Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 112 of 199
Found at i:31789223 original size:39 final size:40
Alignment explanation
Indices: 31789180--31789287 Score: 123
Period size: 39 Copynumber: 2.8 Consensus size: 40
31789170 TCTGGAAAAT
* * * *
31789180 GCCGCTAATGCT-TATTTTTGGCGGCGTTTTTCATAATA-C
1 GCCGCTAATGCTAAATCTTTAGCGGCGTTTTTCA-AAAAGC
* *
31789219 GCCGCTAATGCTAGATCTTTAACGGC-TTTTTCAAAAAGC
1 GCCGCTAATGCTAAATCTTTAGCGGCGTTTTTCAAAAAGC
*
31789258 GCCGCTAATGCTCAATCTTTAGCGGCGTTT
1 GCCGCTAATGCTAAATCTTTAGCGGCGTTT
31789288 GGAATCCAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
38 3 0.05
39 43 0.74
40 12 0.21
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (40 bp):
GCCGCTAATGCTAAATCTTTAGCGGCGTTTTTCAAAAAGC
Found at i:31794864 original size:44 final size:44
Alignment explanation
Indices: 31794778--31794885 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 44
31794768 AATCTGCTCT
* *
31794778 CTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCTATGGCTTTAATCCGCTCCA
* * * * * *
31794822 TTGCAACTTCAGGGAGATAGGAT-TAATTGCTTTCATCTGCTCCG
1 CTGCAACTTCAGGGAGATAAGATCT-ATGGCTTTAATCCGCTCCA
*
31794866 CTGCGACTTCAGGGAGATAA
1 CTGCAACTTCAGGGAGATAA
31794886 AACTTGCCAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 1 0.02
44 51 0.98
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATCTATGGCTTTAATCCGCTCCA
Found at i:31807835 original size:3 final size:3
Alignment explanation
Indices: 31807827--31807881 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
31807817 ATATGTAGGT
* *
31807827 ATA ATA ATA ATA ATA ATA ATA TATA AT- ATA ATA ATG ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
31807872 ATA TTA ATA A
1 ATA ATA ATA A
31807882 AAAAACTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:31807849 original size:30 final size:27
Alignment explanation
Indices: 31807826--31807880 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
31807816 TATATGTAGG
*
31807826 TATAATAATAATAATAATAATATATAA
1 TATAATAATAATAATAACAATATATAA
*
31807853 TATAATAATGATAATAACAATAT-TAA
1 TATAATAATAATAATAACAATATATAA
31807879 TA
1 TA
31807881 AAAAAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
TATAATAATAATAATAACAATATATAA
Found at i:31811238 original size:20 final size:21
Alignment explanation
Indices: 31811205--31811243 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
31811195 GGTATGCAAT
31811205 TTTTAGTTGATTTA-AATGGG
1 TTTTAGTTGATTTATAATGGG
31811225 TTTTAGTTTG-TTTATAATG
1 TTTTAG-TTGATTTATAATG
31811244 TGCTTGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (21 bp):
TTTTAGTTGATTTATAATGGG
Found at i:31811869 original size:17 final size:16
Alignment explanation
Indices: 31811817--31811871 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
31811807 CTGCAATAAA
31811817 TATTATAAATATTTTAT
1 TATTA-AAATATTTTAT
** *
31811834 TAGGAATATATTTTAAT
1 TATTAAAATATTTT-AT
31811851 TATTAAAATAATTTTAT
1 TATTAAAAT-ATTTTAT
31811868 TATT
1 TATT
31811872 TTAATTAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 8 0.27
17 17 0.57
18 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (16 bp):
TATTAAAATATTTTAT
Found at i:31812235 original size:14 final size:16
Alignment explanation
Indices: 31812216--31812247 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31812206 CTTTAATAAA
31812216 TATTA-GAA-ATATTT
1 TATTAGGAATATATTT
31812230 TATTAGGAATATATTT
1 TATTAGGAATATATTT
31812246 TA
1 TA
31812248 ATTATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 3 0.19
16 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (16 bp):
TATTAGGAATATATTT
Found at i:31812433 original size:399 final size:399
Alignment explanation
Indices: 31811692--31812497 Score: 1438
Period size: 399 Copynumber: 2.0 Consensus size: 399
31811682 TTTATATTAA
* *
31811692 TTATATATTATCTACGTATTATTATCGTCAATTATTTACTTTTAAGAAAAAAACAAATATTTAAT
1 TTATATATTATCTACATATTATTATCGTCAATTATTTACATTTAAGAAAAAAACAAATATTTAAT
31811757 AATGTAAGGTTTAATTTACAATATGTCAATTTTTTTATTTTTCATAAATACTGCAATAAATATTA
66 AATGTAAGGTTTAATTTACAATATGTCAATTTTTTTATTTTTCATAAATACTGCAATAAATATTA
*
31811822 TAAATATTTTATTAGGAATATATTTTAATTATTAAAATAATTTTATTATTTTAATTAAGTTAATT
131 GAAATATTTTATTAGGAATATATTTTAATTATTAAAATAATTTTATTATTTTAATTAAGTTAATT
*
31811887 ACTTATTATTTTGAACAATGCTACTTTGTATTAATTAGATGAAGTAAAACTATATTCCTCAATGA
196 ACTTATTATTTTGAACAATGCTACTTTGTATTAATCAGATGAAGTAAAACTATATTCCTCAATGA
*
31811952 ATATGTTATTAATGCTTTAATATGCTATCTTTTTTTAATAATATTCAACAATGCCTAAAATCACT
261 ATATATTATTAATGCTTTAATATGCTATCTTTTTTTAATAATATTCAACAATGCCTAAAATCACT
31812017 TGCTTCACATCGGCATTAAAAAATAA-TATATATGAAGGTAGGGGTAATAATAAAAATATATAAA
326 TGCTTCACATCGGCATTAAAAAATAATTATATATGAAGGTAGGGGTAATAATAAAAATATATAAA
31812081 TATGTTTTT
391 TATGTTTTT
31812090 TTATATATTATCTACATATTATTATCGTCAATTATTTACATTTAAGAAAAAAAACAAATATTTAA
1 TTATATATTATCTACATATTATTATCGTCAATTATTTACATTTAAG-AAAAAAACAAATATTTAA
* **
31812155 TAATGTAAGGTTTAATTTACAGTATGTC-ATTTTTTATATTTTTCATAAATACTTTAATAAATAT
65 TAATGTAAGGTTTAATTTACAATATGTCAATTTTTT-TATTTTTCATAAATACTGCAATAAATAT
* *
31812219 TAGAAATATTTTATTAGGAATATATTTTAATTATTAAAATAA-TTTATTTATTTTCATTAATTTA
129 TAGAAATATTTTATTAGGAATATATTTTAATTATTAAAATAATTTTA-TTATTTTAATTAAGTTA
31812283 ATTACTTATTATTTTGAACAATGCTACTTTGTATTAATCAGATGAAGTAAAACTATATTCCTCAA
193 ATTACTTATTATTTTGAACAATGCTACTTTGTATTAATCAGATGAAGTAAAACTATATTCCTCAA
*
31812348 TGAATATATTATTAATGCTTTAATATGCTATCTTTTTTTAATAATATTCAACAATGCCTGAAATC
258 TGAATATATTATTAATGCTTTAATATGCTATCTTTTTTTAATAATATTCAACAATGCCTAAAATC
* *
31812413 ACTTGCTTCACATTGGCATTAAAAAATAATTATATATGATGGTAGGGGTAATAATAAAAATATAT
323 ACTTGCTTCACATCGGCATTAAAAAATAATTATATATGAAGGTAGGGGTAATAATAAAAATATAT
31812478 AAATATGTTTTT
388 AAATATGTTTTT
31812490 TATATATA
1 T-TATATA
31812498 AACAAAAAAA
Statistics
Matches: 390, Mismatches: 13, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
398 55 0.14
399 282 0.72
400 47 0.12
401 6 0.02
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (399 bp):
TTATATATTATCTACATATTATTATCGTCAATTATTTACATTTAAGAAAAAAACAAATATTTAAT
AATGTAAGGTTTAATTTACAATATGTCAATTTTTTTATTTTTCATAAATACTGCAATAAATATTA
GAAATATTTTATTAGGAATATATTTTAATTATTAAAATAATTTTATTATTTTAATTAAGTTAATT
ACTTATTATTTTGAACAATGCTACTTTGTATTAATCAGATGAAGTAAAACTATATTCCTCAATGA
ATATATTATTAATGCTTTAATATGCTATCTTTTTTTAATAATATTCAACAATGCCTAAAATCACT
TGCTTCACATCGGCATTAAAAAATAATTATATATGAAGGTAGGGGTAATAATAAAAATATATAAA
TATGTTTTT
Found at i:31813596 original size:32 final size:32
Alignment explanation
Indices: 31813548--31813686 Score: 156
Period size: 32 Copynumber: 4.4 Consensus size: 32
31813538 AATAACTACT
* *
31813548 AGCCATAAGTA-TAGTAATATGATTGGCACAA
1 AGCCATCAGTAGTAGTAATATGATCGGCACAA
*
31813579 AGCCATCAGTAGTAGTAATATGATTGGCACAA
1 AGCCATCAGTAGTAGTAATATGATCGGCACAA
* * *
31813611 AGCCATCAGTAGAAGTGATATGATCGGCACAC
1 AGCCATCAGTAGTAGTAATATGATCGGCACAA
*** * *
31813643 AGCCTAT-AGTAACGGTAACATAATCGGCACAA
1 AGCC-ATCAGTAGTAGTAATATGATCGGCACAA
31813675 AGCCATCAGTAG
1 AGCCATCAGTAG
31813687 CATCGCAACA
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
31 12 0.13
32 78 0.85
33 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (32 bp):
AGCCATCAGTAGTAGTAATATGATCGGCACAA
Found at i:31813759 original size:27 final size:26
Alignment explanation
Indices: 31813729--31813793 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
31813719 AGCAAAGCTG
31813729 CCAGTAACAGTATATGTAGCCA-AGCCA
1 CCAGTAACAGTAT-TGT-GCCAGAGCCA
*
31813756 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGT-ATTGTGCCAGAGCCA
31813783 CCAGT-ACAGTA
1 CCAGTAACAGTA
31813794 CTTCCTCCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 1 0.03
26 8 0.23
27 24 0.69
28 2 0.06
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGTAACAGTATTGTGCCAGAGCCA
Found at i:31813889 original size:24 final size:23
Alignment explanation
Indices: 31813856--31813986 Score: 97
Period size: 24 Copynumber: 5.5 Consensus size: 23
31813846 GCCATGCTCA
* *
31813856 AAATCTGTCATACAATTCATAGAC
1 AAATCAGTCATACAA-TCACAGAC
*
31813880 AAATAAGTCATACCAATCACAGAC
1 AAATCAGTCATA-CAATCACAGAC
31813904 AAATCAGTCATTTA-AATCACAGAC
1 AAATCAGTCA--TACAATCACAGAC
* *
31813928 AAATCAGTCATTTAC-ATCTCGGAC
1 AAATCAGTCA--TACAATCACAGAC
* *
31813952 AAATCAATCACTTAC-ATCACAGAT
1 AAATCAGTCA--TACAATCACAGAC
*
31813976 AAATCAATCAT
1 AAATCAGTCAT
31813987 TTAACCTCGA
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
22 1 0.01
24 86 0.93
25 3 0.03
26 2 0.02
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (23 bp):
AAATCAGTCATACAATCACAGAC
Found at i:31814151 original size:27 final size:27
Alignment explanation
Indices: 31814055--31814151 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
31814045 TAACAGAGGT
* *
31814055 ATTACAATAATTTTAC-CTACAGGGGC
1 ATTACGATCATTTTACACTACAGGGGC
* * * *
31814081 ATCACGGTTATTTTACCCTACAGGGGC
1 ATTACGATCATTTTACACTACAGGGGC
*
31814108 ATTATGATCATTTTACACTACAGGGGC
1 ATTACGATCATTTTACACTACAGGGGC
31814135 ATTACGATCATTTTACA
1 ATTACGATCATTTTACA
31814152 AATATTGATG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 12 0.20
27 48 0.80
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (27 bp):
ATTACGATCATTTTACACTACAGGGGC
Found at i:31818189 original size:17 final size:17
Alignment explanation
Indices: 31818164--31818213 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
31818154 ATAAAAAGTC
*
31818164 AAAGATATGAGTATCAG
1 AAAGATATGGGTATCAG
*
31818181 AAAGTTATGGGTATCAG
1 AAAGATATGGGTATCAG
31818198 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
31818214 AAATCTGGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:31823241 original size:14 final size:16
Alignment explanation
Indices: 31823222--31823260 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
31823212 TAGCCACCAG
*
31823222 ATTGAGATTGTCT-A-
1 ATTGAGATTGTATCAT
31823236 ATTGAGATTGTATCAT
1 ATTGAGATTGTATCAT
31823252 ATTGAGATT
1 ATTGAGATT
31823261 AGAGCTCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.55
15 1 0.05
16 9 0.41
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.44
Consensus pattern (16 bp):
ATTGAGATTGTATCAT
Found at i:31831782 original size:51 final size:49
Alignment explanation
Indices: 31831683--31831800 Score: 121
Period size: 51 Copynumber: 2.3 Consensus size: 49
31831673 TGGGTTATAA
** *
31831683 AAATTATATATATAAAATACATAATGCATTTATGAAAACAAGGAAAATAT
1 AAATTATA-ATATAAAATACATAATGCATTTACAAAAAAAAGGAAAATAT
* * *
31831733 AAATATATACATATAAAATATATTCATGCATTTACAAAAAAAATG-AAATAT
1 AAAT-TATA-ATATAAAATACA-TAATGCATTTACAAAAAAAAGGAAAATAT
*
31831784 ATAAGTATAATATAAAA
1 A-AATTATAATATAAAA
31831801 CGTGGAAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
50 12 0.21
51 26 0.46
52 19 0.33
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (49 bp):
AAATTATAATATAAAATACATAATGCATTTACAAAAAAAAGGAAAATAT
Found at i:31832066 original size:3 final size:3
Alignment explanation
Indices: 31832058--31832100 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
31832048 ATATGTAGGT
* *
31832058 ATA ATA ATA ATA GTA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
31832101 CAAAATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:31832097 original size:15 final size:15
Alignment explanation
Indices: 31832060--31832116 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
31832050 ATGTAGGTAT
