Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 100 of 279
Found at i:32180188 original size:6 final size:6
Alignment explanation
Indices: 32180180--32180226 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
32180170 TTCTCCTCCA
* * * *
32180180 CCACCA CCACCT CCACCT CCACCT CCACCT CTACCT CTACCG CCACC
1 CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACC
32180227 ACTTCCGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.19, C:0.64, G:0.02, T:0.15
Consensus pattern (6 bp):
CCACCT
Found at i:32180372 original size:12 final size:12
Alignment explanation
Indices: 32180341--32180382 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
32180331 CTACACCATT
*
32180341 CCCATACCCAGA
1 CCCATATCCAGA
* *
32180353 CCCGTATCCGGA
1 CCCATATCCAGA
32180365 CCCATATCCAGA
1 CCCATATCCAGA
32180377 CCCATA
1 CCCATA
32180383 CCCTTGGCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.29, C:0.45, G:0.12, T:0.14
Consensus pattern (12 bp):
CCCATATCCAGA
Found at i:32180526 original size:24 final size:24
Alignment explanation
Indices: 32180482--32180528 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
32180472 CGGAACCCCT
**
32180482 TCCAGAACCATACCCTGAACCATA
1 TCCAGAACCATACCCCAAACCATA
32180506 TCCAGAACC-TGACCCCAAACCAT
1 TCCAGAACCAT-ACCCCAAACCAT
32180529 TAGCACCACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.36, C:0.40, G:0.09, T:0.15
Consensus pattern (24 bp):
TCCAGAACCATACCCCAAACCATA
Found at i:32180587 original size:21 final size:21
Alignment explanation
Indices: 32180532--32180581 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
32180522 AAACCATTAG
* *
32180532 CACCACCTCCACCTCCACCAC
1 CACCTCCTCCTCCTCCACCAC
**
32180553 TTCCTCCTCCTCCTCCACCAC
1 CACCTCCTCCTCCTCCACCAC
32180574 CACCTCCT
1 CACCTCCT
32180582 TTTCCTACAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.64, G:0.00, T:0.20
Consensus pattern (21 bp):
CACCTCCTCCTCCTCCACCAC
Found at i:32183360 original size:18 final size:18
Alignment explanation
Indices: 32183339--32183373 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
32183329 ATATATATCT
32183339 TAAAATATGGTAATGGGC
1 TAAAATATGGTAATGGGC
32183357 TAAAATATGGTAATGGG
1 TAAAATATGGTAATGGG
32183374 ATTGTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (18 bp):
TAAAATATGGTAATGGGC
Found at i:32186412 original size:28 final size:30
Alignment explanation
Indices: 32186352--32186413 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 30
32186342 TTATGTCAAA
**
32186352 AATC-TTTCAAAAAAAAAACATTTCAAACC
1 AATCATTTCAAAAAAAAAACATTAAAAACC
32186381 --TCATTT-AAAAAAAAAAC-TTAAAAACC
1 AATCATTTCAAAAAAAAAACATTAAAAACC
32186407 AATCATT
1 AATCATT
32186414 CTTTTCTCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
26 7 0.25
27 13 0.46
28 8 0.29
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (30 bp):
AATCATTTCAAAAAAAAAACATTAAAAACC
Found at i:32186802 original size:16 final size:16
Alignment explanation
Indices: 32186777--32186809 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32186767 TTTATTTACT
32186777 TCAGAAAAAAATAAAA
1 TCAGAAAAAAATAAAA
*
32186793 TCAGATAAAAATAAAA
1 TCAGAAAAAAATAAAA
32186809 T
1 T
32186810 TTCTACCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (16 bp):
TCAGAAAAAAATAAAA
Found at i:32187795 original size:45 final size:45
Alignment explanation
Indices: 32187733--32188032 Score: 207
Period size: 44 Copynumber: 6.7 Consensus size: 45
32187723 TTGTGGCATA
*
32187733 AATCTACT-CTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTT
1 AATCTACTCCT-CTGCAACTTCAGAGAGATAAGATTTGCTAACTTT
* * *
32187778 GATCTACTCGTCTGCAACTTCAGAGAGATAAGATCTG-TAACTTT
1 AATCTACTCCTCTGCAACTTCAGAGAGATAAGATTTGCTAACTTT
* * * * * * * *
32187822 AATTTTCTCCACTGTAACTTCAGGGAGATAAGGTTT-ATAGCTTT
1 AATCTACTCCTCTGCAACTTCAGAGAGATAAGATTTGCTAACTTT
* * * * *
