Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 52 of 222
Found at i:15558289 original size:13 final size:12
Alignment explanation
Indices: 15558265--15558305 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
15558255 TATAATAGTA
15558265 TAAAATATAATT
1 TAAAATATAATT
15558277 TAAAATAATAATT
1 TAAAAT-ATAATT
*
15558290 ATTAAATATAATT
1 -TAAAATATAATT
15558303 TAA
1 TAA
15558306 TAAAAAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:15558438 original size:242 final size:240
Alignment explanation
Indices: 15557921--15558527 Score: 980
Period size: 242 Copynumber: 2.5 Consensus size: 240
15557911 ATATTTTAAC
* *
15557921 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* * * *
15557986 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAATTATTA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTA
* * * * *
15558051 TTAAATACATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
131 TTAAATACAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGA
* * * * *
15558116 ATTTACTAAAATTATAATATATGATATTATAAAATATAATTTGAA
196 ATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
*
15558161 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* *
15558226 TCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAATTTAAAATAATAATTA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTA
* *
15558291 TTAAATATAATTTAATAAAAAAACTATAATTTAATAAAATTCTTAATATTAAAATATTCTTATAT
131 TTAAATACAATTTAATAAAAAAA-TATAATTTAATAAAATTCTTAATAAT-AAATATTCTTATAT
15558356 GAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
194 GAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
* *
15558403 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
*
15558468 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATAAT
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAAT
15558528 TGATTTTGTG
Statistics
Matches: 338, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
240 140 0.41
241 24 0.07
242 174 0.51
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (240 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTA
TTAAATACAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGA
ATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
Found at i:15560256 original size:13 final size:13
Alignment explanation
Indices: 15560240--15560269 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15560230 TAGATCAAGC
15560240 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
15560253 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
15560266 TTTT
1 TTTT
15560270 TTGCAGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:15560444 original size:19 final size:19
Alignment explanation
Indices: 15560420--15560458 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15560410 CATATGCCCT
15560420 ACACATATTCAAAGGATTG
1 ACACATATTCAAAGGATTG
*
15560439 ACACATATTCAGAGGATTG
1 ACACATATTCAAAGGATTG
15560458 A
1 A
15560459 GATAAAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (19 bp):
ACACATATTCAAAGGATTG
Found at i:15561516 original size:19 final size:19
Alignment explanation
Indices: 15561489--15561525 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15561479 AACAGAAGAC
15561489 GCAAATCGGCAGAAACTGA
1 GCAAATCGGCAGAAACTGA
*
15561508 GCAAGTCGGCAGAAACTG
1 GCAAATCGGCAGAAACTG
15561526 TGAGAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.22, G:0.30, T:0.11
Consensus pattern (19 bp):
GCAAATCGGCAGAAACTGA
Found at i:15561561 original size:5 final size:5
Alignment explanation
Indices: 15561551--15561575 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15561541 GCAAATCGAC
15561551 AGAAA AGAAA AGAAA AGAAA AGAAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA
15561576 CAGAGGGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:15565446 original size:15 final size:15
Alignment explanation
Indices: 15565417--15565454 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
15565407 AACCCTTAAA
*
15565417 CCATAAATC-ATAAT
1 CCATAAACCAATAAT
*
15565431 CCCTAAACCAATAAT
1 CCATAAACCAATAAT
15565446 CCATAAACC
1 CCATAAACC
15565455 TTAAAATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (15 bp):
CCATAAACCAATAAT
Found at i:15565459 original size:22 final size:21
Alignment explanation
Indices: 15565410--15565459 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
15565400 AAACCCCAAC
*
15565410 CCTTAAACCATAAATCATAAT
1 CCTTAAACCATAAATCATAAA
*
15565431 CCCTAAACCA-ATAATCCATAAA
1 CCTTAAACCATA-AAT-CATAAA
15565453 CCTTAAA
1 CCTTAAA
15565460 ATAGTAACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 11 0.46
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (21 bp):
CCTTAAACCATAAATCATAAA
Found at i:15565838 original size:40 final size:40
Alignment explanation
Indices: 15565794--15566274 Score: 462
Period size: 40 Copynumber: 12.2 Consensus size: 40
15565784 TTTTTACGGT
* * *
15565794 GTTTTTGATAAAGCGCCGCTAATGCTCGATCTATAGCGTC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
* * * *
15565834 GTTTTTCTAAAAGCGACGCTAATGCTCCATTTATAGCGGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
* * *
15565874 GTTTTTCAAAAAGTGCCGCTAATGGTCGA-CATATAGCGAC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATC-TATAGCGGC
* *
15565914 GTTTTTCAAAAAACGCCGCTAATGCTCGATCTATAGAGGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
* * * *
15565954 GATTTTCAAAAAGCGCCACTAATGCTCTATCTATAGCGGT
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
* *
15565994 GTTTTTCAAAAAGCGCCGCTAATGGTCGA-CATATAGCGAC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATC-TATAGCGGC
* *
15566034 GTTTTTCAAAAAGCGCCGCTAATACTCGATCTATAGAGGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
* * *
15566074 GATTTTCAAAAACCGCCGCTAATGCTCGATCTATAGCAGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
*
15566114 GTTTTTCAAAAAGCGCCTG-TAATGC-C-A-CTA-A--AGC
1 GTTTTTCAAAAAGCGCC-GCTAATGCTCGATCTATAGCGGC
*** * * ** ** * * * *
15566148 --TCAACAAAAAACGACGACGTTGTGCTTAATTTTTTGCGGT
1 GTTTTTCAAAAAGCGCCG-C-TAATGCTCGATCTATAGCGGC
* * *
15566188 GTTTTTCAAAAAGCGCCGCTAATGGTCGACCTATAGTGGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
*
15566228 GTTTTTCAAAAAAGCGCCGCTAATGCTCGATCTATAGCGGT
1 GTTTTTC-AAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
15566269 GTTTTT
1 GTTTTT
15566275 TTATTCAAAC
Statistics
Matches: 349, Mismatches: 75, Indels: 33
0.76 0.16 0.07
Matches are distributed among these distances:
31 1 0.00
32 10 0.03
34 7 0.02
36 2 0.01
37 4 0.01
38 1 0.00
39 2 0.01
40 272 0.78
41 39 0.11
42 11 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (40 bp):
GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
Found at i:15566137 original size:120 final size:120
Alignment explanation
Indices: 15565794--15566130 Score: 521
Period size: 120 Copynumber: 2.8 Consensus size: 120
15565784 TTTTTACGGT
* * * * * * *
15565794 GTTTTTGATAAAGCGCCGCTAATGCTCGATCTATAGCGTCGTTTTTCTAAAAGCGACGCTAATGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGGCGATTTTCAAAAAGCGCCGCTAATGC
* *
15565859 TCCATTTATAGCGGCGTTTTTCAAAAAGTGCCGCTAATGGTCGACATATAGCGAC
66 TCCATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGACATATAGCGAC
* *
15565914 GTTTTTCAAAAAACGCCGCTAATGCTCGATCTATAGAGGCGATTTTCAAAAAGCGCCACTAATGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGGCGATTTTCAAAAAGCGCCGCTAATGC
* *
15565979 TCTATCTATAGCGGTGTTTTTCAAAAAGCGCCGCTAATGGTCGACATATAGCGAC
66 TCCATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGACATATAGCGAC
* *
15566034 GTTTTTCAAAAAGCGCCGCTAATACTCGATCTATAGAGGCGATTTTCAAAAACCGCCGCTAATGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGGCGATTTTCAAAAAGCGCCGCTAATGC
* *
15566099 TCGATCTATAGCAGCGTTTTTCAAAAAGCGCC
66 TCCATCTATAGCGGCGTTTTTCAAAAAGCGCC
15566131 TGTAATGCCA
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 197 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (120 bp):
GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGGCGATTTTCAAAAAGCGCCGCTAATGC
TCCATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGACATATAGCGAC
Found at i:15566252 original size:41 final size:40
Alignment explanation
Indices: 15566183--15566274 Score: 130
Period size: 41 Copynumber: 2.3 Consensus size: 40
15566173 TTAATTTTTT
* *
15566183 GCGGTGTTTTTCAAAAAGCGCCGCTAATGGTCGACCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATA
* *
15566223 GTGGCGTTTTTCAAAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTC-AAAAAGCGCCGCTAATGCTCGACCTATA
*
15566264 GCGGTGTTTTT
1 GCGGCGTTTTT
15566275 TTATTCAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
40 10 0.22
41 35 0.78
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATA
Found at i:15571406 original size:20 final size:20
Alignment explanation
Indices: 15571317--15571406 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
15571307 TTTAGATTTT
15571317 TTTTGAATTTTTAAAAATATAAA
1 TTTTGAATTTTTAAAAAT-T--A
* *
15571340 TTTTGAAATTTATATAAA-TA
1 TTTTG-AATTTTTAAAAATTA
15571360 TTTTGAA--TTTAAAAATTA
1 TTTTGAATTTTTAAAAATTA
*
15571378 TTTTAAATTTTTAAAAATTA
1 TTTTGAATTTTTAAAAATTA
15571398 TTTTGAATT
1 TTTTGAATT
15571407 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
17 6 0.11
18 8 0.14
19 2 0.04
20 25 0.44
22 1 0.02
23 5 0.09
24 10 0.18
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAATTA
Found at i:15577203 original size:13 final size:13
Alignment explanation
Indices: 15577185--15577209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15577175 TCAAGGCAAA
15577185 TAATGCTATCAAC
1 TAATGCTATCAAC
15577198 TAATGCTATCAA