* *
31832060 AATAATAATAGTATAT
1 AATAATAATAATA-AA
31832076 AAT-ATAATAATAAA
1 AATAATAATAATAAA
*
31832090 AATAATAATAACAAA
1 AATAATAATAATAAA
*
31832105 ATTAATAA-AATA
1 AATAATAATAATA
31832117 GACTAAAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 7 0.20
15 25 0.71
16 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AATAATAATAATAAA
Found at i:31832359 original size:19 final size:21
Alignment explanation
Indices: 31832321--31832359 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
31832311 CCTTTTTTAA
*
31832321 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
31832342 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
31832360 AAAGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:31832588 original size:21 final size:21
Alignment explanation
Indices: 31832562--31832616 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
31832552 AATCATATCT
31832562 TCTAAGATTTTATATATCATA
1 TCTAAGATTTTATATATCATA
**
31832583 TCTAAGA--TTGCATATCATA
1 TCTAAGATTTTATATATCATA
*
31832602 TCTAAGATTGTATAT
1 TCTAAGATTTTATAT
31832617 CCTCGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 17 0.63
21 10 0.37
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (21 bp):
TCTAAGATTTTATATATCATA
Found at i:31832597 original size:19 final size:19
Alignment explanation
Indices: 31832575--31832617 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
31832565 AAGATTTTAT
31832575 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
*
31832594 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
31832613 ATATC
1 ATATC
31832618 CTCGAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:31832602 original size:24 final size:20
Alignment explanation
Indices: 31832553--31832604 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
31832543 AGATGACAAA
*
31832553 ATCATATCTTCTAAGATTTT
1 ATCATATCTTCTAAGATTAT
31832573 AT-ATATCATATCTAAGATTGCAT
1 ATCATATC-T-TCTAAGATT--AT
31832596 ATCATATCT
1 ATCATATCT
31832605 AAGATTGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 5 0.19
20 3 0.12
21 9 0.35
23 4 0.15
24 5 0.19
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (20 bp):
ATCATATCTTCTAAGATTAT
Found at i:31833384 original size:132 final size:132
Alignment explanation
Indices: 31833147--31834766 Score: 2440
Period size: 132 Copynumber: 12.3 Consensus size: 132
31833137 TTCACTGCAA
* * *
31833147 CTTCAACCTACTCCGCTGCTGCTCAG-GTAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA
1 CTTCAACCTTCTCCGCTGCTGCTCAGAG-AGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTA
* *
31833211 TCTTGGAAAGATAAGATTTGCCGA-CTTTGATTTGCTCCACTACTGCTTAGGGAAATAAGATCTA
65 TCTTGGAAAGATAAGATTTGCC-ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
31833275 CAAT
129 CAAT
* * * *
31833279 CTTCAACCTTCTCTGTTGCTGCTTAGAGAGACAAGGCTTTGTGGCTTAAATCTACTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* *
31833344 CTTCGAAAGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31833409 AT
131 AT
* * * *
31833411 C-TCAACCTACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * * *
31833475 CTTGGAAAGATAAGATTTGTCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATGTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31833540 AT
131 AT
*
31833542 CTTCAACCTTCCCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* *
31833607 CTTGGGAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTCGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31833672 AT
131 AT
* * *
31833674 CTTCAACCTTATCCGCTACTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATTTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * *
31833739 CTTGGAAAGATAAGATTTACCATCTTTGATCTGCTTCACTACTGCCTAGGGAGATAAAATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31833804 AT
131 AT
* * * * * *
31833806 CTTCAACCTACTCTGCTGCTGTTCAGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * * *
31833871 CTTGGAAA-ATAAAATTTGCCGTCTTTGATCTACTCCACTCCTGCATAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31833935 AT
131 AT
* *
31833937 CTTCAACCTTCTCCACTGCTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
31834002 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGGTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31834067 AT
131 AT
* * *
31834069 CTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGTTTCCCACTGT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
31834134 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31834199 AT
131 AT
* * * *
31834201 CTTCAACCTACTCCGCTGCTGTTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * * *
31834266 GTTGGAAAGATAAGATTTACCGTCTTTGATCTACTCCACTACTGCATAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31834331 AT
131 AT
* * * * *
31834333 CTTCAACCTTCTCCACTGCTGCTCAAAGAGACTAGGCTTTGTGGCTTAAATTTGCTTCCCGCTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* *
31834398 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTATTGGTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31834463 AT
131 AT
* **
31834465 CTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTAACTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * *
31834530 CTTAGAAAGATAAGATTTGCCATCTTTGATTTGCTCCACTACTGCTTAGGGAGAAAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31834595 AT
131 AT
** ** * * * *
31834597 CTTCAACCAACTCCGCTATTGCTCAGGGAGGCAAGGCTTGGTGGCTTAAACCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * *
31834662 CTTGGAAAG-TAAGATTTGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31834726 AT
131 AT
*
31834728 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAGGGCTT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTT
31834767 GGTGTTTCAC
Statistics
Matches: 1335, Mismatches: 149, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
131 315 0.24
132 1019 0.76
133 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
AT
Found at i:31833922 original size:395 final size:396
Alignment explanation
Indices: 31833147--31834766 Score: 2568
Period size: 395 Copynumber: 4.1 Consensus size: 396
31833137 TTCACTGCAA
* * *
31833147 CTTCAACCTACTCCGCTGCTGCTCAG-GTAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA
1 CTTCAACCTTCTCCGCTGCTGCTCAGAG-AGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTA
* *
31833211 TCTTGGAAAGATAAGATTTGCCGA-CTTTGATTTGCTCCACTACTGCTTAGGGAAATAAGATCTA
65 TCTTGGAAAGATAAGATTTGCC-ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
*** * *
31833275 CAATCTTCAACCTTCTCTGTTGCTGCTTAGAGAGACAAGGCTTTGTGGCTTAAATCTACTTCCCA
129 CAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCA
* * *
31833340 CTATCTTCGAAAGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATC
194 CTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAAATC
*
31833405 TACAATC-TCAACCTACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCC
259 TACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCC
* ** *
31833469 CACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGA
324 CACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCATAGGGAGATAAGA
*
31833534 TGTACAAT
389 TCTACAAT
*
31833542 CTTCAACCTTCCCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* *
31833607 CTTGGGAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTCGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * *
31833672 ATCTTCAACCTTATCCGCTACTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATTTGCTTCCCACT
131 ATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
* * *
31833737 ATCTTGGAAAGATAAGATTTACCATCTTTGATCTGCTTCACTACTGCCTAGGGAGATAAAATCTA
196 ATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTA
* * *
31833802 CAATCTTCAACCTACTCTGCTGCTGTTCAGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCCA
261 CAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
* * *
31833867 CTATCTTGGAAA-ATAAAATTTGCCGTCTTTGATCTACTCCACTCCTGCATAGGGAGATAAGATC
326 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCATAGGGAGATAAGATC
31833931 TACAAT
391 TACAAT
* *
31833937 CTTCAACCTTCTCCACTGCTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
31834002 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGGTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
*
31834067 ATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGTTTCCCACT
131 ATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
* * *
31834132 GTCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTA
196 ATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTA
*
31834197 CAATCTTCAACCTACTCCGCTGCTGTTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
261 CAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
* * *
31834262 CTATGTTGGAAAGATAAGATTTACCGTCTTTGATCTACTCCACTACTGCATAGGGAGATAAGATC
326 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCATAGGGAGATAAGATC
31834327 TACAAT
391 TACAAT
* * * * *
31834333 CTTCAACCTTCTCCACTGCTGCTCAAAGAGACTAGGCTTTGTGGCTTAAATTTGCTTCCCGCTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* *
31834398 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTATTGGTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
**
31834463 ATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTAACTTAAATCTGCTTCCCACT
131 ATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
* *
31834528 ATCTTAGAAAGATAAGATTTGCCATCTTTGATTTGCTCCACTACTGCTTAGGGAGA-AAAGATCT
196 ATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAA-ATCT
* ** * *
31834592 ACAATCTTCAACCAACTCCGCTATTGCTCAGGGAGGCAAGGCTTGGTGGCTTAAACCTGCTTCCC
260 ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCC
* * * *
31834657 ACTATCTTGGAAAG-TAAGATTTGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGAT
325 ACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCATAGGGAGATAAGAT
31834721 CTACAAT
390 CTACAAT
*
31834728 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAGGGCTT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTT
31834767 GGTGTTTCAC
Statistics
Matches: 1135, Mismatches: 85, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
394 1 0.00
395 697 0.61
396 437 0.39
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (396 bp):
CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
ATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
ATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTA
CAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCATAGGGAGATAAGATC
TACAAT
Found at i:31834146 original size:527 final size:528
Alignment explanation
Indices: 31833147--31834770 Score: 2479
Period size: 527 Copynumber: 3.1 Consensus size: 528
31833137 TTCACTGCAA
*
31833147 CTTCAACCTACTCCGCTGCTGCTCAG-GTAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA
1 CTTCAACCTACTCCGCTGCTGCTCAGAG-AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA
* * * *
31833211 TCTTGGAAAGATAAGATTTGCCGA-CTTTGATTTGCTCCACTACTGCTTAGGGAAATAAGATCTA
65 TCTTGGAAAGATAAGATTTACC-ATCTTTGATCTGCTCCACTACTGCATAGGGAGATAAGATCTA
* *
31833275 CAATCTTCAACCTTCTCTGTTGCTGCTT-AGAGAGACAAGGCTTTGTGGCTTAAATCTACTTCCC
129 CAATCTTCAACCTTCTCTGCTGCTG-TTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCC
* *
31833339 ACTATCTTCGAAAGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
193 ACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
* * * * *
31833404 CTACAATC-TCAACCTACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTC
