Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 252 of 320
Found at i:82269562 original size:64 final size:64
Alignment explanation
Indices: 82269461--82269588 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
82269451 TCATGTATCA
*
82269461 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
82269525 ATGCTTATGTCAAATAATTAGGATGTTATGATCGAAATGAATCGAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
82269589 TTATTATATG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:82273043 original size:19 final size:19
Alignment explanation
Indices: 82273019--82273056 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
82273009 CAGAGTGTTG
82273019 ACGAAAAGCATCGTAGTTT
1 ACGAAAAGCATCGTAGTTT
82273038 ACGAAAAGCATCGTAGTTT
1 ACGAAAAGCATCGTAGTTT
82273057 CTTTCTCCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (19 bp):
ACGAAAAGCATCGTAGTTT
Found at i:82274069 original size:19 final size:19
Alignment explanation
Indices: 82274028--82274073 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
82274018 GGGAAAATCT
*
82274028 AATGCAAATGATGTAATGC
1 AATGCAAATGATGGAATGC
*
82274047 AATGCAAATGCATGGGATG-
1 AATGCAAATG-ATGGAATGC
82274066 AATGCAAA
1 AATGCAAA
82274074 GGAAAGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (19 bp):
AATGCAAATGATGGAATGC
Found at i:82277582 original size:12 final size:12
Alignment explanation
Indices: 82277554--82277586 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
82277544 TACTGATGAC
82277554 GTTGTCTTTGCTT
1 GTTGT-TTTGCTT
82277567 -TTGTTTTGCTT
1 GTTGTTTTGCTT
82277578 GTTGTTTTG
1 GTTGTTTTG
82277587 GTTTTGCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.00, C:0.09, G:0.24, T:0.67
Consensus pattern (12 bp):
GTTGTTTTGCTT
Found at i:82277932 original size:20 final size:21
Alignment explanation
Indices: 82277902--82277949 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
82277892 ATAAAATAAT
*
82277902 AAACAAAAGTAAAATAAAAAG
1 AAACAAAAGTAAAAGAAAAAG
*
82277923 AAAC-AAAGTAAAAGAAACAG
1 AAACAAAAGTAAAAGAAAAAG
82277943 AAA-AAAA
1 AAACAAAA
82277950 CAGAGAAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.77, C:0.06, G:0.10, T:0.06
Consensus pattern (21 bp):
AAACAAAAGTAAAAGAAAAAG
Found at i:82278398 original size:17 final size:18
Alignment explanation
Indices: 82278376--82278411 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
82278366 TAGATGAGTT
82278376 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
82278393 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
82278411 A
1 A
82278412 CATAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:82285892 original size:30 final size:30
Alignment explanation
Indices: 82285848--82285971 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
82285838 TTTTATTATG
*
82285848 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
82285879 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
82285909 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
82285939 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
82285969 CCA
1 CCA
82285972 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:82285903 original size:15 final size:15
Alignment explanation
Indices: 82285858--82285965 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
82285848 CCAATATCTC
82285858 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
82285873 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
82285888 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
82285903 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
82285918 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
82285933 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
82285948 GATACCCATATCTTT
1 GATACCCATATCTTT
82285963 GAT
1 GAT
82285966 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:82289492 original size:13 final size:14
Alignment explanation
Indices: 82289450--82289494 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
82289440 TAATAATGAT
82289450 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
82289465 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
82289478 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
82289491 TAAA
1 TAAA
82289495 ATAAAAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:82291424 original size:20 final size:20
Alignment explanation
Indices: 82291396--82291444 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
82291386 CCCATGGCCT
* **
82291396 GGCCCCACGGCCATGTTCCA
1 GGCCACACGGCCATGCCCCA
82291416 GGCCACACGGCCATGCCCCA
1 GGCCACACGGCCATGCCCCA
82291436 GGCCACACG
1 GGCCACACG
82291445 AGCGTGTACC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.47, G:0.27, T:0.08
Consensus pattern (20 bp):
GGCCACACGGCCATGCCCCA
Found at i:82293166 original size:30 final size:30
Alignment explanation
Indices: 82293131--82293190 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
82293121 ATAGATCCCG
*
82293131 GATCGTCGCATTCCTATGTTAATACAAAAC
1 GATCGTCGCATTCCTATATTAATACAAAAC
82293161 GATCGTCGCATTCCTATATTAATACAAAAC
1 GATCGTCGCATTCCTATATTAATACAAAAC
82293191 TAGTTGAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (30 bp):
GATCGTCGCATTCCTATATTAATACAAAAC
Found at i:82296860 original size:33 final size:33
Alignment explanation
Indices: 82296797--82296860 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
82296787 TGTATTTACT
*
82296797 TATATTATAAGAAAATAATAATAATGATTAAAG
1 TATATTATAAGAAAATAATAATAATAATTAAAG
* *
82296830 TATATTATAATAATATAAT-ATAATAAATTAA
1 TATATTATAAGAAAATAATAATAAT-AATTAA
82296861 TTAAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (33 bp):
TATATTATAAGAAAATAATAATAATAATTAAAG
Found at i:82304621 original size:23 final size:23
Alignment explanation
Indices: 82304571--82304621 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
82304561 TTAACTTTTT
*
82304571 TGTAAAAAAATTTAAACTCTATAA
1 TGTAAAAAAATTTAAAC-ATATAA
82304595 -GTAAAAAAATTATAAA-ATATAA
1 TGTAAAAAAATT-TAAACATATAA
82304617 TGTAA
1 TGTAA
82304622 CATTTAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 5 0.21
23 15 0.62
24 4 0.17
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (23 bp):
TGTAAAAAAATTTAAACATATAA
Found at i:82307433 original size:24 final size:24
Alignment explanation
Indices: 82307387--82307433 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
82307377 ATATCTATCT
* *
82307387 ATATAGTGCTATTAATTTGAAAAC
1 ATATAGTGCAATTAAATTGAAAAC
82307411 ATATAGTGCAATTAGAATT-AAAA
1 ATATAGTGCAATTA-AATTGAAAA
82307434 TATGAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (24 bp):
ATATAGTGCAATTAAATTGAAAAC
Found at i:82334927 original size:18 final size:18
Alignment explanation
Indices: 82334906--82334943 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
82334896 TTTTAAAAAA
82334906 TAATCTTTTTTGTAG-TTT
1 TAATCTTTTTT-TAGATTT
*
82334924 TAATGTTTTTTTAGATTT
1 TAATCTTTTTTTAGATTT
82334942 TA
1 TA
82334944 TATATAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.21, C:0.03, G:0.11, T:0.66
Consensus pattern (18 bp):
TAATCTTTTTTTAGATTT
Found at i:82335351 original size:31 final size:29
Alignment explanation
Indices: 82335310--82335386 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
82335300 GGTGCAAAAC
* *
82335310 TTTGTTCAATTCTATAAATGAAATTTTGAT
1 TTTGTTCAATTGTATAAAT-AAACTTTGAT
* *
82335340 TTTAGTTCAATTGTACACATAAACTTTGAT
1 TTT-GTTCAATTGTATAAATAAACTTTGAT
82335370 TTTGATTCAATTGTATA
1 TTTG-TTCAATTGTATA
82335387 GCTTTTTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 26 0.65
31 13 0.32
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.48
Consensus pattern (29 bp):
TTTGTTCAATTGTATAAATAAACTTTGAT
Found at i:82349052 original size:27 final size:27
Alignment explanation
Indices: 82349014--82349071 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
82349004 TAAAATAAGG
* *
82349014 GTGGAGGGTACCCCAAAGGTGGCACCA
1 GTGGAGGGTACCCCAAAGGCGACACCA
*
82349041 GTGGAGGGTACCCCACAGGCGACACCA
1 GTGGAGGGTACCCCAAAGGCGACACCA
82349068 GTGG
1 GTGG
82349072 TGCCTTTCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.24, C:0.28, G:0.38, T:0.10
Consensus pattern (27 bp):
GTGGAGGGTACCCCAAAGGCGACACCA
Found at i:82349192 original size:17 final size:17
Alignment explanation
Indices: 82349158--82349205 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
82349148 AAATTTACAG
82349158 AAGAAAA-AGATAGAAAGA
1 AAGAAAAGAGA-AG-AAGA
*
82349176 AAGAAAGGAGAAGAAGA
1 AAGAAAAGAGAAGAAGA
82349193 AAGAAAAGAGAAG
1 AAGAAAAGAGAAG
82349206 GTAATTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 16 0.59
18 8 0.30
19 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (17 bp):
AAGAAAAGAGAAGAAGA
Found at i:82354128 original size:284 final size:286
Alignment explanation
Indices: 82353344--82354520 Score: 1605
Period size: 284 Copynumber: 4.1 Consensus size: 286
82353334 TATTTTAGTA
*
82353344 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTA--TTTTTATATTA
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
* *
82353407 TTTTAGTACATAATGTTTCAAATGTACTATTTTTGTTTCTTTTATATTAATTTA-ATAAAAAACT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTT-TTTTATATTAATTTAGA-AAAAAACT
* *
82353471 CTGATTTTGACCGTTTGTT-TTTTTATTTTATTCTCAGATTTTACTTTTT-AAAATAAACTATTT
129 CTGATTTTGGCCGTTT-TTATTTTTA---T-TT-TCAGATTTTA-TTTTTCAAAATATACTATTT
* * *
82353534 TCATATTTTATTTTTTATATTATTTTAGTATATAATGTTCCAAATGTATCATTTTAG-TTTTTTA
187 TCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTC-AATGTATTATTTTAGTTTTTTTA
*
82353598 TATTAATTTAATAAAAAACTCTGATTTTGGCCGTTTATTT
251 TATTAATTTAGTAAAAAACTCTGATTTTGGCC---T-TTT
*
82353638 TTTATTTTATTTTCAGATTTTATTTTTTTAAAATATACTATTTTCGTATTTTATGTTTTTTATAT
1 TTTATTTTATTTTCGGATTTTA-TTTTTTAAAATATACTATTTTCGTATTTTAT-TTTTTTATAT
* *
82353703 TATTTTAGTACATAATGTTTAAAATGTATTATTTTAGTTTTTTTATATTAATATAGAAAAAAAAA
64 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG---AAAAAA
* * ** *
82353768 ACTCTGATTTTGGCC-CTTTTATTTTTTTTTTTGGATTTTATTTTTCAAAATATACTATTTTCTT
126 ACTCTGATTTTGGCCGTTTTTATTTTTATTTTCAGATTTTATTTTTCAAAATATACTATTTTCAT
82353832 ATTTTATTTTTTATATTAGTTTTA-TACATAATGTTTC-ATGTATTATTTTAGTTTTTTTATATT
191 ATTTTATTTTTTATATTA-TTTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTTTATATT
* *
82353895 AATTTAGTAAAAATCTGTGATTTTGGCCGTTTT
255 AATTTAGTAAAAAACTCTGATTTTGGCC-TTTT
*
82353928 ATTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 -TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATT
82353993 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTAG-AAAAAACTC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTC
* * * * *
82354056 TGATTTTAGCC-TTTTTATTTTTATTTTCAGATTTTATTTTTTAAGATATATTATTTTCGTATTT
130 TGATTTTGGCCGTTTTTATTTTTATTTTCAGATTTTATTTTTCAAAATATACTATTTTCATATTT
*
82354120 TGTTTTTTATATTATTTTAGTACATAATGTTTC-ATGTATTATTTTAGTTTTTTTATATTAATTT
195 TATTTTTTATATTATTTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTTTATATTAATTT
* * * *
82354184 AGTAAAAATCTGTGGTTTTGGACTTTT
260 AGTAAAAAACTCTGATTTTGGCCTTTT
* *
82354211 TTTATTTTGTTTTCGGATTTT-TTATTTTAAAATATACTATTTTTGTATTTTATTTTTTTATATT
1 TTTATTTTATTTTCGGATTTTATT-TTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATT
* * *
82354275 ATTTTTGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAATTC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTC
* *
82354340 TGATTTTGGCCGTTTGTTTTTTATTTTATTTTC-GAATTTTATTTTTCAAAATATATTA-TTTCA
130 TGATTTTGGCCG--T-TTTTAT-TTTTATTTTCAG-ATTTTATTTTTCAAAATATACTATTTTCA
* * * *
82354403 TATTTTATTTTTTTTATTATTTTAGTACATAACGTTTCATATGTATTATTTTAGTATATTTATAT
190 TATTTTATTTTTTATATTATTTTAGTACATAATGTTTCA-ATGTATTATTTTAGTTTTTTTATAT
82354468 TAATTTAGTAAAAAACTCTGATTTTGGCC-TTT
254 TAATTTAGTAAAAAACTCTGATTTTGGCCTTTT
82354500 TTTATTTTATTTTCGGATTTT
1 TTTATTTTATTTTCGGATTTT
82354521 TTAAAATATA
Statistics
Matches: 804, Mismatches: 54, Indels: 55
0.88 0.06 0.06
Matches are distributed among these distances:
281 2 0.00
282 95 0.12
283 27 0.03
284 160 0.20
287 1 0.00
288 62 0.08
289 100 0.12
290 82 0.10
291 21 0.03
292 13 0.02
293 41 0.05
294 74 0.09
295 36 0.04
296 1 0.00
297 14 0.02
298 48 0.06
299 7 0.01
300 19 0.02
301 1 0.00
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (286 bp):
TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTCT
GATTTTGGCCGTTTTTATTTTTATTTTCAGATTTTATTTTTCAAAATATACTATTTTCATATTTT
ATTTTTTATATTATTTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTTTATATTAATTTA
GTAAAAAACTCTGATTTTGGCCTTTT
Found at i:82354231 original size:21 final size:20
Alignment explanation
Indices: 82354198--82354238 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
82354188 AAAATCTGTG
82354198 GTTTTGGACTTTTTTTATTTT
1 GTTTTGGAC-TTTTTTATTTT
82354219 GTTTTCGGA-TTTTTTATTTT
1 GTTTT-GGACTTTTTTATTTT
82354239 AAAATATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 5 0.26
22 3 0.16
ACGTcount: A:0.10, C:0.05, G:0.15, T:0.71
Consensus pattern (20 bp):
GTTTTGGACTTTTTTATTTT
Found at i:82354266 original size:13 final size:13
Alignment explanation
Indices: 82354243--82354283 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
82354233 TATTTTAAAA
*
82354243 TATACTATTTTTG
1 TATATTATTTTTG
* *
82354256 TATTTTATTTTTT
1 TATATTATTTTTG
82354269 TATATTATTTTTG
1 TATATTATTTTTG
82354282 TA
1 TA
82354284 CATAATGTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (13 bp):
TATATTATTTTTG
Found at i:82354447 original size:146 final size:145
Alignment explanation
Indices: 82353344--82354520 Score: 1531
Period size: 146 Copynumber: 8.1 Consensus size: 145
82353334 TATTTTAGTA
* *
82353344 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATATTAT
1 TTTATTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * *
82353408 TTTAGTACATAATGTTTCAAATGTACTATTTTTGTTTCTTTTATATTAATTTAATAAAAAACTCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTT-TTTTATATTAATTTAGTAAAAAACTCT
*
82353473 GATTTTGACCGTTTGTTTT
130 GATTTTGGCC--TT-TTTT
* * * *
82353492 TTTATTTTATTCTC-AGATTTTACTTTTTAAAATAAACTATTTTCATATTTTATTTTTTATATTA
1 TTTATTTTATTTTCGA-ATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* * * *
82353556 TTTTAGTATATAATGTTCCAAATGTATCATTTTAG-TTTTTTATATTAATTTAATAAAAAACTCT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCT
82353620 GATTTTGGCCGTTTATTT
130 GATTTTGGCC-TTT-TTT
82353638 TTTATTTTATTTTC-AGATTTTATTTTTTTAAAATATACTATTTTCGTATTTTATGTTTTTTATA
1 TTTATTTTATTTTCGA-ATTTTA-TTTTTTAAAATATACTATTTTCGTATTTTA--TTTTTTATA
* * *
82353702 TTATTTTAGTACATAATGTTTAAAATGTATTATTTTAGTTTTTTTATATTAATATAGAAAAAAAA
62 TTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG---TAAAA
* *
82353767 AACTCTGATTTTGGCCCTTTTA
124 AACTCTGATTTTGGCCTTTTTT
* * *
82353789 TTT-TTTT-TTTT-GGATTTTATTTTTCAAAATATACTATTTTCTTATTTTATTTTTTATATTAG
1 TTTATTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA-
* *
82353851 TTTTA-TACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTGT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCT
* *
82353913 GATTTTGGCCGTTTTA
130 GATTTTGGCCTTTTTT
* *
82353929 TTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
1 TTTATTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTA
82353994 TTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTAG-AAAAAACTCT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCT
*
82354057 GATTTTAGCC--TTTT
130 GATTTTGGCCTTTTTT
* * * *
82354071 TAT-TTTTATTTTC-AGATTTTATTTTTTAAGATATATTATTTTCGTATTTTGTTTTTTATATTA
1 TTTATTTTATTTTCGA-ATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
82354134 TTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTGT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCT
* *
82354197 GGTTTTGGAC--TTTT
130 GATTTTGGCCTTTTTT
* * *
82354211 TTTATTTTGTTTTCGGATTTT-TTATTTTAAAATATACTATTTTTGTATTTTATTTTTTTATATT
1 TTTATTTTATTTTCGAATTTTATT-TTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
* *
82354275 ATTTTTGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAATTC
64 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTC
82354340 TGATTTTGGCCGTTTGTTT
129 TGATTTTGGCC-TTT-TTT
* * * *
82354359 TTTATTTTATTTTCGAATTTTATTTTTCAAAATATATTA-TTTCATATTTTATTTTTTTTATTAT
1 TTTATTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * * *
82354423 TTTAGTACATAACGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAACTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
82354488 ATTTTGGCC---TTT
131 ATTTTGGCCTTTTTT
*
82354500 TTTATTTTATTTTCGGATTTT
1 TTTATTTTATTTTCGAATTTT
82354521 TTAAAATATA
Statistics
Matches: 917, Mismatches: 79, Indels: 73
0.86 0.07 0.07
Matches are distributed among these distances:
138 14 0.02
139 18 0.02
140 80 0.09
141 107 0.12
142 39 0.04
143 73 0.08
144 91 0.10
145 43 0.05
146 125 0.14
147 102 0.11
148 88 0.10
149 90 0.10
150 20 0.02
151 5 0.01
152 2 0.00
153 20 0.02
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (145 bp):
TTTATTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
ATTTTGGCCTTTTTT
Found at i:82355015 original size:29 final size:26
Alignment explanation
Indices: 82354950--82355002 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
82354940 AAATATTACC
82354950 TTTTTTCCTTCCCTCCCTCTTCTTCT
1 TTTTTTCCTTCCCTCCCTCTTCTTCT
82354976 TTTTTTCCTTCCCTCCCTCTTCTTCT
1 TTTTTTCCTTCCCTCCCTCTTCTTCT
82355002 T
1 T
82355003 CTTCTTCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTTTCCTTCCCTCCCTCTTCTTCT
Found at i:82355026 original size:6 final size:6
Alignment explanation
Indices: 82355016--82355052 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
82355006 CTTCTCCTTC
* *
82355016 TCTTTT TCTTTC TCTTTC TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
82355053 TCTTCCCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TCTTTT
Found at i:82355028 original size:18 final size:18
Alignment explanation
Indices: 82354994--82355044 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
82354984 TTCCCTCCCT
*
82354994 CTTCTTCTTCTTC-TTCTC
1 CTTC-TCTTTTTCTTTCTC
82355012 CTTCTCTTTTTCTTTCTC
1 CTTCTCTTTTTCTTTCTC
*
82355030 TTTCTCTTTTTCTTT
1 CTTCTCTTTTTCTTT
82355045 TTCTTTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.23
18 23 0.77
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTCTCTTTTTCTTTCTC
Found at i:82355041 original size:14 final size:13
Alignment explanation
Indices: 82355013--82355055 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
82355003 CTTCTTCTCC
*
82355013 TTCTCTTT-TTCT
1 TTCTCTTTCTTTT
82355025 TTCTCTTTCTCTTT
1 TTCTCTTTCT-TTT
*
82355039 TTCTTTTTCTTTT
1 TTCTCTTTCTTTT
82355052 TTCT
1 TTCT
82355056 TCCCTCACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 8 0.30
13 8 0.30
14 11 0.41
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTCTCTTTCTTTT
Found at i:82355049 original size:18 final size:18
Alignment explanation
Indices: 82355007--82355050 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
82354997 CTTCTTCTTC
*
82355007 TTCTCCTTCTCTTTTTCT
1 TTCTCTTTCTCTTTTTCT
82355025 TTCTCTTTCTCTTTTTCT
1 TTCTCTTTCTCTTTTTCT
*
82355043 TTTTCTTT
1 TTCTCTTT
82355051 TTTCTTCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
TTCTCTTTCTCTTTTTCT
Found at i:82355084 original size:3 final size:3
Alignment explanation
Indices: 82355076--82355163 Score: 124
Period size: 3 Copynumber: 29.3 Consensus size: 3
82355066 ATGCCGCCTC
*
82355076 CTT CTT CTT CTT CTT TTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* **
82355124 CTT CTT CTT CTT C-T CTT CTC CTT CCC CTTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT C
82355164 ACTCACGCAC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.03
3 72 0.96
4 1 0.01
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:82355328 original size:27 final size:27
Alignment explanation
Indices: 82355287--82355339 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
82355277 AGGAGTCAGC
*
82355287 GGTGCCGCCTGTGGGGTACCCTCCACT
1 GGTGCCGCCTATGGGGTACCCTCCACT
82355314 GGTGCCGCCTATGGGGTACCCTCCAC
1 GGTGCCGCCTATGGGGTACCCTCCAC
82355340 CCATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.09, C:0.38, G:0.32, T:0.21
Consensus pattern (27 bp):
GGTGCCGCCTATGGGGTACCCTCCACT
Found at i:82356088 original size:5 final size:5
Alignment explanation
Indices: 82356078--82356133 Score: 85
Period size: 5 Copynumber: 11.0 Consensus size: 5
82356068 AATAATTAAG
* *
82356078 TATAT TATAT TATAT TATAT TATAT TATAT TATAT AATAT TATAG TATTAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT
82356129 TATAT
1 TATAT
82356134 ATAAAAGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 42 0.91
6 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:82356785 original size:12 final size:12
Alignment explanation
Indices: 82356768--82356792 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
82356758 GCCGACTACT
82356768 GTTACTGTTACC
1 GTTACTGTTACC
82356780 GTTACTGTTACC
1 GTTACTGTTACC
82356792 G
1 G
82356793 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:82357641 original size:3 final size:3
Alignment explanation
Indices: 82357619--82357661 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
82357609 ATAAAAAAGA
82357619 AAT AA- AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
