0.41
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TATTTATTATATATTTTAAA
Found at i:48712090 original size:51 final size:51
Alignment explanation
Indices: 48712017--48712116 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
48712007 TTTATTTAAT
* * *
48712017 TTTTTTAAAATTAGGATCAAATTGAGA-ACATTTGTAAATTTTGAGGGCTAA
1 TTTTTTAAAATCAGGATCAAATTGAGATA-ATATGTAAAATTTGAGGGCTAA
* *
48712068 TTTTTTAAAATCATGA-CTAAATTGATATAATATGTAAAATTTGAGGGCT
1 TTTTTTAAAATCAGGATC-AAATTGAGATAATATGTAAAATTTGAGGGCT
48712117 GCATTTGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 1 0.02
51 40 0.95
52 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (51 bp):
TTTTTTAAAATCAGGATCAAATTGAGATAATATGTAAAATTTGAGGGCTAA
Found at i:48713118 original size:15 final size:15
Alignment explanation
Indices: 48713098--48713153 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
48713088 TCAGTCTAAA
*
48713098 ATTATAATATATAAT
1 ATTATAAAATATAAT
48713113 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
48713126 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
48713139 ATTATTAAATATAAT
1 ATTATAAAATATAAT
48713154 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:48713148 original size:26 final size:25
Alignment explanation
Indices: 48713108--48713170 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
48713098 ATTATAATAT
48713108 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
48713133 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
48713160 AAAATA-TATAA
1 ATAATATTATAA
48713171 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:48716178 original size:6 final size:6
Alignment explanation
Indices: 48716163--48716197 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
48716153 GCAAACCAAT
*
48716163 GGGAAG GGGAAA GGGAAG GGGAAG GGGAAAG GGGA
1 GGGAAG GGGAAG GGGAAG GGGAAG GGG-AAG GGGA
48716198 GAAGAAGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:48716204 original size:18 final size:18
Alignment explanation
Indices: 48716165--48716206 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
48716155 AAACCAATGG
**
48716165 GAAGGGGAAAGGGAAGGG
1 GAAGGGGAAAGGGAAGAA
*
48716183 GAAGGGGAAAGGGGAGAA
1 GAAGGGGAAAGGGAAGAA
48716201 GAAGGG
1 GAAGGG
48716207 TAACCAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
GAAGGGGAAAGGGAAGAA
Found at i:48720585 original size:6 final size:7
Alignment explanation
Indices: 48720540--48720571 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
48720530 TAAACACAAG
*
48720540 AAAACGT
1 AAAAAGT
48720547 AAAAAGT
1 AAAAAGT
48720554 AAAAAGT
1 AAAAAGT
48720561 AAAAAGT
1 AAAAAGT
48720568 AAAA
1 AAAA
48720572 GATGAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.72, C:0.03, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAAGT
Found at i:48721480 original size:16 final size:16
Alignment explanation
Indices: 48721450--48721497 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
48721440 GAAAATTAAT
48721450 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
48721465 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
48721482 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
48721497 A
1 A
48721498 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:48721496 original size:11 final size:11
Alignment explanation
Indices: 48721441--48721511 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
48721431 ATAGCTTAAG
*
48721441 AAAATTAATAT
1 AAAATTAAAAT
48721452 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
48721464 AATAA-T-AATT
1 AA-AATTAAAAT
*
48721474 AAAAAT-AAAT
1 AAAATTAAAAT
48721484 AAAATTAAAAT
1 AAAATTAAAAT
*
48721495 AAACTTAAAAT
1 AAAATTAAAAT
*
48721506 AGAATT
1 AAAATT
48721512 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:48727667 original size:60 final size:60
Alignment explanation
Indices: 48727591--48727710 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
48727581 GGGAGTGGAA
* *
48727591 AATGGTCTTTTCGGGTAGCTGCATTCAACTTTCTGTAATCGATGCAAACCCTCTATCCAT
1 AATGGTCTTTTCGGGTAGCTGCATTCAACTTCCTGTAATCGATGCAAACCCTCCATCCAT
* *
48727651 AATGGTCTTTTTGGGTAGCTGCGTTCAACTTCCTGTAATCGATGCAAACCCTCCATCCAT
1 AATGGTCTTTTCGGGTAGCTGCATTCAACTTCCTGTAATCGATGCAAACCCTCCATCCAT
48727711 TCTGGACTCG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (60 bp):
AATGGTCTTTTCGGGTAGCTGCATTCAACTTCCTGTAATCGATGCAAACCCTCCATCCAT
Found at i:48731858 original size:16 final size:16
Alignment explanation
Indices: 48731828--48731875 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
48731818 GAAAATTAAT
48731828 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
48731843 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
48731860 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
48731875 A
1 A
48731876 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:48731874 original size:11 final size:11
Alignment explanation
Indices: 48731819--48731889 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
48731809 ATAGCTTAAG
*
48731819 AAAATTAATAT
1 AAAATTAAAAT
48731830 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
48731842 AATAA-T-AATT
1 AA-AATTAAAAT
*
48731852 AAAAAT-AAAT
1 AAAATTAAAAT
48731862 AAAATTAAAAT
1 AAAATTAAAAT
*
48731873 AAACTTAAAAT
1 AAAATTAAAAT
*
48731884 AGAATT
1 AAAATT
48731890 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:48737694 original size:37 final size:39
Alignment explanation
Indices: 48737620--48737703 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 39
48737610 TTACAGCCTT
*
48737620 TTGTTGAAACCTTAGTCTAAGAAAACTTATCAACCTTCA
1 TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
* **
48737659 TTGTTGAAACCTTAGT-TCA-AAAACCTATCTTCCTTCA
1 TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
*
48737696 TTGCTGAA
1 TTGTTGAA
48737704 TATCACCTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 22 0.55
38 2 0.05
39 16 0.40
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (39 bp):
TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
Found at i:48738188 original size:18 final size:18
Alignment explanation
Indices: 48738139--48738178 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
48738129 AATTGTTCCA
* *
48738139 GATTTGTAGGGATAGACT
1 GATTTCTAGGGATAAACT
48738157 GATTTCTAGGGATAAACT
1 GATTTCTAGGGATAAACT
48738175 GATT
1 GATT
48738179 CTTTGGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (18 bp):
GATTTCTAGGGATAAACT
Found at i:48743857 original size:13 final size:13
Alignment explanation
Indices: 48743839--48743864 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48743829 TTTGTCATAT
48743839 TTAAAATAAAATA
1 TTAAAATAAAATA
48743852 TTAAAATAAAATA
1 TTAAAATAAAATA
48743865 GAATTCATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAATAAAATA
Found at i:48747820 original size:21 final size:20
Alignment explanation
Indices: 48747796--48747834 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48747786 ATCATATTGG
*
48747796 GAGAACAGATGTTATCCTAAA
1 GAGAACA-ATGATATCCTAAA
*
48747817 GAGATCAATGATATCCTA
1 GAGAACAATGATATCCTA
48747835 TGAGGGTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (20 bp):
GAGAACAATGATATCCTAAA
Found at i:48751066 original size:3 final size:3
Alignment explanation
Indices: 48751042--48751148 Score: 67
Period size: 3 Copynumber: 35.7 Consensus size: 3
48751032 TGTCTAACAC
* *
48751042 TAT TAT TTT TAT T-T T-T TA- TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * ** * *
48751087 TCT TAAT GTAT TGT TAT TACT AAT TAT TTT TAT TGC AAG TAT TAT TAT
1 TAT T-AT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
48751135 TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TA
48751149 GTGTATGTTT
Statistics
Matches: 78, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
2 6 0.08
3 66 0.85
4 5 0.06
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:48751392 original size:130 final size:134
Alignment explanation
Indices: 48751126--48751437 Score: 394
Period size: 134 Copynumber: 2.4 Consensus size: 134
48751116 TTATTGCAAG
* * * *
48751126 TATTATTATTATTATTA-ATATTAGTGTATGTTTTATTATACATGTATGTATATATATTTTTATA
1 TATTA-TATTATTATTATATATTAGTGTATGTTTTATTATATATGTATATATATATATGTATATA
* *
48751190 TATAGTATTATTTTAATTACTTTATTTTAATATTATTATTATATTATATTTGCTTTTTGCATTTC
65 TATAGCATTATTTTAATTAATTTATTTTAATATTATTATTATATTATATTTGCTTTTTGCATTTC
48751255 AACAT
130 AACAT
* * *
48751260 TATTATCATTATTATTATATATTAGTGTAT-ATTTATTATATACGTATATGTATATATGTATATA
1 TATTAT-ATTATTATTATATATTAGTGTATGTTTTATTATATATGTATATATATATATGTATATA
* *
48751324 TATAGCAGTGT-TTTTTATTAATTTATTTT-A-A-TATT-TT-TATTATATTTGCTTTTTGTATT
65 TATAGCA-T-TATTTTAATTAATTTATTTTAATATTATTATTATATTATATTTGCTTTTTGCATT
*
48751383 TCAATAT
128 TCAACAT
*
48751390 TA-T-TATTATTATTAT-TATTAGTATATGTTTTATTATATATGTATATAT
1 TATTATATTATTATTATATATTAGTGTATGTTTTATTATATATGTATATAT
48751438 CTTTAATATA
Statistics
Matches: 157, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
126 10 0.06
127 29 0.18
128 1 0.01
129 1 0.01
130 29 0.18
131 2 0.01
132 4 0.03
133 2 0.01
134 49 0.31
135 29 0.18
136 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (134 bp):
TATTATATTATTATTATATATTAGTGTATGTTTTATTATATATGTATATATATATATGTATATAT
ATAGCATTATTTTAATTAATTTATTTTAATATTATTATTATATTATATTTGCTTTTTGCATTTCA
ACAT
Found at i:48751424 original size:21 final size:23