258 CTACAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTC
* * * *
31833468 CCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAG
323 CCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAG
* *
31833533 ATGTACAATCTTCAACCTTCCCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCT
388 ATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCT
* *
31833598 TCCCACTATCTTGGGAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTCGGGAGATA
453 TCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATA
31833663 AGATCTACAAT
518 AGATCTACAAT
* * *
31833674 CTTCAACCTTA-TCCGCTACTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATTTGCTTCCCACTA
1 CTTCAACC-TACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA
* * *
31833738 TCTTGGAAAGATAAGATTTACCATCTTTGATCTGCTTCACTACTGCCTAGGGAGATAAAATCTAC
65 TCTTGGAAAGATAAGATTTACCATCTTTGATCTGCTCCACTACTGCATAGGGAGATAAGATCTAC
* * * *
31833803 AATCTTCAACCTACTCTGCTGCTGTTCAGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCCAC
130 AATCTTCAACCTTCTCTGCTGCTGTTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCAC
* * * * *
31833868 TATCTTGGAAA-ATAAAATTTGCCGTCTTTGATCTACTCCACTCCTGCATAGGGAGATAAGATCT
195 TATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
*
31833932 ACAATCTTCAACCTTCTCCACTGCTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCC
260 ACAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCC
*
31833997 ACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGGTTAGGGAGATAAGAT
325 ACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
* *
31834062 CTACAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGTTTC
390 CTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTC
* *
31834127 CCACTGTCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTTCACTACTGCTTAGGGAGATAAG
455 CCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAG
31834192 ATCTACAAT
520 ATCTACAAT
* *
31834201 CTTCAACCTACTCCGCTGCTGTTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* * *
31834266 GTTGGAAAGATAAGATTTACCGTCTTTGATCTACTCCACTACTGCATAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTACCATCTTTGATCTGCTCCACTACTGCATAGGGAGATAAGATCTACA
** * * * * *
31834331 ATCTTCAACCTTCTCCACTGCTGCTCAAAGAGACTAGGCTTTGTGGCTTAAATTTGCTTCCCGCT
131 ATCTTCAACCTTCTCTGCTGCTGTTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
* *
31834396 ATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTATTGGTTAGGGAGATAAGATCTA
196 ATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
**
31834461 CAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTAACTTAAATCTGCTTCCCA
261 CAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCA
* * *
31834526 CTATCTTAGAAAGATAAGATTTGCCATCTTTGATTTGCTCCACTACTGCTTAGGGAGAAAAGATC
326 CTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
** ** * * * *
31834591 TACAATCTTCAACCAACTCCGCTATTGCTCAGGGAGGCAAGGCTTGGTGGCTTAAACCTGCTTCC
391 TACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCC
* * * *
31834656 CACTATCTTGGAAAG-TAAGATTTGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGA
456 CACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGA
31834720 TCTACAAT
521 TCTACAAT
* *
31834728 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAGGGCTTGGTG
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTG
31834771 TTTCACCGGT
Statistics
Matches: 992, Mismatches: 98, Indels: 14
0.90 0.09 0.01
Matches are distributed among these distances:
526 58 0.06
527 692 0.70
528 242 0.24
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (528 bp):
CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTTACCATCTTTGATCTGCTCCACTACTGCATAGGGAGATAAGATCTACA
ATCTTCAACCTTCTCTGCTGCTGTTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
ATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
CAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCA
CTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
TACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCC
CACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTACAAT
Found at i:31835998 original size:17 final size:16
Alignment explanation
Indices: 31835976--31836014 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
31835966 CCTTGGCCTC
31835976 TCCTTTTGCTTTTCTTT
1 TCCTTTTGC-TTTCTTT
*
31835993 TCCTTTTTCTTTCTTT
1 TCCTTTTGCTTTCTTT
*
31836009 TTCTTT
1 TCCTTT
31836015 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (16 bp):
TCCTTTTGCTTTCTTT
Found at i:31836010 original size:10 final size:10
Alignment explanation
Indices: 31835985--31836020 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
31835975 CTCCTTTTGC
31835985 TTTTCTTTTCCT
1 TTTTC-TTT-CT
31835997 TTTTCTTTCT
1 TTTTCTTTCT
31836007 TTTTCTTTCT
1 TTTTCTTTCT
31836017 TTTT
1 TTTT
31836021 TTTTTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 16 0.67
11 3 0.12
12 5 0.21
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:31840848 original size:12 final size:12
Alignment explanation
Indices: 31840817--31840868 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
31840807 ATGTAGGTAT
31840817 AATAATAATATATA
1 AATAATAATA-A-A
31840831 ATATAATAATAAA
1 A-ATAATAATAAA
*
31840844 AATAAAAATAAA
1 AATAATAATAAA
31840856 AA-AATTAATAAA
1 AATAA-TAATAAA
31840868 A
1 A
31840869 TAGACTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 2 0.06
12 19 0.56
13 2 0.06
14 2 0.06
15 9 0.26
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:31864007 original size:40 final size:40
Alignment explanation
Indices: 31863962--31864308 Score: 622
Period size: 40 Copynumber: 8.7 Consensus size: 40
31863952 GCAAACACAT
* *
31863962 TTGCCTTCGGGTCCTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31864002 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31864042 TTGCCTTTGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31864082 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31864122 TTGCCTTCGGGTCTTAGCCCGGGTATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
31864162 TTGCCTTCAGGTCTTAGCCCGGGTATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31864202 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31864242 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31864282 TTGCCTTCGGGTCTTAGCCCGGGTATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
31864309 ATCCAATGCT
Statistics
Matches: 297, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 297 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:31867016 original size:39 final size:40
Alignment explanation
Indices: 31866907--31867131 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
31866897 TTGAATAATG
* * * *
31866907 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
31866947 TCCAGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31866987 TCCGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31867026 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31867066 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31867107 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31867132 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 32 0.20
40 115 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31867145 original size:40 final size:40
Alignment explanation
Indices: 31866988--31867150 Score: 127
Period size: 40 Copynumber: 4.1 Consensus size: 40
31866978 GATACTAATT
* * ** *
31866988 CCGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* * ** *
31867026 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
31867066 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
31867107 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
31867147 CCGG
1 CCGG
31867151 TTAAATTCCG
Statistics
Matches: 110, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 10 0.09
40 98 0.89
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:31867149 original size:80 final size:80
Alignment explanation
Indices: 31866981--31867164 Score: 205
Period size: 80 Copynumber: 2.3 Consensus size: 80
31866971 TGTGCGAGAT
* * * *
31866981 ACTAATTCCGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAG
** *
31867045 GCAATTGTGCGAGTT
66 GCAATTGAACGAGTG
* *
31867060 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAA
*
31867124 GGCATTTGAACGAG-G
65 GGCAATTGAACGAGTG
* * *
31867139 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
31867165 TACGTGATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
79 30 0.34
80 57 0.64
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAG
GCAATTGAACGAGTG
Found at i:31872362 original size:27 final size:26
Alignment explanation
Indices: 31872324--31872417 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 26
31872314 TGCGATTTGT
* **
31872324 GGGTAAGATGACTGAAATACCCTTGGA
1 GGGTAAAATGACTGAAATACCC-TCAA
*
31872351 GGGTAAAATGACCGAAATACCCTCAA
1 GGGTAAAATGACTGAAATACCCTCAA
* * *
31872377 AGGTAAAAGGACTGAAATACCCCCATA
1 GGGTAAAATGACTGAAATACCCTCA-A
*
31872404 GGGTAAAATAACTG
1 GGGTAAAATGACTG
31872418 TTATATCCCT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 23 0.42
27 32 0.58
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (26 bp):
GGGTAAAATGACTGAAATACCCTCAA
Found at i:31872393 original size:26 final size:27
Alignment explanation
Indices: 31872333--31872398 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
31872323 TGGGTAAGAT
** * *
31872333 GACTGAAATACCCTTGGAGGGTAAAAT
1 GACTGAAATACCCTTCAAAGGTAAAAG
*
31872360 GACCGAAATACCC-TCAAAGGTAAAAG
1 GACTGAAATACCCTTCAAAGGTAAAAG
31872386 GACTGAAATACCC
1 GACTGAAATACCC
31872399 CCATAGGGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (27 bp):
GACTGAAATACCCTTCAAAGGTAAAAG
Found at i:31874742 original size:62 final size:62
Alignment explanation
Indices: 31874643--31874803 Score: 207
Period size: 62 Copynumber: 2.6 Consensus size: 62
31874633 TGAGTTACAT
* ** *
31874643 GAACAGTGAGTTAGACGGCCTGGGCACATGCCCGTGTCCCTGCC-GATGTGGTCTTGTACCAC
1 GAACAGTGAGTTACACGGCCCAGACACATGCCCGTGTCCCTGCCAG-TGTGGTCTTGTACCAC
* * * *
31874705 GAACAGTGAGTTACACGGCCCAGACACATGCCTGTGTCCTTGGCAGTGTGGTTTTGTACCAC
1 GAACAGTGAGTTACACGGCCCAGACACATGCCCGTGTCCCTGCCAGTGTGGTCTTGTACCAC
* * *
31874767 AAACAATGAGTTACACAGCCCAGACACATGCCCGTGT
1 GAACAGTGAGTTACACGGCCCAGACACATGCCCGTGT
31874804 GCCTTGCCTG
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
62 85 0.99
63 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.22
Consensus pattern (62 bp):
GAACAGTGAGTTACACGGCCCAGACACATGCCCGTGTCCCTGCCAGTGTGGTCTTGTACCAC
Found at i:31882579 original size:26 final size:27
Alignment explanation
Indices: 31882534--31882585 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
31882524 TAGCAAAATA
*
31882534 AAATAAAAAGAAACTGAAGAAGAAAGG
1 AAATAAAAAGAAACTAAAGAAGAAAGG
*
31882561 AAATAAAAA-AAATTAAAGAAGAAAG
1 AAATAAAAAGAAACTAAAGAAGAAAG
31882586 AACTAACGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10
Consensus pattern (27 bp):
AAATAAAAAGAAACTAAAGAAGAAAGG
Found at i:31892622 original size:17 final size:18
Alignment explanation
Indices: 31892597--31892636 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
31892587 CATGTTGCAT
*
31892597 GCCCATGTGGGCCACA-A
1 GCCCATGTGGCCCACACA
*
31892614 GCCCGTGTGGCCCACACA
1 GCCCATGTGGCCCACACA
31892632 GCCCA
1 GCCCA