1 TAATGCTATCAA
15577210 TACTTGATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
TAATGCTATCAAC
Found at i:15579553 original size:6 final size:6
Alignment explanation
Indices: 15579539--15579592 Score: 99
Period size: 6 Copynumber: 9.0 Consensus size: 6
15579529 AACGGAAGAG
*
15579539 AGTGGA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA
1 AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA
15579587 AGTGAA
1 AGTGAA
15579593 GAGGCAGCTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.48, C:0.00, G:0.35, T:0.17
Consensus pattern (6 bp):
AGTGAA
Found at i:15588518 original size:15 final size:15
Alignment explanation
Indices: 15588493--15588527 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15588483 AACTCTATTT
*
15588493 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
15588507 TAATTAATATTAAGA
1 TAATTAATATTAAGA
15588522 TAATTA
1 TAATTA
15588528 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:15608461 original size:22 final size:21
Alignment explanation
Indices: 15608435--15608493 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
15608425 TAAATAATTT
15608435 AAAATTTATAAAAATATTAAA
1 AAAATTTATAAAAATATTAAA
* * * *
15608456 CAAAATTAATTCAAAATTTTTAA
1 -AAAATTTA-TAAAAATATTAAA
15608479 AAAATTATATAAAAA
1 AAAATT-TATAAAAA
15608494 GTTTAGGAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
22 18 0.62
23 11 0.38
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATTTATAAAAATATTAAA
Found at i:15611004 original size:30 final size:31
Alignment explanation
Indices: 15610960--15611019 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 31
15610950 TTCTTATGCC
15610960 AATATTTCGATACCCATATCTTTGACTTTTT
1 AATATTTCGATACCCATATCTTTGACTTTTT
15610991 AATATTT-GATACCCATATCTTTGACTTTT
1 AATATTTCGATACCCATATCTTTGACTTTT
15611020 CATAATATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.48
Consensus pattern (31 bp):
AATATTTCGATACCCATATCTTTGACTTTTT
Found at i:15612384 original size:30 final size:30
Alignment explanation
Indices: 15612350--15612414 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
15612340 AGTTAGGAGT
15612350 ATTTGTATGTAGTTTAAAGGTGGAGAAGAG
1 ATTTGTATGTAGTTTAAAGGTGGAGAAGAG
*
15612380 ATTTGTATGTAGTTTAAAGGTGGATAAGAG
1 ATTTGTATGTAGTTTAAAGGTGGAGAAGAG
15612410 ATTTG
1 ATTTG
15612415 GATTACCCCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.31, T:0.37
Consensus pattern (30 bp):
ATTTGTATGTAGTTTAAAGGTGGAGAAGAG
Found at i:15626196 original size:15 final size:15
Alignment explanation
Indices: 15626141--15626197 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
15626131 TTTATATTAC
15626141 AAAATATTTATTATT
1 AAAATATTTATTATT
** *
15626156 AATGTATTTATAATTGT
1 AAAATATTTATTA-T-T
15626173 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
15626190 AAAATATT
1 AAAATATT
15626198 AATATTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 17 0.53
16 2 0.06
17 2 0.06
18 2 0.06
19 9 0.28
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:15626262 original size:14 final size:14
Alignment explanation
Indices: 15626231--15626269 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
15626221 ATATGAAGAA
15626231 TATTATTTAAAA-T
1 TATTATTTAAAATT
15626244 TATTATTTAAAATT
1 TATTATTTAAAATT
15626258 TATTA-TTAAAAT
1 TATTATTTAAAAT
15626270 AAAATTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTATTTAAAATT
Found at i:15638875 original size:27 final size:27
Alignment explanation
Indices: 15638845--15639022 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
15638835 ATATTGAGTC
* *
15638845 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
15638872 CGCACGCTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
15638899 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
15638927 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
15638954 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
15638981 CTCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
15639008 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15639023 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:15639005 original size:54 final size:55
Alignment explanation
Indices: 15638845--15639022 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 55
15638835 ATATTGAGTC
* * * * * * *
15638845 CGCACACTCAGTGCTATATAATC-AACTCGCACGCTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
15638899 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
15638954 CGCACACTTAGTGC-ATCATATTC-ATTTCTCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
15639008 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15639023 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
54 59 0.57
55 44 0.43
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:15641288 original size:13 final size:14
Alignment explanation
Indices: 15641264--15641299 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
15641254 TTTATATATT
15641264 TTTCCTTATAACCA
1 TTTCCTTATAACCA
15641278 TTTCC-TATAACCA
1 TTTCCTTATAACCA
15641291 TTTCACTTA
1 TTTC-CTTA
15641300 AACGTTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 12 0.60
14 6 0.30
15 2 0.10
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTCCTTATAACCA
Found at i:15641830 original size:21 final size:21
Alignment explanation
Indices: 15641794--15641889 Score: 87
Period size: 20 Copynumber: 4.8 Consensus size: 21
15641784 TGCAGGCAAG
15641794 GGCA-CAAATGTG-AAACCAG-
1 GGCACCAAA-GTGCAAACCAGA
*
15641813 GGACACCGAAGTGCAAA-CAGA
1 GG-CACCAAAGTGCAAACCAGA
15641834 GGCACCAAAGTGCAAA-CAGA
1 GGCACCAAAGTGCAAACCAGA
* *
15641854 GGCACCAGAGTGCAAA-TAGA
1 GGCACCAAAGTGCAAACCAGA
**
15641874 GGCACTGAAGTGCAAA
1 GGCACCAAAGTGCAAA
15641890 TCCCGTACAA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.03
20 56 0.85
21 8 0.12
ACGTcount: A:0.42, C:0.22, G:0.28, T:0.08
Consensus pattern (21 bp):
GGCACCAAAGTGCAAACCAGA
Found at i:15641844 original size:20 final size:20
Alignment explanation
Indices: 15641816--15641889 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
15641806 AAACCAGGGA
*
15641816 CACCGAAGTGCAAACAGAGG
1 CACCAAAGTGCAAACAGAGG
15641836 CACCAAAGTGCAAACAGAGG
1 CACCAAAGTGCAAACAGAGG
* *
15641856 CACCAGAGTGCAAATAGAGG
1 CACCAAAGTGCAAACAGAGG
**
15641876 CACTGAAGTGCAAA
1 CACCAAAGTGCAAA
15641890 TCCCGTACAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.42, C:0.23, G:0.27, T:0.08
Consensus pattern (20 bp):
CACCAAAGTGCAAACAGAGG
Found at i:15647212 original size:19 final size:19
Alignment explanation
Indices: 15647188--15647234 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
15647178 TTATTCCACA
15647188 ATTTTCACAATATCATTTC
1 ATTTTCACAATATCATTTC
15647207 ATTTTCACAATATCATTTC
1 ATTTTCACAATATCATTTC
15647226 ATTTTCACA
1 ATTTTCACA
15647235 TTTTTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTCACAATATCATTTC
Found at i:15650479 original size:29 final size:29
Alignment explanation
Indices: 15650442--15650568 Score: 121
Period size: 29 Copynumber: 4.4 Consensus size: 29
15650432 TGAGCTTTTT
* * *
15650442 TGGCTATCTCTGGTATAAGAAAGTCTTTG
1 TGGCGATCTCTGTTATAAGAAAGCCTTTG
* * *
15650471 TGGTGATCTCTGTTATAAGGAAGTCTTTG
1 TGGCGATCTCTGTTATAAGAAAGCCTTTG
* ***
15650500 TGGCAATCTCCAATA-AATGAAAGCCTTTG
1 TGGCGATCTCTGTTATAA-GAAAGCCTTTG
*
15650529 TGGCGATCTCTGTTATAAGGAAGCCTTTG
1 TGGCGATCTCTGTTATAAGAAAGCCTTTG
* *
15650558 TGACTATCTCT
1 TGGCGATCTCT
15650569 TAATGAATGC
Statistics
Matches: 78, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
28 2 0.03
29 74 0.95
30 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (29 bp):
TGGCGATCTCTGTTATAAGAAAGCCTTTG
Found at i:15650822 original size:16 final size:16
Alignment explanation
Indices: 15650753--15650820 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
15650743 TTTGGTTCGC
15650753 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15650769 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15650785 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
15650801 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
15650817 TGTA
1 TGTA
15650821 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15650855 original size:45 final size:44
Alignment explanation
Indices: 15650801--15650895 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
15650791 GGATTAGAGG
* *
15650801 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
15650846 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
15650890 TGTAAT
1 TGTAAT
15650896 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:15651078 original size:18 final size:17
Alignment explanation
Indices: 15651057--15651091 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15651047 TTATTATTTA
*
15651057 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15651075 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15651092 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15651085 original size:28 final size:27
Alignment explanation
Indices: 15651015--15651087 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
15651005 TTTATTATCA
*
15651015 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
15651043 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
15651070 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
15651088 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:15651225 original size:18 final size:17
Alignment explanation
Indices: 15651204--15651238 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15651194 TTATTATTAA
*