Alignment explanation
Indices: 48751398--48751464 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 23
48751388 ATTATTATTA
48751398 TTATTAT-TAT-TAGTATATGTT
1 TTATTATATATATAGTATATGTT
* *
48751419 TTATTATATATGTA-TATAT-CT
1 TTATTATATATATAGTATATGTT
*
48751440 TTAATATATATATATGTATATGTT
1 TTATTATATATATA-GTATATGTT
48751464 T
1 T
48751465 ATGTAGTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
21 20 0.54
22 8 0.22
23 7 0.19
24 2 0.05
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.58
Consensus pattern (23 bp):
TTATTATATATATAGTATATGTT
Found at i:48751459 original size:23 final size:22
Alignment explanation
Indices: 48751410--48751465 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
48751400 ATTATTATTA
* *
48751410 GTATATGTTTTATTATATATGT
1 GTATATGTTTAATTATATATAT
* *
48751432 ATATATCTTTAATATATATATAT
1 GTATATGTTTAAT-TATATATAT
48751455 GTATATGTTTA
1 GTATATGTTTA
48751466 TGTAGTATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (22 bp):
GTATATGTTTAATTATATATAT
Found at i:48751885 original size:14 final size:14
Alignment explanation
Indices: 48751846--48751879 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
48751836 ATCATTATTA
*
48751846 ACATATATATATGT
1 ACATATATTTATGT
*
48751860 ATATATATTTATGT
1 ACATATATTTATGT
48751874 ACATAT
1 ACATAT
48751880 TGTTATTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (14 bp):
ACATATATTTATGT
Found at i:48762655 original size:31 final size:31
Alignment explanation
Indices: 48762617--48762678 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
48762607 ATGGATGGGA
* *
48762617 AAGAGTTACCCAATCCAGTGAACTCAGATGC
1 AAGAGTTACCCAACCCAGTAAACTCAGATGC
*
48762648 AAGAGTTACCTAACCCAGTAAACTCAGATGC
1 AAGAGTTACCCAACCCAGTAAACTCAGATGC
48762679 TGTAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (31 bp):
AAGAGTTACCCAACCCAGTAAACTCAGATGC
Found at i:48763823 original size:77 final size:78
Alignment explanation
Indices: 48763657--48763823 Score: 282
Period size: 77 Copynumber: 2.2 Consensus size: 78
48763647 CAATTTTTAT
*
48763657 TTTTTAATTTCTGTTTTTTCAAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTTAATTTCTGTTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTC
48763722 ACACGCCGAGGTA
66 ACACGCCGAGGTA
* *
48763735 TTTTCAATTTCTG-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTTAATTTCTGTTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTC
*
48763799 ACACGCTGAGGTA
66 ACACGCCGAGGTA
*
48763812 TTTTTAGTTTCT
1 TTTTTAATTTCT
48763824 ATCCACTCAT
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
77 71 0.86
78 12 0.14
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (78 bp):
TTTTTAATTTCTGTTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTC
ACACGCCGAGGTA
Found at i:48763886 original size:63 final size:64
Alignment explanation
Indices: 48763764--48763886 Score: 176
Period size: 63 Copynumber: 1.9 Consensus size: 64
48763754 AAAAAAATCA
* * * * * *
48763764 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAGTTTCTATCC
1 ACTCATATTGCGAGAGGTGAGTTGACCCTCGGGCCACACGCCGAGATATTTTCAATTTCTATCC
*
48763828 ACTCATATTGCGAG-GGTGAGTTGACCCTCGGGCCACATGCCGAGATATTTTCAATTTCT
1 ACTCATATTGCGAGAGGTGAGTTGACCCTCGGGCCACACGCCGAGATATTTTCAATTTCT
48763887 GTTTTTAATT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
63 38 0.73
64 14 0.27
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (64 bp):
ACTCATATTGCGAGAGGTGAGTTGACCCTCGGGCCACACGCCGAGATATTTTCAATTTCTATCC
Found at i:48765632 original size:27 final size:25
Alignment explanation
Indices: 48765578--48765641 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 25
48765568 ATTATTATTA
* *
48765578 TTATTATATATTAATGTATATTTTT
1 TTATTATATAGTAATGTATATTTAT
48765603 TTATTATATACGTATATGTAT-TTATAT
1 TTATTATATA-GTA-ATGTATATT-TAT
*
48765630 TTA-TACATAGTA
1 TTATTATATAGTA
48765642 TTATTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 13 0.39
26 9 0.27
27 11 0.33
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (25 bp):
TTATTATATAGTAATGTATATTTAT
Found at i:48765646 original size:22 final size:22
Alignment explanation
Indices: 48765594--48765647 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
48765584 TATATTAATG
* *
48765594 TATATT-TTTTTATTATATACG
1 TATATTATTTATATTATATACA
48765615 TATATGTATTTATATT-TATACA
1 TATAT-TATTTATATTATATACA
48765637 TAGTATTATTT
1 TA-TATTATTT
48765648 TTTTAATTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 5 0.18
22 13 0.46
23 10 0.36
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (22 bp):
TATATTATTTATATTATATACA
Found at i:48765714 original size:3 final size:3
Alignment explanation
Indices: 48765708--48765911 Score: 112
Period size: 3 Copynumber: 70.0 Consensus size: 3
48765698 TGTATTTCAA
*
48765708 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
48765756 TAT ATAT GTA- TAT GTAT T-T ATACT TA- TACA TAG TAT TAT T-T T-T
1 TAT -TAT -TAT TAT -TAT TAT -TA-T TAT TA-T TAT TAT TAT TAT TAT
* * * *
48765799 TAAT TAC T-T TAT T-T TAA TAT TTT TAT TA- TAT TA- TAT T-T TCT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
48765840 T-T T-T TTT TA- TAT T-T CAA TAT TAT TAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
48765884 TAT TAA TAT TAG TAT ATAT TTT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT
48765912 ATATGTATAT
Statistics
Matches: 158, Mismatches: 24, Indels: 38
0.72 0.11 0.17
Matches are distributed among these distances:
2 25 0.16
3 115 0.73
4 17 0.11
5 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:48765950 original size:153 final size:152
Alignment explanation
Indices: 48765567--48766022 Score: 737
Period size: 149 Copynumber: 3.0 Consensus size: 152
48765557 TTATTTTTTA
* *
48765567 TATTATTATTATTATTATATATTAATGTATATTTTTTTATTATATACGTATATGTATTTATATTT
1 TATTATTATTATTATTA-ATATT-A-GTATATATTTTTATTATATATGTATATGTATTTATATTT
48765632 ATACATAGTATTATTTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTT
63 ATACATAGTATTA-TTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTT
48765697 TTGTATTTCAATATTATTACTATTAT
127 TTGTATTTCAATATTATTACTATTAT
* * *
48765723 TATTATTATTATTA-T--TATTATTAT-TATTATTATTATATATGTATATGTATTTATACTTATA
1 TATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATGTATTTATATTTATA
* *
48765784 CATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTTCTTTTTTTTTA
66 CATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGC-TTTTTTTTG
48765849 TATTTCAATATTATTACTATTAT
130 TATTTCAATATTATTACTATTAT
48765872 TATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATGTATTTATATTTATA
1 TATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATGTATTTATATTTATA
* *
48765937 CAGAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTACATTTGC---TTTTTGT
66 CATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTTTTGT
48765999 ATTTCAATATTATTACTATTAT
131 ATTTCAATATTATTACTATTAT
48766021 TA
1 TA
48766023 NNNNNNNNNN
Statistics
Matches: 281, Mismatches: 14, Indels: 17
0.90 0.04 0.05
Matches are distributed among these distances:
148 44 0.16
149 118 0.42
150 4 0.01
151 1 0.00
152 12 0.04
153 87 0.31
155 1 0.00
156 14 0.05
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (152 bp):
TATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATGTATTTATATTTATA
CATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTTTTGT
ATTTCAATATTATTACTATTAT
Found at i:48768060 original size:36 final size:36
Alignment explanation
Indices: 48768013--48768083 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
48768003 TGCACTCGTT
48768013 AATCCGCAAGGTTTGATCGCATCCACAAATCAAGTG
1 AATCCGCAAGGTTTGATCGCATCCACAAATCAAGTG
48768049 AATCCGCAAGGTTTGATCGCATCCACAAATCAAGT
1 AATCCGCAAGGTTTGATCGCATCCACAAATCAAGT
48768084 CTCCCAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (36 bp):
AATCCGCAAGGTTTGATCGCATCCACAAATCAAGTG
Found at i:48774116 original size:26 final size:26
Alignment explanation
Indices: 48774065--48774116 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
48774055 ATTCTTCAAC
*
48774065 ATTTATATTTTATTAATTTGGCTTTT
1 ATTTATATTTTATTAATTTGGATTTT
48774091 ATTTAT-TTTTATTTAAATTT-GATTTT
1 ATTTATATTTTA-TT-AATTTGGATTTT
48774117 TAATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
26 13 0.57
27 5 0.22
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (26 bp):
ATTTATATTTTATTAATTTGGATTTT
Found at i:48774138 original size:31 final size:31
Alignment explanation
Indices: 48774103--48774171 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
48774093 TTATTTTTAT
* * **
48774103 TTAAATTTGATTTTTAATTTTTTAAAAAGAG
1 TTAAATTTGACTATTAACATTTTAAAAAGAG
48774134 TTAAATTTGACTATTAACATTTTAAAAAGAG
1 TTAAATTTGACTATTAACATTTTAAAAAGAG
48774165 TTAAATT
1 TTAAATT
48774172 GTTTTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (31 bp):
TTAAATTTGACTATTAACATTTTAAAAAGAG
Found at i:48775810 original size:49 final size:49
Alignment explanation
Indices: 48775755--48775854 Score: 125
Period size: 49 Copynumber: 2.0 Consensus size: 49
48775745 ACCACCATCT
*
48775755 TTTCCATAAGCCT-CCTCCTTATGTGTCT-AGAGTAGAGTCA-TCTTATTAC
1 TTTCCATAAGCCTACC-CC-TATGCGTCTGAGAGTAGAGTCACT-TTATTAC
* *
48775804 TTTCCATAAGCCTACCCCTATGCGTCTGGGAGTAGGGTCACTTTATTAC
1 TTTCCATAAGCCTACCCCTATGCGTCTGAGAGTAGAGTCACTTTATTAC
48775853 TT
1 TT