31892637 AAATGGCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.20, C:0.42, G:0.28, T:0.10
Consensus pattern (18 bp):
GCCCATGTGGCCCACACA
Found at i:31893310 original size:22 final size:20
Alignment explanation
Indices: 31893279--31893320 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
31893269 CTAGCACTTG
31893279 TAAATGAAAACAATAAAAACCC
1 TAAATG-AAA-AATAAAAACCC
*
31893301 TAAATTAAAAATAAAAACCC
1 TAAATGAAAAATAAAAACCC
31893321 AAAGAGGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 3 0.16
22 5 0.26
ACGTcount: A:0.64, C:0.17, G:0.02, T:0.17
Consensus pattern (20 bp):
TAAATGAAAAATAAAAACCC
Found at i:31911615 original size:40 final size:40
Alignment explanation
Indices: 31911557--31911767 Score: 291
Period size: 40 Copynumber: 5.3 Consensus size: 40
31911547 ATTTGAATGA
*
31911557 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
* * * *
31911597 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTT
* *
31911637 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
*
31911677 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
* * * *
31911717 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
31911757 TATCC-GGCTAA
1 TATCCGGGCTAA
31911768 ATTCCGAAGA
Statistics
Matches: 152, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 8 0.05
40 142 0.93
41 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
Found at i:31915093 original size:54 final size:54
Alignment explanation
Indices: 31915006--31915121 Score: 205
Period size: 54 Copynumber: 2.1 Consensus size: 54
31914996 GCAAGATTAT
*
31915006 TGTGATTAAACTGTTTCAAGGTAAAGATGCTTTGTTACCTCACGTAGTCTTTTA
1 TGTGCTTAAACTGTTTCAAGGTAAAGATGCTTTGTTACCTCACGTAGTCTTTTA
* *
31915060 TGTGCTTAAATTGTTTCAAGGTAAGGATGCTTTGTTACCTCACGTAGTCTTTTA
1 TGTGCTTAAACTGTTTCAAGGTAAAGATGCTTTGTTACCTCACGTAGTCTTTTA
31915114 TGTGCTTA
1 TGTGCTTA
31915122 TTAAATCGAG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (54 bp):
TGTGCTTAAACTGTTTCAAGGTAAAGATGCTTTGTTACCTCACGTAGTCTTTTA
Found at i:31938905 original size:101 final size:101
Alignment explanation
Indices: 31938739--31938968 Score: 336
Period size: 101 Copynumber: 2.3 Consensus size: 101
31938729 ATGCCAAAGT
* * *
31938739 CATGTCCCAGACATGGTCTTACATGAGATGTTCTCATTTCAGTGCCCATGCCATGTCTCACACAT
1 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAGTGCCCACGCCATGTCTCACACAT
* * *
31938804 GCTCTTACAGGGGACCTTTTATCTCGGTGCCAACAC
66 GCTCTTACAGGGGACCTCTCATCTCGGAGCCAACAC
* * *
31938840 CATGTCCCACACATGCTCTTACATGGGATGTTCTCATATCGGTGCCCACGCCATGT-TCCACACA
1 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAGTGCCCACGCCATGTCT-CACACA
* *
31938904 TGCTCTTACGGGGGACCTCTCATCTCGGAGCCAACGC
65 TGCTCTTACAGGGGACCTCTCATCTCGGAGCCAACAC
*
31938941 CATTTCCCAGACATGGTCTTACATGGGA
1 CATGTCCCAGACATGGTCTTACATGGGA
31938969 CCTCTTTACC
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
100 1 0.01
101 113 0.99
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.27
Consensus pattern (101 bp):
CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAGTGCCCACGCCATGTCTCACACAT
GCTCTTACAGGGGACCTCTCATCTCGGAGCCAACAC
Found at i:31938972 original size:50 final size:50
Alignment explanation
Indices: 31938730--31938973 Score: 227
Period size: 50 Copynumber: 4.8 Consensus size: 50
31938720 GATAATAACA
* * * * * ** * *
31938730 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGAGATGTTCTCATTTCAG
1 TGCCAACGCCATGTCCCACACATGCTCTTACATGGGA-CCTCTCATCTCGG
* * * * * *
31938781 TGCCCATGCCATGTCTCACACATGCTCTTACAGGGGACCTTTTATCTCGG
1 TGCCAACGCCATGTCCCACACATGCTCTTACATGGGACCTCTCATCTCGG
* ** *
31938831 TGCCAACACCATGTCCCACACATGCTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCACACATGCTCTTACATGGGA-CCTCTCATCTCGG
* * **
31938882 TGCCCACGCCATGTTCCACACATGCTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCACACATGCTCTTACATGGGACCTCTCATCTCGG
* * * *
31938932 AGCCAACGCCATTTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCACACATGCTCTTACATGGGACCTCT
31938974 TTACCCAAAT
Statistics
Matches: 152, Mismatches: 40, Indels: 3
0.78 0.21 0.02
Matches are distributed among these distances:
50 83 0.55
51 69 0.45
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCACACATGCTCTTACATGGGACCTCTCATCTCGG
Found at i:31940417 original size:26 final size:26
Alignment explanation
Indices: 31940388--31940446 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
31940378 TTACCCACCA
* *
31940388 TAAATTTTTGATG-ATTTTACCCTTGC
1 TAAATTTTTCATGAATTTT-CCCCTGC
* *
31940414 TAAAATTTTCATGAATTTTCCCCTGG
1 TAAATTTTTCATGAATTTTCCCCTGC
31940440 TAAATTT
1 TAAATTT
31940447 CAAAAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.47
Consensus pattern (26 bp):
TAAATTTTTCATGAATTTTCCCCTGC
Found at i:31943638 original size:29 final size:30
Alignment explanation
Indices: 31943602--31943677 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 30
31943592 ATGTGTGTGT
*
31943602 TATATATAATATATACGAGTGG-GGTTGTA-
1 TATATATAATATATACGAG-GGTGGTTATAC
31943631 TATATATACATAGATATACGAGGGTGGTTATAC
1 TATATATA-AT--ATATACGAGGGTGGTTATAC
*
31943664 T-TATATTATATATA
1 TATATATAATATATA
31943678 TGCATGACTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
29 13 0.32
30 2 0.05
31 4 0.10
32 20 0.50
33 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (30 bp):
TATATATAATATATACGAGGGTGGTTATAC
Found at i:31945514 original size:12 final size:12
Alignment explanation
Indices: 31945477--31945527 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
31945467 ATTAGAATCT
31945477 TTACTTGCTT-C
1 TTACTTGCTTAC
* *
31945488 TTTACTTACTCAC
1 -TTACTTGCTTAC
*
31945501 TTACTTGTTTAC
1 TTACTTGCTTAC
31945513 TTACTTGCTTAC
1 TTACTTGCTTAC
31945525 TTA
1 TTA
31945528 AATAACACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 31 0.97
13 1 0.03
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.53
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:31945804 original size:49 final size:49
Alignment explanation
Indices: 31945727--31945921 Score: 169
Period size: 50 Copynumber: 3.9 Consensus size: 49
31945717 TGATAATACA
* * * * * *
31945727 TGCCAAAGCTATATCCTAGACATAGTCTTACATGGGATGTTTTC-TGTAC-
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CG
*
31945776 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATC-G
* * ** ** * *
31945826 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCAT-ATCG
* * **
31945876 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATA
31945922 ATCTCAATAA
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
48 6 0.05
49 34 0.28
50 80 0.66
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.29
Consensus pattern (49 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
Found at i:31945844 original size:50 final size:50
Alignment explanation
Indices: 31945776--31945971 Score: 203
Period size: 50 Copynumber: 3.7 Consensus size: 50
31945766 TTTTCTGTAC
* * **
31945776 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** * *
31945826 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
31945876 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC------GG
*
31945935 TGTCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
31945972 TATCATTCCC
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
50 82 0.69
53 1 0.01
59 36 0.30
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:31951168 original size:28 final size:28
Alignment explanation
Indices: 31951129--31951279 Score: 209
Period size: 28 Copynumber: 5.4 Consensus size: 28
31951119 CTATTAAGTG
31951129 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
31951156 ACAGTAACAGTGTAGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* * *
31951184 ATAGTAATAGTTTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
31951212 ACA-AAATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
*
31951240 ACAG-AATCAGTGTGTGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
31951268 ACAGTAACAGTG
1 ACAGTAACAGTG
31951280 CAGTGCAATA
Statistics
Matches: 110, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
27 7 0.06
28 101 0.92
29 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:31951421 original size:26 final size:26
Alignment explanation
Indices: 31951378--31951428 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
31951368 GCCAACACAC
* * *
31951378 CAATATCGCAGCAGAGCTGCCAGTAT
1 CAATATCGCAACAAAGCTACCAGTAT
*
31951404 CAATATCGCAATAAAGCTACCAGTA
1 CAATATCGCAACAAAGCTACCAGTA
31951429 ACAGTTCTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (26 bp):
CAATATCGCAACAAAGCTACCAGTAT
Found at i:31951753 original size:81 final size:80
Alignment explanation
Indices: 31951641--31951974 Score: 338
Period size: 81 Copynumber: 4.1 Consensus size: 80
31951631 TGCCATAACA
*
31951641 GTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTAGACATTTTACCC
1 GTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCAGACATTTTACCC
*
31951706 TATGGGGGTATTTCG
66 TATAGGGGTATTTCG
* *
31951721 GTTATTTTACCCTATGAGGGTATTTC-AGTCATTTTACCCTAT-GAGGGTATTTCAGTCATTTTA
1 GTCATTTTACCCTATG-GGGTATTTCGA-TCATTTTACCCTATAG-GGGTATTTCAGACATTTTA
**
31951784 CCCTATAATGGTATTTCG
63 CCCTATAGGGGTATTTCG
* * * * *
31951802 GTCATTTTACCTTAAGAGGGTATTTCGATAATTTTACCCTTTAGGGATATTTCA-ATCATTTTAC
1 GTCATTTTACCCTATG-GGGTATTTCGATCATTTTACCCTATAGGGGTATTTCAGA-CATTTTAC
* *
31951866 CTTATAGGGATATTTCG
64 CCTATAGGGGTATTTCG
* * * * **
31951883 ATCATTTTACCCTATGGTGGTCTTTCAATCATTTT-CATCTATTAGGGGTAAAAT-A-ACCATTT
1 GTCATTTTACCCTATGG-GGTATTTCGATCATTTTAC-CCTA-TAGGGGT-ATTTCAGA-CATTT
* * *
31951945 TACCATTTAGGGGTATTTTG
61 TACCCTATAGGGGTATTTCG
31951965 GTCATTTTAC
1 GTCATTTTAC
31951975 ATATTTTAGG
Statistics
Matches: 210, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
80 19 0.09
81 149 0.71
82 40 0.19
83 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.43
Consensus pattern (80 bp):
GTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCAGACATTTTACCC
TATAGGGGTATTTCG
Found at i:31951908 original size:27 final size:26
Alignment explanation
Indices: 31951642--31951917 Score: 279
Period size: 27 Copynumber: 10.3 Consensus size: 26
31951632 GCCATAACAG
31951642 TCATTTTACCCTATGGGGTATTTCGA
1 TCATTTTACCCTATGGGGTATTTCGA
*
31951668 TCATTTTACCCTATAGGGGTATTTTAGA
1 TCATTTTACCCTAT-GGGGTA-TTTCGA
*
31951696 -CATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
*
31951722 TTATTTTACCCTATGAGGGTATTTC-A
1 TCATTTTACCCTATG-GGGTATTTCGA
31951748 GTCATTTTACCCTATGAGGGTATTTC-A
1 -TCATTTTACCCTATG-GGGTATTTCGA
** *
31951775 GTCATTTTACCCTATAATGGTATTTCGG
1 -TCATTTTACCCTAT-GGGGTATTTCGA
* *
31951803 TCATTTTACCTTAAGAGGGTATTTCGA
1 TCATTTTACCCTATG-GGGTATTTCGA
* * * *
31951830 TAATTTTACCCTTTAGGGATATTTCAA
1 TCATTTTACCCTAT-GGGGTATTTCGA
* *
31951857 TCATTTTACCTTATAGGGATATTTCGA
1 TCATTTTACCCTAT-GGGGTATTTCGA
* *
31951884 TCATTTTACCCTATGGTGGTCTTTCAA
1 TCATTTTACCCTATGG-GGTATTTCGA
31951911 TCATTTT
1 TCATTTT
31951918 CATCTATTAG
Statistics
Matches: 211, Mismatches: 29, Indels: 19
0.81 0.11 0.07
Matches are distributed among these distances:
26 21 0.10
27 184 0.87
28 6 0.03
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGTATTTCGA
Found at i:31954505 original size:49 final size:50
Alignment explanation
Indices: 31954443--31954567 Score: 162
Period size: 50 Copynumber: 2.5 Consensus size: 50