15651204 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15651222 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15651239 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15651250 original size:147 final size:149
Alignment explanation
Indices: 15650976--15651250 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
15650966 ATGATTATTG
*
15650976 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
15651041 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
15651106 AAAAATTTGTTTTGGTAAA
131 AAAAATTTGTTTTGGTAAA
*
15651125 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
15651188 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
15651251 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AAAAATTTGTTTTGGTAAA
Found at i:15651282 original size:54 final size:54
Alignment explanation
Indices: 15651224--15651402 Score: 128
Period size: 59 Copynumber: 3.1 Consensus size: 54
15651214 ATTAAAATAT
*
15651224 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
15651278 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAG
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAATTTACTCAAA-
*
15651341 TAT
53 -AC
*
15651344 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
15651398 ATAAT
1 ATAAT
15651403 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 5 0.05
56 10 0.11
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 10 0.11
65 5 0.05
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:15651323 original size:120 final size:120
Alignment explanation
Indices: 15651187--15651479 Score: 473
Period size: 120 Copynumber: 2.4 Consensus size: 120
15651177 ATCATATTTA
15651187 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
15651252 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAA-AT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATA-AAATAT
* * *
15651307 AACATAATTATTATTAAATATAATATAATTAAAGTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
15651372 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATAAAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATAAAA-TAT
* * *
15651428 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
15651480 TAAAATAATT
Statistics
Matches: 159, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
119 3 0.02
120 153 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATAAAATAT
Found at i:15651473 original size:18 final size:17
Alignment explanation
Indices: 15651434--15651465 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15651424 TTTTAAATAA
15651434 TTAATATTAAATATATT
1 TTAATATTAAATATATT
15651451 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
15651466 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:15651590 original size:91 final size:91
Alignment explanation
Indices: 15651495--15651683 Score: 254
Period size: 91 Copynumber: 2.1 Consensus size: 91
15651485 TAATTATAAC
* * * *
15651495 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
15651559 TAATATAAAATTTCATAAAATTCTTGA
65 TAATATAAAATTTCATAAAATTCTTAA
* * *
15651586 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* * * *
15651651 GATATATAATTTCATGAAATTGTTAA
66 AATATAAAATTTCATAAAATTCTTAA
15651677 TAATAAA
1 TAATAAA
15651684 ATGTTCTTCT
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
91 82 0.96
92 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.44
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATAAAATTTCATAAAATTCTTAA
Found at i:15652231 original size:12 final size:12
Alignment explanation
Indices: 15652216--15652245 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15652206 AATACAAACA
15652216 ACAGAAGCTGCT
1 ACAGAAGCTGCT
15652228 ACAGAAGCTGCT
1 ACAGAAGCTGCT
*
15652240 AAAGAA
1 ACAGAA
15652246 ATTAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:15652524 original size:14 final size:14
Alignment explanation
Indices: 15652505--15652535 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
15652495 AAAATATTAA
15652505 CAACAAATAGTTCC
1 CAACAAATAGTTCC
15652519 CAACAAATAGTTCC
1 CAACAAATAGTTCC
15652533 CAA
1 CAA
15652536 TTGCCAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.29, G:0.06, T:0.19
Consensus pattern (14 bp):
CAACAAATAGTTCC
Found at i:15656772 original size:16 final size:17
Alignment explanation
Indices: 15656751--15656795 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
15656741 ATAAAACAAT
*
15656751 TTAAAATAAT-TTAATA
1 TTAAAATAATAATAATA
15656767 TTAAAATAATAAAATAATA
1 TTAAAATAAT--AATAATA
15656786 TTAAAATAAT
1 TTAAAATAAT
15656796 CAAAACAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 10 0.40
19 15 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAATAATAATAATA
Found at i:15656784 original size:19 final size:20
Alignment explanation
Indices: 15656762--15656805 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
15656752 TAAAATAATT
15656762 TAATATTAAAATAAT-AAAA
1 TAATATTAAAATAATCAAAA
15656781 TAATATTAAAATAATCAAAA
1 TAATATTAAAATAATCAAAA
*
15656801 CAATA
1 TAATA
15656806 ATCTTTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATATTAAAATAATCAAAA
Found at i:15657774 original size:19 final size:18
Alignment explanation
Indices: 15657750--15657784 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15657740 AACAAATAAT
*
15657750 TTAAAATTTATAAAAAAA
1 TTAAAAATTATAAAAAAA
15657768 TTAAAAATTATAAAAAA
1 TTAAAAATTATAAAAAA
15657785 GTACAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAAATTATAAAAAAA
Found at i:15661794 original size:9 final size:9
Alignment explanation
Indices: 15661780--15661809 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15661770 GTTAAACGAA
15661780 TCGAGTTAT
1 TCGAGTTAT
*
15661789 TCGAGTTAA
1 TCGAGTTAT
15661798 TCGAGTTAT
1 TCGAGTTAT
15661807 TCG
1 TCG
15661810 GATCAACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15661880 original size:9 final size:9
Alignment explanation
Indices: 15661863--15661899 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15661853 TGAGTTTTCG
15661863 AATTCGAAT
1 AATTCGAAT
*
15661872 AACTCGAAT
1 AATTCGAAT
15661881 AATTCGAAT
1 AATTCGAAT
15661890 AATTCGAAT
1 AATTCGAAT
15661899 A
1 A
15661900 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15662147 original size:30 final size:31
Alignment explanation
Indices: 15662113--15662172 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
15662103 AAACATTTTA
*
15662113 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
15662143 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
15662173 TTTCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:15664017 original size:29 final size:29
Alignment explanation
Indices: 15663954--15664025 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 29
15663944 TATAAAGGCT
* * **
15663954 TATTCTTGTAAATTTTTAAAAAATTGGTC
1 TATTTTTGTAAATTTTTAAAAAAATGACC
15663983 TATTTTTGT-AATATTTTAAAAAAATGACC
1 TATTTTTGTAAAT-TTTTAAAAAAATGACC
* *
15664012 T-CTTTTGAAAATTT
1 TATTTTTGTAAATTT
15664026 AGTCTGAGCA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
28 10 0.29
29 25 0.71
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (29 bp):
TATTTTTGTAAATTTTTAAAAAAATGACC
Found at i:15664620 original size:31 final size:30
Alignment explanation
Indices: 15664579--15664637 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
15664569 ACAAGGTCAG
*
15664579 TTTTTACAAAACATTATCAGATTAGGCCATT
1 TTTTTACAAAA-ATTATCAGATTAAGCCATT
* *
15664610 TTTTTTCAAAATTTATCAGATTAAGCCA
1 TTTTTACAAAAATTATCAGATTAAGCCA
15664638 ATTTGGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (30 bp):
TTTTTACAAAAATTATCAGATTAAGCCATT
Found at i:15669401 original size:13 final size:13
Alignment explanation
Indices: 15669383--15669407 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15669373 TAATGGTATA
15669383 TTGAATCCATGAT
1 TTGAATCCATGAT
15669396 TTGAATCCATGA
1 TTGAATCCATGA
15669408 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:15671311 original size:25 final size:25
Alignment explanation
Indices: 15671283--15671361 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
15671273 CTAATGGCCG
15671283 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * * *
15671308 ATGTGAT-AAGGCCGAATG-GCA-A-
1 ATGTGATGAATG-TGAAAGTGTATAT
15671330 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
15671355 ATGTGAT
1 ATGTGAT
15671362 AAGGCCTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:15671311 original size:47 final size:47
Alignment explanation
Indices: 15671258--15671411 Score: 272
Period size: 47 Copynumber: 3.3 Consensus size: 47
15671248 ACAAGATATG
15671258 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* **
15671305 TATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
15671352 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
15671399 TATATGTGATAAG
1 TATATGTGATAAG
15671412 TCCCGAAGGA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:15681407 original size:40 final size:40
Alignment explanation
Indices: 15681352--15681433 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
15681342 CTTAAACTCA
15681352 CTTTTCTAGTCAACAACACGATGAAGCAAACAAATTGGTG
1 CTTTTCTAGTCAACAACACGATGAAGCAAACAAATTGGTG
*
15681392 CTTTTCTAGTCAACAACACGATGGAGCAAACAAATTGGTG
1 CTTTTCTAGTCAACAACACGATGAAGCAAACAAATTGGTG
15681432 CT
1 CT
15681434 AACTTACTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (40 bp):
CTTTTCTAGTCAACAACACGATGAAGCAAACAAATTGGTG
Found at i:15688067 original size:36 final size:35
Alignment explanation