48775855 ATCGAGTCGC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
48 8 0.18
49 34 0.76
50 3 0.07
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (49 bp):
TTTCCATAAGCCTACCCCTATGCGTCTGAGAGTAGAGTCACTTTATTAC
Found at i:48776002 original size:28 final size:29
Alignment explanation
Indices: 48775958--48776012 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
48775948 GGTTGAGTCA
* *
48775958 CCATACTCATTAACAA-CTTGTCAAGTTT
1 CCATACTCAGTAACAACCTGGTCAAGTTT
48775986 CCATACTC-GTAAGCAACCTGGTCAAGT
1 CCATACTCAGTAA-CAACCTGGTCAAGT
48776013 CGCTACACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 3 0.13
28 11 0.48
29 9 0.39
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (29 bp):
CCATACTCAGTAACAACCTGGTCAAGTTT
Found at i:48777307 original size:137 final size:137
Alignment explanation
Indices: 48777061--48777335 Score: 550
Period size: 137 Copynumber: 2.0 Consensus size: 137
48777051 TTTAATAAGG
48777061 ATAAAATGTGATAATATATTATTAGTCAATAATACTTTATGTTTAAAATAAAAACACTTTAATCA
1 ATAAAATGTGATAATATATTATTAGTCAATAATACTTTATGTTTAAAATAAAAACACTTTAATCA
48777126 ATTGAGTTTTAGCTTAGTTGGCAGAGGTGAATCTAGGGAGGCTGGTAGGGCTCGAACCCCCCCAA
66 ATTGAGTTTTAGCTTAGTTGGCAGAGGTGAATCTAGGGAGGCTGGTAGGGCTCGAACCCCCCCAA
48777191 AATGAAA
131 AATGAAA
48777198 ATAAAATGTGATAATATATTATTAGTCAATAATACTTTATGTTTAAAATAAAAACACTTTAATCA
1 ATAAAATGTGATAATATATTATTAGTCAATAATACTTTATGTTTAAAATAAAAACACTTTAATCA
48777263 ATTGAGTTTTAGCTTAGTTGGCAGAGGTGAATCTAGGGAGGCTGGTAGGGCTCGAACCCCCCCAA
66 ATTGAGTTTTAGCTTAGTTGGCAGAGGTGAATCTAGGGAGGCTGGTAGGGCTCGAACCCCCCCAA
48777328 AATGAAA
131 AATGAAA
48777335 A
1 A
48777336 AATGTTATTT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 138 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (137 bp):
ATAAAATGTGATAATATATTATTAGTCAATAATACTTTATGTTTAAAATAAAAACACTTTAATCA
ATTGAGTTTTAGCTTAGTTGGCAGAGGTGAATCTAGGGAGGCTGGTAGGGCTCGAACCCCCCCAA
AATGAAA
Found at i:48785663 original size:25 final size:25
Alignment explanation
Indices: 48785635--48785685 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
48785625 TTATGCCTGA
48785635 TTACATAATGATAATCAACAAATAC
1 TTACATAATGATAATCAACAAATAC
48785660 TTACATAATGATAATCAACAAATAC
1 TTACATAATGATAATCAACAAATAC
48785685 T
1 T
48785686 ATGTAATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (25 bp):
TTACATAATGATAATCAACAAATAC
Found at i:48788262 original size:21 final size:22
Alignment explanation
Indices: 48788212--48788262 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
48788202 TAATTTTTAA
*
48788212 ATTTTTTATATTATTTTACTTT
1 ATTTTTTATATAATTTTACTTT
* * *
48788234 AATATTTA-ATAATTTTATTTT
1 ATTTTTTATATAATTTTACTTT
48788255 ATTTTTTA
1 ATTTTTTA
48788263 CTGAAATTCT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTTTTATATAATTTTACTTT
Found at i:48791692 original size:7 final size:7
Alignment explanation
Indices: 48791682--48791708 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
48791672 TTTTTTCTTT
48791682 TTTTATG
1 TTTTATG
48791689 TTTTATG
1 TTTTATG
48791696 TTTTATG
1 TTTTATG
48791703 TTTTAT
1 TTTTAT
48791709 CTTTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (7 bp):
TTTTATG
Found at i:48791810 original size:8 final size:7
Alignment explanation
Indices: 48791784--48791809 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
48791774 TAATATATAT
48791784 TTTTTAA
1 TTTTTAA
48791791 TTTTTAA
1 TTTTTAA
48791798 TTTTTAA
1 TTTTTAA
48791805 TTTTT
1 TTTTT
48791810 TTAAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:48791831 original size:23 final size:23
Alignment explanation
Indices: 48791771--48791831 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
48791761 TGAAATATTT
* *
48791771 TATT-AATA-TATATTTTTTAAT
1 TATTAAATATTATTTTTTTTAAA
* * * *
48791792 TTTTAATTTTTAATTTTTTTAAA
1 TATTAAATATTATTTTTTTTAAA
48791815 TATTAAATATTATTTTT
1 TATTAAATATTATTTTT
48791832 AATAATATAA
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
23 23 0.82
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTAAATATTATTTTTTTTAAA
Found at i:48791858 original size:9 final size:9
Alignment explanation
Indices: 48791841--48791932 Score: 50
Period size: 8 Copynumber: 10.0 Consensus size: 9
48791831 TAATAATATA
48791841 AAATA-TTT
1 AAATATTTT
48791849 AAATATTTT
1 AAATATTTT
*
48791858 AAA-CTTTT
1 AAATATTTT
48791866 AAAT-TTGTT
1 AAATATT-TT
*
48791875 -ATTAGTTTT
1 AAATA-TTTT
48791884 ATAATATTTT
1 A-AATATTTT
48791894 AAATATTATTT
1 AAATA-T-TTT
* *
48791905 AATTTGTTTT
1 AA-ATATTTT
48791915 ATAATATTTT
1 A-AATATTTT
48791925 AAA-ATTTT
1 AAATATTTT
48791933 TATATATACT
Statistics
Matches: 66, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
8 21 0.32
9 16 0.24
10 18 0.27
11 10 0.15
12 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (9 bp):
AAATATTTT
Found at i:48795846 original size:26 final size:26
Alignment explanation
Indices: 48795786--48795847 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
48795776 TTTTATTAAT
48795786 TTAAAAATTCAAAAAATATAAAAACTA
1 TTAAAAATT-AAAAAATATAAAAACTA
** * *
48795813 TTTTAAATT-AAAAATCATTAAAATTA
1 TTAAAAATTAAAAAAT-ATAAAAACTA
48795839 TTAAAAATT
1 TTAAAAATT
48795848 TATAAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 6 0.21
26 15 0.54
27 7 0.25
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (26 bp):
TTAAAAATTAAAAAATATAAAAACTA
Found at i:48798361 original size:4 final size:4
Alignment explanation
Indices: 48798352--48798457 Score: 56
Period size: 4 Copynumber: 26.0 Consensus size: 4
48798342 TAATTCTGGC
* * * * * *
48798352 ATTT ATTT ATTC ATCT ACTT GTTT ATTT A-TT CTTT ATTCC ATTT ATTTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT-T ATTT A-TTT
* * * *
48798401 ATTC ATTT ATCTGT -TCTT ACTT ATTT ATTT ATAT A-TT ATTA ATTT ATTT
1 ATTT ATTT AT-T-T AT-TT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
48798450 ATTT ATTT
1 ATTT ATTT
48798458 TTGTTTCAAT
Statistics
Matches: 75, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
3 4 0.05
4 59 0.79
5 11 0.15
6 1 0.01
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (4 bp):
ATTT
Found at i:48798670 original size:12 final size:12
Alignment explanation
Indices: 48798653--48798694 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
48798643 TTTTGTTCAT
48798653 TTATTATCATTA
1 TTATTATCATTA
48798665 TTATTATCATTA
1 TTATTATCATTA
*
48798677 TTTTTATC-TTA
1 TTATTATCATTA
*
48798688 TTTTTAT
1 TTATTAT
48798695 TACTTTGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTATCATTA
Found at i:48802956 original size:183 final size:186
Alignment explanation
Indices: 48802521--48803069 Score: 457
Period size: 189 Copynumber: 2.9 Consensus size: 186
48802511 TCAGTAAAAC
* * * * ** * *
48802521 CACAAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTGAAGTCATTATGGCGAATATTATCTT
1 CACAAATCCTATACCTCTGAAGTTGCAGTAGGATGGATTCAAATCACCATGGCGAATCTTATCTC
** * * * * * * * * ***
48802586 CCTGACGTTGTAGTGGAGAAAATTAAAGCCACAAATCTTATCTCCTTGAAGTCGCAAATGAA-TA
66 CCTGAAATTGTAATGGAGCAAATTGAAGTCACAAACCTTATCTCCCTAAAGTTGCAGCGGAACTA
* * *** * * * * * *
48802650 GATTGAAGTCACAGATCTCATCTATTTGAAATTGTAGTGGAGTAGATCAAAGATT-GAAGC
131 GA-T-AAGTCA-A-ATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAG-TTACAAGT
* * * * **
48802710 CATAAATCTTATACCTCTGAAGTTGCAGTGGGATGGATTGAAATCATTATGGCGAATCTTATCTC
1 CACAAATCCTATACCTCTGAAGTTGCAGTAGGATGGATTCAAATCACCATGGCGAATCTTATCTC
* * * * * * *
48802775 CTTGAAGTTGTAGTGGAGCAAATTGAAG-CTGCTAATCTTATCTCCCTAAAGTTGCAGCGG-AGT
66 CCTGAAATTGTAATGGAGCAAATTGAAGTC-ACAAACCTTATCTCCCTAAAGTTGCAGCGGAACT
*
48802838 AGAT-AG-CGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGTTACAAGT
130 AGATAAGTCAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGTTACAAGT
* *
48802893 CACAAATCCTATACCTCTGAAGTTGTAGTAGG-TCGGA-TCAAATCTACCATGGTGAATCTTATC
1 CACAAATCCTATACCTCTGAAGTTGCAGTAGGAT-GGATTCAAATC-ACCATGGCGAATCTTATC
* * *
48802956 TCCCTGAAATTGTAATGGAGTAGATTGAAGTCACAAACCTTATCTCCCTAAAGTTGCAGTGGAAC
64 TCCCTGAAATTGTAATGGAGCAAATTGAAGTCACAAACCTTATCTCCCTAAAGTTGCAGCGGAAC
* * *
48803021 TAGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGTAGTGGAGTAGATT
129 TAGAT-AAG-T-CAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATT
48803070 GAAAATAGTA
Statistics
Matches: 296, Mismatches: 52, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
182 9 0.03
183 129 0.44
184 7 0.02
185 1 0.00
186 4 0.01
188 3 0.01
189 143 0.48
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (186 bp):
CACAAATCCTATACCTCTGAAGTTGCAGTAGGATGGATTCAAATCACCATGGCGAATCTTATCTC
CCTGAAATTGTAATGGAGCAAATTGAAGTCACAAACCTTATCTCCCTAAAGTTGCAGCGGAACTA
GATAAGTCAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGTTACAAGT
Found at i:48803135 original size:44 final size:44
Alignment explanation
Indices: 48802947--48803240 Score: 214
Period size: 44 Copynumber: 6.6 Consensus size: 44
48802937 TACCATGGTG
* * * * * * *
48802947 AATCTTATCTCCCTGAAATTGTAATGGAGTAGATTGAAG-TCACA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGAT-ATA
* * * * * * *
48802991 AACCTTATCTCCCTAAAGTTGCAGTGGAACTAG-TTGAAGTTACA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGC-AGACTGAAGATATA
* * * * * *
48803035 AATCTTATTTCCCTGAAGTTGTAGTGGAGTAGATTGAAAATAGTA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATA-TA
* * * *