31954433 GTCATTAAGA
* * * *
31954443 CTTACCGATTCTCAACTCGTATGAGTTTATCGATTT-CAACTCGTGAGAG
1 CTTACCGATTCTCAGCTCGTATGAGCTTACCGATTTACAACTCATGAGAG
* *
31954492 CTTATCGATTCTCAGCTCGTACGAGCTTACCGATTTACAACTCATGAGAG
1 CTTACCGATTCTCAGCTCGTATGAGCTTACCGATTTACAACTCATGAGAG
** *
31954542 CAAACCGATTCACAGCTCGTATGAGC
1 CTTACCGATTCTCAGCTCGTATGAGC
31954568 ATACATGTAC
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
49 31 0.48
50 33 0.52
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (50 bp):
CTTACCGATTCTCAGCTCGTATGAGCTTACCGATTTACAACTCATGAGAG
Found at i:31954517 original size:25 final size:24
Alignment explanation
Indices: 31954443--31954567 Score: 101
Period size: 25 Copynumber: 5.0 Consensus size: 24
31954433 GTCATTAAGA
31954443 CTTACCGATTCTCAACTCGTATGAG
1 CTTACCGATTCTCAACTCGTA-GAG
* *
31954468 TTTATCGATT-TCAACTCGTGAGAG
1 CTTACCGATTCTCAACTCGT-AGAG
* *
31954492 CTTATCGATTCTCAGCTCGTACGAG
1 CTTACCGATTCTCAACTCGTA-GAG
*
31954517 CTTACCGATT-TACAACTCATGAGAG
1 CTTACCGATTCT-CAACTCGT-AGAG
** * *
31954542 CAAACCGATTCACAGCTCGTATGAG
1 CTTACCGATTCTCAACTCGTA-GAG
31954567 C
1 C
31954568 ATACATGTAC
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
24 24 0.30
25 56 0.69
26 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (24 bp):
CTTACCGATTCTCAACTCGTAGAG
Found at i:31954776 original size:30 final size:31
Alignment explanation
Indices: 31954709--31954781 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
31954699 TTACAGGTAT
*
31954709 ATATATGAAATACATGGAAATGATATTACATG
1 ATATATGGAA-ACATGGAAATGATATTACATG
31954741 ATATATGGAAACAT-GAAATAGATGA-TACATG
1 ATATATGGAAACATGGAAAT-GAT-ATTACATG
31954772 -TATAT-GAAAC
1 ATATATGGAAAC
31954782 TTGCTTACTG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 5 0.13
30 10 0.26
31 13 0.34
32 10 0.26
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (31 bp):
ATATATGGAAACATGGAAATGATATTACATG
Found at i:31956213 original size:16 final size:16
Alignment explanation
Indices: 31956192--31956224 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
31956182 TTTACTGTAT
31956192 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
31956208 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
31956224 T
1 T
31956225 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:31956498 original size:17 final size:18
Alignment explanation
Indices: 31956457--31956491 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
31956447 TTATTATTAA
*
31956457 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
31956475 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
31956492 TTTTAATAAT
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 (18 bp):
ATATAATTTAATTAAAAT
Found at i:31956577 original size:120 final size:119
Alignment explanation
Indices: 31956432--31957186 Score: 1269
Period size: 120 Copynumber: 6.3 Consensus size: 119
31956422 ATAAGTTAAT
* * *
31956432 TATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTA
1 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTA
*
31956497 ATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA
66 ATAATCAATATTCTTATATGAATTTACT-AAATTATAATATATGATACTATAAAA
31956552 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTA
1 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTA
31956617 ATAATCAATATTCTTATATGAATTTACTATAATTATAATATATGATACTATAAAA
66 ATAATCAATATTCTTATATGAATTTACTA-AATTATAATATATGATACTATAAAA
31956672 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTA
1 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTA
31956737 ATAATCAATATTCTTATATGAATTTACTATAATTATAATATATGATACTATAAAA
66 ATAATCAATATTCTTATATGAATTTACTA-AATTATAATATATGATACTATAAAA
31956792 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTA
1 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTA
31956857 ATAATCAATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAA
66 ATAATCAATATTCTTATATGAATTTACT-AAATTATAATATATGATACTATAAAA
31956912 TATAATTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTT
1 TATAATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTT
* * * *
31956976 AATATTAAATATTCTTATATGAATTTACTAAATTTATAATATATAATAGTATAAAA
65 AATAATCAATATTCTTATATGAATTTACTAAA-TTATAATATATGATACTATAAAA
* * * * *
31957032 TATATTTTAACATAATTATTATTAAATACAATTTAATAAAAATATATAATTTAATAAAATTCTTA
1 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTA
* * * *
31957097 ATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
66 ATAATCAATATTCTTATATGAATTTACT-AAATTATAATATATGATACTATAAAA
*
31957152 TATAATTTAAAATAATTATTATTAAATATAATTTT
1 TATAATTTAACATAATTATTATTAAATAT-ATTTT
31957187 TCTAAATATA
Statistics
Matches: 609, Mismatches: 19, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
119 6 0.01
120 593 0.97
121 10 0.02
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (119 bp):
TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTA
ATAATCAATATTCTTATATGAATTTACTAAATTATAATATATGATACTATAAAA
Found at i:31956598 original size:18 final size:17
Alignment explanation
Indices: 31956575--31956611 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
31956565 AATTATTATT
31956575 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
31956591 AAATATATGATTTAATA
1 AAATATATGATTTAATA
31956608 AAAT
1 AAAT
31956612 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:31956718 original size:18 final size:17
Alignment explanation
Indices: 31956695--31956731 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
31956685 AATTATTATT
31956695 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
31956711 AAATATATGATTTAATA
1 AAATATATGATTTAATA
31956728 AAAT
1 AAAT
31956732 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:31956838 original size:18 final size:17
Alignment explanation
Indices: 31956815--31956851 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
31956805 AATTATTATT
31956815 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
31956831 AAATATATGATTTAATA
1 AAATATATGATTTAATA
31956848 AAAT
1 AAAT
31956852 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:31956958 original size:18 final size:17
Alignment explanation
Indices: 31956935--31956971 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
31956925 AATTATTATT
31956935 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
31956951 AAATATATGATTTAATA
1 AAATATATGATTTAATA
31956968 AAAT
1 AAAT
31956972 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:31957854 original size:30 final size:30
Alignment explanation
Indices: 31957820--31957880 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
31957810 ATCCCGAAAG
31957820 TAAGTCTTCAGCATCATTTACTATCTCACC
1 TAAGTCTTCAGCATCATTTACTATCTCACC
31957850 TAAGTCTTCAGCATCATTTACTATCTCACC
1 TAAGTCTTCAGCATCATTTACTATCTCACC
31957880 T
1 T
31957881 TTTTAAGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.38
Consensus pattern (30 bp):
TAAGTCTTCAGCATCATTTACTATCTCACC
Found at i:31961926 original size:23 final size:23
Alignment explanation
Indices: 31961895--31961940 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
31961885 ATATAAGAGG
*
31961895 TAATTCCATCAAAATTAGAAACT
1 TAATACCATCAAAATTAGAAACT
* *
31961918 TAATACCATCAACATTAGCAACT
1 TAATACCATCAAAATTAGAAACT
31961941 ATATATTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (23 bp):
TAATACCATCAAAATTAGAAACT
Found at i:31963189 original size:38 final size:37
Alignment explanation
Indices: 31963145--31963221 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 37
31963135 GGCGTTTGGA
* *
31963145 CAAAAAACGCCGCTAAAAATTAAGCATTAGCGGCGCTTT
1 CAAAAAGCGCCACTAAAAA-TAAGCATTAGCGGCG-TTT
*
31963184 CAAAAAGCGCCACTAAAAATGAGCATTAGCGGCGTTT
1 CAAAAAGCGCCACTAAAAATAAGCATTAGCGGCGTTT
31963221 C
1 C
31963222 TTGGAAAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 4 0.11
38 14 0.40
39 17 0.49
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (37 bp):
CAAAAAGCGCCACTAAAAATAAGCATTAGCGGCGTTT
Found at i:31963241 original size:39 final size:38
Alignment explanation
Indices: 31963147--31963221 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
31963137 CGTTTGGACA
*
31963147 AAAAACGCCGCTAAAAATTAAGCATTAGCGGCGCTTTC
1 AAAAACGCCACTAAAAATTAAGCATTAGCGGCGCTTTC
*
31963185 AAAAAGCGCCACTAAAAA-TGAGCATTAGCGGCG-TTTC
1 AAAAA-CGCCACTAAAAATTAAGCATTAGCGGCGCTTTC
31963222 TTGGAAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 4 0.12
38 19 0.56
39 11 0.32
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (38 bp):
AAAAACGCCACTAAAAATTAAGCATTAGCGGCGCTTTC
Found at i:31963311 original size:41 final size:41
Alignment explanation
Indices: 31963266--31963418 Score: 207
Period size: 41 Copynumber: 3.7 Consensus size: 41
31963256 ACCTTCTAGG
31963266 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAAA
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAAA
* * * *
31963307 GCTTTAGCGGTGTTTTAAAAAAAGCGTCGCTAATGCTCAGA
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAAA
* * ** * * *
31963348 GCTTTAGTGGCATTTTCCAAGAAGCGCCGCTAATGCTCGAG
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAAA
31963389 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
31963419 AAAAACATTT
Statistics
Matches: 93, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (41 bp):
GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAAA
Found at i:31963851 original size:7 final size:7
Alignment explanation
Indices: 31963841--31963871 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
31963831 AGATTATGGA
31963841 ATTAGGG
1 ATTAGGG
31963848 ATTAGGG
1 ATTAGGG
*
31963855 ATTATGG
1 ATTAGGG
31963862 ATTAGGG
1 ATTAGGG
31963869 ATT
1 ATT
31963872 CTAGTTTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (7 bp):
ATTAGGG
Found at i:31963863 original size:14 final size:14
Alignment explanation
Indices: 31963827--31963871 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
31963817 ATTTTAAGGT
* *
31963827 TTATAGATTATGGAA
1 TTATGGATTA-GGGA
*
31963842 TTAGGGATTAGGGA
1 TTATGGATTAGGGA
31963856 TTATGGATTAGGGA
1 TTATGGATTAGGGA
31963870 TT
1 TT
31963872 CTAGTTTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (14 bp):
TTATGGATTAGGGA
Found at i:31964126 original size:90 final size:88
Alignment explanation
Indices: 31963964--31964132 Score: 225
Period size: 90 Copynumber: 1.9 Consensus size: 88
31963954 AAGTTAGGGC
* * *
31963964 TTAGGGTTTAGGTTAATTAGTATGTTTTAATCTATATTAAATAAGGTTTAGGGGTTAGAGGTTAG
1 TTAGGGTTTAGATCAATTAGTATGTTTTAATATATATTAAATAAGGTTTAGGGGTTAGAGGTTAG
31964029 GGATTTGGGATTTGGGATAAGGT
66 GGATTTGGGATTTGGGATAAGGT
* * *
31964052 TTAGGGTTTAGATCAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTATGGGTTAGTA-GT
1 TTAGGGTTTAGATCAATTAGTATGTTTTAA--TATATATTAAATAAGGTTTAGGGGTTAG-AGGT
*
31964116 TAAGGG-TTTGGGGTTTG
63 T-AGGGATTTGGGATTTG
31964133 AGATTTGAGG
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
88 26 0.37
90 39 0.56
91 5 0.07
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (88 bp):
TTAGGGTTTAGATCAATTAGTATGTTTTAATATATATTAAATAAGGTTTAGGGGTTAGAGGTTAG
GGATTTGGGATTTGGGATAAGGT
Found at i:31968206 original size:24 final size:22
Alignment explanation
Indices: 31968178--31968221 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
31968168 AATTTAAAAA
31968178 ATAAAACATAATATAATATTTATC
1 ATAAAA-ATAA-ATAATATTTATC
*
31968202 ATAAAAATAAATATTATTTA