32187866 AATCTGC-CCTACTGCAAATTTAGAAAGATAAGATTTGCTAACTTC
1 AATCTACTCCT-CTGCAACTTCAGAGAGATAAGATTTGCTAACTTT
* * * * * **
32187911 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTTG-TGGCTTT
1 AATCTACTCCTCTGCAACTTCAGAGAGATAAGATTTGCTAACTTT
** * * * * * * *
32187955 AATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTTC
1 AATCTACTCCTCTGCAACTTCAGAGAGATAAGATTTGCTAACTTT
* * *
32188000 AGTCTGCTCCACTGCAACTTCAG-GAAGATAAGA
1 AATCTACTCCTCTGCAACTTCAGAG-AGATAAGA
32188033 CTTGTGGCTT
Statistics
Matches: 199, Mismatches: 49, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
43 2 0.01
44 99 0.50
45 95 0.48
46 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (45 bp):
AATCTACTCCTCTGCAACTTCAGAGAGATAAGATTTGCTAACTTT
Found at i:32187929 original size:133 final size:133
Alignment explanation
Indices: 32187686--32187989 Score: 333
Period size: 133 Copynumber: 2.3 Consensus size: 133
32187676 AATTTGTAGT
* * * * * * *
32187686 TTTAATCTGTTCCACTATAACTTTAGGGATATAAGATTTGTGGCATAAATCTACTCTACTGCAAC
1 TTTAATCTGTTCCACTGTAACTTCAGGGAGATAAGATTTATAGCATAAATCTACCCTACTGCAAA
* * ** ** *
32187751 TTCAGAGAGATAAGATTTGCTATCTTTGATCTACTCGTCTGCAACTTCAGAGAGATAAGA-TCTG
66 TTCAGAAAGATAAGATTTGCTAACTTCAATCTACTCCACTACAACTTCAGAGAGATAAGACT-TG
32187815 TAAC
130 TAAC
* * * * *
32187819 TTTAAT-TTTCTCCACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGCCCTACTGCAA
1 TTTAATCTGT-TCCACTGTAACTTCAGGGAGATAAGATTTATAGCATAAATCTACCCTACTGCAA
* * *
32187883 ATTTAGAAAGATAAGATTTGCTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTG
65 ATTCAGAAAGATAAGATTTGCTAACTTCAATCTACTCCACTACAACTTCAGAGAGATAAGACTTG
**
32187948 TGGC
130 TAAC
* * *
32187952 TTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATT
1 TTTAATCTGTTCCACTGTAACTTCAGGGAGATAAGATT
32187990 CGCTATCTTC
Statistics
Matches: 139, Mismatches: 29, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
132 2 0.01
133 134 0.96
134 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (133 bp):
TTTAATCTGTTCCACTGTAACTTCAGGGAGATAAGATTTATAGCATAAATCTACCCTACTGCAAA
TTCAGAAAGATAAGATTTGCTAACTTCAATCTACTCCACTACAACTTCAGAGAGATAAGACTTGT
AAC
Found at i:32188079 original size:89 final size:89
Alignment explanation
Indices: 32187733--32188080 Score: 337
Period size: 89 Copynumber: 3.9 Consensus size: 89
32187723 TTGTGGCATA
* * * * ** * *
32187733 AATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTTGATCTACTCGT-CTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TGGCTTTAATCTGCTC-TACTGCAACT
* *
32187797 TC-AGAGAGATAAGA-TCTG-TAACTTT
64 TCAAG-GAAATAAGATTC-GCTAACTTC
* * * ** * * * *
32187822 AATTTTCTCCACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGCCCTACTGCAAATT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCTACTGCAACTTC
* * *
32187886 TAGAAAGATAAGATTTGCTAACTTC
66 AAGGAA-ATAAGATTCGCTAACTTC
* * *
32187911 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGTTCCACTGCAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCTACTGCAACTTC
* * *
32187976 AGGGAAATGAGATTCGCTATCTTC
66 AAGGAAATAAGATTCGCTAACTTC
* * *
32188000 AGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTGGCTTTAATCTGCTCTACTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCTACTGCAACTTC
32188065 AAGGAAATAAGATTCG
66 AAGGAAATAAGATTCG
32188081 TTACGATGAC
Statistics
Matches: 211, Mismatches: 42, Indels: 12
0.80 0.16 0.05
Matches are distributed among these distances:
87 2 0.01
88 29 0.14
89 177 0.84
90 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (89 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCTACTGCAACTTC
AAGGAAATAAGATTCGCTAACTTC
Found at i:32199874 original size:17 final size:17
Alignment explanation
Indices: 32199852--32199884 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32199842 GTGATATTAA
*
32199852 TAATAAAATAAATAAAG
1 TAATAAAAGAAATAAAG
32199869 TAATAAAAGAAATAAA