48803080 ACTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGCTATA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATA
* * * ** *
48803124 AACCTTATCTCTCTAAAGTTGCAGTGGAGAAGGTTGAAGTTATA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATA
* * *
48803168 AGTCTTATCTTTCTGAAGTTGTAGTGGAGCAGACTGAAGATAGTA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATA-TA
* * *
48803213 CATCTTATTTCCCTGAAGTTGCAGTGGA
1 AATCTTATCTCTCTGAAGTTGCAGTGGA
48803241 ATAGATTAAA
Statistics
Matches: 195, Mismatches: 50, Indels: 9
0.77 0.20 0.04
Matches are distributed among these distances:
43 2 0.01
44 133 0.68
45 60 0.31
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATA
Found at i:48803143 original size:89 final size:89
Alignment explanation
Indices: 48803038--48803247 Score: 233
Period size: 89 Copynumber: 2.4 Consensus size: 89
48803028 AGTTACAAAT
* * *
48803038 CTTATTTCCCTGAAGTTGTAGTGGAGTAGATTGAAAATAGTAACTCTTATCTCTCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAAATA-TAACTCTTATCTCTCTGAAGTTGCA
*
48803103 GTAGAGCAGACTAAAGCTA-TAAAC
65 GTAGAGCAGACTAAAGATAGTAAAC
* * * ** * * *
48803127 CTTATCTCTCTAAAGTTGCAGTGGAGAAGGTTGAAGTTATAAGTCTTATCTTTCTGAAGTTGTAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAAATATAACTCTTATCTCTCTGAAGTTGCAG
* * * *
48803192 TGGAGCAGACTGAAGATAGTACAT
66 TAGAGCAGACTAAAGATAGTAAAC
* * *
48803216 CTTATTTCCCTGAAGTTGCAGTGGAATAGATT
1 CTTATCTCCCTAAAGTTGCAGTGGAGTAGATT
48803248 AAAGCTACAA
Statistics
Matches: 98, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
88 38 0.39
89 60 0.61
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (89 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAAATATAACTCTTATCTCTCTGAAGTTGCAG
TAGAGCAGACTAAAGATAGTAAAC
Found at i:48803251 original size:133 final size:131
Alignment explanation
Indices: 48802947--48803257 Score: 376
Period size: 133 Copynumber: 2.3 Consensus size: 131
48802937 TACCATGGTG
* * * *
48802947 AATCTTATCTCCCTGAAATTGTAATGGAGTAGATTGAAG-TCACAAACCTTATCTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCT-ACAAACCTTATCTCCCTAAAGTT
* *
48803011 GCAGTGGAACTAGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGTAGTGGAGTAGATTGAAAAT
65 GCAGTGGAAC-AGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGTAGTGGAGCAGACTGAAAAT
48803076 AGT
129 AGT
* * * * * *
48803079 AACTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGCTATAAACCTTATCTCTCTAAAGTT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAACCTTATCTCCCTAAAGTT
* * * *
48803144 GCAGTGGAGA-AGGTTGAAGTTATAAGTCTTATCTT-TCTGAAGTTGTAGTGGAGCAGACTGAAG
65 GCAGTGGA-ACA-GTTGAAGTTACAAATCTTAT-TTCCCTGAAGTTGTAGTGGAGCAGACTGAAA
48803207 ATAGT
127 ATAGT
* *
48803212 ACATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAA
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAA
48803258 GTTACAAATC
Statistics
Matches: 150, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
132 3 0.02
133 142 0.95
134 5 0.03
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (131 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTG
CAGTGGAACAGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGTAGTGGAGCAGACTGAAAATAG
T
Found at i:48804667 original size:4 final size:4
Alignment explanation
Indices: 48804643--48804767 Score: 56
Period size: 4 Copynumber: 30.8 Consensus size: 4
48804633 TTAAGTCCTT
* * * * * * *
48804643 TTTA TTTTA ATTA TGTTA TTTA TTTA TTCA TCTA CTTG CTTA TTTA -TTC
1 TTTA -TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * * *
48804692 TTTA TTCCA TTTA TTTTA TTCA TTTA TCTG TTCA TTTA CTCA TTTA TTTA
1 TTTA TT-TA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
48804742 TATA -TTA TTCA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
48804768 TTGTTTCAAT
Statistics
Matches: 85, Mismatches: 30, Indels: 11
0.67 0.24 0.09
Matches are distributed among these distances:
3 4 0.05
4 66 0.78
5 15 0.18
ACGTcount: A:0.23, C:0.10, G:0.02, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:48805601 original size:38 final size:38
Alignment explanation
Indices: 48805512--48805970 Score: 170
Period size: 38 Copynumber: 12.4 Consensus size: 38
48805502 ACCCTTATTT
* * * *
48805512 AAGGGTTGGGAAAGACCTAGTCAATGCCAACCTTTAAA
1 AAGGGTTGCGATAGACCTAGTTAAGGCCAACCTTTAAA
*
48805550 AAGGGTTGGGATAGACCTAGTTAAGGCCAACCTTTGAAA
1 AAGGGTTGCGATAGACCTAGTTAAGGCCAACCTTT-AAA
* *
48805589 AA-GTTTGCGATAGACCT-GTTTAAGG-CAGCC-TT-AA
1 AAGGGTTGCGATAGACCTAG-TTAAGGCCAACCTTTAAA
** * * *
48805623 AAGGGTTG-GTATAGTTCTTGTTTAACG-CAACTTTTAAA
1 AAGGGTTGCG-ATAGACCTAG-TTAAGGCCAACCTTTAAA
* * *
48805661 AACGATTGGGATAGAGCC--GTCTAAGG-CAACC-TTAAA
1 AAGGGTTGCGATAGA-CCTAGT-TAAGGCCAACCTTTAAA
* * * *
48805697 AA-GGTTGAGATAGACCTTGTCTAA-GACAACCTATAAAA
1 AAGGGTTGCGATAGACCTAGT-TAAGGCCAACCT-TTAAA
* *
48805735 AAAGGTTGGGATAGACCTA-TCTAAGG-CAACC-TTAAA
1 AAGGGTTGCGATAGACCTAGT-TAAGGCCAACCTTTAAA
* * * *
48805771 CAGGCTAG-GATAGACC-ATGTCTAAGG-CAACCTTAAAA
1 AAGGGTTGCGATAGACCTA-GT-TAAGGCCAACCTTTAAA
** *
48805808 AAAAGTTG-GAATAGACC-CGTTCAAGG-CAACC-TTAAA
1 AAGGGTTGCG-ATAGACCTAGTT-AAGGCCAACCTTTAAA
* *
48805844 AA-GGTTGGGATAGA-CTATGTCTAAGG-CAACTTTTAAA
1 AAGGGTTGCGATAGACCTA-GT-TAAGGCCAACCTTTAAA
** * *
48805881 AAAAGTTGGGATAGACCT-GTCTAAGG-CAGCC-TT-AA
1 AAGGGTTGCGATAGACCTAGT-TAAGGCCAACCTTTAAA
* * * * * *
48805916 AATGGTTGGGATAAATCTTGTCTAAGG-CAACTTTTAAA
1 AAGGGTTGCGATAGACCTAGT-TAAGGCCAACCTTTAAA
* *
48805954 AAAGGTTGGGATAGACC
1 AAGGGTTGCGATAGACC
48805971 CGTTTAAAGC
Statistics
Matches: 338, Mismatches: 51, Indels: 64
0.75 0.11 0.14
Matches are distributed among these distances:
34 9 0.03
35 54 0.16
36 82 0.24
37 56 0.17
38 113 0.33
39 24 0.07
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (38 bp):
AAGGGTTGCGATAGACCTAGTTAAGGCCAACCTTTAAA
Found at i:48805940 original size:220 final size:218
Alignment explanation
Indices: 48805586--48806077 Score: 562
Period size: 219 Copynumber: 2.2 Consensus size: 218
48805576 CCAACCTTTG
* * * * * * *
48805586 AAAAAGTTTGCGATAGACCTGTTTAAGGCAGCCTTAAAAGGGTTGGTATAGTTCTTGTTTAACGC
1 AAAAAGTTAG-GATAGACCCGTTTAAGGCAACCTTAAAAAGGTTGGGATAG-ACTTGTCTAACGC
* *
48805651 AACTTTTAAAAACGATTGGGATAGAGCCGTCTAAGGCAACCTTAAAAAGGTTGAGATAGACCTTG
64 AACTTTTAAAAAAGATTGGGATAGAGCCGTCTAAGGCAACCTTAAAAAGGTTGAGATAAACCTTG
* *
48805716 TCTAAGACAACCTATAAAAAAAGGTTGGGATAGACCTATCTAAGGCAACCTTA-AACAGGCTAG-
129 TCTAAGACAA-CTATAAAAAAAGGTTGGGATAGACCCATCTAAAGCAACCTTAGAA-AGG-TAGA
*
48805779 GATAGACCATGTCTAAGGCAACCTTAAA
191 GATAAACCATGTCTAAGGCAACCTTAAA
* *
48805807 AAAAAGTT-GGAATAGACCCGTTCAAGGCAACCTTAAAAAGGTTGGGATAGACTATGTCTAAGGC
1 AAAAAGTTAGG-ATAGACCCGTTTAAGGCAACCTTAAAAAGGTTGGGATAGACT-TGTCTAACGC
* * * *
48805871 AACTTTTAAAAAA-AGTTGGGATAGA-CCTGTCTAAGGCAGCCTTAAAATGGTTGGGATAAATCT
64 AACTTTTAAAAAAGA-TTGGGATAGAGCC-GTCTAAGGCAACCTTAAAAAGGTTGAGATAAACCT
* * * * * * *
48805934 TGTCTAAGGCAACTTTTAAAAAAGGTTGGGATAGACCCGTTTAAAGCAACTTTAGAAAGGTTGAG
127 TGTCTAAGACAACTATAAAAAAAGGTTGGGATAGACCCATCTAAAGCAACCTTAGAAAGGTAGAG
* * * *
48805999 ATAAATCTTGTCTAAGGTAACCTTTAA
192 ATAAACCATGTCTAAGGCAACCTTAAA
* ** * *
48806026 AAAAAGTTAGGATAAACCCGTTTAAGATAACCTGAAAAAGATTGGGATAGAC
1 AAAAAGTTAGGATAGACCCGTTTAAGGCAACCTTAAAAAGGTTGGGATAGAC
48806078 ACGTATAATG
Statistics
Matches: 230, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
218 2 0.01
219 110 0.48
220 110 0.48
221 8 0.03
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (218 bp):
AAAAAGTTAGGATAGACCCGTTTAAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCTAACGCAA
CTTTTAAAAAAGATTGGGATAGAGCCGTCTAAGGCAACCTTAAAAAGGTTGAGATAAACCTTGTC
TAAGACAACTATAAAAAAAGGTTGGGATAGACCCATCTAAAGCAACCTTAGAAAGGTAGAGATAA
ACCATGTCTAAGGCAACCTTAAA
Found at i:48806039 original size:73 final size:72
Alignment explanation
Indices: 48805539--48806051 Score: 464
Period size: 73 Copynumber: 7.0 Consensus size: 72
48805529 TAGTCAATGC
* * * *
48805539 CAACCTTTAAAAAGGGTTGGGATAGACCTAGT-TAAGGCCAACCTTT-GAAAAAGTTTGCGATAG
1 CAACC-TT-AAAA-GGTTGAGATAGACCTTGTCTAAGG-CAACCTTTAAAAAAAG-TTGGGATAG
* *
48805602 ACCTGTTTAAGG
61 ACCCGTCTAAGG
* ** * * * * *
48805614 CAGCCTTAAAAGGGTTG-GTATAGTTCTTGTTTAACGCAA-CTTTTAAAAACGATTGGGATAGAG
1 CAACCTTAAAA-GGTTGAG-ATAGACCTTGTCTAAGGCAACCTTTAAAAAAAG-TTGGGATAGAC
48805677 CCGTCTAAGG
63 CCGTCTAAGG
* *
48805687 CAACCTTAAAAAGGTTGAGATAGACCTTGTCTAAGACAACCTATAAAAAAAGGTTGGGATAGACC
1 CAACCTT-AAAAGGTTGAGATAGACCTTGTCTAAGGCAACCTTTAAAAAAA-GTTGGGATAGACC
**
48805752 TATCTAAGG
64 CGTCTAAGG
* * * *
48805761 CAACCTTAAACAGGCT-AGGATAGACCATGTCTAAGGCAACCTTAAAAAAAAGTTGGAATAGACC
1 CAACCTTAAA-AGGTTGA-GATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACC
48805825 CGT-TCAAGG
64 CGTCT-AAGG
* *
48805834 CAACCTTAAAAAGGTTGGGATAGA-CTATGTCTAAGGCAACTTTTAAAAAAAGTTGGGATAGACC
1 CAACCTT-AAAAGGTTGAGATAGACCT-TGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACC
*
48805898 TGTCTAAGG
64 CGTCTAAGG
* * * * * *
48805907 CAGCCTTAAAATGGTTGGGATAAATCTTGTCTAAGGCAACTTTTAAAAAAGGTTGGGATAGACCC
1 CAACCTTAAAA-GGTTGAGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACCC
* *
48805972 GTTTAAAG
65 GTCTAAGG
* * * * * *
48805980 CAACTTTAGAAAGGTTGAGATAAATCTTGTCTAAGGTAACCTTTAAAAAAAGTTAGGATAAACCC
1 CAACCTTA-AAAGGTTGAGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACCC
*
48806045 GTTTAAG
65 GTCTAAG
48806052 ATAACCTGAA
Statistics