Indices: 15688020--15688089 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
15688010 GGAGCACATC
*
15688020 AGTCAAAATAGATCCGAAAGACTGCTGAACTGAATT
1 AGTCAAAATAGATCC-AAAGACTACTGAACTGAATT
* *
15688056 AGTCAGAATAGATCCAAAGGCTACTGAACTGAAT
1 AGTCAAAATAGATCCAAAGACTACTGAACTGAAT
15688090 AGAGTTTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.21
Consensus pattern (35 bp):
AGTCAAAATAGATCCAAAGACTACTGAACTGAATT
Found at i:15690682 original size:23 final size:22
Alignment explanation
Indices: 15690642--15690701 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
15690632 AATTATTGTA
* * * *
15690642 ATTATAATTTAAGATCAAATATT
1 ATTATAA-TTATGGTCAAACATC
15690665 ATTATAATTACTGGTCAAACATC
1 ATTATAATTA-TGGTCAAACATC
15690688 ATTATAATTATGGT
1 ATTATAATTATGGT
15690702 AATTATAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 7 0.22
23 25 0.78
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (22 bp):
ATTATAATTATGGTCAAACATC
Found at i:15692624 original size:21 final size:20
Alignment explanation
Indices: 15692586--15692628 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
15692576 ATCTTGTGAT
*
15692586 TTTTTTATGTTAAATGATGAA
1 TTTTTAATGTTAAATGAT-AA
* *
15692607 TTTTTAATGTTGATTGATAA
1 TTTTTAATGTTAAATGATAA
15692627 TT
1 TT
15692629 AAAATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (20 bp):
TTTTTAATGTTAAATGATAA
Found at i:15704617 original size:20 final size:20
Alignment explanation
Indices: 15704589--15704714 Score: 110
Period size: 20 Copynumber: 6.3 Consensus size: 20
15704579 TACCGAAGTA
15704589 CAAACAGGGGCACGTATGTG
1 CAAACAGGGGCACGTATGTG
* *
15704609 CAAATAGGGGCACGTACGTG
1 CAAACAGGGGCACGTATGTG
* * * *
15704629 CAAACAGGGGTATC-AAAGTA
1 CAAACAGGGGCA-CGTATGTG
* * *
15704649 CAAATAGGGGCGCGTATATG
1 CAAACAGGGGCACGTATGTG
* ** * *
15704669 CAAACAGGGGTACCAAAGTA
1 CAAACAGGGGCACGTATGTG
15704689 CAAACAGGGGCACGTATGTG
1 CAAACAGGGGCACGTATGTG
15704709 CAAACA
1 CAAACA
15704715 TTCAACAATT
Statistics
Matches: 77, Mismatches: 27, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
19 1 0.01
20 75 0.97
21 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.14
Consensus pattern (20 bp):
CAAACAGGGGCACGTATGTG
Found at i:15704634 original size:40 final size:39
Alignment explanation
Indices: 15704609--15704714 Score: 158
Period size: 40 Copynumber: 2.7 Consensus size: 39
15704599 CACGTATGTG
*
15704609 CAAATAGGGGCACGTACGTGCAAACAGGGGTATCAAAGTA
1 CAAATAGGGGCACGTATGTGCAAACAGGGGTA-CAAAGTA
* *
15704649 CAAATAGGGGCGCGTATATGCAAACAGGGGTACCAAAGTA
1 CAAATAGGGGCACGTATGTGCAAACAGGGGTA-CAAAGTA
*
15704689 CAAACAGGGGCACGTATGTGCAAACA
1 CAAATAGGGGCACGTATGTGCAAACA
15704715 TTCAACAATT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.38, C:0.19, G:0.29, T:0.14
Consensus pattern (39 bp):
CAAATAGGGGCACGTATGTGCAAACAGGGGTACAAAGTA
Found at i:15704693 original size:60 final size:60
Alignment explanation
Indices: 15704584--15704698 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
15704574 CAGGGTACCG
* * ** * *
15704584 AAGTACAAACAGGGGCACGTATGTGCAAATAGGGGCACGTACGTGCAAACAGGGGTATCA
1 AAGTACAAACAGGGGCACGTATATGCAAACAGGGGCACCAAAGTACAAACAGGGGTATCA
* * *
15704644 AAGTACAAATAGGGGCGCGTATATGCAAACAGGGGTACCAAAGTACAAACAGGGG
1 AAGTACAAACAGGGGCACGTATATGCAAACAGGGGCACCAAAGTACAAACAGGGG
15704699 CACGTATGTG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.37, C:0.17, G:0.31, T:0.14
Consensus pattern (60 bp):
AAGTACAAACAGGGGCACGTATATGCAAACAGGGGCACCAAAGTACAAACAGGGGTATCA
Found at i:15711081 original size:46 final size:46
Alignment explanation
Indices: 15711029--15711122 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
15711019 TTCAATTGGG
* *
15711029 TTTATCATCCATCTCAACATAACATATTTTCCATATAGCTCACCAT
1 TTTATCACCCATCTCAACATAACATATTTTACATATAGCTCACCAT
*
15711075 TTTATCACCCATCTCAACATAACATATTTTACATGTAGCTCACCAT
1 TTTATCACCCATCTCAACATAACATATTTTACATATAGCTCACCAT
15711121 TT
1 TT
15711123 CAAAGTCTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (46 bp):
TTTATCACCCATCTCAACATAACATATTTTACATATAGCTCACCAT
Found at i:15712171 original size:18 final size:18
Alignment explanation
Indices: 15712148--15712185 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
15712138 AAAAATCACT
15712148 TAACAA-AATACTTTTAAA
1 TAACAACAATA-TTTTAAA
15712166 TAACAACTAATATTTTAAA
1 TAACAAC-AATATTTTAAA
15712185 T
1 T
15712186 TCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
TAACAACAATATTTTAAA
Found at i:15714303 original size:24 final size:24
Alignment explanation
Indices: 15714276--15714324 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
15714266 ATTATGAACT
*
15714276 TTTATGCATACCTTCATAAGTTTC
1 TTTATGCATACCCTCATAAGTTTC
* *
15714300 TTTATTCATACCCTCATGAGTTTC
1 TTTATGCATACCCTCATAAGTTTC
15714324 T
1 T
15714325 ACTTATCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.47
Consensus pattern (24 bp):
TTTATGCATACCCTCATAAGTTTC
Found at i:15722543 original size:20 final size:20
Alignment explanation
Indices: 15722518--15722561 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15722508 TACGTATGTG
*
15722518 CAAACAGGAGTACCAAAGTA
1 CAAACAGAAGTACCAAAGTA
**
15722538 CAAACAGAAGTACTGAAGTA
1 CAAACAGAAGTACCAAAGTA
15722558 CAAA
1 CAAA
15722562 TAGGGGCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.18, G:0.18, T:0.11
Consensus pattern (20 bp):
CAAACAGAAGTACCAAAGTA
Found at i:15722607 original size:40 final size:40
Alignment explanation
Indices: 15722538--15722641 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
15722528 TACCAAAGTA
** *
15722538 CAAACAGAAGTACTGAAGTACAAATAGGGGCA-TATATGTG
1 CAAACAGGGGTACCGAAGTACAAATAGGGGCACT-TATGTG
* *
15722578 CAAATAGGGGTACCGAAGTATAAATAGGGGCACTTATGTG
1 CAAACAGGGGTACCGAAGTACAAATAGGGGCACTTATGTG
* *
15722618 CTAACAGGGGTACCGAAGTGCAAA
1 CAAACAGGGGTACCGAAGTACAAA
15722642 CTAAGAAACC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 53 0.98
41 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.19
Consensus pattern (40 bp):
CAAACAGGGGTACCGAAGTACAAATAGGGGCACTTATGTG
Found at i:15724910 original size:21 final size:21
Alignment explanation
Indices: 15724884--15724929 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
15724874 AGTGTAAATC
15724884 GGGGCACGTATGCGCAATTCA
1 GGGGCACGTATGCGCAATTCA
* *
15724905 GGGGCACGTATGTGTAATTCA
1 GGGGCACGTATGCGCAATTCA
15724926 GGGG
1 GGGG
15724930 ATAATTAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.39, T:0.22
Consensus pattern (21 bp):
GGGGCACGTATGCGCAATTCA
Found at i:15726768 original size:30 final size:30
Alignment explanation
Indices: 15726732--15726792 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
15726722 ATCCTAACGG
*
15726732 ATCGAAAGAACAAAGTGATAGTACTATCTC
1 ATCGAAAGAACAAAATGATAGTACTATCTC
15726762 ATCGAAAGAACAAAATGATAGTACTATCTC
1 ATCGAAAGAACAAAATGATAGTACTATCTC
15726792 A
1 A
15726793 AGCTTCATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (30 bp):
ATCGAAAGAACAAAATGATAGTACTATCTC
Found at i:15736403 original size:19 final size:19
Alignment explanation
Indices: 15736379--15736434 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
15736369 ACATATTAAA
15736379 CCGAGTTATAAAATTTCAT
1 CCGAGTTATAAAATTTCAT
15736398 CCGAGTTATAAAATTTCAT
1 CCGAGTTATAAAATTTCAT
* * *
15736417 CCAAATTAAAAAATTTCA
1 CCGAGTTATAAAATTTCA
15736435 AATTATTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (19 bp):
CCGAGTTATAAAATTTCAT
Found at i:15738010 original size:16 final size:16
Alignment explanation
Indices: 15737989--15738020 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15737979 ATTTTGTTAC
*
15737989 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
15738005 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
15738021 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:15738217 original size:46 final size:46
Alignment explanation
Indices: 15738150--15738240 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
15738140 AACAGATACA
* *
15738150 CGGTGGATTCAGCACACAGCAACCACCCTTTGCAATCAATGATATC
1 CGGTGGATTCAGCACACAGCAACAACCCTTTGCAATCAATCATATC
*
15738196 CGGTGGGA-TCAGCACATAGCAACAACCCTTTGCAATCAATCATAT
1 CGGT-GGATTCAGCACACAGCAACAACCCTTTGCAATCAATCATAT
15738241 TGTGAAATCG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 38 0.93
47 3 0.07
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
CGGTGGATTCAGCACACAGCAACAACCCTTTGCAATCAATCATATC
Found at i:15740100 original size:42 final size:42
Alignment explanation
Indices: 15740020--15740101 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
15740010 CGTTTTCTCT
**
15740020 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
*
15740062 ATGCCATAG-CCTAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGTCC-AACTATGGTCTTACACA-TATGCACATAT
15740102 CACACCGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.06
42 31 0.89
43 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
Found at i:15742910 original size:16 final size:16
Alignment explanation
Indices: 15742889--15742920 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15742879 GTTTTGTTGC
*
15742889 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
15742905 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
15742921 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:15743206 original size:51 final size:51
Alignment explanation
Indices: 15743148--15743338 Score: 185
Period size: 51 Copynumber: 3.8 Consensus size: 51
15743138 CCGGTTCACA
* *
15743148 TAGTAGCCTGCACATAGTACTACACATGTGGCCATCACTATTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATTCGATACACG
* * * ** *