1 TAATAAAAGAAATAAA
32199885 ATGCGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
TAATAAAAGAAATAAAG
Found at i:32200600 original size:14 final size:14
Alignment explanation
Indices: 32200581--32200608 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32200571 TATTTAAGTC
32200581 AAAAAAATTTCAAA
1 AAAAAAATTTCAAA
32200595 AAAAAAATTTCAAA
1 AAAAAAATTTCAAA
32200609 CCTCATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAAAATTTCAAA
Found at i:32203213 original size:36 final size:38
Alignment explanation
Indices: 32203164--32203247 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 38
32203154 TTTTTAACAA
*
32203164 TTTTATATTAATTTTAATAT-TTTTATT-TTTTATGA-TT
1 TTTTATA-AAATTTTAATATGTTTTATTATTTTAT-ATTT
32203201 TTTTATAAAATTTTAATATGTTTTATTAATTTTATATTT
1 TTTTATAAAATTTTAATATGTTTTATT-ATTTTATATTT
32203240 TTTTATAA
1 TTTTATAA
32203248 CTTATTAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
36 11 0.26
37 14 0.33
38 1 0.02
39 16 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (38 bp):
TTTTATAAAATTTTAATATGTTTTATTATTTTATATTT
Found at i:32203225 original size:46 final size:49
Alignment explanation
Indices: 32203143--32203242 Score: 129
Period size: 47 Copynumber: 2.1 Consensus size: 49
32203133 CCCGTTCAAA
32203143 TTTTTATGATTTTTTTAACAATTTTATATTAATTTTAAT-ATTTT-TAT
1 TTTTTATGATTTTTTTAACAATTTTATATTAATTTTAATAATTTTATAT
* *
32203190 TTTTTATGATTTTTTATAA-AATTTTA-A-TATGTTTTATTAATTTTATAT
1 TTTTTATGATTTTTT-TAACAATTTTATATTA-ATTTTAATAATTTTATAT
32203238 TTTTT
1 TTTTT
32203243 TATAACTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
45 2 0.04
46 7 0.15
47 27 0.57
48 11 0.23
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (49 bp):
TTTTTATGATTTTTTTAACAATTTTATATTAATTTTAATAATTTTATAT
Found at i:32203252 original size:26 final size:27
Alignment explanation
Indices: 32203223--32203274 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
32203213 TTAATATGTT
*
32203223 TTATTA-ATTT-TATATTTTTTTATAAC
1 TTATTAGATTTAT-TATATTTTTATAAC
32203249 TTATTAGATTTATTATATTTTTATAA
1 TTATTAGATTTATTATATTTTTATAA
32203275 GGTCATATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 16 0.70
28 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (27 bp):
TTATTAGATTTATTATATTTTTATAAC
Found at i:32203337 original size:10 final size:10
Alignment explanation
Indices: 32203319--32203374 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
32203309 TAAATTTATA
*
32203319 TTTTGATAAT
1 TTTTTATAAT
32203329 TTTTTATAATT
1 TTTTTATAA-T
32203340 TTTTTGATAAT
1 TTTTT-ATAAT
32203351 TTTTCTA-AAT
1 TTTT-TATAAT
* *
32203361 TTTTAATCAT
1 TTTTTATAAT
32203371 TTTT
1 TTTT
32203375 ATGGAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 1 0.03
10 21 0.54
11 12 0.31
12 5 0.13
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:32203347 original size:22 final size:22
Alignment explanation
Indices: 32203319--32203364 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
32203309 TAAATTTATA
32203319 TTTTGATAATTTTT-TATAATTT
1 TTTTGATAATTTTTCTA-AATTT
32203341 TTTTGATAATTTTTCTAAATTT
1 TTTTGATAATTTTTCTAAATTT
32203363 TT
1 TT
32203365 AATCATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTGATAATTTTTCTAAATTT
Found at i:32203349 original size:12 final size:12
Alignment explanation
Indices: 32203319--32203354 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
32203309 TAAATTTATA
32203319 TTTTGATAA-TT
1 TTTTGATAATTT
32203330 TTTT-ATAATTT
1 TTTTGATAATTT
32203341 TTTTGATAATTT
1 TTTTGATAATTT
32203353 TT
1 TT
32203355 CTAAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.17
11 10 0.43
12 9 0.39
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (12 bp):
TTTTGATAATTT
Found at i:32212655 original size:15 final size:14
Alignment explanation
Indices: 32212599--32212715 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