Matches: 367, Mismatches: 54, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
72 11 0.03
73 265 0.72
74 86 0.23
75 5 0.01
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (72 bp):
CAACCTTAAAAGGTTGAGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACCCG
TCTAAGG
Found at i:48806071 original size:146 final size:145
Alignment explanation
Indices: 48805539--48806074 Score: 554
Period size: 146 Copynumber: 3.6 Consensus size: 145
48805529 TAGTCAATGC
* * * *
48805539 CAACCTTTAAAAAGGGTTGGGATAGACCTAGT-TAAGGCCAACCTTT-GAAAAAGTTTGCGATAG
1 CAACC-TTAAAAA-GGTTGAGATAGA-CTTGTCTAAGG-CAACCTTTAAAAAAAG-TTGGGATAG
* * * * ** * * * *
48805602 ACCTGTTTAAGGCAGCCTTAAAAGGGTTGGTATAGTTCTTGTTTAACGCAACTTTTAAAAACGAT
61 ACCTGTCTAAGGCAACCTTAAAAAGGTTGGGATAAATCTTGTCTAAGGCAACTTTTAAAAAAGGT
* *
48805667 TGGGATAGAGCCGTCTAAGG
126 TGGGATAGACCCGTTTAAGG
* *
48805687 CAACCTTAAAAAGGTTGAGATAGACCTTGTCTAAGACAACCTATAAAAAAAGGTTGGGATAGACC
1 CAACCTTAAAAAGGTTGAGATAGA-CTTGTCTAAGGCAACCTTTAAAAAAA-GTTGGGATAGACC
* * * * * * * * * *
48805752 TATCTAAGGCAACCTTAAACAGGCTAGGATAGACCATGTCTAAGGCAACCTTAAAAAAAAGTTGG
64 TGTCTAAGGCAACCTTAAAAAGGTTGGGATAAATCTTGTCTAAGGCAACTTTTAAAAAAGGTTGG
* *
48805817 AATAGACCCGTTCAAGG
129 GATAGACCCGTTTAAGG
* *
48805834 CAACCTTAAAAAGGTTGGGATAGACTATGTCTAAGGCAACTTTTAAAAAAAGTTGGGATAGACCT
1 CAACCTTAAAAAGGTTGAGATAGACT-TGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACCT
* *
48805899 GTCTAAGGCAGCCTTAAAATGGTTGGGATAAATCTTGTCTAAGGCAACTTTTAAAAAAGGTTGGG
65 GTCTAAGGCAACCTTAAAAAGGTTGGGATAAATCTTGTCTAAGGCAACTTTTAAAAAAGGTTGGG
*
48805964 ATAGACCCGTTTAAAG
130 ATAGACCCGTTTAAGG
* * * * * * *
48805980 CAACTTTAGAAAGGTTGAGATAAATCTTGTCTAAGGTAACCTTTAAAAAAAGTTAGGATAAACCC
1 CAACCTTAAAAAGGTTGAGATAGA-CTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACCT
* ** * *
48806045 GTTTAAGATAACCTGAAAAAGATTGGGATA
65 GTCTAAGGCAACCTTAAAAAGGTTGGGATA
48806075 GACACGTATA
Statistics
Matches: 320, Mismatches: 63, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
146 181 0.57
147 133 0.42
148 6 0.02
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (145 bp):
CAACCTTAAAAAGGTTGAGATAGACTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACCTG
TCTAAGGCAACCTTAAAAAGGTTGGGATAAATCTTGTCTAAGGCAACTTTTAAAAAAGGTTGGGA
TAGACCCGTTTAAGG
Found at i:48816139 original size:37 final size:37
Alignment explanation
Indices: 48816084--48816178 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
48816074 TTTATATTAA
*
48816084 AAAACCCTAAAATTCTAAACCCCAAACCCATA-ATCAC
1 AAAACCCTAAAATCCTAAACCCCAAACCCATATA-CAC
* *
48816121 AAAATCCTAAAATCCTAAACCCTAAACCCATATACAC
1 AAAACCCTAAAATCCTAAACCCCAAACCCATATACAC
48816158 AAAACCCTAAAA-CCTTAAACC
1 AAAACCCTAAAATCC-TAAACC
48816179 ATAATGTGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
36 2 0.04
37 49 0.94
38 1 0.02
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (37 bp):
AAAACCCTAAAATCCTAAACCCCAAACCCATATACAC
Found at i:48818292 original size:47 final size:47
Alignment explanation
Indices: 48818180--48818302 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 47
48818170 AGGATTCTAT
* * * * * *
48818180 GTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGAT
1 GTGATGGATGTGAA-AGTGTATATATGTGACAAGGCCGAATGGCCAAC
* * *
48818227 GTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 GTGATGGATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAAC
*
48818274 GTGATGGATGTGAAAGTGTATAAATGTGA
1 GTGATGGATGTGAAAGTGTATATATGTGA
48818303 TAAGTCCCGA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.02
47 63 0.98
ACGTcount: A:0.32, C:0.10, G:0.33, T:0.26
Consensus pattern (47 bp):
GTGATGGATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAAC
Found at i:48818481 original size:37 final size:37
Alignment explanation
Indices: 48818425--48818503 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
48818415 CCGAGCTCTA
* * *
48818425 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
48818462 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48818499 AAGAC
1 AAGAC
48818504 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48820331 original size:30 final size:30
Alignment explanation
Indices: 48820295--48820355 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
48820285 AGGCATACAT
48820295 ATCCCAACCCTTATACAAAGAGTTGGCCAA
1 ATCCCAACCCTTATACAAAGAGTTGGCCAA
48820325 ATCCCAACCCTTATACAAAGAGTTGGCCAA
1 ATCCCAACCCTTATACAAAGAGTTGGCCAA
48820355 A
1 A
48820356 GCATAGTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.20
Consensus pattern (30 bp):
ATCCCAACCCTTATACAAAGAGTTGGCCAA
Found at i:48820484 original size:132 final size:134
Alignment explanation
Indices: 48820325--48820901 Score: 734
Period size: 141 Copynumber: 4.2 Consensus size: 134
48820315 AGTTGGCCAA
*
48820325 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCA-T-AGTCTATCCCAACACTTAGGAAAGTGTT
1 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATTCACTCTATCCCAACACTTAGGAAAGTGTT
*
48820388 GCCACAAAAGTGTCATCTTAGGACTACAGAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCAT
66 GCCACAAAAGTGTCATCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCAT
48820453 ACAT
131 ACAT
* * * *
48820457 ACCCCAACCCTTATACAAAGAGTTGGCCAAAGC-GT-AGTCTATCCCAACACTTAGGAAAGTGTC
1 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATTCACTCTATCCCAACACTTAGGAAAGTGTT
* * *
48820520 GCCACGAAAGTGTCATCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCATCGCCTTAGGCAT
66 GCCACAAAAGTGTCATCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCAT
48820585 ACAT
131 ACAT
* * * *
48820589 ATCCCAACCCTTATATAAAGAGTTGCCCAAAGTGTATGTTCGCAACTCTATCCCAACACTTAAGA
1 ATCCCAACCCTTATACAAAGAGTTGGCCAAA--GCA--TT--C-ACTCTATCCCAACACTTAGGA
* * * *
48820654 AAGT-TTCGTCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCAACTCTTATTCAAGTGTTGCC
59 AAGTGTT-GCCACAAAAGTGTCATCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCC
48820718 TTAGGCATACAT
123 TTAGGCATACAT
*
48820730 ATCCCAACCCTTATACAAAGAGTTGCCCAAAGCGTATGTTCGCAACTCTATCCCAACACTTAGGA
1 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGC--A--TT--C-ACTCTATCCCAACACTTAGGA
* * * * * *
48820795 AAGCGTTGCCCCAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAACTCTTATTTAAGTGTTGCCT
59 AAGTGTTGCCACAAAAGTGTCATCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCT
*
48820859 TAGGCATGCAT
124 TAGGCATACAT
* *
48820870 ATTCCAACCCTTAAACAAAGAGTTGGCCAAAG
1 ATCCCAACCCTTATACAAAGAGTTGGCCAAAG
48820902 AATATGTTGG
Statistics
Matches: 398, Mismatches: 33, Indels: 20
0.88 0.07 0.04
Matches are distributed among these distances:
132 153 0.38
134 1 0.00
137 1 0.00
139 1 0.00
140 67 0.17
141 173 0.43
142 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (134 bp):
ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATTCACTCTATCCCAACACTTAGGAAAGTGTT
GCCACAAAAGTGTCATCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCAT
ACAT
Found at i:48820720 original size:273 final size:274
Alignment explanation
Indices: 48820362--48820940 Score: 804
Period size: 273 Copynumber: 2.1 Consensus size: 274
48820352 CAAAGCATAG
*
48820362 TCTATCCCAACACTTAGGAAAGTGTTGCCACAAAAGTGTCATCTTAGGACTACAGAAAAGCCAAC
1 TCTATCCCAACACTTAGGAAAGTGTTGCCACAAAAGTGTCATCTTAGGACTACACAAAAGCCAAC
*
48820427 TCTTATTCAAGCGTTGCCTTAGGCATACATACCCCAACCCTTATACAAAGAGTTGGCCAAAGCGT
66 TCTTATTCAAGCGTTGCCTTAGGCATACATACCCCAACCCTTATACAAAGAGTTGCCCAAAGCGT
* *
48820492 A-G-TCTATCCCAACACTTAGGAAAGTGTCGCCACGAAAGTGTCATCTTAGGACTACACAAAAGC
131 ATGATCTATCCCAACACTTAGGAAAGCGTCGCCACAAAAGTGTCATCTTAGGACTACAC-AAAGC
* *
48820555 CAACTCTTATTCAAGCATCGCCTTAGGCATACATATCCCAACCCTTATATAAAGAGTTGCCCAAA
195 CAACTCTTATTCAAGCATCGCCTTAGGCATACATATCCCAACCCTTAAACAAAGAGTTGCCCAAA
**
48820620 GTGTATGTTCGCAAC
260 GAATATGTTCGCAAC
* * * *
48820635 TCTATCCCAACACTTAAGAAAGT-TTCGTCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCAA
1 TCTATCCCAACACTTAGGAAAGTGTT-GCCACAAAAGTGTCATCTTAGGACTACACAAAAGCCAA
* *
48820699 CTCTTATTCAAGTGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGCCCAAAGCG
65 CTCTTATTCAAGCGTTGCCTTAGGCATACATACCCCAACCCTTATACAAAGAGTTGCCCAAAGCG
* * * *
48820764 TATGTTCGCAACTCTATCCCAACACTTAGGAAAGCGTTGCCCCAAAAGTGTCGTCTTAGGACTAG
130 TA---T-G--A-TCTATCCCAACACTTAGGAAAGCGTCGCCACAAAAGTGTCATCTTAGGACTAC
* ** * * *
48820829 ACAAAGCCAACTCTTATTTAAGTGTTGCCTTAGGCATGCATATTCCAACCCTTAAACAAAGAGTT
188 ACAAAGCCAACTCTTATTCAAGCATCGCCTTAGGCATACATATCCCAACCCTTAAACAAAGAGTT
* * * *
48820894 GGCCAAAGAATATGTTGGCCAG
253 GCCCAAAGAATATGTTCGCAAC
48820916 TCTATCCCAACACTTAGGAAAGTGT
1 TCTATCCCAACACTTAGGAAAGTGT
48820941 CACCCATAAA
Statistics
Matches: 266, Mismatches: 29, Indels: 13
0.86 0.09 0.04
Matches are distributed among these distances:
272 2 0.01
273 120 0.45
278 1 0.00
281 93 0.35
282 50 0.19
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (274 bp):
TCTATCCCAACACTTAGGAAAGTGTTGCCACAAAAGTGTCATCTTAGGACTACACAAAAGCCAAC
TCTTATTCAAGCGTTGCCTTAGGCATACATACCCCAACCCTTATACAAAGAGTTGCCCAAAGCGT
ATGATCTATCCCAACACTTAGGAAAGCGTCGCCACAAAAGTGTCATCTTAGGACTACACAAAGCC
AACTCTTATTCAAGCATCGCCTTAGGCATACATATCCCAACCCTTAAACAAAGAGTTGCCCAAAG
AATATGTTCGCAAC
Found at i:48820908 original size:140 final size:141
Alignment explanation
Indices: 48820494--48820961 Score: 656
Period size: 141 Copynumber: 3.3 Consensus size: 141
48820484 CAAAGCGTAG
* * *