15743199 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTATGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATTCGATACACG
* * * * *
15743250 TAGTAGCTTGCACATAGTACTATACATGCGACC-T-A-TCATTCTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT-ATTCGA-TACACG
*
15743300 TAGTAGCCTGCACAAAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
15743339 TTCACTTTCA
Statistics
Matches: 108, Mismatches: 24, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 34 0.31
51 66 0.61
52 3 0.03
53 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATTCGATACACG
Found at i:15743327 original size:101 final size:102
Alignment explanation
Indices: 15743146--15743330 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 102
15743136 TACCGGTTCA
* * *
15743146 CATAGTAGCCTGCACATAGTACTACACATGTGGCCATCACTATTCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATTAGATACACGTAGTAGCCTGCA
*
15743211 CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
66 CAAAGTACTACACACGTGATCGAAGCTATCCGGTATG
* *
15743248 CATAGTAGCTTGCACATAGTACTATACATGCGACCTATCA-T-TCTAG-TACACGTAGTAGCCTG
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTAT-TAGATACACGTAGTAGCCTG
15743310 CACAAAGTACTACACACGTGA
64 CACAAAGTACTACACACGTGA
15743331 CCATCACTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
101 37 0.49
102 34 0.45
103 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATTAGATACACGTAGTAGCCTGCA
CAAAGTACTACACACGTGATCGAAGCTATCCGGTATG
Found at i:15747926 original size:22 final size:21
Alignment explanation
Indices: 15747891--15747949 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
15747881 AAAGGATATC
* *
15747891 TACAAATTAAATCTATAAGAT
1 TACAAATCATATCTATAAGAT
*
15747912 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TATAAGAT
* *
15747935 TGCATATCATATCTA
1 TACAAATCATATCTA
15747950 AGATTGCATA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTATAAGAT
Found at i:15748759 original size:44 final size:44
Alignment explanation
Indices: 15748676--15748793 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
15748666 TTTCGATTTG
* * * * *
15748676 CTCCACTGCTGCTTAGGGAGATAAGA-TCTGTAATTTTCAACCTA
1 CTCCACTGCTGCTCAGAGAGATAGGATTC-ATAATCTTCAACCTA
15748720 CTCCACTGCTGCTCAGAGAGATAGGATTCATAATCTTCAACCTA
1 CTCCACTGCTGCTCAGAGAGATAGGATTCATAATCTTCAACCTA
* *
15748764 TTCCACTGCTGAC-CAGTGAGATAGGATTCA
1 CTCCACTGCTG-CTCAGAGAGATAGGATTCA
15748794 CCTATTCCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 62 0.95
45 3 0.05
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
CTCCACTGCTGCTCAGAGAGATAGGATTCATAATCTTCAACCTA
Found at i:15748802 original size:34 final size:34
Alignment explanation
Indices: 15748759--15748935 Score: 230
Period size: 34 Copynumber: 4.9 Consensus size: 34
15748749 ATAATCTTCA
*
15748759 ACCTATTCCACTGCTGACCAGTGAGATAGGATTC
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTC
15748793 ACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTC
1 ACCTATTCCACTGCTGACCAGGGAGATAGG-------A--TTC
15748836 AACCTATTCCACTGCTGACCAGGGAGATCA-GATTC
1 -ACCTATTCCACTGCTGACCAGGGAGAT-AGGATTC
15748871 ACCTATTCCACTGCTGACCAGGGAGATAGGATTC
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTC
*
15748905 ACCTATTCCACTGCTGACTAGGGAGATAGGA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGA
15748936 CTTACAATCT
Statistics
Matches: 129, Mismatches: 2, Indels: 24
0.83 0.01 0.15
Matches are distributed among these distances:
33 1 0.01
34 91 0.71
35 3 0.02
37 1 0.01
41 1 0.01
43 3 0.02
44 28 0.22
45 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (34 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTC
Found at i:15748844 original size:78 final size:78
Alignment explanation
Indices: 15748715--15749016 Score: 333
Period size: 78 Copynumber: 3.9 Consensus size: 78
15748705 GTAATTTTCA
* * *
15748715 ACCTACTCCACTGCTG-CTCAGAGAGATAGGATTCATAATCTTCAACCTATTCCACTGCTGACCA
1 ACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCA
*
15748779 GTGAGATAGGATTC
65 GGGAGATAGGATTC
15748793 ACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGACCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTGACCA
15748857 GGGAGATCA-GATTC
65 GGGAGAT-AGGATTC
*
15748871 ACCTATTCCACTGCTGACCAGGGAGATAGG-------A--TTC-ACCTATTCCACTGCTGACTAG
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAG
15748926 GGAGATAGGACTTAC
66 GGAGATAGGA-TT-C
* *
15748941 AATCTTCAATCTCTTCCACTGCTGACCAGGAAGATAGGATTCACAATCTTCAACCTATTCCACTG
1 -A----C---CTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
15749006 CTGACCAGGGA
58 CTGACCAGGGA
15749017 AGTAGGACTT
Statistics
Matches: 192, Mismatches: 8, Indels: 38
0.81 0.03 0.16
Matches are distributed among these distances:
67 1 0.01
68 28 0.15
69 5 0.03
70 1 0.01
71 2 0.01
75 1 0.01
78 123 0.64
79 4 0.02
85 1 0.01
87 3 0.02
88 23 0.12
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (78 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAG
GGAGATAGGATTC
Found at i:15748856 original size:44 final size:44
Alignment explanation
Indices: 15748793--15749064 Score: 327
Period size: 44 Copynumber: 6.6 Consensus size: 44
15748783 GATAGGATTC
15748793 ACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCA
*
15748837 ACCTATTCCACTGCTGACCAGGGAGAT----C--A-GA--TTC-
1 ACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCA
15748871 ACCTATTCCACTGCTGACCAGGGAGATAGG-------A--TTC-
1 ACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCA
*
15748905 ACCTATTCCACTGCTGACTAGGGAGATAGGACTTACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCA
* * *
15748949 ATCTCTTCCACTGCTGACCAGGAAGATAGGA-TTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATCTTCA
15748993 ACCTATTCCACTGCTGACCAGGGA-AGTAGGACTTACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGA-TAGGACTTACAATCTTCA
15749037 ACCTATTCCACTGCTGACCAGGGAGATA
1 ACCTATTCCACTGCTGACCAGGGAGATA
15749065 AAGTTTTGTG
Statistics
Matches: 202, Mismatches: 9, Indels: 34
0.82 0.04 0.14
Matches are distributed among these distances:
34 60 0.30
35 3 0.01
37 1 0.00
38 1 0.00
40 1 0.00
41 1 0.00
43 6 0.03
44 126 0.62
45 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCA
Found at i:15748958 original size:112 final size:112
Alignment explanation
Indices: 15748759--15748984 Score: 391
Period size: 112 Copynumber: 2.0 Consensus size: 112
15748749 ATAATCTTCA
*
15748759 ACCTATTCCACTGCTGACCAGTGAGATAGGATTCACCTATTCCACTGCTGACCAGGGAGATAGGA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCTATTCCACTGCTGACCAGGGAGATAGGA
*
15748824 CTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATCA-GATTC
66 CTTACAATCTTCAACCTATTCCACTGCTGACCAGGAAGAT-AGGATTC
*
15748871 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCTATTCCACTGCTGACTAGGGAGATAGGA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCTATTCCACTGCTGACCAGGGAGATAGGA
* *
15748936 CTTACAATCTTCAATCTCTTCCACTGCTGACCAGGAAGATAGGATTC
66 CTTACAATCTTCAACCTATTCCACTGCTGACCAGGAAGATAGGATTC
15748983 AC
1 AC
15748985 AATCTTCAAC
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
111 1 0.01
112 107 0.99
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (112 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCTATTCCACTGCTGACCAGGGAGATAGGA
CTTACAATCTTCAACCTATTCCACTGCTGACCAGGAAGATAGGATTC
Found at i:15751234 original size:25 final size:25
Alignment explanation
Indices: 15751181--15751246 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
15751171 GAAGAAATCC
* *
15751181 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
15751206 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
15751231 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
15751247 TGTATTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:15765216 original size:6 final size:6
Alignment explanation
Indices: 15765207--15765235 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15765197 CTTTGTCTTT
15765207 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
15765236 TTATCACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:15766107 original size:25 final size:25
Alignment explanation
Indices: 15766054--15766119 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
15766044 AAGAAAATCC
* *
15766054 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
15766079 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
15766104 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
15766120 TGTATTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:15769931 original size:3 final size:3
Alignment explanation
Indices: 15769923--15769961 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
15769913 GATCAAGAAC
15769923 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15769962 GAAAAGATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15770911 original size:23 final size:22
Alignment explanation
Indices: 15770868--15770934 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
15770858 AAAGGATATC
* *
15770868 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
15770889 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* * *
15770912 TGCATATCGTATCTTCTAAGAT
1 TACAAATCATATCTTCTAAGAT
15770934 T
1 T
15770935 GCATATCCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 3 0.08
22 26 0.67
23 10 0.26
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.37
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:15770935 original size:22 final size:22
Alignment explanation
Indices: 15770881--15770941 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