82357662 AATTGGAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.11
3 30 0.81
4 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:82358917 original size:20 final size:22
Alignment explanation
Indices: 82358892--82358940 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
82358882 TGTTTATAAA
* *
82358892 TTAAAATATATTTAAT-AA-TT
1 TTAAAATAAATTAAATAAATTT
*
82358912 TTAAAAAAAATTAAATAAATTT
1 TTAAAATAAATTAAATAAATTT
82358934 TTAAAAT
1 TTAAAAT
82358941 TTCCGTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 13 0.57
21 2 0.09
22 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAAATAAATTAAATAAATTT
Found at i:82362139 original size:22 final size:21
Alignment explanation
Indices: 82362109--82362154 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
82362099 TTCCTTCAAT
82362109 TTTCGTTTTCAATTCTGTGTTC
1 TTTCGTTTTCAATTCTGT-TTC
* * *
82362131 TTTCTTTTTCTATTTTGTTTC
1 TTTCGTTTTCAATTCTGTTTC
82362152 TTT
1 TTT
82362155 ATTTATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.07, C:0.15, G:0.09, T:0.70
Consensus pattern (21 bp):
TTTCGTTTTCAATTCTGTTTC
Found at i:82362151 original size:17 final size:17
Alignment explanation
Indices: 82362131--82362163 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
82362121 TTCTGTGTTC
82362131 TTTCTTT-TTCTATTTTG
1 TTTCTTTATT-TATTTTG
82362148 TTTCTTTATTTATTTT
1 TTTCTTTATTTATTTT
82362164 AACTATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTCTTTATTTATTTTG
Found at i:82362192 original size:8 final size:8
Alignment explanation
Indices: 82362167--82362216 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
82362157 TTATTTTAAC
82362167 TATTATAT
1 TATTATAT
*
82362175 TATTCT-T
1 TATTATAT
82362182 TATTATAT
1 TATTATAT
*
82362190 TATTAAAT
1 TATTATAT
*
82362198 TATTATAA
1 TATTATAT
*
82362206 TAATATAT
1 TATTATAT
82362214 TAT
1 TAT
82362217 ATGTTAAATA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 6 0.18
8 27 0.82
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (8 bp):
TATTATAT
Found at i:82364915 original size:13 final size:13
Alignment explanation
Indices: 82364897--82364924 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
82364887 AAACTGATCC
82364897 AAGTACGGTTGAA
1 AAGTACGGTTGAA
82364910 AAGTACGGTTGAA
1 AAGTACGGTTGAA
82364923 AA
1 AA
82364925 ATCTAGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (13 bp):
AAGTACGGTTGAA
Found at i:82368795 original size:44 final size:45
Alignment explanation
Indices: 82368746--82368841 Score: 178
Period size: 44 Copynumber: 2.2 Consensus size: 45
82368736 TTTTAATTAA
82368746 AATATTCATAAGTCAACACAATACCACAATATCAATACTTACC-T
1 AATATTCATAAGTCAACACAATACCACAATATCAATACTTACCTT
82368790 AATATTCATAAGTCAACACAATACCACAATATCAATACTTACCTT
1 AATATTCATAAGTCAACACAATACCACAATATCAATACTTACCTT
82368835 AAT-TTCA
1 AATATTCA
82368842 ATAGCCATAC
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 47 0.92
45 4 0.08
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (45 bp):
AATATTCATAAGTCAACACAATACCACAATATCAATACTTACCTT
Found at i:82369566 original size:16 final size:15
Alignment explanation
Indices: 82369533--82369590 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 15
82369523 TTTTGTTTCT
* *
82369533 TTATATATTTTAACTA
1 TTATATA-TTAAATTA
82369549 TTATATTATTAAATTA
1 TTATA-TATTAAATTA
*
82369565 TTATA-A-TAATTTA
1 TTATATATTAAATTA
82369578 TTATATATTAAAT
1 TTATATATTAAAT
82369591 ATCTTATACT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
13 11 0.31
14 2 0.06
15 4 0.11
16 16 0.46
17 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATATATTAAATTA
Found at i:82371167 original size:46 final size:44
Alignment explanation
Indices: 82371063--82371170 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
82371053 TGTCTTTGAC
** * * *
82371063 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
82371107 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
82371153 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
82371171 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:82374040 original size:10 final size:10
Alignment explanation
Indices: 82374006--82374039 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
82373996 TGGCATGACA
*
82374006 TGATATGATA
1 TGATATGATT
82374016 TGATATGATT
1 TGATATGATT
*
82374026 TGATTTGATT
1 TGATATGATT
82374036 TGAT
1 TGAT
82374040 TAAATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (10 bp):
TGATATGATT
Found at i:82376652 original size:41 final size:41
Alignment explanation
Indices: 82376595--82376677 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
82376585 CGAGTATGAG
*
82376595 TTGTATTTGAATATTAGTATAGAACTCTGTATTAACTGTTA
1 TTGTATTTGAATATTAGTATAGAACTATGTATTAACTGTTA
82376636 TTGTATTTGAATATTAGTATAGAACTATGTATTAACTGTTA
1 TTGTATTTGAATATTAGTATAGAACTATGTATTAACTGTTA
82376677 T
1 T
82376678 GTGAAGAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (41 bp):
TTGTATTTGAATATTAGTATAGAACTATGTATTAACTGTTA
Found at i:82386187 original size:3 final size:3
Alignment explanation
Indices: 82386179--82386220 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
82386169 ACAAGCTCTC
82386179 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
82386221 GATAATGCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:82386848 original size:42 final size:42
Alignment explanation
Indices: 82386797--82386916 Score: 179
Period size: 42 Copynumber: 2.9 Consensus size: 42
82386787 AACTGTATAC
82386797 TCTCAATGTGGA-TAAATATTTAGTTTAGTTAGCACGGTTGTT
1 TCTCAATGTGGATTAAAT-TTTAGTTTAGTTAGCACGGTTGTT
* *
82386839 TCTTAATGTGGATTAAATTTTAGTTTAGTTAGTACGGTTGTT
1 TCTCAATGTGGATTAAATTTTAGTTTAGTTAGCACGGTTGTT
* * *
82386881 TCTCAATGTGAATTAAATTTTAGTTTAATTAACACG
1 TCTCAATGTGGATTAAATTTTAGTTTAGTTAGCACG
82386917 TTCGTTATGA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 65 0.93
43 5 0.07
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.45
Consensus pattern (42 bp):
TCTCAATGTGGATTAAATTTTAGTTTAGTTAGCACGGTTGTT
Found at i:82390313 original size:26 final size:26
Alignment explanation
Indices: 82390270--82390325 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 26
82390260 AAACTATAAC
*
82390270 TTTTATATTGTATTTTTTCAAA-TTAGTT
1 TTTTATATAGTA-TTTTT-AAAGTTA-TT
82390298 TTTTATATAGTA-TTTTAAAGTTATT
1 TTTTATATAGTATTTTTAAAGTTATT
82390323 TTT
1 TTT
82390326 ACTATATAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 8 0.31
26 7 0.27
28 11 0.42
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (26 bp):
TTTTATATAGTATTTTTAAAGTTATT
Found at i:82390635 original size:102 final size:101
Alignment explanation
Indices: 82390524--82390728 Score: 374
Period size: 102 Copynumber: 2.0 Consensus size: 101
82390514 ATCTTCTAAC
82390524 TTTTCACCACCAAGGTTTTGTTTAGCATTGCTCATAGAGGTGGAAAAGCACTTTTTGACAGCATA
1 TTTTCACCACCAAGGTTTTGTTTAGCATTGCTCATAGAGGTGGAAAAGCACTTTTTGACAGCATA
* *
82390589 AGCAATGCCAAACAATCAGCTTTTAACATCAAATTAA
66 AGCAATGCCAAACAATCAGC-TTTAAAATCAAAATAA
*
82390626 TTTTCACCACTAAGGTTTTGTTTAGCATTGCTCATAGAGGTGGAAAAGCACTTTTTGACAGCATA
1 TTTTCACCACCAAGGTTTTGTTTAGCATTGCTCATAGAGGTGGAAAAGCACTTTTTGACAGCATA
82390691 AGCAATGCCAAACAATCAGCTTTAAAATCAAAATAA
66 AGCAATGCCAAACAATCAGCTTTAAAATCAAAATAA
82390727 TT
1 TT
82390729 GAAAAAAGCT
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
101 16 0.16
102 84 0.84
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (101 bp):
TTTTCACCACCAAGGTTTTGTTTAGCATTGCTCATAGAGGTGGAAAAGCACTTTTTGACAGCATA
AGCAATGCCAAACAATCAGCTTTAAAATCAAAATAA
Found at i:82397796 original size:19 final size:19
Alignment explanation
Indices: 82397759--82397797 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
82397749 AATTTATTAT
**
82397759 TATATTTATAATTGTAATA
1 TATATTTATAATTAAAATA
*
82397778 TATATTTATTATTAAAATA
1 TATATTTATAATTAAAATA
82397797 T
1 T
82397798 TAATATAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TATATTTATAATTAAAATA
Found at i:82397924 original size:22 final size:21
Alignment explanation
Indices: 82397884--82397924 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
82397874 ATTAAATAAT
* *
82397884 TTATTAAAATAATTCATTATA
1 TTATTAAAATAAATAATTATA
82397905 TTATTAAATATAAATAATTA
1 TTATTAAA-ATAAATAATTA
82397925 AATAATATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TTATTAAAATAAATAATTATA
Found at i:82398314 original size:5 final size:5
Alignment explanation
Indices: 82398304--82398342 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
82398294 AATAATAGAG
82398304 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
82398343 ACTTCCTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:82409659 original size:40 final size:37
Alignment explanation
Indices: 82409615--82409708 Score: 100
Period size: 40 Copynumber: 2.5 Consensus size: 37
82409605 ACCCGAATGG
*
82409615 CGACCAACGCCTCATCGGAT-AGTTCGAAGTAAATAAGTGA
1 CGACCAACGCCTCATCGGATAAG-CCGAAGT--A-AAGTGA
* * * *
82409655 CGACCAACGTCTCATTGGCTAAGCCGAAGTAAAGTGG
1 CGACCAACGCCTCATCGGATAAGCCGAAGTAAAGTGA
82409692 CGACCAACGCCTCATCG
1 CGACCAACGCCTCATCG
82409709 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
37 20 0.43
38 1 0.02
40 23 0.50
41 2 0.04
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (37 bp):
CGACCAACGCCTCATCGGATAAGCCGAAGTAAAGTGA
Found at i:82410893 original size:3 final size:3
Alignment explanation
Indices: 82410885--82410971 Score: 167
Period size: 3 Copynumber: 29.3 Consensus size: 3
82410875 ATAGTATGAC
82410885 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
82410932 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
82410972 GAAGTAAATA
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 81 0.98
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:82413474 original size:8 final size:9
Alignment explanation
Indices: 82413449--82413473 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
82413439 TCTTTCTTTC
82413449 TTTTTTTTA
1 TTTTTTTTA
82413458 TTTTTTTTA
1 TTTTTTTTA
82413467 TTTTTTT
1 TTTTTTT
82413474 AACATTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:82420588 original size:12 final size:12
Alignment explanation
Indices: 82420568--82420598 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
82420558 ATTATAAAAC
82420568 ATAATAATCATA
1 ATAATAATCATA
*
82420580 ATTATAATCATA
1 ATAATAATCATA
82420592 ATAATAA
1 ATAATAA
82420599 AATTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATAATCATA
Found at i:82426087 original size:30 final size:30
Alignment explanation
Indices: 82426051--82426110 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