32212589 TTATTATGTT
*
32212599 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
32212613 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
32212627 TACTATTATTATTTA
1 T-CTATTTTTATTTA
32212642 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
32212657 TCTATTTATATTTC
1 TCTATTTTTATTTA
*
32212671 TACTATTATTATATT-
1 T-CTATTTTTAT-TTA
32212686 TCTATTTATTATATT-
1 TCTATTT-TTAT-TTA
* *
32212701 TTTATTTCTATTTA
1 TCTATTTTTATTTA
32212715 T
1 T
32212716 ATACTAATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 4 0.05
14 24 0.29
15 37 0.45
16 4 0.05
17 7 0.09
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:32212668 original size:29 final size:28
Alignment explanation
Indices: 32212587--32212694 Score: 82
Period size: 29 Copynumber: 3.8 Consensus size: 28
32212577 TTATCGCTAT
32212587 TATTATTATGTT-TCTATTTATATTTAT-
1 TATTATTAT-TTATCTATTTATATTTATC
*
32212614 T-TTGTTATTCTAATACTA-TTATTATTTATC
1 TATTATTATT-T-AT-CTATTTA-TATTTATC
* *
32212644 TAATTTTTATTTATCTATTTATATTTCTAC
1 T-ATTATTATTTATCTATTTATATTTAT-C
32212674 TATTATTATATT-TCTATTTAT
1 TATTATTAT-TTATCTATTTAT
32212695 TATATTTTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 4 0.06
29 35 0.53
30 10 0.15
31 1 0.02
32 7 0.11
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (28 bp):
TATTATTATTTATCTATTTATATTTATC
Found at i:32212684 original size:17 final size:15
Alignment explanation
Indices: 32212662--32212707 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
32212652 ATTTATCTAT
32212662 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
32212679 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
32212694 TTATATTTTTATTT
1 TTATATTTCTATTT
32212708 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:32212751 original size:52 final size:54
Alignment explanation
Indices: 32212630--32212751 Score: 125
Period size: 52 Copynumber: 2.4 Consensus size: 54
32212620 ATTCTAATAC
* * *
32212630 TATTATTATTTATC-TA-ATTTTTATTTATCTATTTATATTTCTACTATTATTA
1 TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
* *
32212682 TATT-TCTA--TTTATTATATTTTTA-TT-TCTATTTATA-TACTAATATTATTT
1 TATTAT-TATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
32212731 TCATTATTATTTTTCTTATAT
1 T-ATTATTATTTTTCTTATAT
32212752 ATGTTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
49 12 0.21
50 17 0.30
51 6 0.11
52 22 0.39
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (54 bp):
TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
Found at i:32213317 original size:126 final size:126
Alignment explanation
Indices: 32213079--32213317 Score: 336
Period size: 126 Copynumber: 1.9 Consensus size: 126
32213069 GTTCGAGGAA
* * * * *
32213079 TCGTGCCCTATCGTGCTGGGTTTCGATTTTTCTTCAACTAAAATACGGAATATCCTTTTGAAATT
1 TCGTGCCCAATCGTGCTGGGCTTCGATTTTCCTTCAACTAAAATACAGAACATCCTTTTGAAATT
* * *
32213144 TCATCCATGTTTTTTTAAAATTAAAACGAGGCAATATTTTGTGTTTGGGGGGTTTGGGAGG
66 TCATCCATGTTTTTCTAAAATTAAAACGAGGCAATATTTCGTATTTGGGGGGTTTGGGAGG
* * *
32213205 TCGTGCCCAATCTTGTTGGGCTTCGATTTTCCATTCGACTAAAATACAGAACATCCTTTTGAAAT
1 TCGTGCCCAATCGTGCTGGGCTTCGATTTTCC-TTCAACTAAAATACAGAACATCCTTTTGAAAT
* * *
32213270 TTCATCCATG-TTTTCTCAAATTAAAATGAGGCAATGTTTCGTATTTGG
65 TTCATCCATGTTTTTCTAAAATTAAAACGAGGCAATATTTCGTATTTGG
32213318 AAATTCGATA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
126 59 0.60
127 39 0.40
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (126 bp):
TCGTGCCCAATCGTGCTGGGCTTCGATTTTCCTTCAACTAAAATACAGAACATCCTTTTGAAATT
TCATCCATGTTTTTCTAAAATTAAAACGAGGCAATATTTCGTATTTGGGGGGTTTGGGAGG
Found at i:32214843 original size:19 final size:18
Alignment explanation
Indices: 32214821--32214866 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
32214811 ATTTCTTTCT
*
32214821 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTGCAT-CA