48820494 TCTATCCCAACACTTAGGAAAGTGTCGCCACGAAAGTGTCATCTTAGGACTACACAAAAGCCAAC
1 TCTATCCCAACACTTAGGAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAAC
** * * *
48820559 TCTTATTCAAGCATCGCCTTAGGCATACATATCCCAACCCTTATATAAAGAGTTGCCCAAAGTGT
66 TCTTATTCAAGTGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGCCCAAAGAGT
48820624 ATGTTCGCAAC
131 ATGTTCGCAAC
* * *
48820635 TCTATCCCAACACTTAAGAAAGT-TTCGTCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCAA
1 TCTATCCCAACACTTAGGAAAGTGTT-GCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAA
*
48820699 CTCTTATTCAAGTGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGCCCAAAGCG
65 CTCTTATTCAAGTGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGCCCAAAGAG
48820764 TATGTTCGCAAC
130 TATGTTCGCAAC
* * *
48820776 TCTATCCCAACACTTAGGAAAGCGTTGCCCCAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAAC
1 TCTATCCCAACACTTAGGAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAAC
* * * * * *
48820840 TCTTATTTAAGTGTTGCCTTAGGCATGCATATTCCAACCCTTAAACAAAGAGTTGGCCAAAGAAT
66 TCTTATTCAAGTGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGCCCAAAGAGT
* * *
48820905 ATGTTGGCCAG
131 ATGTTCGCAAC
**
48820916 TCTATCCCAACACTTAGGAAAGTGTCACC-CATAAA-TGTCGTCTTAG
1 TCTATCCCAACACTTAGGAAAGTGTTGCCACA-AAAGTGTCGTCTTAG
48820962 CACTGTTTTG
Statistics
Matches: 295, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
139 13 0.04
140 105 0.36
141 175 0.59
142 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (141 bp):
TCTATCCCAACACTTAGGAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAAC
TCTTATTCAAGTGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGCCCAAAGAGT
ATGTTCGCAAC
Found at i:48824992 original size:14 final size:15
Alignment explanation
Indices: 48824973--48825028 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
48824963 AATCTTTAAT
48824973 GATATG-CAATCTTA
1 GATATGACAATCTTA
48824987 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
48825004 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
48825022 GATATGA
1 GATATGA
48825029 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:48824995 original size:19 final size:19
Alignment explanation
Indices: 48824971--48825042 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
48824961 ATAATCTTTA
48824971 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
48824990 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
48825007 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
48825025 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
48825043 AGATATATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:48825017 original size:35 final size:37
Alignment explanation
Indices: 48824971--48825042 Score: 121
Period size: 35 Copynumber: 2.0 Consensus size: 37
48824961 ATAATCTTTA
48824971 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
48825007 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGA
48825043 AGATATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 19 0.56
36 5 0.15
37 10 0.29
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:48825075 original size:21 final size:22
Alignment explanation
Indices: 48825034--48825077 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
48825024 TATGATATGC
*
48825034 AATCTTAGAAGATATATTTTGT
1 AATCTTAGAAGATATAATTTGT
*
48825056 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
48825077 A
1 A
48825078 GATACCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:48827222 original size:43 final size:41
Alignment explanation
Indices: 48827174--48827286 Score: 145
Period size: 41 Copynumber: 2.7 Consensus size: 41
48827164 AAAAACGACA
* * *
48827174 CTAAAAGCCATGACTTTTAGCGACGTTTGAAAAAAAAGTGCCG
1 CTAAAAGTCATGGCTTTTAGCGACATTTG-AAAAAAAGT-CCG
* * *
48827217 TTAAAAGTCATGGTTTTTAGCGACATTTGTAAAAAAGTCCG
1 CTAAAAGTCATGGCTTTTAGCGACATTTGAAAAAAAGTCCG
*
48827258 CTAAAAGTCATGGCTTTTAGCGGCATTTG
1 CTAAAAGTCATGGCTTTTAGCGACATTTG
48827287 TTGGGAAAGT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 29 0.48
42 8 0.13
43 24 0.39
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (41 bp):
CTAAAAGTCATGGCTTTTAGCGACATTTGAAAAAAAGTCCG
Found at i:48827263 original size:41 final size:42
Alignment explanation
Indices: 48827174--48827361 Score: 154
Period size: 43 Copynumber: 4.5 Consensus size: 42
48827164 AAAAACGACA
* * * *
48827174 CTAAAAGCCATGACTTTTAGCGACGTTTGAAAAAAAAGTGCCG
1 CTAAAAGTCATGGCTTTTAGCGACATTTG-TAAAAAAGTGCCG
* *
48827217 TTAAAAGTCATGGTTTTTAGCGACATTTGTAAAAAAGT-CCG
1 CTAAAAGTCATGGCTTTTAGCGACATTTGTAAAAAAGTGCCG
* ***
48827258 CTAAAAGTCATGGCTTTTAGCGGCATTTGTTGGGAAAGTGCCG
1 CTAAAAGTCATGGCTTTTAGCGACATTTG-TAAAAAAGTGCCG
* * *
48827301 CT-AAA---ATGGCTTTTAGCGGCGTTTCTAGGAAAAA-TGCCG
1 CTAAAAGTCATGGCTTTTAGCGACATTTGTA--AAAAAGTGCCG
* * *
48827340 CTAAAACTCAAGGGTTTTAGCG
1 CTAAAAGTCATGGCTTTTAGCG
48827362 GCGTTTTTTC
Statistics
Matches: 118, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
38 1 0.01
39 25 0.21
40 6 0.05
41 29 0.25
42 17 0.14
43 40 0.34
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
CTAAAAGTCATGGCTTTTAGCGACATTTGTAAAAAAGTGCCG
Found at i:48827364 original size:43 final size:41
Alignment explanation
Indices: 48827255--48827367 Score: 122
Period size: 39 Copynumber: 2.7 Consensus size: 41
48827245 GTAAAAAAGT
* * * * *
48827255 CCGCTAAAAGTCATGGCTTTTAGCGGCATTTGTTGGGAAAGTG
1 CCGCTAAAA-TCA-GGCTTTTAGCGGCGTTTCTAGGAAAAATG
48827298 CCGCTAAAAT--GGCTTTTAGCGGCGTTTCTAGGAAAAATG
1 CCGCTAAAATCAGGCTTTTAGCGGCGTTTCTAGGAAAAATG
*
48827337 CCGCTAAAACTCAAGGGTTTTAGCGGCGTTT
1 CCGCTAAAA-TC-AGGCTTTTAGCGGCGTTT
48827368 TTTCCACAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
39 33 0.55
40 1 0.02
42 1 0.02
43 25 0.42
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (41 bp):
CCGCTAAAATCAGGCTTTTAGCGGCGTTTCTAGGAAAAATG
Found at i:48827493 original size:31 final size:32
Alignment explanation
Indices: 48827439--48827520 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 32
48827429 TTCCTGCATT
* ** * *
48827439 AAAATCCAACCAAATCCAACAAATATAGCAT-
1 AAAATACAACCAAAAACAGCAAATATACCATA
* *
48827470 AAAATACAGCCAAAAACAGCAAATTTACCATAA
1 AAAATACAACCAAAAACAGCAAATATACCAT-A
48827503 AAAATACAACCAAAAACA
1 AAAATACAACCAAAAACA
48827521 TTAATTCTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 24 0.59
33 17 0.41
ACGTcount: A:0.60, C:0.23, G:0.04, T:0.13
Consensus pattern (32 bp):
AAAATACAACCAAAAACAGCAAATATACCATA
Found at i:48828228 original size:13 final size:14
Alignment explanation
Indices: 48828203--48828231 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48828193 TGATGAATTG
48828203 AATTAAACAATTAT
1 AATTAAACAATTAT
48828217 AATTAAAC-ATTAT
1 AATTAAACAATTAT
48828230 AA
1 AA
48828232 CTATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:48829256 original size:24 final size:24
Alignment explanation
Indices: 48829223--48829380 Score: 226
Period size: 24 Copynumber: 6.4 Consensus size: 24
48829213 CTAGAGGCCT
*
48829223 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
48829248 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
48829272 AGCCCTTTTGATAACTGGGGCACA
1 AGCCCTTTTAATAACTGGGGCATA
*
48829296 AGCCCTTTTTTTAATAACTGGGGCACA
1 AGCCC---TTTTAATAACTGGGGCATA
48829323 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
48829347 AGCCCTTTTTAATAACTAGGGCATA
1 AGCCC-TTTTAATAACTGGGGCATA
48829372 AGCCCTTTT
1 AGCCCTTTT
48829381 GCACTTCCTC
Statistics
Matches: 123, Mismatches: 6, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
24 73 0.59
25 27 0.22
27 23 0.19
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:48829312 original size:75 final size:76
Alignment explanation
Indices: 48829229--48829380 Score: 261
Period size: 75 Copynumber: 2.0 Consensus size: 76
48829219 GCCTAGCCTC
* *
48829229 TTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTTGATAACTGGGGC
1 TTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTAGGGC
48829293 ACAAGCCCTTT
66 ACAAGCCCTTT
*
48829304 TTTTAATAACTGGGGCACAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTAGGGC
1 TTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTAGGGC
*
48829369 ATAAGCCCTTT
66 ACAAGCCCTTT
48829380 T
1 T
48829381 GCACTTCCTC
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
75 47 0.65
76 25 0.35
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (76 bp):
TTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTAGGGC
ACAAGCCCTTT
Found at i:48829328 original size:51 final size:49
Alignment explanation
Indices: 48829223--48829380 Score: 237
Period size: 51 Copynumber: 3.2 Consensus size: 49
48829213 CTAGAGGCCT
48829223 AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTTAATAACTGGGGCATA
* * *
48829272 AGCCCTTTTGATAACTGGGGCACAAGCCCTTTTTTTAATAACTGGGGCACA
1 AGCCCTTTTAATAACTGGGGCAAAAGCCC--TTTTTAATAACTGGGGCATA
* *
48829323 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTTAATAACTGGGGCATA
48829372 AGCCCTTTT
1 AGCCCTTTT
48829381 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
48 23 0.23
49 31 0.31
51 45 0.45
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (49 bp):
AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTTAATAACTGGGGCATA
Found at i:48829455 original size:20 final size:20
Alignment explanation