82426041 AGATGCGACC
82426051 GACTCTAAATAACTTTGTGTAACAAATCCT
1 GACTCTAAATAACTTTGTGTAACAAATCCT
*
82426081 GACTCTAATTAACTTTGTGTAACAAATCCT
1 GACTCTAAATAACTTTGTGTAACAAATCCT
82426111 ATGTAATACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (30 bp):
GACTCTAAATAACTTTGTGTAACAAATCCT
Found at i:82428940 original size:26 final size:26
Alignment explanation
Indices: 82428911--82428963 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
82428901 TCAAACATGC
82428911 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
82428937 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
82428963 A
1 A
82428964 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:82430486 original size:26 final size:26
Alignment explanation
Indices: 82430448--82430557 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
82430438 CATGAAATTC
* *
82430448 TTATCATGAAACATTTACTTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
82430474 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
82430500 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
82430526 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
82430552 TTATCA
1 TTATCA
82430558 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:82431123 original size:27 final size:25
Alignment explanation
Indices: 82431081--82431157 Score: 91
Period size: 27 Copynumber: 3.0 Consensus size: 25
82431071 AACTGTTTGG
82431081 TTATTATTATTTATTTTAAGTTTTT
1 TTATTATTATTTATTTTAAGTTTTT
* * **
82431106 TTCTTATATTATTTATTTTAAATCATT
1 TT-AT-TATTATTTATTTTAAGTTTTT
*
82431133 TTATTATTATTTATGTTAAGTTTTT
1 TTATTATTATTTATTTTAAGTTTTT
82431158 ACGTATTATG
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
25 19 0.46
26 2 0.05
27 20 0.49
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.68
Consensus pattern (25 bp):
TTATTATTATTTATTTTAAGTTTTT
Found at i:82431164 original size:27 final size:25
Alignment explanation
Indices: 82431082--82431173 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 25
82431072 ACTGTTTGGT
82431082 TATTATTATTTATTTTAAGTTTTTTTC
1 TATTATTATTTATTTTAAG--TTTTTC
* *
82431109 T-TATATTATTTATTTTAAATCATTT-
1 TAT-TATTATTTATTTTAAGT-TTTTC
*
82431134 TATTATTATTTATGTTAAGTTTTTAC
1 TATTATTATTTATTTTAAGTTTTT-C
82431160 GTATTATGTATTTA
1 -TATTAT-TATTTA
82431174 AACTATTATC
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
24 3 0.06
25 17 0.32
26 5 0.09
27 22 0.42
28 6 0.11
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.64
Consensus pattern (25 bp):
TATTATTATTTATTTTAAGTTTTTC
Found at i:82431345 original size:24 final size:24
Alignment explanation
Indices: 82431291--82431460 Score: 102
Period size: 24 Copynumber: 7.1 Consensus size: 24
82431281 GTTTTTGGAC
*
82431291 ATTATTTATTTTAAATTTCCTTTTTACAT
1 ATTATTTATTTTAAA-TT--GTTTT--AT
* *
82431320 ATTATTTATTTTAAACTCTTTTAT
1 ATTATTTATTTTAAATTGTTTTAT
* * *
82431344 A-T-GTTATTTTAAAGTGTCTTAT
1 ATTATTTATTTTAAATTGTTTTAT
* * *
82431366 A-TATTT-TATT--ACT-TTGTAT
1 ATTATTTATTTTAAATTGTTTTAT
*
82431385 ATTATTTATTTTAATTTGTTTTACAT
1 ATTATTTATTTTAAATTGTTTT--AT
*
82431411 ATTATTTATTTGAAATTGTTTTAT
1 ATTATTTATTTTAAATTGTTTTAT
* * *
82431435 ATTATTGACTTCAAATTGTTTTAT
1 ATTATTTATTTTAAATTGTTTTAT
82431459 AT
1 AT
82431461 AATATTTTGT
Statistics
Matches: 113, Mismatches: 20, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
19 5 0.04
20 7 0.06
21 3 0.03
22 21 0.19
23 4 0.04
24 31 0.27
26 26 0.23
28 1 0.01
29 15 0.13
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (24 bp):
ATTATTTATTTTAAATTGTTTTAT
Found at i:82431351 original size:29 final size:29
Alignment explanation
Indices: 82431210--82431351 Score: 88
Period size: 29 Copynumber: 5.1 Consensus size: 29
82431200 TTTAAAAATG
82431210 TTATTTATTTTAAA--CTTTTATAT-ATA
1 TTATTTATTTTAAACTCTTTTATATGATA
**
82431236 TTATTTATTTTGGA-T-TATTTATAT-ATA
1 TTATTTATTTTAAACTCT-TTTATATGATA
* * * *
82431263 TATATTTTTATTTAAACTGTTTT-T-GGACA
1 T-TATTTAT-TTTAAACTCTTTTATATGATA
* *
82431292 TTATTTATTTTAAATTTCCTTTT-TA-CATA
1 TTATTTATTTTAAA-CT-CTTTTATATGATA
*
82431321 TTATTTATTTTAAACTCTTTTATATGTTA
1 TTATTTATTTTAAACTCTTTTATATGATA
82431350 TT
1 TT
82431352 TTAAAGTGTC
Statistics
Matches: 89, Mismatches: 15, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
26 13 0.15
27 22 0.25
28 16 0.18
29 33 0.37
30 4 0.04
31 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (29 bp):
TTATTTATTTTAAACTCTTTTATATGATA
Found at i:82431365 original size:22 final size:22
Alignment explanation
Indices: 82431325--82431367 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
82431315 TACATATTAT
*
82431325 TTATTTTAAACTCTTTTATATG
1 TTATTTTAAACTCTCTTATATG
* *
82431347 TTATTTTAAAGTGTCTTATAT
1 TTATTTTAAACTCTCTTATAT
82431368 ATTTTATTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (22 bp):
TTATTTTAAACTCTCTTATATG
Found at i:82431415 original size:26 final size:25
Alignment explanation
Indices: 82431383--82431467 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 25
82431373 ATTACTTTGT
* *
82431383 ATATTATTTATTTTAATTTGTTTTA
1 ATATTATTTATTTCAAATTGTTTTA
*
82431408 CATATTATTTATTTGAAATTGTTTT-
1 -ATATTATTTATTTCAAATTGTTTTA
* *
82431433 ATATTATTGACTTCAAATTGTTTTA
1 ATATTATTTATTTCAAATTGTTTTA
*
82431458 TATAATATTT
1 -ATATTATTT
82431468 TGTTGCATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
24 21 0.42
26 29 0.58
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.60
Consensus pattern (25 bp):
ATATTATTTATTTCAAATTGTTTTA
Found at i:82431460 original size:91 final size:93
Alignment explanation
Indices: 82431291--82431461 Score: 220
Period size: 91 Copynumber: 1.8 Consensus size: 93
82431281 GTTTTTGGAC
* * * * *
82431291 ATTATTTATTTTAAATTTCCTTTTTACATATTATTTATTTTAAACTCTTTTATATGTTATTTTAA
1 ATTATTTATTTTAAATTT-CGTTTTACATATTATTTATTTGAAACTCTTTTATATATTACTTCAA
82431356 AGTGTCTTATATATTTTATTACTTTGTAT
65 AGTGTCTTATATATTTTATTACTTTGTAT
* *
82431385 ATTATTTATTTT-AATTT-GTTTTACATATTATTTATTTGAAATTGTTTTATATTATTGACTTCA
1 ATTATTTATTTTAAATTTCGTTTTACATATTATTTATTTGAAACTCTTTTATA-TATT-ACTTCA
* *
82431448 AATTGTTTTATATA
64 AAGTGTCTTATATA
82431462 ATATTTTGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
91 30 0.45
92 3 0.05
93 21 0.32
94 12 0.18
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (93 bp):
ATTATTTATTTTAAATTTCGTTTTACATATTATTTATTTGAAACTCTTTTATATATTACTTCAAA
GTGTCTTATATATTTTATTACTTTGTAT
Found at i:82431478 original size:91 final size:92
Alignment explanation
Indices: 82431291--82431486 Score: 195
Period size: 91 Copynumber: 2.1 Consensus size: 92
82431281 GTTTTTGGAC
* * * * *
82431291 ATTATTTATTTTAAATTTCCTTTTTACATATTATTTATTTTAAACTCTTTTATATGTTATTTTAA
1 ATTATTTATTTTAAATTT-CGTTTTACATATTATTTATTTGAAACTCTTTTATATATTACTTCAA
* * *
82431356 AGTGTCTTATATATTTTATTACTTTGTAT
65 AGTGTCTTATATATATTATTA-GTTGCAT
* *
82431385 ATTATTTATTTT-AATTT-GTTTTACATATTATTTATTTGAAATTGTTTTATATTATTGACTTCA
1 ATTATTTATTTTAAATTTCGTTTTACATATTATTTATTTGAAACTCTTTTATA-TATT-ACTTCA
* *
82431448 AATTGTTTTATATAATATT-TT-GTTGCAT
64 AAGTGTCTTATAT-ATATTATTAGTTGCAT
82431476 ATT-TTTCATTT
1 ATTATTT-ATTT
82431487 GTTAATATTG
Statistics
Matches: 86, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
90 3 0.03
91 42 0.49
92 3 0.03
93 22 0.26
94 16 0.19
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (92 bp):
ATTATTTATTTTAAATTTCGTTTTACATATTATTTATTTGAAACTCTTTTATATATTACTTCAAA
GTGTCTTATATATATTATTAGTTGCAT
Found at i:82435203 original size:19 final size:19
Alignment explanation
Indices: 82435162--82435203 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
82435152 CCTCTTTTTG
* *
82435162 CATTCATTTCATTCATTTG
1 CATTCATTTCATTCATATA
82435181 CATTGCATTTCA-TCATATA
1 CATT-CATTTCATTCATATA
82435200 CATT
1 CATT
82435204 AAGTTTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.48
Consensus pattern (19 bp):
CATTCATTTCATTCATATA
Found at i:82443637 original size:44 final size:43
Alignment explanation
Indices: 82443546--82443666 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 43
82443536 GTTACCTTAG
* *
82443546 CAAATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAATCA
1 CAAA-CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCA
* * * * *
82443590 CAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTTA
1 CAAA-CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCA
* * *
82443634 CAAATTTCATCTCTCTTAAGTTGCAGTGGAGCA
1 CAAACTT-ATCTCCCTGAAGTTGCAGTGGAGCA
82443667 AATTGTAGAT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 2 0.03
44 62 0.97
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (43 bp):
CAAACTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCA
Found at i:82445242 original size:29 final size:30
Alignment explanation
Indices: 82445203--82445284 Score: 107
Period size: 29 Copynumber: 2.8 Consensus size: 30
82445193 AATTGTTTGG
*
82445203 TTATTATTATTTATTTTAAGTTTTTTTTTC
1 TTATTATTATTTATTTTAAGTTTTTTTTTA
**
82445233 TTA-TATTATTTATTTTAAG--TCGTTTTA
1 TTATTATTATTTATTTTAAGTTTTTTTTTA
*
82445260 TTATTATTATTTATGTTAAGTTTTT
1 TTATTATTATTTATTTTAAGTTTTT
82445285 ACGTATTATG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 8 0.19
28 15 0.35
29 16 0.37
30 4 0.09
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.68
Consensus pattern (30 bp):
TTATTATTATTTATTTTAAGTTTTTTTTTA
Found at i:82445298 original size:28 final size:26
Alignment explanation
Indices: 82445203--82445300 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 26
82445193 AATTGTTTGG
*
82445203 TTATTATTATTTATTTTAAGTTTTTTT
1 TTATTATTATTTATTTTAAG-TTTTTA
*
82445230 TTCTTATATTATTTATTTTAAGTCGTTTTA
1 TT-AT-TATTATTTATTTTAAGT--TTTTA
*
82445260 TTATTATTATTTATGTTAAGTTTTTA
1 TTATTATTATTTATTTTAAGTTTTTA
*
82445286 CGTATTATGTATTTA
1 -TTATTAT-TATTTA
82445301 AACTATTATC
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
26 5 0.08
27 8 0.13
28 24 0.40
29 17 0.28
30 6 0.10
ACGTcount: A:0.24, C:0.03, G:0.07, T:0.65
Consensus pattern (26 bp):
TTATTATTATTTATTTTAAGTTTTTA
Found at i:82445393 original size:98 final size:96
Alignment explanation
Indices: 82445215--82445397 Score: 205
Period size: 97 Copynumber: 1.9 Consensus size: 96
82445205 ATTATTATTT
* *
82445215 ATTTTAAGTTTTTTTTTCTTATATTATTTATTTTAAGTCGTTTTATTATTATTATTTATGTTAAG
1 ATTTTAAGTTTTTTTTTCTAATATTATTTATTTTAAGACGTTTTATTATTATTATTTATGTTAAG
**
82445280 TTTTTACGTATTATGTATTTAAACTATTATCA
66 TTTTTAAATATTATGT-TTTAAACTATTATCA
*
82445312 ATTTTAAGTTTTTTTTT-TAAAATGTTATTTATTTTAA-AC-TTTTA-TATATATTATTTAT-TT
1 ATTTTAAGTTTTTTTTTCT--AATATTATTTATTTTAAGACGTTTTATTAT-TATTATTTATGTT
**
82445372 TGGATTATTTAAATATATATGTTTTA
63 AAG-TT-TTTAAATAT-TATGTTTTA