15770871 AAATTAAATC
* *
15770881 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTGC-ATATCATATCT
*
15770904 TCTAAGATTGCATATCGTATCT
1 TCTAAGATTGCATATCATATCT
15770926 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
15770942 CTTGAAGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 25 0.71
23 10 0.29
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (22 bp):
TCTAAGATTGCATATCATATCT
Found at i:15786135 original size:20 final size:20
Alignment explanation
Indices: 15786110--15786175 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
15786100 CACATTAATG
15786110 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
15786130 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * *
15786150 CTCTTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
15786170 CCCCTG
1 CCCCTG
15786176 AATGCACATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.09, C:0.29, G:0.20, T:0.42
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:15786313 original size:40 final size:40
Alignment explanation
Indices: 15786114--15786304 Score: 249
Period size: 40 Copynumber: 4.8 Consensus size: 40
15786104 TTAATGCCCC
** * * *
15786114 TGTTTGTACTTCGGTACCCCTGTTTGTAC-TTCGGTACTCT
1 TGTTTGTACTTCGGTACCCCTGAATGCACATAC-GTGCTCT
* *
15786154 TGTTTGTACTTTGGTACCCCTGAATGCACATACGTGCTAT
1 TGTTTGTACTTCGGTACCCCTGAATGCACATACGTGCTCT
*
15786194 TGTTTGTACTTCGGTACCTCTGAATGCACATACGTGCTCT
1 TGTTTGTACTTCGGTACCCCTGAATGCACATACGTGCTCT
* * * *
15786234 TGCTTGTACTTCGATACCCCTGAATGCACATGCATGCTCT
1 TGTTTGTACTTCGGTACCCCTGAATGCACATACGTGCTCT
*
15786274 TGTTTGTACTTCGGTACCCCTAAATGCACAT
1 TGTTTGTACTTCGGTACCCCTGAATGCACAT
15786305 TTTTGCTCTG
Statistics
Matches: 132, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 130 0.98
41 2 0.02
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.38
Consensus pattern (40 bp):
TGTTTGTACTTCGGTACCCCTGAATGCACATACGTGCTCT
Found at i:15787351 original size:19 final size:19
Alignment explanation
Indices: 15787327--15787372 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
15787317 GTGACCCATG
15787327 TTTCTCAAATTTTC-ATGTT
1 TTTCTCAAATTTTCTAT-TT
15787346 TTTCTCAAATTTTCTATTT
1 TTTCTCAAATTTTCTATTT
*
15787365 TATCTCAA
1 TTTCTCAA
15787373 TTAGATCCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 23 0.92
20 2 0.08
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTCTCAAATTTTCTATTT
Found at i:15793797 original size:40 final size:40
Alignment explanation
Indices: 15793681--15793797 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 40
15793671 AGTACCTCGA
* * * *
15793681 TTTGTACTTTGGTAGCCCTGAATGCATAAACATGCTCCTG
1 TTTGTACTTCGGTACCCCTGAATGCACATACATGCTCCTG
* * * * *
15793721 TTTATTCTTCGGTACCCCTGAATACACATGCGTGCTCCTG
1 TTTGTACTTCGGTACCCCTGAATGCACATACATGCTCCTG
* * *
15793761 TTTGTACTTCGGTATCCTTGAATGCACATTCATGCTC
1 TTTGTACTTCGGTACCCCTGAATGCACATACATGCTC
15793798 TAAATGCACT
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.37
Consensus pattern (40 bp):
TTTGTACTTCGGTACCCCTGAATGCACATACATGCTCCTG
Found at i:15800849 original size:40 final size:40
Alignment explanation
Indices: 15800812--15800996 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
15800802 GCTACTCGTT
*
15800812 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
15800852 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
15800892 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
15800931 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
15800972 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15800997 CATCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:15800923 original size:79 final size:82
Alignment explanation
Indices: 15800812--15800996 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
15800802 GCTACTCGTT
* *
15800812 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
15800875 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * ** *
15800892 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTTGCACAAATGCCTTCGGATCTTAGTCTG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
15800955 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
15800972 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15800997 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:15808834 original size:40 final size:40
Alignment explanation
Indices: 15808797--15808981 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
15808787 GCTACTCGTT
*
15808797 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
15808837 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
15808877 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
15808916 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
15808957 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15808982 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 79 0.63
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:15808908 original size:79 final size:82
Alignment explanation
Indices: 15808797--15808981 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
15808787 GCTACTCGTT
* *
15808797 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
15808860 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
15808877 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTTGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
15808940 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
15808957 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15808982 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:15818817 original size:12 final size:12
Alignment explanation
Indices: 15818797--15818832 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
15818787 CAAAAAGATC
15818797 ATTTCCATTTTT
1 ATTTCCATTTTT
* *
15818809 ATTTTCATTTTC
1 ATTTCCATTTTT
15818821 ATTTCCATTTTT
1 ATTTCCATTTTT
15818833 GGAAACCTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTCCATTTTT
Found at i:15827785 original size:18 final size:16
Alignment explanation
Indices: 15827764--15827807 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
15827754 ACATTTGCTC
*
15827764 TTTCTTTTTTCCTTTTTT
1 TTTCTTTTTT-C-TATTT
*
15827782 TTTCTTTTCTCTATTT
1 TTTCTTTTTTCTATTT
15827798 TTTCTTTTTT
1 TTTCTTTTTT
15827808 ATTCGAGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 13 0.57
17 1 0.04
18 9 0.39
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTCTTTTTTCTATTT
Found at i:15830734 original size:15 final size:16
Alignment explanation
Indices: 15830707--15830736 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15830697 GATAATAATT
15830707 AATATATATTATATAA
1 AATATATATTATATAA
15830723 AATATA-ATTATATA
1 AATATATATTATATA
15830737 TTAGTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:15833322 original size:20 final size:20
Alignment explanation
Indices: 15833297--15833337 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15833287 TTGTAAGGGA
*
15833297 TTGCACTTCGGTACCTTTGT
1 TTGCACTTCAGTACCTTTGT
*
15833317 TTGCACTTCAGTGCCTTTGT
1 TTGCACTTCAGTACCTTTGT
15833337 T
1 T
15833338 AGCATTTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.46
Consensus pattern (20 bp):
TTGCACTTCAGTACCTTTGT
Found at i:15834052 original size:21 final size:21
Alignment explanation
Indices: 15834026--15834072 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
15834016 GTAATAATGA
15834026 TCATGTTTGATTTGCCTTCGG
1 TCATGTTTGATTTGCCTTCGG
*
15834047 TCATGTTTGATTTGCCTTTGG
1 TCATGTTTGATTTGCCTTCGG
15834068 T-ATGT
1 TCATGT
15834073 GGTGGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.11, C:0.15, G:0.23, T:0.51
Consensus pattern (21 bp):
TCATGTTTGATTTGCCTTCGG
Found at i:15836503 original size:41 final size:42
Alignment explanation
Indices: 15836434--15836512 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
15836424 CTGATAATTG
* * *
15836434 GCCCGTGTGACTCCACACAGTCGAGCACATGCCTGTGTGCTT
1 GCCCGTGTGACCCCACACAGCCGAGCACATGCCCGTGTGCTT
*
15836476 GCCCGTGTG-CCCCACACAGCCTAGCACATGCCCGTGT
1 GCCCGTGTGACCCCACACAGCCGAGCACATGCCCGTGT
15836513 CACTTCTCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 24 0.73
42 9 0.27
ACGTcount: A:0.16, C:0.38, G:0.25, T:0.20
Consensus pattern (42 bp):
GCCCGTGTGACCCCACACAGCCGAGCACATGCCCGTGTGCTT
Found at i:15836617 original size:42 final size:42
Alignment explanation
Indices: 15836551--15836673 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
15836541 ACAGTGAGTT
*
15836551 ACATAGCCTGAACACACGCCTATGTCCTTGTCTGTGTGGCTC
1 ACATAGCCTGAACACACGCCTATGTCCTTGCCTGTGTGGCTC
* * * * * ** *
15836593 ACATAGCCTGACCACATGCATATGTGCTTACCAATATGGCTC
1 ACATAGCCTGAACACACGCCTATGTCCTTGCCTGTGTGGCTC
** * *
15836635 ACATAGCCTGGGCACACGCCTATGTCCCTGGCTGTGTGG
1 ACATAGCCTGAACACACGCCTATGTCCTTGCCTGTGTGG
15836674 TTCTAAAGTG
Statistics
Matches: 61, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (42 bp):
ACATAGCCTGAACACACGCCTATGTCCTTGCCTGTGTGGCTC
Found at i:15836746 original size:42 final size:42
Alignment explanation
Indices: 15836699--15836779 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
15836689 ATTGAGTTAT
15836699 ACGGCCTGGGCACACGACCATATCCTTGCCCGTATGGCTCAC
1 ACGGCCTGGGCACACGACCATATCCTTGCCCGTATGGCTCAC
* * * *
15836741 ACGGCCTGGGCACACGCCCATGTCCTTGGCCGTGTGGCT
1 ACGGCCTGGGCACACGACCATATCCTTGCCCGTATGGCT
15836780 TTGACAGTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.15, C:0.37, G:0.28, T:0.20
Consensus pattern (42 bp):
ACGGCCTGGGCACACGACCATATCCTTGCCCGTATGGCTCAC
Found at i:15844910 original size:47 final size:47
Alignment explanation
Indices: 15844831--15845285 Score: 689