1 ATAAAAATAAATAATATTTA
31968222 ATTAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAAAATAAATAATATTTATC
Found at i:31968300 original size:43 final size:43
Alignment explanation
Indices: 31968279--31968475 Score: 322
Period size: 43 Copynumber: 4.6 Consensus size: 43
31968269 CAAAAACGTT
*
31968279 GCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
* *
31968322 GCTAAAGGTCTTGGTCTTTAGCGACGTTTGTGGGAGAAGCGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
* * *
31968365 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAGAAGCGTC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
* *
31968408 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAGAAGCGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
31968451 GCTAAAGGTCTTGGTCTTTAGCGGC
1 GCTAAAGGTCTTGGTCTTTAGCGGC
31968476 ATTTTTTTCG
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (43 bp):
GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
Found at i:31969978 original size:14 final size:16
Alignment explanation
Indices: 31969947--31969979 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31969937 TTTTACAAAC
31969947 TTATTTAGTATGAAAT
1 TTATTTAGTATGAAAT
31969963 TTATTTAG-AT-AAAT
1 TTATTTAGTATGAAAT
31969977 TTA
1 TTA
31969980 AAATATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 2 0.12
16 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (16 bp):
TTATTTAGTATGAAAT
Found at i:31974947 original size:21 final size:21
Alignment explanation
Indices: 31974884--31974950 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
31974874 CACACAACCA
* *
31974884 TGTGGCTGAAAGACACGCCCG
1 TGTGGCTGAGAGACATGCCCG
** *
31974905 TGTAACTGAG-G-CATGTGACCG
1 TGTGGCTGAGAGACA--TGCCCG
31974926 TGTGGCTGAGAGACATGCCCG
1 TGTGGCTGAGAGACATGCCCG
31974947 TGTG
1 TGTG
31974951 CAACTGACAA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 2 0.06
20 1 0.03
21 28 0.82
22 1 0.03
23 2 0.06
ACGTcount: A:0.21, C:0.22, G:0.36, T:0.21
Consensus pattern (21 bp):
TGTGGCTGAGAGACATGCCCG
Found at i:31987464 original size:40 final size:40
Alignment explanation
Indices: 31987418--31987609 Score: 237
Period size: 40 Copynumber: 4.8 Consensus size: 40
31987408 TATAACCACA
* * * * *
31987418 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
* *
31987458 CGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
*
31987498 CA-CACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCACT
1 -AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
* *
31987538 AGCATAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
*
31987578 AGCACAAATGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
31987610 TCATTCAAAT
Statistics
Matches: 135, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.01
40 130 0.96
41 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
Found at i:31990942 original size:28 final size:28
Alignment explanation
Indices: 31990878--31990943 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
31990868 TGAGATTAGC
* *
31990878 ACTAAGTGTGCGAGTTTAATTGTAAAGC
1 ACTAAGTGTGCGAGTTTAATTATAAAGA
* * * *
31990906 ATTACGTGTGCGAGTTTGATTATTAAGA
1 ACTAAGTGTGCGAGTTTAATTATAAAGA
31990934 ACTAAGTGTG
1 ACTAAGTGTG
31990944 GAACTTATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTTAATTATAAAGA
Found at i:31996069 original size:41 final size:42
Alignment explanation
Indices: 31996004--31996087 Score: 152
Period size: 41 Copynumber: 2.0 Consensus size: 42
31995994 AACTAGGGGA
31996004 AATTGTTATACCCCCACGCTTAGATACCTCCCATGCATGAAC
1 AATTGTTATACCCCCACGCTTAGATACCTCCCATGCATGAAC
*
31996046 AATTGTTATA-CCCCACGCTTAGATACCTTCCATGCATGAAC
1 AATTGTTATACCCCCACGCTTAGATACCTCCCATGCATGAAC
31996087 A
1 A
31996088 TCGTACACCA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 31 0.76
42 10 0.24
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (42 bp):
AATTGTTATACCCCCACGCTTAGATACCTCCCATGCATGAAC
Found at i:31997491 original size:43 final size:43
Alignment explanation
Indices: 31997420--31997588 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 43
31997410 AGGGTTCCGA
* * * **
31997420 TATGTGATTTTCGTCTAAGACCACGTCTGGGATGTTGGCATCG
1 TATGAGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCG
*
31997463 -ATTGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG
1 TA-TGAGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCG
* * * *
31997506 TATGTGA-TTACGTGTAAGACC-CTATTTTGGG-CAGTGGCATCG
1 TATGAGATTTACGTGTAAGACCAC--GTCTGGGACATTGGCATCG
** * *
31997548 TTATTTGA-TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 -TATGAGATTTACGTGTAAGACCACGTCTGGGACATTGGCAT
31997589 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
42 30 0.29
43 70 0.69
44 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
TATGAGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCG
Found at i:32021729 original size:43 final size:43
Alignment explanation
Indices: 32021708--32021904 Score: 322
Period size: 43 Copynumber: 4.6 Consensus size: 43
32021698 CAAAAACGTT
*
32021708 GCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
* *
32021751 GCTAAAGGTCTTGGTCTTTAGCGACGTTTGTGGGAGAAGCGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
* * *
32021794 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAGAAGCGTC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
* *
32021837 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAGAAGCGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
32021880 GCTAAAGGTCTTGGTCTTTAGCGGC
1 GCTAAAGGTCTTGGTCTTTAGCGGC
32021905 ATTTTTTTCG
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (43 bp):
GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
Found at i:32023413 original size:14 final size:16
Alignment explanation
Indices: 32023382--32023414 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32023372 TTTTACAAAC
32023382 TTATTTAGTATGAAAT
1 TTATTTAGTATGAAAT
32023398 TTATTTAG-AT-AAAT
1 TTATTTAGTATGAAAT
32023412 TTA
1 TTA
32023415 AAATATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 2 0.12
16 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (16 bp):
TTATTTAGTATGAAAT
Found at i:32028408 original size:21 final size:21
Alignment explanation
Indices: 32028345--32028411 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
32028335 CACACAACCA
* *
32028345 TGTGGCTGAAAGACACGCCCG
1 TGTGGCTGAGAGACATGCCCG
** *
32028366 TGTAACTGAG-G-CATGTGACCG
1 TGTGGCTGAGAGACA--TGCCCG
32028387 TGTGGCTGAGAGACATGCCCG
1 TGTGGCTGAGAGACATGCCCG
32028408 TGTG
1 TGTG
32028412 CAACTGACAA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 2 0.06
20 1 0.03
21 28 0.82
22 1 0.03
23 2 0.06
ACGTcount: A:0.21, C:0.22, G:0.36, T:0.21
Consensus pattern (21 bp):
TGTGGCTGAGAGACATGCCCG
Found at i:32041151 original size:40 final size:40
Alignment explanation
Indices: 32041086--32041296 Score: 241
Period size: 40 Copynumber: 5.3 Consensus size: 40
32041076 TCTTCGGAAT
* * * *
32041086 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
32041125 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
*
32041165 TTAGCCCGGAT-ATATCAACTCA-CACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACT-AGCACAAATGCCTTCGGGTC
* *
32041205 TTAGCCCAGATAAAATCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
32041245 TTAACCCGGATAAAATCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
32041285 TTAGCCCGGATA
1 TTAGCCCGGATA
32041297 TCATTCAAAT
Statistics
Matches: 147, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 6 0.04
40 137 0.93
41 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:32044656 original size:28 final size:28
Alignment explanation
Indices: 32044592--32044657 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
32044582 TGAGATTAGC
* *
32044592 ACTAAGTGTGCGAGTTTAATTGTAAAGC
1 ACTAAGTGTGCGAGTTTAATTATAAAGA
* * * *
32044620 ATTACGTGTGCGAGTTTGATTATTAAGA
1 ACTAAGTGTGCGAGTTTAATTATAAAGA
32044648 ACTAAGTGTG
1 ACTAAGTGTG
32044658 GAACTTATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTTAATTATAAAGA
Found at i:32049817 original size:42 final size:42
Alignment explanation
Indices: 32049758--32049842 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
32049748 AACTAGGGGA
32049758 AATTGTTATACCCCCACGCTTAGATACCTCCCATGCATGAAC
1 AATTGTTATACCCCCACGCTTAGATACCTCCCATGCATGAAC
*
32049800 AATTGTTATACCCCCACGCTTAGATACCTTCCATGCATGAAC
1 AATTGTTATACCCCCACGCTTAGATACCTCCCATGCATGAAC
32049842 A
1 A
32049843 TCGTACACCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (42 bp):
AATTGTTATACCCCCACGCTTAGATACCTCCCATGCATGAAC
Found at i:32051304 original size:42 final size:44
Alignment explanation
Indices: 32051179--32051348 Score: 133
Period size: 44 Copynumber: 3.9 Consensus size: 44
32051169 AGGGTTCCGA
* * * *
32051179 TATGTGATTTTCGTCTAAGA-CCACGTCTGGGA-TGTTGGCATCGAT
1 TATGTGA-TTACGTGTAAGACCCATGTCTGGGACAG-TGGCATCG-T
* *
32051224 T-TGAGATTTACGTGTAAGA-CCATGTCTGGGACATTGGCATCG-
1 TATGTGA-TTACGTGTAAGACCCATGTCTGGGACAGTGGCATCGT
*
32051266 TATGTGATTACGTGTAAGACCCTAT-TTTGGG-CAGTGGCATCGT
1 TATGTGATTACGTGTAAGACCC-ATGTCTGGGACAGTGGCATCGT
* * *
32051309 TATTTGATTACATGTAAGA-CCACGTCTGGGAC-GTTGGCAT
1 TATGTGATTACGTGTAAGACCCATGTCTGGGACAG-TGGCAT
32051349 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 31 0.30
43 35 0.34
44 36 0.35
45 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (44 bp):
TATGTGATTACGTGTAAGACCCATGTCTGGGACAGTGGCATCGT
Found at i:32051347 original size:43 final size:42
Alignment explanation
Indices: 32051194--32051348 Score: 156
Period size: 43 Copynumber: 3.6 Consensus size: 42
32051184 GATTTTCGTC
*
32051194 TAAGACCACGTCTGGGATGTTGGCATCG-ATTTGAGATTTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGTATTT--GA-TTACGTG
* * *
32051238 TAAGACCATGTCTGGGACATTGGCATCGTATGTGATTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTACGTG
* * *
32051280 TAAGACC-CTATTTTGGG-CAG-TGGCATCGTTATTTGATTACATG
1 TAAGACCAC--GTCTGGGAC-GTTGGCATCG-TATTTGATTACGTG
32051323 TAAGACCACGTCTGGGACGTTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
32051349 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
42 29 0.32
43 33 0.36
44 26 0.29
45 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTACGTG
Found at i:32063507 original size:29 final size:29
Alignment explanation
Indices: 32063475--32063530 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
32063465 AAAGGCCATT
32063475 TTTTTTCAA-AATTTACCGAAATGGGCCGG
1 TTTTTT-AATAATTTACCGAAATGGGCCGG
*
32063504 TTTTTTAATTATTTACCGAAATGGGCC
1 TTTTTTAATAATTTACCGAAATGGGCC
32063531 ATTTTCCGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGAAATGGGCCGG
Found at i:32064717 original size:23 final size:25
Alignment explanation
Indices: 32064679--32064726 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
32064669 AATAATATTT
*
32064679 TTAAATTTTTATTAAAAATA-TAAA
1 TTAAAGTTTTATTAAAAATACTAAA
32064703 TTAAAGTTTTA-TAAAAATACTAAA
1 TTAAAGTTTTATTAAAAATACTAAA
32064727 ATTTATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
TTAAAGTTTTATTAAAAATACTAAA
Found at i:32064753 original size:27 final size:26
Alignment explanation
Indices: 32064710--32064774 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 26
32064700 AAATTAAAGT
* *
32064710 TTTATAAAAATACTAAAATTTATAAA
1 TTTATAAAAAAACTAAAATATATAAA