Indices: 48829430--48829496 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
48829420 TTATGAATAC
48829430 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48829450 ATCATGTGCATACCATACAT
1 ATCATGTGCATATCATACAT
*
48829470 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48829490 ACCATGT
1 ATCATGT
48829497 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48829565 original size:25 final size:25
Alignment explanation
Indices: 48829533--48829580 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48829523 ATATATAAAC
* * *
48829533 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
48829558 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
48829581 CATATTGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:48836526 original size:9 final size:9
Alignment explanation
Indices: 48836512--48836733 Score: 123
Period size: 9 Copynumber: 24.0 Consensus size: 9
48836502 TATTTATGTA
48836512 TTATGTAAG
1 TTATGTAAG
*
48836521 TTATGTAAA
1 TTATGTAAG
48836530 TTATGTAAG
1 TTATGTAAG
* **
48836539 TTATTTATC
1 TTATGTAAG
*
48836548 TTATGTAAA
1 TTATGTAAG
48836557 TTATGTAAG
1 TTATGTAAG
* *
48836566 ATATGATATATAT
1 -T-T-ATGTA-AG
48836579 TTATGT-A-
1 TTATGTAAG
48836586 TTATGTAAG
1 TTATGTAAG
*
48836595 TTATGTAAA
1 TTATGTAAG
48836604 TTATGTAAG
1 TTATGTAAG
* **
48836613 TTATTTATC
1 TTATGTAAG
*
48836622 TTATGTAAA
1 TTATGTAAG
48836631 TTATGTAAG
1 TTATGTAAG
** *
48836640 ACATGATACG
1 TTATG-TAAG
48836650 TCATTATGT-A-
1 ---TTATGTAAG
48836660 TTATGTAAG
1 TTATGTAAG
*
48836669 TTATGTAAA
1 TTATGTAAG
48836678 TTATGTAAG
1 TTATGTAAG
*
48836687 ATATGATGTATAT
1 -T-T-ATGTA-AG
*
48836700 TTATAT-A-
1 TTATGTAAG
48836707 TTATGTAAG
1 TTATGTAAG
*
48836716 TTATGTAAA
1 TTATGTAAG
48836725 TTATGTAAG
1 TTATGTAAG
48836734 ATATTTATCT
Statistics
Matches: 161, Mismatches: 34, Indels: 36
0.70 0.15 0.16
Matches are distributed among these distances:
7 17 0.11
8 5 0.03
9 107 0.66
10 11 0.07
11 4 0.02
12 12 0.07
13 5 0.03
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:48836536 original size:47 final size:47
Alignment explanation
Indices: 48836474--48836737 Score: 227
Period size: 47 Copynumber: 5.5 Consensus size: 47
48836464 AGGGATTATC
*
48836474 TTATGTAAATCATGTAAGATATGATATATATTTATGTATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAG
48836521 TTATGTAAATTATGTAAG-T-T-AT-T-TATCTTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATAT-TTATGT--ATTATGTAAG
* * * * * * **
48836566 ATATGATATATATTTATGTATTATG-TAAGTTATGTAAATTATGTAAGTTATTTATC
1 TTATG-TA-A-A-TTATGTA--A-GATATGATATAT-ATTTATGT-A-TTATGTAAG
* **
48836622 TTATGTAAATTATGTAAGACATGATACGTCA-TTATGTATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATAT-ATTTATGTATTATGTAAG
* *
48836669 TTATGTAAATTATGTAAGATATGATGTATATTTATATATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAG
48836716 TTATGTAAATTATGTAAGATAT
1 TTATGTAAATTATGTAAGATAT
48836738 TTATCTTATG
Statistics
Matches: 177, Mismatches: 22, Indels: 36
0.75 0.09 0.15
Matches are distributed among these distances:
42 3 0.02
43 7 0.04
44 2 0.01
45 15 0.08
46 4 0.02
47 86 0.49
48 2 0.01
49 14 0.08
50 8 0.05
51 1 0.01
52 9 0.05
53 1 0.01
54 2 0.01
55 5 0.03
56 17 0.10
57 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.46
Consensus pattern (47 bp):
TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAG
Found at i:48836590 original size:74 final size:74
Alignment explanation
Indices: 48836469--48836686 Score: 384
Period size: 74 Copynumber: 2.9 Consensus size: 74
48836459 ATAAAAGGGA
*
48836469 TTATCTTATGTAAATCATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
1 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
48836534 GTAAGTTAT
66 GTAAGTTAT
48836543 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
1 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
48836608 GTAAGTTAT
66 GTAAGTTAT
* **
48836617 TTATCTTATGTAAATTATGTAAGACATGATACGTCA-TTATGTATTATGTAAGTTATGTAAATTA
1 TTATCTTATGTAAATTATGTAAGATATGATATAT-ATTTATGTATTATGTAAGTTATGTAAATTA
48836681 TGTAAG
65 TGTAAG
48836687 ATATGATGTA
Statistics
Matches: 139, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
74 138 0.99
75 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.46
Consensus pattern (74 bp):
TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
GTAAGTTAT
Found at i:48836678 original size:121 final size:121
Alignment explanation
Indices: 48836548--48836826 Score: 479
Period size: 121 Copynumber: 2.3 Consensus size: 121
48836538 GTTATTTATC
48836548 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAG
* *
48836613 TTATTTATCTTATGTAAATTATGTAAGACATGATACGTCA-TTATGTATTATGTAAG
66 ATATTTATCTTATGTAAATTATGTAAGACATGATACAT-ATTTATGTATTATGTAAG
* *
48836669 TTATGTAAATTATGTAAGATATGATGTATATTTATATATTATGTAAGTTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAG
* *
48836734 ATATTTATCTTATGTAAATTGTGTAAGACATGATATATATTTATGTATTATGTAAG
66 ATATTTATCTTATGTAAATTATGTAAGACATGATACATATTTATGTATTATGTAAG
*
48836790 TTATGTAAATTATATAAGATATGATATATATTTATGT
1 TTATGTAAATTATGTAAGATATGATATATATTTATGT
48836827 TGATGGGATT
Statistics
Matches: 148, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
120 1 0.01
121 147 0.99
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.46
Consensus pattern (121 bp):
TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAG
ATATTTATCTTATGTAAATTATGTAAGACATGATACATATTTATGTATTATGTAAG
Found at i:48836747 original size:74 final size:74
Alignment explanation
Indices: 48836669--48836811 Score: 241
Period size: 74 Copynumber: 1.9 Consensus size: 74
48836659 ATTATGTAAG
* * *
48836669 TTATGTAAATTATGTAAGATATGATGTATATTTATATATTATGTAAGTTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAGACATGATATATATTTATATATTATGTAAGTTATGTAAATTATATAAG
48836734 ATATTTATC
66 ATATTTATC
* *
48836743 TTATGTAAATTGTGTAAGACATGATATATATTTATGTATTATGTAAGTTATGTAAATTATATAAG
1 TTATGTAAATTATGTAAGACATGATATATATTTATATATTATGTAAGTTATGTAAATTATATAAG
48836808 ATAT
66 ATAT
48836812 GATATATATT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.46
Consensus pattern (74 bp):
TTATGTAAATTATGTAAGACATGATATATATTTATATATTATGTAAGTTATGTAAATTATATAAG
ATATTTATC
Found at i:48837042 original size:13 final size:14
Alignment explanation
Indices: 48837011--48837042 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
48837001 TTTTTCGTGA
48837011 TTAAAATAAAATAT
1 TTAAAATAAAATAT
48837025 TTAAAATAAAAT-T
1 TTAAAATAAAATAT
48837038 TTAAA
1 TTAAA
48837043 TACAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTAAAATAAAATAT
Found at i:48837115 original size:95 final size:95
Alignment explanation
Indices: 48836973--48837359 Score: 576
Period size: 95 Copynumber: 4.1 Consensus size: 95
48836963 TTAGATATGA
48836973 TAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATATTTAAAATAAAATT
1 TAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATATTTAAAATAAAATT
48837038 TTAAATACAATTTAATTTAATTAGGTAATT
66 TTAAATACAATTTAATTTAATTAGGTAATT
48837068 TAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATATTTAAAATAAAATT
1 TAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATATTTAAAATAAAATT
48837133 TTAAATACAATTTAATTTAATTAGGTAATT
66 TTAAATACAATTTAATTTAATTAGGTAATT
*
48837163 TAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGA-T----T-AAA-A--TAAAATAAAATT
1 TAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATATTTAAAATAAAATT
48837219 TTAAATACAATTTAATTTAATTAGGTAATT
66 TTAAATACAATTTAATTTAATTAGGTAATT
* * *
48837249 TAAAATTAAAATAAAAGTAGACAAAGTATTTATCGTGATTAAATTAAAATAAAATAATATCTTCA
1 TAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG-----ATTAAAAT--AA-AATAT-TT-A
*
48837314 AAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATT
56 AAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATT
48837354 TAAAAA
1 TAAAAA
48837360 ATATTTAAAA
Statistics
Matches: 266, Mismatches: 7, Indels: 28
0.88 0.02 0.09
Matches are distributed among these distances:
86 75 0.28
88 1 0.00
89 3 0.01
90 1 0.00
91 1 0.00
92 1 0.00
94 1 0.00
95 132 0.50
96 1 0.00
99 1 0.00
100 2 0.01
101 1 0.00
104 1 0.00
105 45 0.17
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (95 bp):
TAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATATTTAAAATAAAATT
TTAAATACAATTTAATTTAATTAGGTAATT
Found at i:48837137 original size:13 final size:14
Alignment explanation
Indices: 48837106--48837137 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
48837096 TTTTTCGTGA
48837106 TTAAAATAAAATAT
1 TTAAAATAAAATAT
48837120 TTAAAATAAAAT-T
1 TTAAAATAAAATAT
48837133 TTAAA
1 TTAAA
48837138 TACAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTAAAATAAAATAT
Found at i:48837231 original size:86 final size:86
Alignment explanation
Indices: 48837121--48837303 Score: 321
Period size: 86 Copynumber: 2.1 Consensus size: 86
48837111 ATAAAATATT
48837121 TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
1 TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
*
48837186 AAATATTTTTCCTGATTAAAA
66 AAATATTTATCCTGATTAAAA
*
48837207 TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAATTAAAATAAAAGTAGACA
1 TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
* * *
48837272 AAGTATTTATCGTGATTAAAT
66 AAATATTTATCCTGATTAAAA
48837293 TAAAATAAAAT
1 TAAAATAAAAT
48837304 AATATCTTCA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 92 1.00