Period size: 47 Copynumber: 9.6 Consensus size: 47
15844821 TATTTGAATA
15844831 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
15844880 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
15844927 AATGTG-AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
15844973 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATCTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
15845022 AATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCC-AGTGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA-TGTGATG
15845069 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
15845118 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
15845165 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
15845212 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
15845259 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
15845286 TCCCGAAGGG
Statistics
Matches: 373, Mismatches: 26, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
46 44 0.12
47 229 0.61
49 99 0.27
50 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:15845071 original size:96 final size:96
Alignment explanation
Indices: 15844831--15845285 Score: 685
Period size: 96 Copynumber: 4.8 Consensus size: 96
15844821 TATTTGAATA
*
15844831 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC-GATGTGATGAATGTGAAAGTG--T
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAG-TGTGATGAATGTGAAAGTGTAT
*
15844893 ATATATGTGATAAGGCCTAATAGCCGATGTGATG
63 ATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
15844927 AATGTG-AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTGTATATA
*
15844991 TATGTGATAAGGCCTAATGGCCGATCTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
15845022 AATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCAGTGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTGTATATA
15845087 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
15845118 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAG-CTGATGTGATGAATGTGAAAGTG--TAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAG-TGTGATGAATGTGAAAGTGTATAT
15845180 ATATGTGATAAGGCCTAATGGCCGATGTGATG
65 ATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * ** *
15845212 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTGTATATA
15845276 -ATGTGATAAG
66 TATGTGATAAG
15845286 TCCCGAAGGG
Statistics
Matches: 331, Mismatches: 20, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
93 44 0.13
94 93 0.28
95 48 0.15
96 146 0.44
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:15857258 original size:171 final size:169
Alignment explanation
Indices: 15856932--15857263 Score: 583
Period size: 171 Copynumber: 2.0 Consensus size: 169
15856922 GCTCTTTTTC
15856932 AAGAGGGGAAATCGACAAGGGAAGAATGGAGTTGAAAGGCAACTAGAAGGGAGAAAGAGAGAAAA
1 AAGAGGGGAAATCGACAAGGGAAGAATGGAGTTGAAAGGCAACTAGAAGGGAGAAAGAGAGAAAA
* * **
15856997 TGTGAGAGAGATGTGTAAAGTGAGGGATGAGAAATAAGGGAGTGAAGGGGGATTTTTATGGGTGG
66 TGTGAGAGAGATGTGTAAAGTGAAGGATAAGAAATAAGGGAGTGAAGGGGGATTTTTACAGGTGG
15857062 AGATGGCTGCTAAAAGTAGCAGCCAATCCCCTCTTGAAA
131 AGATGGCTGCTAAAAGTAGCAGCCAATCCCCTCTTGAAA
*
15857101 AAGAGGGGAAATCGACAAGGGAAGAATGGAGTTGAAAGGCAATTAGAAGGGAGAAAGAGAGAAAA
1 AAGAGGGGAAATCGACAAGGGAAGAATGGAGTTGAAAGGCAACTAGAAGGGAGAAAGAGAGAAAA
*
15857166 TGTGAGTGAGAGATGTGTAAAGTGAAGGATAAGAAATAAGGGAGTGAAGGGGGCTTTTTACAGGT
66 TGTGA--GAGAGATGTGTAAAGTGAAGGATAAGAAATAAGGGAGTGAAGGGGGATTTTTACAGGT
*
15857231 GGAGATGGCTTCTAAAAGTAGCAGCCAATCCCC
129 GGAGATGGCTGCTAAAAGTAGCAGCCAATCCCC
15857264 CTTCCTTTGG
Statistics
Matches: 154, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
169 69 0.45
171 85 0.55
ACGTcount: A:0.39, C:0.08, G:0.36, T:0.17
Consensus pattern (169 bp):
AAGAGGGGAAATCGACAAGGGAAGAATGGAGTTGAAAGGCAACTAGAAGGGAGAAAGAGAGAAAA
TGTGAGAGAGATGTGTAAAGTGAAGGATAAGAAATAAGGGAGTGAAGGGGGATTTTTACAGGTGG
AGATGGCTGCTAAAAGTAGCAGCCAATCCCCTCTTGAAA
Found at i:15858421 original size:26 final size:27
Alignment explanation
Indices: 15858359--15858423 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
15858349 CCAAACCCCA
*
15858359 ATAAAATTTTGACAATTTTACCCTTTG
1 ATAAAATTTTGACAATTTTACCCTTCG
**
15858386 ATAAAATTTTGATGATTTTACCC-TCG
1 ATAAAATTTTGACAATTTTACCCTTCG
*
15858412 ATAAGATTTTGA
1 ATAAAATTTTGA
15858424 GAAAATTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (27 bp):
ATAAAATTTTGACAATTTTACCCTTCG
Found at i:15862054 original size:6 final size:6
Alignment explanation
Indices: 15862043--15862074 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
15862033 ACAATAGAAT
15862043 TTTTTA TTTTTA -TTTTA TTTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
15862075 CGGATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.42
6 14 0.58
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:15862060 original size:11 final size:11
Alignment explanation
Indices: 15862044--15862074 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
15862034 CAATAGAATT
15862044 TTTTATTTTTA
1 TTTTATTTTTA
15862055 TTTTATTTTTA
1 TTTTATTTTTA
15862066 TTTTATTTT
1 TTTTATTTT
15862075 CGGATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:15863221 original size:3 final size:3
Alignment explanation
Indices: 15863215--15863266 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
15863205 TAGCGTTGTT
* * * *
15863215 TTA TTA TTA ATA TTA TTA GTA TTA TTG TTA TTA TTT TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15863262 TTA TT
1 TTA TT
15863267 GTTTTTGCTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:15869710 original size:51 final size:51
Alignment explanation
Indices: 15869628--15869728 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
15869618 GAGTAGACTG
* *
15869628 AAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTA
1 AAGGCAGCGAATCTTATTTCACTAGCATTGCAGTGGAATAGATTAAAGCTA
* * **
15869679 AAGGTAGCGAATCTTGTTTCACTAGTGTTGCAGTGGAATAGATTAAAGCT
1 AAGGCAGCGAATCTTATTTCACTAGCATTGCAGTGGAATAGATTAAAGCT
15869729 GAAGTGGAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (51 bp):
AAGGCAGCGAATCTTATTTCACTAGCATTGCAGTGGAATAGATTAAAGCTA
Found at i:15869736 original size:21 final size:21
Alignment explanation
Indices: 15869710--15869749 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15869700 CTAGTGTTGC
15869710 AGTGGA-ATAGATTAAAGCTGA
1 AGTGGAGA-AGATTAAAGCTGA
*
15869731 AGTGGAGAGGATTAAAGCT
1 AGTGGAGAAGATTAAAGCT
15869750 AAAGACAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.23
Consensus pattern (21 bp):
AGTGGAGAAGATTAAAGCTGA
Found at i:15869811 original size:51 final size:50
Alignment explanation
Indices: 15869740--15869878 Score: 161
Period size: 51 Copynumber: 2.7 Consensus size: 50
15869730 AAGTGGAGAG
* * * *
15869740 GATTAAAGCTAAAGACAGCGAATCCTATCTCCTTGGCATTACAGTGGAACA
1 GATTAAAGCTAAAG-CAGCGAATCTTATCTCCCTAGCATTACAGCGGAACA
* * * * *
15869791 GATTAAAGCTAAATGTAGCGAATCTTGTTTCCCTAGCATTGCAGCGGAGCA
1 GATTAAAGCTAAA-GCAGCGAATCTTATCTCCCTAGCATTACAGCGGAACA
*
15869842 GATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTAGC
1 GATTAAAGCT-AAAGCAGCGAATCTTATCTCCCTAGC
15869879 GTTAAAGCTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
51 70 0.96
52 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
GATTAAAGCTAAAGCAGCGAATCTTATCTCCCTAGCATTACAGCGGAACA
Found at i:15869833 original size:123 final size:123
Alignment explanation
Indices: 15869625--15870060 Score: 415
Period size: 123 Copynumber: 3.4 Consensus size: 123
15869615 GTGGAGTAGA
* * * * *
15869625 CTGAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTAAAGGTAGCGAA
1 CTGAAGACAGCGAATCCTATCTCCCTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* **
15869690 TCTTGTTTCACTAGTGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGAGGATTAAAG
66 TCTTGTTTCCCTAGCATTGCAGTGGAATAGATTAAAGCTGAAGTGGAGAGGATTAAAG
* * *
15869748 CTAAAGACAGCGAATCCTATCTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAATGTAGCGAA
1 CTGAAGACAGCGAATCCTATCTCCCTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* ** * *
15869813 TCTTGTTTCCCTAGCATTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTAG
66 TCTTGTTTCCCTAGCATTGCAGTGGAATAGATTAAAGCTGAA-G-TG-G------A------GAG
15869878 CG-TTAAAG
116 -GATTAAAG
* * * * * * *
15869886 CTGAAGACAACAAATCTTATTTCCCTGGCTTTATAGTGGAACAGATTAAAGCTAAAGGTAACGAA
1 CTGAAGACAGCGAATCCTATCTCCCTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* * * * * *
15869951 TCTTGTTTCCTTGGCATTGTAGTGGAATAGATTAAAGCTAAAGTTGAGCGGATTAAAG
66 TCTTGTTTCCCTAGCATTGCAGTGGAATAGATTAAAGCTGAAGTGGAGAGGATTAAAG
* ** * *
15870009 CTGAAGGCAGCGAATCCTATCTCATTGGCGTTACAGTGGAACAGATTGAAGC
1 CTGAAGACAGCGAATCCTATCTCCCTGGCATTACAGTGGAACAGATTAAAGC
15870061 CACTAGCCTT
Statistics
Matches: 249, Mismatches: 47, Indels: 34
0.75 0.14 0.10
Matches are distributed among these distances:
122 1 0.00
123 142 0.57
124 1 0.00
125 1 0.00
126 1 0.00
129 1 0.00
132 1 0.00
135 1 0.00
137 1 0.00
138 98 0.39
139 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (123 bp):
CTGAAGACAGCGAATCCTATCTCCCTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
TCTTGTTTCCCTAGCATTGCAGTGGAATAGATTAAAGCTGAAGTGGAGAGGATTAAAG
Found at i:15869960 original size:51 final size:51
Alignment explanation
Indices: 15869880--15869993 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
15869870 CTCCCTAGCG
* *
15869880 TTAAAGCTGAAGACAACAAATCTTATTTCCCTGGCTTTATAGTGGAACAGA
1 TTAAAGCTAAAGACAACAAATCTTATTTCCCTGGCATTATAGTGGAACAGA
** * * * * *
15869931 TTAAAGCTAAAGGTAACGAATCTTGTTTCCTTGGCATTGTAGTGGAATAGA
1 TTAAAGCTAAAGACAACAAATCTTATTTCCCTGGCATTATAGTGGAACAGA