82445398 TTTAAAATGT
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
95 6 0.08
96 18 0.25
97 29 0.40
98 20 0.27
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.61
Consensus pattern (96 bp):
ATTTTAAGTTTTTTTTTCTAATATTATTTATTTTAAGACGTTTTATTATTATTATTTATGTTAAG
TTTTTAAATATTATGTTTTAAACTATTATCA
Found at i:82445470 original size:24 final size:24
Alignment explanation
Indices: 82445416--82445585 Score: 102
Period size: 24 Copynumber: 7.1 Consensus size: 24
82445406 GTTTTTGTAC
*
82445416 ATTATTTATTTTAAATTTCCTTTTTACAT
1 ATTATTTATTTTAAA-TT--GTTTT--AT
* *
82445445 ATTATTTATTTTAAACTCTTTTAT
1 ATTATTTATTTTAAATTGTTTTAT
* * *
82445469 A-T-GTTATTTTAAAGTGTCTTAT
1 ATTATTTATTTTAAATTGTTTTAT
* * *
82445491 A-TATTT-TATT--ACT-TTGTAT
1 ATTATTTATTTTAAATTGTTTTAT
*
82445510 ATTATTTATTTTAATTTGTTTTACAT
1 ATTATTTATTTTAAATTGTTTT--AT
*
82445536 ATTATTTATTTGAAATTGTTTTAT
1 ATTATTTATTTTAAATTGTTTTAT
* * *
82445560 ATTATTGACTTCAAATTGTTTTAT
1 ATTATTTATTTTAAATTGTTTTAT
82445584 AT
1 AT
82445586 AATATTTTGT
Statistics
Matches: 113, Mismatches: 20, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
19 5 0.04
20 7 0.06
21 3 0.03
22 21 0.19
23 4 0.04
24 31 0.27
26 26 0.23
28 1 0.01
29 15 0.13
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (24 bp):
ATTATTTATTTTAAATTGTTTTAT
Found at i:82445490 original size:22 final size:22
Alignment explanation
Indices: 82445450--82445492 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
82445440 TACATATTAT
*
82445450 TTATTTTAAACTCTTTTATATG
1 TTATTTTAAACTCTCTTATATG
* *
82445472 TTATTTTAAAGTGTCTTATAT
1 TTATTTTAAACTCTCTTATAT
82445493 ATTTTATTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (22 bp):
TTATTTTAAACTCTCTTATATG
Found at i:82445540 original size:26 final size:25
Alignment explanation
Indices: 82445508--82445592 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 25
82445498 ATTACTTTGT
* *
82445508 ATATTATTTATTTTAATTTGTTTTA
1 ATATTATTTATTTCAAATTGTTTTA
*
82445533 CATATTATTTATTTGAAATTGTTTT-
1 -ATATTATTTATTTCAAATTGTTTTA
* *
82445558 ATATTATTGACTTCAAATTGTTTTA
1 ATATTATTTATTTCAAATTGTTTTA
*
82445583 TATAATATTT
1 -ATATTATTT
82445593 TGTTGCATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
24 21 0.42
26 29 0.58
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.60
Consensus pattern (25 bp):
ATATTATTTATTTCAAATTGTTTTA
Found at i:82445603 original size:91 final size:92
Alignment explanation
Indices: 82445416--82445603 Score: 195
Period size: 91 Copynumber: 2.0 Consensus size: 92
82445406 GTTTTTGTAC
* * * * *
82445416 ATTATTTATTTTAAATTTCCTTTTTACATATTATTTATTTTAAACTCTTTTATATGTTATTTTAA
1 ATTATTTATTTTAAATTT-CGTTTTACATATTATTTATTTGAAACTCTTTTATATATTACTTCAA
* * *
82445481 AGTGTCTTATATATTTTATTACTTTGTAT
65 AGTGTCTTATATATATTATTA-GTTGCAT
* *
82445510 ATTATTTATTTT-AATTT-GTTTTACATATTATTTATTTGAAATTGTTTTATATTATTGACTTCA
1 ATTATTTATTTTAAATTTCGTTTTACATATTATTTATTTGAAACTCTTTTATA-TATT-ACTTCA
* *
82445573 AATTGTTTTATATAATATT-TT-GTTGCAT
64 AAGTGTCTTATAT-ATATTATTAGTTGCAT
82445601 ATT
1 ATT
82445604 CTTCATTTGT
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
91 38 0.48
92 3 0.04
93 22 0.28
94 16 0.20
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (92 bp):
ATTATTTATTTTAAATTTCGTTTTACATATTATTTATTTGAAACTCTTTTATATATTACTTCAAA
GTGTCTTATATATATTATTAGTTGCAT
Found at i:82448869 original size:29 final size:29
Alignment explanation
Indices: 82448810--82448869 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
82448800 TTATAAAAGC
*
82448810 TTATTCTTGTAAATTTTCAAAAAAATAAT
1 TTATTCTTGTAAATTTTCAAAAAAAAAAT
*
82448839 TTATTTTTGT-AATATTT-AAAAAAAAACAT
1 TTATTCTTGTAAAT-TTTCAAAAAAAAA-AT
82448868 TT
1 TT
82448870 TTTGAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (29 bp):
TTATTCTTGTAAATTTTCAAAAAAAAAAT
Found at i:82460363 original size:25 final size:25
Alignment explanation
Indices: 82460331--82460393 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
82460321 TTAGCTCTCA
* * *
82460331 TGAGCTTCCCGTTACCTTGTTCTTG
1 TGAGCTTCCCGATACATGGTTCTTG
* *
82460356 TGAGCTTCTCGATATATGGTTCTTG
1 TGAGCTTCCCGATACATGGTTCTTG
82460381 TGAGCTTCCCGAT
1 TGAGCTTCCCGAT
82460394 TGGTTGTGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.41
Consensus pattern (25 bp):
TGAGCTTCCCGATACATGGTTCTTG
Found at i:82460534 original size:24 final size:23
Alignment explanation
Indices: 82460505--82460572 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 23
82460495 TCTTAATTAA
82460505 TGGCTCTCTGAAGCTTCCCGATAT
1 TGGCTCTCTG-AGCTTCCCGATAT
*
82460529 TGGCTCGCTTGAGCTTCCCGATAT
1 TGGCTCTC-TGAGCTTCCCGATAT
*
82460553 TGGCTCGTATGAGCTTCCCG
1 TGGCTC-TCTGAGCTTCCCG
82460573 TTAATGGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 37 0.95
25 2 0.05
ACGTcount: A:0.13, C:0.29, G:0.25, T:0.32
Consensus pattern (23 bp):
TGGCTCTCTGAGCTTCCCGATAT
Found at i:82464434 original size:28 final size:29
Alignment explanation
Indices: 82464379--82464446 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
82464369 ATTTATAACC
*
82464379 TATTTATTTTAAACTTTATACATATATTA
1 TATTTATTTTAAACTTAATACATATATTA
* *
82464408 T-TTTATTTTAATA-TTAATATATGTATTA
1 TATTTATTTTAA-ACTTAATACATATATTA
*
82464436 TATATATTTTA
1 TATTTATTTTA
82464447 TAATTATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 23 0.70
29 10 0.30
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (29 bp):
TATTTATTTTAAACTTAATACATATATTA
Found at i:82464498 original size:23 final size:23
Alignment explanation
Indices: 82464438--82464491 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 23
82464428 ATGTATTATA
82464438 TATATTTTA-TA-ATTATTTACT
1 TATATTTTATTATATTATTTACT
82464459 TATATTTTATTATATTATATTACT
1 TATATTTTATTATATTAT-TTACT
82464483 TCATATTTT
1 T-ATATTTT
82464492 TCTATTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.31
22 2 0.07
23 5 0.17
24 6 0.21
25 7 0.24
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (23 bp):
TATATTTTATTATATTATTTACT
Found at i:82464834 original size:21 final size:22
Alignment explanation
Indices: 82464800--82464843 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
82464790 TATTTCAAAA
82464800 TTCATTATTAATT-ACTATGTT
1 TTCATTATTAATTAACTATGTT
*
82464821 TTCATGTATT-ATTAATTATGTT
1 TTCAT-TATTAATTAACTATGTT
82464843 T
1 T
82464844 ATTATCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (22 bp):
TTCATTATTAATTAACTATGTT
Found at i:82475558 original size:21 final size:20
Alignment explanation
Indices: 82475534--82475614 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
82475524 TTGAGGTTTC
82475534 AAAAATAAAAAAAACAAACA
1 AAAAATAAAAAAAACAAACA
*
82475554 GAAAAT--AAAAAA-AAACA
1 AAAAATAAAAAAAACAAACA
*
82475571 AAAAACAAAAAAAACAAA-A
1 AAAAATAAAAAAAACAAACA
* * *
82475590 AAGAAAGAAAGAAAA-AAAGA
1 AA-AAATAAAAAAAACAAACA
82475610 AAAAA
1 AAAAA
82475615 AGAAAAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
17 9 0.18
18 6 0.12
19 15 0.29
20 21 0.41
ACGTcount: A:0.85, C:0.06, G:0.06, T:0.02
Consensus pattern (20 bp):
AAAAATAAAAAAAACAAACA
Found at i:82475573 original size:8 final size:8
Alignment explanation
Indices: 82475534--82475641 Score: 80
Period size: 8 Copynumber: 13.4 Consensus size: 8
82475524 TTGAGGTTTC
*
82475534 AAAAATAA
1 AAAAAGAA
*
82475542 AAAAA-AC
1 AAAAAGAA
*
82475549 AAACAGAA
1 AAAAAGAA
*
82475557 AATAA-AA
1 AAAAAGAA
*
82475564 AAAAACAA
1 AAAAAGAA
82475572 AAAACA-AA
1 AAAA-AGAA
*
82475580 AAAAA-CA
1 AAAAAGAA
82475587 AAAAAGAA
1 AAAAAGAA
*
82475595 AGAAAGAA
1 AAAAAGAA
82475603 AAAAAGAA
1 AAAAAGAA
82475611 AAAAAGAAA
1 AAAAAG-AA
82475620 AAAGAAGAGA
1 AAA-AAGA-A
82475630 AAAAAGAGA
1 AAAAAGA-A
82475639 AAA
1 AAA
82475642 TGGAGAGGCC
Statistics
Matches: 83, Mismatches: 10, Indels: 13
0.78 0.09 0.12
Matches are distributed among these distances:
7 18 0.22
8 42 0.51
9 16 0.19
10 7 0.08
ACGTcount: A:0.83, C:0.05, G:0.10, T:0.02
Consensus pattern (8 bp):
AAAAAGAA
Found at i:82475634 original size:1 final size:1
Alignment explanation
Indices: 82475534--82475622 Score: 61
Period size: 1 Copynumber: 89.0 Consensus size: 1
82475524 TTGAGGTTTC
* * * * * * * * * *
82475534 AAAAATAAAAAAAACAAACAGAAAATAAAAAAAAACAAAAAACAAAAAAAACAAAAAAGAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
82475599 AGAAAAAAAGAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAA
82475623 GAAGAGAAAA
Statistics
Matches: 62, Mismatches: 26, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.85, C:0.06, G:0.07, T:0.02
Consensus pattern (1 bp):
A
Found at i:82475635 original size:27 final size:30
Alignment explanation
Indices: 82475570--82475641 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
82475560 AAAAAAAAAC
82475570 AAAAAACA-AAAAAAACAAAAAAGAAAGAAAG
1 AAAAAA-AGAAAAAAACAAAAAAGAAAG-AAG
*
82475601 AAAAAAAGAAAAAAAGAAAAAAG-AAG-AG
1 AAAAAAAGAAAAAAACAAAAAAGAAAGAAG
82475629 AAAAAAGAGAAAA
1 AAAAAA-AGAAAA
82475642 TGGAGAGGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
28 8 0.21
29 6 0.16
30 4 0.11
31 20 0.53
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (30 bp):
AAAAAAAGAAAAAAACAAAAAAGAAAGAAG
Found at i:82475648 original size:20 final size:19
Alignment explanation
Indices: 82475591--82475641 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 19
82475581 AAAACAAAAA
82475591 AGAAAGAAAG-AAAAA-AAG
1 AGAAA-AAAGAAAAAAGAAG
82475609 A-AAAAAAGAAAAAAGAAG
1 AGAAAAAAGAAAAAAGAAG
82475627 AGAAAAAAGAGAAAA
1 AGAAAAAAGA-AAAA
82475642 TGGAGAGGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.14
17 8 0.28
18 5 0.17
19 8 0.28
20 4 0.14
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AGAAAAAAGAAAAAAGAAG
Found at i:82476903 original size:180 final size:180
Alignment explanation
Indices: 82476599--82476958 Score: 562
Period size: 180 Copynumber: 2.0 Consensus size: 180
82476589 CTTACGAGCA
82476599 AGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGCCATCTCCATATT
1 AGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGCCATCTCCATATT
* ** * *
82476664 CGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAGATCCAAGATG
66 CGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATG
*
82476729 ATTTGGCATCCTTGTGTTTACAAGGA-ACAAATCGAA-ATCATAGCTGATTT
131 ATTTGGCATCCTTGTGCTTACAAGGAGA-AAATCGAAGA-CATAGCTGATTT
* * *
82476779 AGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAATAAATCGAAGTTTGGCGTCTCCATATT
1 AGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGCCATCTCCATATT
* *
82476844 CGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGTAGATCCAAGATG
66 CGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATG
* * *
82476909 GTTTGGTATCCTTGTGCTTACAAGGAGAAAATTGAAGACATAGCTGATTT
131 ATTTGGCATCCTTGTGCTTACAAGGAGAAAATCGAAGACATAGCTGATTT
82476959 GGTTTTCGCG
Statistics
Matches: 164, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
180 162 0.99
181 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (180 bp):
AGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGCCATCTCCATATT
CGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATG
ATTTGGCATCCTTGTGCTTACAAGGAGAAAATCGAAGACATAGCTGATTT
Found at i:82479402 original size:16 final size:15
Alignment explanation
Indices: 82479381--82479428 Score: 78
Period size: 16 Copynumber: 3.1 Consensus size: 15
82479371 GATGGGAATA
82479381 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
82479397 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
82479412 ATCAAAATATTAAAAT
1 AT-AAAATATTAAAAT
82479428 A
1 A
82479429 ATAATAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.26
16 23 0.74
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:82479409 original size:24 final size:24
Alignment explanation
Indices: 82479377--82479432 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
82479367 CAATGATGGG
*
82479377 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
*
82479401 AATATTAAAATATCAAAATATTAA
1 AATAATAAAATATCAAAATATTAA
82479425 AATAATAA
1 AATAATAA
82479433 TAATTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:82479411 original size:8 final size:8
Alignment explanation
Indices: 82479377--82479428 Score: 70
Period size: 8 Copynumber: 6.5 Consensus size: 8
82479367 CAATGATGGG
*
82479377 AATAATAA
1 AATATTAA
82479385 AATATATAA
1 AATAT-TAA
82479394 AATA-TAA
1 AATATTAA
82479401 AATATTAA
1 AATATTAA
*
82479409 AATATCAA
1 AATATTAA
82479417 AATATTAA
1 AATATTAA
82479425 AATA
1 AATA
82479429 ATAATAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
7 7 0.18
8 25 0.64
9 7 0.18
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:82479594 original size:23 final size:22
Alignment explanation
Indices: 82479543--82479596 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
82479533 ATACTACATC
82479543 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
82479562 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
82479585 AATATGTACATA
1 AATATGTACATA
82479597 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:82479643 original size:22 final size:24
Alignment explanation
Indices: 82479559--82479644 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
82479549 TACATATATA
* *
82479559 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
82479582 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
82479607 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
82479630 -AAGATATATACATAA
1 AAAAATATATACATAA
82479645 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:82479694 original size:25 final size:25
Alignment explanation
Indices: 82479666--82479799 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
82479656 GAAAAAATAT
82479666 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
82479691 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
82479716 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
82479742 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
82479764 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
82479787 AAATAT-AATAATA
1 ATATATAAATAATA
82479800 ACAAAAAAAG
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:82479723 original size:29 final size:28
Alignment explanation
Indices: 82479633--82479724 Score: 66
Period size: 29 Copynumber: 3.3 Consensus size: 28
82479623 TATAGTTAAG
* * *
82479633 ATATATACATAAGATAACAT-GTAGAAAAA
1 ATATATATATAA-ATAAAATAGTA-AAAAT
* *
82479662 ATATATATATAAAT--AATA-TAATATT
1 ATATATATATAAATAAAATAGTAAAAAT
* *
82479687 AAAGATATATAAATAAAATAGTATAAAAT
1 ATATATATATAAATAAAATAGTA-AAAAT
82479716 ATATATATA
1 ATATATATA
82479725 CGTAATATAA
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
25 14 0.30
26 4 0.09
27 4 0.09
28 4 0.09
29 21 0.45
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (28 bp):
ATATATATATAAATAAAATAGTAAAAAT
Found at i:82480426 original size:30 final size:30
Alignment explanation
Indices: 82480276--82480450 Score: 219
Period size: 30 Copynumber: 5.8 Consensus size: 30
82480266 TAGGTACAAG
* *
82480276 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
82480306 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
82480336 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
82480366 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
82480396 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
82480426 TGGTGGTGGGAAAGGCGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
82480451 TGAGAAAAGT
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
29 2 0.02
30 127 0.98
ACGTcount: A:0.20, C:0.05, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:82480972 original size:37 final size:37
Alignment explanation
Indices: 82480921--82481011 Score: 137
Period size: 37 Copynumber: 2.5 Consensus size: 37
82480911 CTTCAATCTG
*
82480921 CTCTTCTATCGCTTCAGTGAGATAAGGTTTTGGTCTT
1 CTCTTCTGTCGCTTCAGTGAGATAAGGTTTTGGTCTT
* *
82480958 CTCTTCTGTTGCTTCTGTGAGATAAGGTTTTGGTCTT
1 CTCTTCTGTCGCTTCAGTGAGATAAGGTTTTGGTCTT
* *
82480995 CTCTTCTGCCACTTCAG
1 CTCTTCTGTCGCTTCAG
82481012 AAAGGTAAGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (37 bp):
CTCTTCTGTCGCTTCAGTGAGATAAGGTTTTGGTCTT
Found at i:82481276 original size:88 final size:88
Alignment explanation
Indices: 82481122--82481526 Score: 410
Period size: 88 Copynumber: 4.6 Consensus size: 88
82481112 GTGATCCTGA
** * * * *
82481122 GCTCAACTCATTTCTCGCAATATGAATTGACTTTTAAAAACTAGACATT-AAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC-AGAAATTGAAAAACAGAAATTGA
* * * **
82481186 AAAAAGCTCAGCACGTGAGCAAAG
65 AAATACCTCAGCACGTGACCCGAG
* * ** * *
82481210 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCCAAATAG-ATTTCGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAAATT-GA
* *
82481274 AAATACCTCGGCATGTGACCCGAG
65 AAATACCTCAGCACGTGACCCGAG
** * * * **
82481298 GCTCAACTCACCTCTCATAATATGAGTTGATTCTTAAAAAGCATAAATTGAAAAAACATTAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CAGAAATTG-AAAAACAGAAATTG
82481363 AAAATACCTCA--ACGTG-CCTCGAG
64 AAAATACCTCAGCACGTGACC-CGAG
*
82481386 GCAT-AACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAACAGAAATTG
1 GC-TCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAAAACAGAAATTG
* * *
82481449 AAAAGACCTCAGCATGTGAGCCGAG
64 AAAATACCTCAGCACGTGACCCGAG
*
82481474 GCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAA
82481527 TTACTTCAGC
Statistics
Matches: 260, Mismatches: 44, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
86 22 0.08
87 23 0.09
88 167 0.64
89 30 0.12
90 15 0.06
91 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (88 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAAATTGAA
AATACCTCAGCACGTGACCCGAG
Found at i:82481361 original size:15 final size:15
Alignment explanation
Indices: 82481333--82481366 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
82481323 GTTGATTCTT
*
82481333 AAAAAGCATAAATTG
1 AAAAAACATAAATTG
*
82481348 AAAAAACATTAATTG
1 AAAAAACATAAATTG
82481363 AAAA
1 AAAA
82481367 TACCTCAACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.09, T:0.21
Consensus pattern (15 bp):
AAAAAACATAAATTG
Found at i:82481416 original size:176 final size:171
Alignment explanation
Indices: 82481122--82482300 Score: 689
Period size: 176 Copynumber: 6.8 Consensus size: 171
82481112 GTGATCCTGA
** * *
82481122 GCTCAACTCATTTCTCGCAATATGAATTGACTTTTAAA-AACTAGACATT-AAAAACAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTAAAGCA-TA-A-ATTGAAAAACAGAAATTG
* * * ** *
82481185 AAAAAAGCTCAGCACGTGAGC-AAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAA
62 AAAATACCTCAG--CGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* * * * *
82481249 ACAGAATTTGCCAAATAGATTTCGAAAATACCTCGGCATGTGACCCGAG
124 ACAGAAATTG-AAAACAGAATTCGAAAATACCTCAGCATGTGACCCGAG
** **
82481298 GCTCAACTCACCTCTCATAATATGAGTTGATTCTTAAAAAGCATAAATTGAAAAAACATTAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATT-TT--AAAGCATAAATTG-AAAAACAGAAATTG
* *
82481363 AAAATACCTCAACGTGCCTCGAGGCAT-AACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAA
62 AAAATACCTCAGCGTGCCTCGAGGC-TCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAA
* *
82481426 CAGAAATTGAAAAACAGAAATT-GAAAAGACCTCAGCATGTGAGCCGAG
125 CAGAAATTG-AAAACAG-AATTCGAAAATACCTCAGCATGTGACCCGAG
* * *
82481474 GCTCAACTCACCTCTCGCGATATGAGTTGA--TT------T---TTGACAAACAGAAATTGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAGCATAAATTGAAAAACAGAAATTGAAAA
* *
82481528 TACTTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCA
66 TACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-AACA
* *
82481592 GAAATTGGAAAGCAGAAATCGAAAATACCTCAGC--GTG-CCCTGAG
127 GAAATT-GAAAACAGAATTCGAAAATACCTCAGCATGTGACCC-GAG
* * * *
82481636 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGGAAAGCAGAAATC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT-AA-AGCATAAATTGAAAAACAGAAATT
*
82481701 GAAAATACCTCAGCATGCC-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-----
61 GAAAATACCTCAGCGTGCCTC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
* * * *
82481760 ------TTGACAAACATAAATT-GAAATTACCTCAGC--GTGTCCTGAG
125 CAGAAATTGA-AAACA-GAATTCGAAAATACCTCAGCATGTGACCCGAG
82481800 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCAAAAATTGAAAAGCAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----TTTT--AAAGC----A-T---------AAAT
* *
82481865 TGAAAAACATAAATTGAAATTACCTCAGCGTGCC-CTGAGGCTCAACTCACCTCTCGCAATATGA
46 TGAAAAACAGAAATTGAAAATACCTCAGCGTGCCTC-GAGGCTCAACTCACCTCTCGCAATATGA
* * * *
82481929 GCTGATTTTTGAAAAATATAAATTAAAGAAAACAGAAATT--AAAATTACCTCAGCATGT--CCT
110 GTTGATTTTTG-AAAACAGAAATT---GAAAACAG-AATTCGAAAA-TACCTCAGCATGTGACCC
82481990 GAG
169 GAG
* *
82481993 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGACAGAAATTGAAAAACAGAAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTG-A--TTTT-AAAG-CATAAATTGAAAAACAGAAATT
* * *
82482058 GAAAAGACCTCAGCATGTGAGC-CGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTTG-
61 GAAAATACCTCAGC--GTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGA
* * * *
82482121 --AC--AAA-T----AGA-AATT-GAAATTACCTTAGC--GTGCCCCGAG
122 AAACAGAAATTGAAAACAGAATTCGAAAATACCTCAGCATGTGACCCGAG
* * * *
82482158 GCTCAACTCACCTCCCGCAATATGAGTTGATTTTAAAAACAGACA-T-AAAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTT-AAAGCATAAATTGAAAAACAGAAATTGAAA