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.36
Consensus pattern (86 bp):
TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
AAATATTTATCCTGATTAAAA
Found at i:48837267 original size:181 final size:191
Alignment explanation
Indices: 48836973--48837359 Score: 578
Period size: 181 Copynumber: 2.0 Consensus size: 191
48836963 TTAGATATGA
*
48836973 TAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATATTTAAAATAAAATT
1 TAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGATT---ATAAAATA-TTAAAATAAAATT
*
48837038 TTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCG
62 TTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTATCG
*
48837103 TG-ATTAAAAT-AA-AATAT-TT-AAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATT
127 TGAATTAAAATAAATAATATCTTCAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATT
48837163 TAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGA-T-T-AAA-A-TAAAATAAAATTTTAA
1 TAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGATTATAAAATATTAAAATAAAATTTTAA
* *
48837223 ATACAATTTAATTTAATTAGGTAATTTAAAATTAAAATAAAAGTAGACAAAGTATTTATCGTGAT
66 ATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTATCGTG--
48837288 TAAATTAAAATAAAATAATATCTTCAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAAT
129 --AATTAAAAT-AAATAATATCTTCAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAAT
48837353 T
191 T
48837354 TAAAAA
1 TAAAAA
48837360 ATATTTAAAA
Statistics
Matches: 182, Mismatches: 5, Indels: 19
0.88 0.02 0.09
Matches are distributed among these distances:
181 76 0.42
183 1 0.01
184 3 0.02
185 1 0.01
186 8 0.04
188 2 0.01
189 6 0.03
190 39 0.21
191 46 0.25
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (191 bp):
TAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGATTATAAAATATTAAAATAAAATTTTAA
ATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTATCGTGAA
TTAAAATAAATAATATCTTCAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATT
Found at i:48838848 original size:27 final size:26
Alignment explanation
Indices: 48838810--48838860 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
48838800 CAATCACATA
*
48838810 GTATTTTCTCTCAAAAGAAAGAAAGTT
1 GTATTTTCTCTC-AAACAAAGAAAGTT
48838837 GTATTTTCTCTCAAACAAAGAAAG
1 GTATTTTCTCTCAAACAAAGAAAG
48838861 CTGGTTCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (26 bp):
GTATTTTCTCTCAAACAAAGAAAGTT
Found at i:48840635 original size:14 final size:14
Alignment explanation
Indices: 48840616--48840642 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48840606 AAACTTCAGA
48840616 ATTTATGTATTTAG
1 ATTTATGTATTTAG
48840630 ATTTATGTATTTA
1 ATTTATGTATTTA
48840643 TATCAACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
ATTTATGTATTTAG
Found at i:48841578 original size:26 final size:24
Alignment explanation
Indices: 48841549--48841599 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 24
48841539 TTAGATAAAA
48841549 TTTGAAATCTTGAAAATTATTGAAAT
1 TTTGAAATCTTGAAAA-T-TTGAAAT
*
48841575 TTTGAAATCTTTAAAATTTGAAAT
1 TTTGAAATCTTGAAAATTTGAAAT
48841599 T
1 T
48841600 ATTTAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.33
25 1 0.04
26 15 0.62
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (24 bp):
TTTGAAATCTTGAAAATTTGAAAT
Found at i:48841604 original size:17 final size:17
Alignment explanation
Indices: 48841548--48841605 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
48841538 ATTAGATAAA
*
48841548 ATTTGAAATCTTGAAAATT
1 ATTTAAAAT-TTG-AAATT
* *
48841567 ATTGAAATTTTGAAA-T
1 ATTTAAAATTTGAAATT
*
48841583 CTTTAAAATTTGAAATT
1 ATTTAAAATTTGAAATT
48841600 ATTTAA
1 ATTTAA
48841606 TATATATAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 13 0.42
17 9 0.29
18 3 0.10
19 6 0.19
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (17 bp):
ATTTAAAATTTGAAATT
Found at i:48841845 original size:22 final size:23
Alignment explanation
Indices: 48841820--48841869 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
48841810 AAACTTTAAA
*
48841820 CCTTAAACCCTAAAC-CATATAC
1 CCTTAAACCCTAAACTCATAGAC
* *
48841842 CCTT-AACCCTTAACTCCTAGAC
1 CCTTAAACCCTAAACTCATAGAC
48841864 CCTTAA
1 CCTTAA
48841870 CCTTTAAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 9 0.39
22 13 0.57
23 1 0.04
ACGTcount: A:0.34, C:0.38, G:0.02, T:0.26
Consensus pattern (23 bp):
CCTTAAACCCTAAACTCATAGAC
Found at i:48841882 original size:22 final size:22
Alignment explanation
Indices: 48841830--48841882 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
48841820 CCTTAAACCC
* *
48841830 TAAACCATATACCCTTAACCCT
1 TAAACCCTAGACCCTTAACCCT
*
48841852 T-AACTCCTAGACCCTTAACCTT
1 TAAAC-CCTAGACCCTTAACCCT
48841874 TAAACCCTA
1 TAAACCCTA
48841883 AATAATAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 20 0.77
23 3 0.12
ACGTcount: A:0.34, C:0.36, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAACCCTAGACCCTTAACCCT
Found at i:48841884 original size:7 final size:7
Alignment explanation
Indices: 48841816--48841908 Score: 51
Period size: 7 Copynumber: 12.9 Consensus size: 7
48841806 CCATAAACTT
*
48841816 TAAACCT
1 TAAACCC
48841823 TAAACCC
1 TAAACCC
*
48841830 TAAACCA
1 TAAACCC
*
48841837 TATACCC
1 TAAACCC
*
48841844 TTAACCC
1 TAAACCC
*
48841851 TTAACTCC
1 TAAAC-CC
*
48841859 TAGACCC
1 TAAACCC
* *
48841866 TTAACCTT
1 TAAACC-C
48841874 TAAACCC
1 TAAACCC
***
48841881 TAAATAA
1 TAAACCC
48841888 TAAACCC
1 TAAACCC
*
48841895 TAAATCTC
1 TAAA-CCC
48841903 TAAACC
1 TAAACC
48841909 TCAACCCTTG
Statistics
Matches: 62, Mismatches: 21, Indels: 6
0.70 0.24 0.07
Matches are distributed among these distances:
7 46 0.74
8 16 0.26
ACGTcount: A:0.40, C:0.33, G:0.01, T:0.26
Consensus pattern (7 bp):
TAAACCC
Found at i:48842000 original size:22 final size:22
Alignment explanation
Indices: 48841975--48842037 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
48841965 CCTTGAGATA
*
48841975 TTAACTCATAAACTATAAACCC
1 TTAACTCATAAACCATAAACCC
* *
48841997 TTAAACT-TTAAACCCTAAACCC
1 TT-AACTCATAAACCATAAACCC
* * *
48842019 ATAATTCATAAACCTTAAA
1 TTAACTCATAAACCATAAA
48842038 ATATAAACTC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 3 0.09
22 25 0.78
23 4 0.12
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (22 bp):
TTAACTCATAAACCATAAACCC
Found at i:48842003 original size:15 final size:14
Alignment explanation
Indices: 48841983--48842016 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
48841973 TATTAACTCA
48841983 TAAACTATAAACCC
1 TAAACTATAAACCC
*
48841997 TTAAACTTTAAACCC
1 -TAAACTATAAACCC
48842012 TAAAC
1 TAAAC
48842017 CCATAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACTATAAACCC
Found at i:48842056 original size:25 final size:25
Alignment explanation
Indices: 48842024--48842071 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48842014 AACCCATAAT
* *
48842024 TCATAAACCTTAAAATATAAACTCA
1 TCATAAACCCTAAAACATAAACTCA
*
48842049 TCATAAACCCTAAACCATAAACT
1 TCATAAACCCTAAAACATAAACT
48842072 ATATACTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (25 bp):
TCATAAACCCTAAAACATAAACTCA
Found at i:48842440 original size:41 final size:41
Alignment explanation
Indices: 48842364--48842495 Score: 167
Period size: 41 Copynumber: 3.2 Consensus size: 41
48842354 ATGTTTTTGT
* *
48842364 GGCGCTTTTTAAAAAAACGCCGCTATAAATC-GAGCATTAGC
1 GGCG-TTTTTAAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* *
48842405 GGCGTTTTTCAAAAAGCGACGCTATAGATCTGAGCATTAGC
1 GGCGTTTTTAAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* * *
48842446 GGCGTTTTAAAAAAAGTGCCGCTATAGGTCTGAGCATTAGC
1 GGCGTTTTTAAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* *
48842487 AGCGCTTTT
1 GGCGTTTTT
48842496 GGTAAAACGC
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 22 0.28
41 56 0.72
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (41 bp):
GGCGTTTTTAAAAAAGCGCCGCTATAGATCTGAGCATTAGC
Found at i:48843924 original size:12 final size:11
Alignment explanation
Indices: 48843902--48843990 Score: 51
Period size: 12 Copynumber: 7.6 Consensus size: 11
48843892 AACATATGTA
48843902 AATAA-ATAAT
1 AATAATATAAT
48843912 AATAATGATAAT
1 AATAAT-ATAAT
*
48843924 AAATAATATAAAA
1 -AATAATAT-AAT
48843937 AATAATAATAAT
1 AATAAT-ATAAT
48843949 AGA-AATATAAAT
1 A-ATAATAT-AAT
*
48843961 AGATAA-ATAAA
1 A-ATAATATAAT
48843972 AATTAGATA-AAT
1 AA-TA-ATATAAT
48843984 AATAATA
1 AATAATA
48843991 GTATTTGAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
10 9 0.14
11 9 0.14
12 32 0.50
13 14 0.22
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (11 bp):
AATAATATAAT
Found at i:48843954 original size:15 final size:15
Alignment explanation
Indices: 48843905--48843991 Score: 53
Period size: 15 Copynumber: 6.0 Consensus size: 15
48843895 ATATGTAAAT
48843905 AAATAATAATAAT-G
1 AAATAATAATAATAG
*
48843919 ATAATAAATAAT-ATAAA
1 A-AAT-AATAATAAT-AG
48843936 AAATAATAATAATAG
1 AAATAATAATAATAG
48843951 AAAT-AT-A-AATAG
1 AAATAATAATAATAG
* *
48843963 ATA-AATAAAAATTAG
1 AAATAATAATAA-TAG
*
48843978 ATA-AATAATAATAG
1 AAATAATAATAATAG
48843992 TATTTGAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
12 9 0.15
13 2 0.03
14 8 0.13
15 29 0.48
16 11 0.18
17 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAATAATAATAATAG
Done.