32064736 TTTATAAAAAAACATAAAATATATAAA
1 TTTATAAAAAAAC-TAAAATATATAAA
*
32064763 ATTACTAAAAAA
1 TTTA-TAAAAAA
32064775 TTGTAAGTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 12 0.35
27 15 0.44
28 7 0.21
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (26 bp):
TTTATAAAAAAACTAAAATATATAAA
Found at i:32069072 original size:21 final size:21
Alignment explanation
Indices: 32069029--32069074 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
32069019 TTTTTTTTGG
* **
32069029 AAAAAAATAAAATTAGTTTTT
1 AAAAAAATAAAATGAGTGATT
*
32069050 AAAAAGATAAAATGAGTGATT
1 AAAAAAATAAAATGAGTGATT
32069071 AAAA
1 AAAA
32069075 TGAAAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (21 bp):
AAAAAAATAAAATGAGTGATT
Found at i:32070262 original size:20 final size:21
Alignment explanation
Indices: 32070214--32070262 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
32070204 AAGACGTGGT
* *
32070214 AAAAATAT-TTAAAATTATTT
1 AAAAATATATGAAAATTATTA
*
32070234 AAAATTATATGAAAATT-TTA
1 AAAAATATATGAAAATTATTA
32070254 AAAAATATA
1 AAAAATATA
32070263 AATTCTTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAAATATATGAAAATTATTA
Found at i:32070729 original size:8 final size:8
Alignment explanation
Indices: 32070716--32070772 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
32070706 TGAGCTAGTG
*
32070716 TATATATA
1 TATATATT
32070724 TATATATT
1 TATATATT
*
32070732 TATACATT
1 TATATATT
32070740 TATATATT
1 TATATATT
* *
32070748 AACTATTTT
1 TA-TATATT
*
32070757 TAAAT-TT
1 TATATATT
32070764 TATATATT
1 TATATATT
32070772 T
1 T
32070773 TAATTTCAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 6 0.15
8 27 0.69
9 6 0.15
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (8 bp):
TATATATT
Found at i:32070743 original size:24 final size:24
Alignment explanation
Indices: 32070716--32070770 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
32070706 TGAGCTAGTG
*
32070716 TATATATATATA-TATTTATACATT
1 TATATATATA-ACTATTTATAAATT
*
32070740 TATATAT-TAACTATTTTTAAATT
1 TATATATATAACTATTTATAAATT
32070763 T-TATATAT
1 TATATATAT
32070771 TTTAATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.22
23 14 0.52
24 7 0.26
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (24 bp):
TATATATATAACTATTTATAAATT
Found at i:32073417 original size:15 final size:15
Alignment explanation
Indices: 32073397--32073444 Score: 78
Period size: 15 Copynumber: 3.1 Consensus size: 15
32073387 TTGATCTTTC
32073397 TAGTATTATATATTA
1 TAGTATTATATATTA
32073412 TAGTATTATATATTTTA
1 TAGTATTATATA--TTA
32073429 TAGTATTATATATTA
1 TAGTATTATATATTA
32073444 T
1 T
32073445 GATTTTAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.52
17 15 0.48
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (15 bp):
TAGTATTATATATTA
Found at i:32073429 original size:17 final size:17
Alignment explanation
Indices: 32073397--32073442 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
32073387 TTGATCTTTC
32073397 TAGTATTATATA--TTA
1 TAGTATTATATATTTTA
32073412 TAGTATTATATATTTTA
1 TAGTATTATATATTTTA
32073429 TAGTATTATATATT
1 TAGTATTATATATT
32073443 ATGATTTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.41
17 17 0.59
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (17 bp):
TAGTATTATATATTTTA
Found at i:32073505 original size:17 final size:17
Alignment explanation
Indices: 32073485--32073519 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
32073475 ATATTAAGAA
32073485 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
32073502 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
32073519 T
1 T
32073520 AAAAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTAAATTATATT
Found at i:32073636 original size:16 final size:17
Alignment explanation
Indices: 32073601--32073639 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
32073591 ACATTAAGAA
*
32073601 TTTTATTAAATTACATAT
1 TTTTACTAAATTA-ATAT
32073619 TTTTACTAAATT-ATAT
1 TTTTACTAAATTAATAT
32073635 TTTTA
1 TTTTA
32073640 ATAATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTACTAAATTAATAT
Found at i:32073640 original size:119 final size:118
Alignment explanation
Indices: 32073420--32074025 Score: 961
Period size: 119 Copynumber: 5.1 Consensus size: 118
32073410 TATAGTATTA
32073420 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTC--ATAAGAATATTTAATATTAAGAA
*
32073485 TTTTATTAAATTATAT-TTTTTATTAAATTATATTTAAAAATAATTAATTTAAAT
64 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAATTTAAAT
*
32073539 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTC-TAAGAATATTTAACATTAAGAATT
1 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAAGAATATTTAATATTAAGAATT
* * *
32073603 TTATTAAATTACATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAAT
66 TTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTAATTTAAAT
32073658 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAA
1 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA--TAAGAATATTTAATATTAAGAA
*
32073723 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
64 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAATTTAAAT
* *
32073778 TATATTTAATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTC--ATAAGAATATTTAATATTAAGAA
*
32073843 ATTTATT-AATTATATATTTTTATTAAATTATATTTAATAATAATT-ATGTTAAAT
64 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAAT-TTAAAT
* *
32073897 TATATTTAATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTC--ATAAGAATATTTAATATTAAGAA
*
32073962 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT-ATGTTAAAA
64 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAAT-TTAAAT
32074017 TATATTTTA
1 TATATTTTA
32074026 AATTATTTAT
Statistics
Matches: 460, Mismatches: 17, Indels: 19
0.93 0.03 0.04
Matches are distributed among these distances:
116 36 0.08
117 15 0.03
118 1 0.00
119 213 0.46
120 142 0.31
122 53 0.12
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (118 bp):
TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAAGAATATTTAATATTAAGAATT
TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAATTTAAAT
Found at i:32073650 original size:18 final size:16
Alignment explanation
Indices: 32073601--32073643 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
32073591 ACATTAAGAA
*
32073601 TTTTATTAAATTACATAT
1 TTTTAATAAATT--ATAT
*
32073619 TTTTACTAAATTATAT
1 TTTTAATAAATTATAT
32073635 TTTTAATAA
1 TTTTAATAA
32073644 TAATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 12 0.52
18 11 0.48
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTAATAAATTATAT
Found at i:32073876 original size:16 final size:17
Alignment explanation
Indices: 32073844--32073877 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32073834 TATTAAGAAA
*
32073844 TTTATTAATTATATATT
1 TTTATTAAATATATATT
32073861 TTTATTAAAT-TATATT
1 TTTATTAAATATATATT
32073877 T
1 T
32073878 AATAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTATTAAATATATATT
Found at i:32073881 original size:239 final size:238
Alignment explanation
Indices: 32073420--32074023 Score: 1025
Period size: 239 Copynumber: 2.5 Consensus size: 238
32073410 TATAGTATTA
32073420 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
* * *
32073485 TTTTATTAAATTATAT-TTTTTATTAAATTATATTTAAAAATAATTAATTTAAATTATATTTTAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTAAT
*
32073549 AGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTAACATTAAGAATTTTATTAAATTA
131 AGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTAACATTAAGAAATTTATTAAATTA
*
32073614 CATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAAT
196 CATATTTTTACTAAATTATA-TTTTAATAATAATTATGTTAAAT
*
32073658 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAA
1 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
32073723 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTAAT
* *
32073788 AGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAAATTTATT-AA
131 AGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATTTAACATTAAGAAATTTATTAAA
* *
32073852 TTATATATTTTTATTAAATTATA-TTTAATAATAATTATGTTAAAT
193 TTACATATTTTTACTAAATTATATTTTAATAATAATTATGTTAAAT
* *
32073897 TATATTTAATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
* *
32073962 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTT
32074024 TAAATTATTT
Statistics
Matches: 347, Mismatches: 15, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
238 80 0.23
239 217 0.63
241 23 0.07
242 27 0.08
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (238 bp):
TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTAAT
AGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTAACATTAAGAAATTTATTAAATTA
CATATTTTTACTAAATTATATTTTAATAATAATTATGTTAAAT
Found at i:32074239 original size:45 final size:44
Alignment explanation
Indices: 32074156--32074251 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 44
32074146 ATTACAACAT
*
32074156 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
*
32074200 CATTACATTCAACCAAACA-ATTGAATTACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTC
32074245 CATTACA
1 CATTACA
32074252 GCTCTATTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.44
45 26 0.54
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.30
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
Found at i:32074256 original size:16 final size:16
Alignment explanation
Indices: 32074237--32074285 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
32074227 ACTATTACGC
32074237 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
* *
32074253 CTCTATTCTATTATA-
1 CTCTATTCCATTACAG
*
32074268 CTTTTATTCCATTACAG
1 C-TCTATTCCATTACAG
32074285 C
1 C
32074286 GAACCAAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.24, C:0.27, G:0.04, T:0.45
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:32075153 original size:33 final size:33
Alignment explanation
Indices: 32075116--32075244 Score: 135
Period size: 31 Copynumber: 4.0 Consensus size: 33
32075106 AGATTAATTT
32075116 ATATTTTATTTATCATTATATTAAATTATTTAA
1 ATATTTTATTTATCATTATATTAAATTATTTAA
* * *
32075149 ATATTTTATGTAT-AGTTATGTTAAATCATTTAA
1 ATATTTTATTTATCA-TTATATTAAATTATTTAA
*
32075182 ATA--TCATTTATCATTATATTAAATTATTT-A
1 ATATTTTATTTATCATTATATTAAATTATTTAA
* * *
32075212 A-ATCTTATTAATTATTATATTTAAATT-TTTAA
1 ATATTTTATTTATCATTATA-TTAAATTATTTAA
32075244 A
1 A
32075245 AACATTTTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 13
0.78 0.10 0.13
Matches are distributed among these distances:
29 1 0.01
30 2 0.03
31 35 0.44
32 11 0.14
33 31 0.39
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (33 bp):
ATATTTTATTTATCATTATATTAAATTATTTAA
Found at i:32076257 original size:3 final size:3
Alignment explanation
Indices: 32076249--32076281 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
32076239 GCCAAAGGCT
32076249 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32076282 TCTTACATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32078053 original size:30 final size:31
Alignment explanation
Indices: 32078010--32078077 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 31
32078000 TTAGTATACT
*
32078010 ACTAATACATAAAATAGTATT-ATA-ATATATA
1 ACTATTACATAAAA-A-TATTAATACATATATA
32078041 ACTATTAC-TAAAAATATTAATACATATATA