* * * * * * *
82482221 GTGA-CTCAACACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGACTCTTAAAAAG
65 AT-ACCTC-A-GCGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-
*
82482284 CAGACATT-AAAACAGAA
125 CAGAAATTGAAAACAGAA
82482301 ATAACTCAGC
Statistics
Matches: 812, Mismatches: 93, Indels: 203
0.73 0.08 0.18
Matches are distributed among these distances:
158 3 0.00
159 57 0.07
160 4 0.00
161 64 0.08
162 49 0.06
163 7 0.01
164 92 0.11
165 63 0.08
166 5 0.01
167 4 0.00
168 2 0.00
169 3 0.00
173 2 0.00
174 1 0.00
175 12 0.01
176 133 0.16
177 8 0.01
178 114 0.14
179 72 0.09
180 34 0.04
181 8 0.01
188 1 0.00
191 6 0.01
192 10 0.01
193 53 0.07
194 3 0.00
195 2 0.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (171 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAGCATAAATTGAAAAACAGAAATTGAAAA
TACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAA
TTGAAAACAGAATTCGAAAATACCTCAGCATGTGACCCGAG
Found at i:82481441 original size:14 final size:14
Alignment explanation
Indices: 82481424--82481452 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
82481414 GATTTTGACG
82481424 AACAGAAATTGAAA
1 AACAGAAATTGAAA
82481438 AACAGAAATTGAAA
1 AACAGAAATTGAAA
82481452 A
1 A
82481453 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:82481685 original size:164 final size:158
Alignment explanation
Indices: 82481358--82481855 Score: 468
Period size: 164 Copynumber: 3.1 Consensus size: 158
82481348 AAAAAACATT
* * **
82481358 AATTGAAAATACCTCAACGTGCCTCGAGGCAT-AACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AATTGAAATTACCTCAGCGTGCCT-GAGGC-TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
82481422 CGA-ACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCAC
64 TGAGACAGAAATTG--AAACAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCAC
* *
82481485 CTCTCGCGATATGAGTTGA--TTTTTGACAAACAGA
124 CTCTCGCAATATGAGTTGATTTTTTTGA-AAGCAGA
*
82481519 AATTGAAATTACTTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
82481584 GAAGAGCAGAAATTGGAAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCT
65 G-AGA-CAGAAATT-GAAA-CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCT
82481649 CTCGCAATATGAGTTGATTTTTTTGAAGAGCAGA
126 CTCGCAATATGAGTTGATTTTTTTGAA-AGCAGA
*
82481683 AATTGGAAAGCAGAAATCGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATAT
1 AATT--------GAAAT------TACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATAT
* * *
82481748 GAGTTGATTTTTTT--GAC--------AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCT
51 GAGTTGATTTTTTTGAGACAGAAATTGAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCT
*
82481803 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCAAA
116 CAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG-AAAGCAGA
82481848 AATTGAAA
1 AATTGAAA
82481856 AGCAGAAATT
Statistics
Matches: 291, Mismatches: 19, Indels: 58
0.79 0.05 0.16
Matches are distributed among these distances:
157 4 0.01
160 1 0.00
161 56 0.19
162 39 0.13
163 5 0.02
164 102 0.35
165 21 0.07
166 2 0.01
172 5 0.02
174 1 0.00
175 2 0.01
178 53 0.18
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (158 bp):
AATTGAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
AGACAGAAATTGAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTTTGAAAGCAGA
Found at i:82481776 original size:89 final size:89
Alignment explanation
Indices: 82481515--82481763 Score: 453
Period size: 89 Copynumber: 2.8 Consensus size: 89
82481505 TTTTGACAAA
* * * *
82481515 CAGAAATTGAAATTACTTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
82481580 TTTTGAAGAGCAGAAATTGGAAAG
66 TTTTGAAGAGCAGAAATTGGAAAG
82481604 CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
82481669 TTTTGAAGAGCAGAAATTGGAAAG
66 TTTTGAAGAGCAGAAATTGGAAAG
*
82481693 CAGAAATCGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
82481758 TTTTGA
66 TTTTGA
82481764 CAAACATAAA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 155 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (89 bp):
CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTGAAGAGCAGAAATTGGAAAG
Found at i:82481829 original size:75 final size:76
Alignment explanation
Indices: 82481689--82481856 Score: 259
Period size: 75 Copynumber: 2.2 Consensus size: 76
82481679 CAGAAATTGG
* *
82481689 AAAGCAGAAATCGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAGCAAAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
82481754 A-TTTTTTTGA
66 ATTTTTTTTGA
* * * *
82481764 CAAA-CATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 -AAAGCAAAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
82481828 GATTTTTTTTGA
65 GATTTTTTTTGA
82481840 AAAGCAAAAATTGAAAA
1 AAAGCAAAAATTGAAAA
82481857 GCAGAAATTG
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
75 60 0.72
76 23 0.28
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (76 bp):
AAAGCAAAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTTGA
Found at i:82481855 original size:14 final size:14
Alignment explanation
Indices: 82481836--82481883 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
82481826 TTGATTTTTT
82481836 TTGAAAAGCAAAAA
1 TTGAAAAGCAAAAA
*
82481850 TTGAAAAGCAGAAA
1 TTGAAAAGCAAAAA
* *
82481864 TTGAAAAACATAAA
1 TTGAAAAGCAAAAA
82481878 TTGAAA
1 TTGAAA
82481884 TTACCTCAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.60, C:0.06, G:0.15, T:0.19
Consensus pattern (14 bp):
TTGAAAAGCAAAAA
Found at i:82481960 original size:104 final size:101
Alignment explanation
Indices: 82481760--82482062 Score: 351
Period size: 104 Copynumber: 3.1 Consensus size: 101
82481750 GTTGATTTTT
* *
82481760 TTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACATAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
82481825 GTTGATTTTTTTTGAAAAGCAAAAATTGAAAAGCAGAAA
66 GCTGA--TTTTTTGAAAAACAAAAATTGAAAA-CAGAAA
82481864 TTGAAAAACATAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACATAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
82481929 GCTGA-TTTTTGAAAAATATAAATT--------AAA
66 GCTGATTTTTTGAAAAACAAAAATTGAAAACAGAAA
* * * *
82481956 --G-AAAACAGAAATTAAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACATAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
82482018 GTTGAATTTTTTGAAAGACAGAAATTGAAAAACAGAAA
66 GCTG-ATTTTTTGAAAAACAAAAATTG-AAAACAGAAA
*
82482056 ATGAAAA
1 TTGAAAA
82482063 GACCTCAGCA
Statistics
Matches: 171, Mismatches: 14, Indels: 29
0.80 0.07 0.14
Matches are distributed among these distances:
89 60 0.35
90 2 0.01
91 16 0.09
92 3 0.02
100 3 0.02
101 16 0.09
102 1 0.01
103 3 0.02
104 67 0.39
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (101 bp):
TTGAAAAACATAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GCTGATTTTTTGAAAAACAAAAATTGAAAACAGAAA
Found at i:82481999 original size:89 final size:88
Alignment explanation
Indices: 82481850--82482133 Score: 340
Period size: 89 Copynumber: 3.2 Consensus size: 88
82481840 AAAGCAAAAA
** * * * * *
82481850 TTGAAAAGCAGAAATTGAAAAACATAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCAC
1 TTGAAAAATAGAAATTAAAAAACAGAAATTAAAATTACCTCAGCATGTCCTGAGGCTCAACTCAC
*
82481915 CTCTCGCAATATGAGCTGA-TTT
66 CTCTCGCAATATGAGTTGATTTT
*
82481937 TTGAAAAATATAAATTAAAGAAAACAGAAATTAAAATTACCTCAGCATGTCCTGAGGCTCAACTC
1 TTGAAAAATAGAAATT-AA-AAAACAGAAATTAAAATTACCTCAGCATGTCCTGAGGCTCAACTC
82482002 ACCTCTCGCAATATGAGTTGAATTTT
64 ACCTCTCGCAATATGAGTTG-ATTTT
* * * * *
82482028 TTGAAAGACAGAAATTGAAAAACAGAAAATGAAAA-GACCTCAGCATGTGAGCC-GAGGCTCAAC
1 TTGAAAAATAGAAATTAAAAAACAG-AAATTAAAATTACCTCAGCATGT---CCTGAGGCTCAAC
*
82482091 TCACCTCTCGCGATATGAGTTGATTTT
62 TCACCTCTCGCAATATGAGTTGATTTT
*
82482118 TTGACAAATAGAAATT
1 TTGAAAAATAGAAATT
82482134 GAAATTACCT
Statistics
Matches: 170, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
87 13 0.08
88 1 0.01
89 79 0.46
90 28 0.16
91 47 0.28
92 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (88 bp):
TTGAAAAATAGAAATTAAAAAACAGAAATTAAAATTACCTCAGCATGTCCTGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTT
Found at i:82482047 original size:14 final size:14
Alignment explanation
Indices: 82482028--82482062 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
82482018 GTTGAATTTT
*
82482028 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
82482042 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
82482056 ATGAAAA
1 TTGAAAA
82482063 GACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.06, G:0.17, T:0.14
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:82482260 original size:159 final size:164
Alignment explanation
Indices: 82481962--82482272 Score: 436
Period size: 159 Copynumber: 1.9 Consensus size: 164
82481952 TAAAGAAAAC
* * *
82481962 AGAAATTAAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT
1 AGAAATTAAAATTACCTCAGCATGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGAA-TT
* * * *
82482027 TTTGAAAGACAGAAATTGAAAAACAGAAAATGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACT
65 TTTGAAAAACAGAAATTGAAAAACAGAAAATGAAAAGACCTCAACACGTGAGCCAAGGCTCAACT
*
82482092 CACCTCTCGCGATATGAGTTGATTTTTTGACAAAT
130 CACCTCTCGCAATATGAGTTGATTTTTTGACAAAT
* * *
82482127 AGAAATTGAAATTACCTTAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTG-A-TT
1 AGAAATTAAAATTACCTCAGCATGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGAATTT
* * *
82482190 TT-AAAAACAGACA-T-AAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGCCAAGGCTCAACT
66 TTGAAAAACAGAAATTGAAAAACAGAAAATGAAA-AGACCTCAACACGTGAGCCAAGGCTCAACT
82482251 CACCTCTCGCAATATGAGTTGA
130 CACCTCTCGCAATATGAGTTGA
82482273 CTCTTAAAAA
Statistics
Matches: 131, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
159 60 0.46
160 3 0.02
161 9 0.07
162 4 0.03
164 1 0.01
165 54 0.41
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (164 bp):
AGAAATTAAAATTACCTCAGCATGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGAATTT
TTGAAAAACAGAAATTGAAAAACAGAAAATGAAAAGACCTCAACACGTGAGCCAAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTTGACAAAT
Found at i:82482329 original size:19 final size:19
Alignment explanation
Indices: 82482305--82482346 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
82482295 ACAGAAATAA
82482305 CTCAGCACGTGAGCTAAAG
1 CTCAGCACGTGAGCTAAAG
*
82482324 CTCAGCACGTGAGCTAAGG
1 CTCAGCACGTGAGCTAAAG
82482343 CTCA
1 CTCA
82482347 ACTCACTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (19 bp):
CTCAGCACGTGAGCTAAAG
Found at i:82482576 original size:75 final size:74