15869982 TTAAAGCTAAAG
1 TTAAAGCTAAAG
15869994 TTGAGCGGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (51 bp):
TTAAAGCTAAAGACAACAAATCTTATTTCCCTGGCATTATAGTGGAACAGA
Found at i:15870166 original size:89 final size:88
Alignment explanation
Indices: 15870067--15870676 Score: 361
Period size: 89 Copynumber: 6.8 Consensus size: 88
15870057 AAGCCACTAG
* *
15870067 CCTTATCTCCCTGTAGTTGCAATGGAGCAGGCTGAAGATAGCAAATCTTATCTCTCTGAAGTTGC
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATA-CAAATCTTATCTCTCTGAAGTTGC
* *
15870132 AGTAGAGTAGATTAAAGCTATAAG
65 AGTAGAGTAGAATAAAGCTATAAA
* * * *
15870156 TCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATCATAAATCTTATCTCTCTGAAGTTGC
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAT-ACAAATCTTATCTCTCTGAAGTTGC
*
15870221 ACTAGAGTAGAATAAAGCTATAAA
65 AGTAGAGTAGAATAAAGCTATAAA
* * * * * * *
15870245 CCTTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGACACAAGTCTTATCTCTATGAAGTTACA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATACAAATCTTATCTCTCTGAAGTTGCA
* * * * ** *
15870310 GTGGAGCAGACTGAAGAAACAAA
66 GTAGAGTAGAATAAAGCTATAAA
* * * * * * * * * *
15870333 TCTTATCTCCCTGAAATTGCAGTGGAG-TGGATTGAAGTTGCAAGTCTTATCTCCCTAAAGTTAC
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGG-CTGAAGATACAAATCTTATCTCTCTGAAGTTGC
* * * * *
15870397 AGTGGATTAGACTGAAGATATCAAA
65 AGTAGAGTAGAATAAAGCTAT-AAA
* * * * * **
15870422 TCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCT-ATAAATTACAGATCACATCTCTCTG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGC--A--G--GCTGA-AGA-TACAAATCTTATCTCTCTG
* * * * *
15870486 AAGTTGCAGTGGAGCAGACTGAAGATATCAAA
58 AAGTTGCAGTAGAGTAGAATAAAGCTAT-AAA
* * * * * *
15870518 TCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCT-ATAAATTACAGATCTCATCTCTCTG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGC--A--G--GCTGA-AGA-TACAAATCTTATCTCTCTG
* *
15870582 AAGTTGCAGTAGAGCAG-AT-CA--TATCAAA
58 AAGTTGCAGTAGAGTAGAATAAAGCTAT-AAA
* * ** * * * * * *
15870610 CCCTATTTCCCTGAAGTTGCAGTGGAATAGGTTAAAGTTACAAGTCTTATCTCCCTGAAATTGCA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATACAAATCTTATCTCTCTGAAGTTGCA
15870675 GT
66 GT
15870677 CGAGCAGACT
Statistics
Matches: 433, Mismatches: 75, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
85 24 0.06
86 3 0.01
87 3 0.01
88 105 0.24
89 137 0.32
90 2 0.00
92 32 0.07
94 3 0.01
95 3 0.01
96 121 0.28
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (88 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATACAAATCTTATCTCTCTGAAGTTGCA
GTAGAGTAGAATAAAGCTATAAA
Found at i:15870170 original size:44 final size:44
Alignment explanation
Indices: 15870068--15870543 Score: 349
Period size: 44 Copynumber: 10.6 Consensus size: 44
15870058 AGCCACTAGC
* * * * *
15870068 CTTATCTCCCTGTAGTTGCAATGGAGCAGGCTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA-TAAAT
* * * * * *
15870113 CTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATATAAAT
* ** *
15870157 CTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATCATAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGAT-ATAAAT
* * * * * * *
15870202 CTTATCTCTCTGAAGTTGCACTAGAGTAGAATAAAGCTATAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATATAAAT
* * * ** * * *
15870246 CTTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGACACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATATAAAT
** * * * *
15870290 CTTATCTCTATGAAGTTACAGTGGAGCAGACTGAAGAAACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATATAAAT
* * * * ** *
15870334 CTTATCTCCCTGAAATTGCAGTGGAGTGGATTGAAGTTGCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATATAAAT
* * *
15870378 CTTATCTCCCTAAAGTTACAGTGGATTAGACTGAAGATATCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAT-AAAT
* ** * *
15870423 CTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAG--AT--A-TA-A-AT
** * *
15870474 CACATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAT-AAAT
*
15870519 CTTATTTCCCTGAAGTTGCAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
15870544 ACAAATTGAA
Statistics
Matches: 331, Mismatches: 90, Indels: 20
0.75 0.20 0.05
Matches are distributed among these distances:
44 168 0.51
45 120 0.36
46 2 0.01
47 4 0.01
49 4 0.01
50 2 0.01
51 31 0.09
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATATAAAT
Found at i:15870252 original size:133 final size:132
Alignment explanation
Indices: 15870113--15870353 Score: 295
Period size: 133 Copynumber: 1.8 Consensus size: 132
15870103 GATAGCAAAT
* * * * * *
15870113 CTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAG-CTATAAGTCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGAC-ACAAGTCTTATCTCCATGAAGTTACA
* * * * *
15870177 GTAGAACAGGCTGAAGATCATAAATCTTATCTCTCTGAAGTTGCACTAGAGTAGAATAAAGCTAT
65 GTAGAACAGACTGAAGA-AACAAATCTTATCTCCCTGAAATTGCACTAGAGTAGAATAAAGCTAT
15870242 AAAC
129 AAAC
* * * * *
15870246 CTTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGACACAAGTCTTATCTCTATGAAGTTACAG
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGACACAAGTCTTATCTCCATGAAGTTACAG
* *
15870311 TGGAGCAGACTGAAGAAACAAATCTTATCTCCCTGAAATTGCA
66 TAGAACAGACTGAAGAAACAAATCTTATCTCCCTGAAATTGCA
15870354 GTGGAGTGGA
Statistics
Matches: 89, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
132 23 0.26
133 65 0.73
134 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (132 bp):
CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGACACAAGTCTTATCTCCATGAAGTTACAG
TAGAACAGACTGAAGAAACAAATCTTATCTCCCTGAAATTGCACTAGAGTAGAATAAAGCTATAA
AC
Found at i:15870509 original size:51 final size:51
Alignment explanation
Indices: 15870432--15870591 Score: 206
Period size: 51 Copynumber: 3.3 Consensus size: 51
15870422 TCTTATTTCC
*
15870432 CTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATTACAGATCACATCTCT
1 CTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATTACAGATCTCATCTCT
* * * * * * *
15870483 CTGAAGTTGCAGTGGAGCAGACTGAAG--AT--A-T-CAAATCTTATTTCC
1 CTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATTACAGATCTCATCTCT
15870528 CTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATTACAGATCTCATCTCT
1 CTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATTACAGATCTCATCTCT
15870579 CTGAAGTTGCAGT
1 CTGAAGTTGCAGT
15870592 AGAGCAGATC
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
45 33 0.38
46 1 0.01
47 3 0.03
49 3 0.03
50 1 0.01
51 47 0.53
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (51 bp):
CTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATTACAGATCTCATCTCT
Found at i:15870516 original size:96 final size:96
Alignment explanation
Indices: 15870293--15870636 Score: 406
Period size: 96 Copynumber: 3.7 Consensus size: 96
15870283 CACAAGTCTT
* * * *
15870293 ATCTCTATGAAGTTACAGTGGAGCAGACTGAAGA-AACAAATCTTATCTCCCTGAAATTGCAGTG
1 ATCTCTCTGAAGTTACAGTGGAGCAGACTGAAGATATCAAATCTTATTTCCCTGAAGTTGCAGTG
**** ** *
15870357 GAGTGGATTGAAG-T-T---GCA-AG-TCTT
66 GAACAAATTGAAGCTATAAATTACAGATCTC
* * **
15870381 ATCTCCCTAAAGTTACAGTGGATTAGACTGAAGATATCAAATCTTATTTCCCTGAAGTTGCAGTG
1 ATCTCTCTGAAGTTACAGTGGAGCAGACTGAAGATATCAAATCTTATTTCCCTGAAGTTGCAGTG
*
15870446 GAACAAATTGAAGCTATAAATTACAGATCAC
66 GAACAAATTGAAGCTATAAATTACAGATCTC
*
15870477 ATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATCAAATCTTATTTCCCTGAAGTTGCAGTG
1 ATCTCTCTGAAGTTACAGTGGAGCAGACTGAAGATATCAAATCTTATTTCCCTGAAGTTGCAGTG
15870542 GAACAAATTGAAGCTATAAATTACAGATCTC
66 GAACAAATTGAAGCTATAAATTACAGATCTC
* * * * *
15870573 ATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATATCAAACCCTATTTCCCTGAAGTTGCAGTG
1 ATCTCTCTGAAGTTACAGTGGAGCAGACTGAAGATATCAAATCTTATTTCCCTGAAGTTGCAGTG
15870634 GAA
66 GAA
15870637 TAGGTTAAAG
Statistics
Matches: 222, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
88 29 0.13
89 36 0.16
90 1 0.00
91 1 0.00
92 33 0.15
94 1 0.00
95 3 0.01
96 118 0.53
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (96 bp):
ATCTCTCTGAAGTTACAGTGGAGCAGACTGAAGATATCAAATCTTATTTCCCTGAAGTTGCAGTG
GAACAAATTGAAGCTATAAATTACAGATCTC
Found at i:15872194 original size:3 final size:3
Alignment explanation
Indices: 15872188--15872239 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
15872178 TAGCGTTGTT
* * * *
15872188 TTA TTA TTA ATA TTA TTA GTA TTA TTG TTA TTA TTT TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15872235 TTA TT
1 TTA TT
15872240 GTTTTTGCTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:15874494 original size:9 final size:9
Alignment explanation
Indices: 15874477--15874513 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15874467 TGAGTTTTCG
15874477 AATTCGAAT
1 AATTCGAAT
*
15874486 AACTCGAAT
1 AATTCGAAT
15874495 AATTCGAAT
1 AATTCGAAT
15874504 AATTCGAAT
1 AATTCGAAT
15874513 A
1 A
15874514 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15876574 original size:4 final size:4
Alignment explanation
Indices: 15876565--15876591 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15876555 TTATGTCCTT
15876565 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
15876592 TTGAAATCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:15879359 original size:56 final size:56
Alignment explanation
Indices: 15879273--15879392 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
15879263 ACAAGGGATG
15879273 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
15879329 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
15879385 ATGGGCAA
1 ATGGGCAA
15879393 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Done.