1 ACTATTACATAAAAATATTAATACATATATA
32078071 ACTATTA
1 ACTATTA
32078078 TTATCATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
28 4 0.12
29 4 0.12
30 19 0.56
31 7 0.21
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.37
Consensus pattern (31 bp):
ACTATTACATAAAAATATTAATACATATATA
Found at i:32078477 original size:43 final size:42
Alignment explanation
Indices: 32078430--32078671 Score: 272
Period size: 43 Copynumber: 5.7 Consensus size: 42
32078420 ATAAACGCTA
*
32078430 CTATAGATC-AGGACCTTTAGCGACGCTTTCTCCACAAATGCCG
1 CTATAGATCGA-GACCTTTAGCGACGCTTT-TCCACAAACGCCG
* * *
32078473 CTATAGATCAAAACCTTTAGCAACGCTTTTCTCACAAACGCCG
1 CTATAGATCGAGACCTTTAGCGACGCTTTTC-CACAAACGCCG
* *
32078516 CTATAGCTCGAGACCTTTAGCGACACTTTTTCCACAAACGCCG
1 CTATAGATCGAGACCTTTAGCGACGC-TTTTCCACAAACGCCG
* * * ** *
32078559 CTATAGCTCGAGACCTTTAGCGGCACTTTTTCCATGAACGCCA
1 CTATAGATCGAGACCTTTAGCGACGC-TTTTCCACAAACGCCG
* *
32078602 CTATAGCTCGAGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
1 CTATAGATCGAGACCTTTAGCGACGCTTTT-CCACAAACGCCG
* *
32078645 CTATAGAAC-AAACCTTTAGCGACGCTT
1 CTATAGATCGAGACCTTTAGCGACGCTT
32078672 CTCGCAAAAA
Statistics
Matches: 175, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
42 22 0.13
43 147 0.84
44 6 0.03
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (42 bp):
CTATAGATCGAGACCTTTAGCGACGCTTTTCCACAAACGCCG
Found at i:32083570 original size:21 final size:21
Alignment explanation
Indices: 32083512--32083577 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
32083502 ATAAATCCCT
32083512 AACCCATAACCCTT-AACCTTTA
1 AACCC-TAACCCTTAAACC-TTA
*
32083534 ATCCCTAACCCTTAAACCTTA
1 AACCCTAACCCTTAAACCTTA
* *
32083555 AACCCTAACCTTTAAACCATA
1 AACCCTAACCCTTAAACCTTA
32083576 AA
1 AA
32083578 TCATAAACCA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
21 31 0.79
22 8 0.21
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.26
Consensus pattern (21 bp):
AACCCTAACCCTTAAACCTTA
Found at i:32083598 original size:14 final size:14
Alignment explanation
Indices: 32083505--32083602 Score: 58
Period size: 14 Copynumber: 7.0 Consensus size: 14
32083495 ATAAAACATA
*
32083505 AATCCCTAACCCAT
1 AATCCCTAAACCAT
* *
32083519 AA-CCCTTAACCTTT
1 AATCCCTAAACC-AT
* *
32083533 AATCCCTAACCCTT
1 AATCCCTAAACCAT
* * *
32083547 AAACCTTAAACCCT
1 AATCCCTAAACCAT
*
32083561 AA-CCTTTAAACCAT
1 AATCC-CTAAACCAT
*
32083575 AAAT-CATAAACCAT
1 -AATCCCTAAACCAT
32083589 AATCCCTAAACCAT
1 AATCCCTAAACCAT
32083603 CGGAGTAACC
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
13 12 0.18
14 44 0.67
15 10 0.15
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.26
Consensus pattern (14 bp):
AATCCCTAAACCAT
Found at i:32084962 original size:41 final size:41
Alignment explanation
Indices: 32084586--32084958 Score: 430
Period size: 41 Copynumber: 9.1 Consensus size: 41
32084576 TAAATTATTT
* * * *
32084586 TAAATCCCTAAGCATTAGTGGCGCTTTCTAAAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCT-CAAAAACGCCGC
*
32084628 TAAAGCCCTGAGCATTAGTGGCGCTTTCTCAAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTC-AAAAACGCCGC
* *
32084670 TAAAGCCCTGAGCATTAGCGGCGC-TTCTCAAAAATGCCGT
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * *
32084710 TAAAGCCAC-AAGCATTAGCGGTGCTTCCTCAAAAACGCCGC
1 TAAAGCC-CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
** *
32084751 TAAAGCCCCAAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* *
32084792 TAAAGCCC-GAGCATTAGCGGCGCCTCCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * * * *
32084832 TAAATCCCCGAGCATTAGCAGCGCCTCCTCAAAAACACCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* *
32084873 TATAGCCCTTAGCATTAGCGGCGCTTT-TCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCT-CAAAAACGCCGC
* * * * *
32084914 TAAATCCCTGAGCATTAGCGGCTCTTTATTAAAAACGCCAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
32084955 TAAA
1 TAAA
32084959 TCCCCGAAAG
Statistics
Matches: 293, Mismatches: 31, Indels: 15
0.86 0.09 0.04
Matches are distributed among these distances:
40 68 0.23
41 163 0.56
42 62 0.21
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
Found at i:32099781 original size:13 final size:13
Alignment explanation
Indices: 32099755--32099798 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
32099745 TAATTGTGTT
32099755 AAATGTGTAAATG
1 AAATGTGTAAATG
32099768 AAATG-GTAAGATG
1 AAATGTGTAA-ATG
*
32099781 AAATGTTTAAATG
1 AAATGTGTAAATG
32099794 AAATG
1 AAATG
32099799 GTTTTACGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 4 0.14
13 21 0.75
14 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.30
Consensus pattern (13 bp):
AAATGTGTAAATG
Found at i:32099809 original size:26 final size:27
Alignment explanation
Indices: 32099755--32099823 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
32099745 TAATTGTGTT
* *
32099755 AAATGTGTAAATGAAATGGTAAGATG-
1 AAATGTTTAAATGAAATGGTAAGACGA
***
32099781 AAATGTTTAAATGAAATGGTTTTACGA
1 AAATGTTTAAATGAAATGGTAAGACGA
* *
32099808 AAATGCTTATATGAAA
1 AAATGTTTAAATGAAA
32099824 AAATATATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
26 21 0.60
27 14 0.40
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (27 bp):
AAATGTTTAAATGAAATGGTAAGACGA
Found at i:32099943 original size:7 final size:7
Alignment explanation
Indices: 32099931--32099961 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
32099921 TGAAATAAAG
32099931 ATGTTAA
1 ATGTTAA
32099938 ATGTTAA
1 ATGTTAA
32099945 ATGTTAA
1 ATGTTAA
32099952 ATGTTAA
1 ATGTTAA
32099959 ATG
1 ATG
32099962 AATATGTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (7 bp):
ATGTTAA
Found at i:32103042 original size:61 final size:61
Alignment explanation
Indices: 32102901--32103057 Score: 167
Period size: 61 Copynumber: 2.6 Consensus size: 61
32102891 CACGGGTAAA
* *
32102901 GGACACGGACGTGTGCCCAGGCTGTGTAACTCGCAGTTTGTGGTACAAGACCACATAGCCAG
1 GGACACGGA-GTGTGCCCAGGCTGTGTGACTCACAGTTTGTGGTACAAGACCACATAGCCAG
* * **
32102963 GGACACGGGGTGTGCCCAGGCTGTGTGACTCACTA-TTTGTGGTACAA-AGCCACA-CGGTAG
1 GGACACGGAGTGTGCCCAGGCTGTGTGACTCAC-AGTTTGTGGTACAAGA-CCACATAGCCAG
* * * *
32103023 GGACATTGGAGTGTACCCAGGCCGTGTGAGTCACA
1 GGACA-CGGAGTGTGCCCAGGCTGTGTGACTCACA
32103058 TGGGCAGGGA
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
60 10 0.12
61 62 0.77
62 9 0.11
ACGTcount: A:0.23, C:0.24, G:0.32, T:0.20
Consensus pattern (61 bp):
GGACACGGAGTGTGCCCAGGCTGTGTGACTCACAGTTTGTGGTACAAGACCACATAGCCAG
Found at i:32103615 original size:9 final size:9
Alignment explanation
Indices: 32103601--32103699 Score: 126
Period size: 9 Copynumber: 10.6 Consensus size: 9
32103591 TTTGGTTAAA
32103601 AATTACCCG
1 AATTACCCG
32103610 AATTACCCG
1 AATTACCCG
*
32103619 ACTTACCCG
1 AATTACCCG
32103628 AATTACCCG
1 AATTACCCG
* *
32103637 AAAATTACTCA
1 --AATTACCCG
32103648 AATTACCCG
1 AATTACCCG
*
32103657 AATTACTCG
1 AATTACCCG
32103666 AAAATTACCCG
1 --AATTACCCG
32103677 AATTACCCG
1 AATTACCCG
32103686 AATTACCCG
1 AATTACCCG
32103695 AATTA
1 AATTA
32103700 AATCACTACA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
9 63 0.81
11 15 0.19
ACGTcount: A:0.37, C:0.29, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:32103644 original size:38 final size:39
Alignment explanation
Indices: 32103599--32103699 Score: 136
Period size: 38 Copynumber: 2.6 Consensus size: 39
32103589 TTTTTGGTTA
*
32103599 AAAATTACCCGAATTACCCGACTTACCCG-AATTACCCG
1 AAAATTACCCGAATTACCCGAATTACCCGAAATTACCCG
* * *
32103637 AAAATTACTCAAATTACCCGAATTACTCGAAAATTACCCG
1 AAAATTACCCGAATTACCCGAATTACCCG-AAATTACCCG
32103677 --AATTACCCGAATTACCCGAATTA
1 AAAATTACCCGAATTACCCGAATTA
32103700 AATCACTACA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
38 46 0.84
40 9 0.16
ACGTcount: A:0.39, C:0.29, G:0.09, T:0.24
Consensus pattern (39 bp):
AAAATTACCCGAATTACCCGAATTACCCGAAATTACCCG
Found at i:32103651 original size:20 final size:18
Alignment explanation
Indices: 32103610--32103699 Score: 99
Period size: 20 Copynumber: 4.8 Consensus size: 18
32103600 AAATTACCCG
* * *
32103610 AATTACCCGACTTACCCG
1 AATTACCCGAATTACTCA
32103628 AATTACCCGAAAATTACTCA
1 AATTACCCG--AATTACTCA
32103648 AATTACCCGAATTACTCGAA
1 AATTACCCGAATTACTC--A
* *
32103668 AATTACCCGAATTACCCG
1 AATTACCCGAATTACTCA
32103686 AATTACCCGAATTA
1 AATTACCCGAATTA
32103700 AATCACTACA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
18 31 0.49
20 32 0.51
ACGTcount: A:0.38, C:0.29, G:0.09, T:0.24
Consensus pattern (18 bp):
AATTACCCGAATTACTCA
Found at i:32103653 original size:29 final size:29
Alignment explanation
Indices: 32103602--32103699 Score: 64
Period size: 29 Copynumber: 3.4 Consensus size: 29
32103592 TTGGTTAAAA
* *
32103602 ATTACCCGAATTACCCG--ACTTACCCGA
1 ATTACCCGAATTACCCGAAAATTACCCAA
* *
32103629 ATTACCCGAAAATTACTC--AAATTACCCGA
1 ATTACCCG--AATTACCCGAAAATTACCCAA
* *
32103658 ATTACTCGAAAATTACCCG--AATTACCCGA
1 ATTACCCG--AATTACCCGAAAATTACCCAA
32103687 ATTACCCGAATTA
1 ATTACCCGAATTA
32103700 AATCACTACA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
27 13 0.21
29 49 0.79
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.24
Consensus pattern (29 bp):
ATTACCCGAATTACCCGAAAATTACCCAA
Found at i:32103743 original size:37 final size:37
Alignment explanation
Indices: 32103697--32103836 Score: 194
Period size: 37 Copynumber: 3.8 Consensus size: 37
32103687 ATTACCCGAA
* *
32103697 TTAAATCACTACATAATTAAAAGCATTACATAAATCT
1 TTAAATCACTACATAATTAAAAACATTACATAAGTCT
32103734 TTAAATCACTACATAATT-AAAACTATTACAT-AGTCT
1 TTAAATCACTACATAATTAAAAAC-ATTACATAAGTCT
*
32103770 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTAAATCACTACATAATTAAAAACATTACATAAGTCT
* *
32103807 TGAATTAACACTACATAATTAAAAACATTA
1 TTAA--ATCACTACATAATTAAAAACATTA
32103837 ATTACAATAT
Statistics
Matches: 92, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
36 32 0.35
37 37 0.40
39 23 0.25
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.33
Consensus pattern (37 bp):
TTAAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:32103748 original size:20 final size:18
Alignment explanation
Indices: 32103697--32103749 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 18
32103687 ATTACCCGAA
32103697 TTAAATCACTACAT-AAT
1 TTAAATCACTACATAAAT
* * *
32103714 TAAAAGCATTACATAAATCT
1 TTAAATCACTACATAAA--T
32103734 TTAAATCACTACATAA
1 TTAAATCACTACATAA
32103750 TTAAAACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 11 0.41
18 2 0.07
20 14 0.52
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (18 bp):
TTAAATCACTACATAAAT
Found at i:32105072 original size:16 final size:16
Alignment explanation
Indices: 32105051--32105090 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
32105041 GCCTAAGAGA
32105051 AAATTGGGCTAGATTT
1 AAATTGGGCTAGATTT
* *
32105067 AAATTGGGCTGGGTTT
1 AAATTGGGCTAGATTT
32105083 AAATTGGG
1 AAATTGGG
32105091 AGGGAGTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.33, T:0.35
Consensus pattern (16 bp):
AAATTGGGCTAGATTT
Found at i:32107514 original size:4 final size:4
Alignment explanation
Indices: 32107505--32107533 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
32107495 TGCAGGTACC
32107505 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
32107534 CTGTTCCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Done.