Alignment explanation
Indices: 82482426--82482756 Score: 425
Period size: 75 Copynumber: 4.4 Consensus size: 74
82482416 CATGTGATCC
* * * * * * * *
82482426 GAGGCTCCACTCACCTCTCGTAATATGAGTTGA-TTTTCGAAA-ACGGAGATC-AAAATTACCTC
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGATTTTTTGAAAGACAGAAATCGAAAA-TACCTC
* *
82482488 AGCGTGTCCT
65 AACGTGTCTT
* * * * *
82482498 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGATT-TTTTGAAAGACAGAAATCGAAAATACCTC
*
82482563 AATGTGTCTT
65 AACGTGTCTT
*
82482573 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTGAAAGACAGAGATCGAAAATACCTC
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTG-ATTTTTTGAAAGACAGAAATCGAAAATACCTC
82482638 AACGTGTCTT
65 AACGTGTCTT
* *
82482648 GAGGCTCAACTCACTTCTTGCCGTATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAATACCT
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTG-A-TTTTTTGAAAGACAGAAATCGAAAATACCT
82482713 CAACGTGTCTT
64 CAACGTGTCTT
82482724 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGA
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGA
82482757 CTTACGAAAC
Statistics
Matches: 232, Mismatches: 21, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
72 31 0.13
73 1 0.00
74 7 0.03
75 117 0.50
76 76 0.33
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (74 bp):
GAGGCTCAACTCACTTCTTGCAGTATGAGTTGATTTTTTGAAAGACAGAAATCGAAAATACCTCA
ACGTGTCTT
Found at i:82482725 original size:151 final size:148
Alignment explanation
Indices: 82482426--82482756 Score: 468
Period size: 151 Copynumber: 2.2 Consensus size: 148
82482416 CATGTGATCC
* * * * * * *
82482426 GAGGCTCCACTCACCTCTCGTAATATGAGTTG-ATTTTCGAAAACGGAGATCAAAATTACCTCAG
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTCGAAAACAGAGATCAAAATTACCTCAA
82482490 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTGAA
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTGAA
* *
82482555 ATTACCTCAATGTGTCTT
131 AATACCTCAACGTGTCTT
*
82482573 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTGAAAGACAGAGATCGAAAA-TACCT
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAA-TTTTCGAAA-ACAGAGATC-AAAATTACCT
* * * ** *
82482637 CAACGTGTCTTGAGGCTCAACTCACTTCTTGCCGTATGAGTTGAATTTTTTTGAAAGACAGAAAT
63 CAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTATTTTGAAAGACAGAAAT
82482702 TGAAAATACCTCAACGTGTCTT
127 TGAAAATACCTCAACGTGTCTT
82482724 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGA
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGA
82482757 CTTACGAAAC
Statistics
Matches: 163, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
147 27 0.17
148 1 0.01
149 8 0.05
150 50 0.31
151 77 0.47
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (148 bp):
GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTCGAAAACAGAGATCAAAATTACCTCAA
CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTGAA
AATACCTCAACGTGTCTT
Found at i:82482732 original size:76 final size:76
Alignment explanation
Indices: 82482477--82482756 Score: 438
Period size: 75 Copynumber: 3.7 Consensus size: 76
82482467 AACGGAGATC
* * * * * *
82482477 AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTATTTTGAA
1 AAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTTGAA
82482541 AGACAGAAATTG
65 AGACAGAAATTG
* *
82482553 AAATTACCTCAATGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAA-TTTTTTGAAA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTTGAAA
* *
82482617 GACAGAGATCG
66 GACAGAAATTG
*
82482628 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCCGTATGAGTTGAATTTTTTTGAAA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTTGAAA
82482693 GACAGAAATTG
66 GACAGAAATTG
82482704 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA
82482757 CTTACGAAAC
Statistics
Matches: 186, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
75 111 0.60
76 75 0.40
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (76 bp):
AAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTTGAAA
GACAGAAATTG
Found at i:82484928 original size:11 final size:10
Alignment explanation
Indices: 82484905--82484966 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 10
82484895 TTGATCTCTC
*
82484905 TTTTTTGTTT
1 TTTTTTGTCT
82484915 TTTTCTTGTCT
1 TTTT-TTGTCT
*
82484926 TTTATTT-TTT
1 TTT-TTTGTCT
82484936 TATTTTTGT-T
1 T-TTTTTGTCT
82484946 TTTTTTGT-T
1 TTTTTTGTCT
82484955 TTTTTT-TCT
1 TTTTTTGTCT
82484964 TTT
1 TTT
82484967 CATGACTGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
8 1 0.02
9 18 0.40
10 12 0.27
11 13 0.29
12 1 0.02
ACGTcount: A:0.03, C:0.05, G:0.06, T:0.85
Consensus pattern (10 bp):
TTTTTTGTCT
Found at i:82488787 original size:15 final size:15
Alignment explanation
Indices: 82488769--82488808 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
82488759 GATGGGAATA
82488769 ATAAATATAT-AAAAT
1 ATAAA-ATATCAAAAT
82488784 ATAAAATATCAAAAT
1 ATAAAATATCAAAAT
82488799 ATCAAAATAT
1 AT-AAAATAT
82488809 TAGAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.17
15 12 0.52
16 7 0.30
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAAATATCAAAAT
Found at i:82488797 original size:8 final size:7
Alignment explanation
Indices: 82488769--82488808 Score: 53
Period size: 8 Copynumber: 5.3 Consensus size: 7
82488759 GATGGGAATA
82488769 ATAAATAT
1 ATAAA-AT
82488777 ATAAAAT
1 ATAAAAT
82488784 ATAAAAT
1 ATAAAAT
82488791 ATCAAAAT
1 AT-AAAAT
82488799 ATCAAAAT
1 AT-AAAAT
82488807 AT
1 AT
82488809 TAGAATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 11 0.35
8 20 0.65
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (7 bp):
ATAAAAT
Found at i:82488815 original size:16 final size:15
Alignment explanation
Indices: 82488771--82488815 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
82488761 TGGGAATAAT
82488771 AAATATATAAAATATA
1 AAATAT-TAAAATATA
*
82488787 AAATATCAAAATATCA
1 AAATATTAAAATAT-A
*
82488803 AAATATTAGAATA
1 AAATATTAAAATA
82488816 ATAATAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (15 bp):
AAATATTAAAATATA
Found at i:82488993 original size:25 final size:25
Alignment explanation
Indices: 82488944--82489013 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
82488934 TACATATATA
* * *
82488944 AAAAATAAATACATGATA-A-TATT
1 AAAAATACATACATAATATAGTGTT
** *
82488967 AAAAATATGTATATAATATAGTGTT
1 AAAAATACATACATAATATAGTGTT
82488992 AAAAATACATACATAATATAGT
1 AAAAATACATACATAATATAGT
82489014 TAAGATATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 14 0.38
24 1 0.03
25 22 0.59
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (25 bp):
AAAAATACATACATAATATAGTGTT
Found at i:82489088 original size:14 final size:14
Alignment explanation
Indices: 82489049--82489110 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
82489039 TAGAAAAAAT
82489049 ATATATATAAAT-A
1 ATATATATAAATAA
*
82489062 ATATA-AT-ATTAA
1 ATATATATAAATAA
*
82489074 AGATATATAAATAA
1 ATATATATAAATAA
*
82489088 A-ATAGTATAAATAT
1 ATATA-TATAAATAA
82489102 ATATATATA
1 ATATATATA
82489111 CGTAATATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 2 0.05
12 7 0.17
13 10 0.25
14 18 0.45
15 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
ATATATATAAATAA
Found at i:82489183 original size:23 final size:25
Alignment explanation
Indices: 82489053--82489185 Score: 70
Period size: 22 Copynumber: 5.5 Consensus size: 25
82489043 AAAAATATAT
*
82489053 ATATAAATAATATAATATT-AAAG-
1 ATATATATAATATAATATTAAAAGA
* *
82489076 ATATATA-AATAAAATAGTATAAATATA
1 ATATATATAATATAATA-T-TAAA-AGA
* *
82489103 TATATATACGTAATATAAAATT-TAA-A
1 -ATATATA--TAATATAATATTAAAAGA
**
82489129 ATATACCT-A-AT-ATATTAAAAGA
1 ATATATATAATATAATATTAAAAGA
*
82489151 ATATATATAATATAATATTAAGA-A
1 ATATATATAATATAATATTAAAAGA
82489175 ATATA-ATAATA
1 ATATATATAATA
82489186 ACAAAAAAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 28
0.67 0.10 0.23
Matches are distributed among these distances:
20 4 0.05
21 4 0.05
22 16 0.19
23 15 0.18
24 9 0.11
25 15 0.18
26 2 0.02
27 1 0.01
28 8 0.10
29 1 0.01
30 1 0.01
31 7 0.08
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATATAATATAATATTAAAAGA
Found at i:82489704 original size:30 final size:30
Alignment explanation
Indices: 82489663--82489791 Score: 127
Period size: 30 Copynumber: 4.3 Consensus size: 30
82489653 AGGTACAAGT
* *
82489663 GGTAGTGGAGCAACTGTGGTTAGTGGAGTA
1 GGTAGTGGAGCAAGTGTGGCTAGTGGAGTA
* * *
82489693 GGTAATGGAGCAAGTGTGGCTAGTGGATTT
1 GGTAGTGGAGCAAGTGTGGCTAGTGGAGTA
*
82489723 GGTAGTGGAG-AATGTGTGGCTAGTGGAGTT
1 GGTAGTGGAGCAA-GTGTGGCTAGTGGAGTA
* * * *
82489753 GGTGGTGGA-AAATGAGTGGCTAGTGGAGTT
1 GGTAGTGGAGCAA-GTGTGGCTAGTGGAGTA
*
82489783 GGTGGTGGA
1 GGTAGTGGA
82489792 AAAGGTGTGG
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
29 2 0.02
30 86 0.98
ACGTcount: A:0.22, C:0.05, G:0.46, T:0.28
Consensus pattern (30 bp):
GGTAGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:82489792 original size:30 final size:30
Alignment explanation
Indices: 82489706--82489859 Score: 205
Period size: 30 Copynumber: 5.4 Consensus size: 30
82489696 AATGGAGCAA
* * * *
82489706 GTGTGGCTAGTGGATTTGGTAGTGGAGAAT
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
82489736 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAT
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
82489766 GAGTGGCTAGTGGAGTTGGTGGTGGAAAA-
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
82489795 ----GG-T-GTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
82489819 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
82489849 GTGTGGCTAGT
1 GTGTGGCTAGT
82489860 TGAGAAAAGT
Statistics
Matches: 113, Mismatches: 4, Indels: 14
0.86 0.03 0.11
Matches are distributed among these distances:
23 20 0.18
24 1 0.01
25 2 0.02
28 2 0.02
29 1 0.01
30 87 0.77
ACGTcount: A:0.20, C:0.03, G:0.48, T:0.29
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:82489802 original size:53 final size:53
Alignment explanation
Indices: 82489745--82489854 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
82489735 TGTGTGGCTA
*
82489745 GTGGAGTTGGTGGTGGAAAATGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGGT
1 GTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGGT
*
82489798 GTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGT
1 GTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGGT
82489851 GTGG
1 GTGG
82489855 CTAGTTGAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.21, C:0.02, G:0.51, T:0.26
Consensus pattern (53 bp):
GTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGGT
Done.