*
32214840 TTTGCATAGCATTGCATCA
1 TTTGCAT-TCATTGCATCA
32214859 TTTGCATT
1 TTTGCATT
32214867 AGATTTTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.46
Consensus pattern (18 bp):
TTTGCATTCATTGCATCA
Found at i:32214865 original size:9 final size:10
Alignment explanation
Indices: 32214821--32214865 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
32214811 ATTTCTTTCT
*
32214821 TTTGCATTCA
1 TTTGCATGCA
32214831 TTT-CATGCA
1 TTTGCATGCA
32214840 TTTGCATAGCA
1 TTTGCAT-GCA
32214851 -TTGCAT-CA
1 TTTGCATGCA
32214859 TTTGCAT
1 TTTGCAT
32214866 TAGATTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
8 2 0.06
9 14 0.45
10 12 0.39
11 3 0.10
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.44
Consensus pattern (10 bp):
TTTGCATGCA
Found at i:32217294 original size:26 final size:25
Alignment explanation
Indices: 32217265--32217322 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
32217255 CCTAATACAG
*
32217265 CAAAAGAGGCCAAA-AAGAAAAAAAAA
1 CAAAAAAGG-CAAAGAA-AAAAAAAAA
* *
32217291 CAAAAAAGGGAAAGAAAAAACAAAA
1 CAAAAAAGGCAAAGAAAAAAAAAAA
32217316 CAAAAAA
1 CAAAAAA
32217323 CAACAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.76, C:0.10, G:0.14, T:0.00
Consensus pattern (25 bp):
CAAAAAAGGCAAAGAAAAAAAAAAA
Found at i:32219386 original size:45 final size:45
Alignment explanation
Indices: 32219337--32219814 Score: 194
Period size: 45 Copynumber: 10.7 Consensus size: 45
32219327 AAGTTACAGA
*
32219337 TCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATAGCGAG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATAGCGAG
* * * **
32219382 TCTTATCTCCATGTATTGGCTATGGAGTAGATTTTAGCCATA---AG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGA--TCAGAAATAGCGAG
* * * *
32219426 TCTTATCTTCC-TG-A--AGTTACAGGAAGCAGA-CTGAAAAGTTATG-GA-
1 TCTTATC-TCCATGTATCGGCTA-TGG-AGCAGATCAG-AAA--TA-GCGAG
*
32219471 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATAGCGAG
* *** *** *
32219516 TCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGCCA-CAAG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATAGCGAG
* * * * **
32219560 TCTTATCTTCCTAAAGT-T--GC-AAGAAGCAGA-CTGAAA-AGTTATAG
1 TCTTATC-TCC--ATGTATCGGCTATGGAGCAGATCAGAAATAG--CGAG
* * *
32219604 ATCTTATCTCCATGTATCAGCTATAGAGCAGATCAGAAATGGCGAG
1 -TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATAGCGAG
* * * *** *** *
32219650 TCATATCTCCATGTATCGGTTATAGAGCAGATTTTAGCCA-CTAG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATAGCGAG
* * * * *
32219694 TCTTATCTTCTTGAAGT-TGC-A-GGAAGCAGA-CTAAAAATTA-C-AG
1 TCTTATCTCCATGTA-TCGGCTATGG-AGCAGATC-AGAAA-TAGCGAG
* *
32219737 ATCTTATCTCCATGTATCGGCTATCGAGCAGATCAGAAATGGCGAG
1 -TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATAGCGAG
*
32219783 TCTTATCTCCATGTATCGACTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
32219815 TTTAGCCACC
Statistics
Matches: 312, Mismatches: 79, Indels: 84
0.66 0.17 0.18
Matches are distributed among these distances:
40 1 0.00
41 5 0.02
42 8 0.03
43 29 0.09
44 65 0.21
45 157 0.50
46 25 0.08
47 18 0.06
48 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATAGCGAG
Found at i:32219527 original size:134 final size:133
Alignment explanation
Indices: 32219249--32219840 Score: 891
Period size: 134 Copynumber: 4.4 Consensus size: 133
32219239 AAATTATAGA
* *
32219249 TCTTATCTTCATGTATCGACTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA-TAGTCTTATCTTCCTGAAGTTGCA
* *
32219314 GGAAGCAGACTG-AAAGTTACAGATCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATAG
65 GGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGG
32219378 CGAG
130 CGAG
* * *
32219382 TCTTATCTCCATGTATTGGCTATGGAGTAGATTTTAGCCATAAGTCTTATCTTCCTGAAGTTACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCAT-AGTCTTATCTTCCTGAAGTTGCA
**
32219447 GGAAGCAGACTGAAAAGTTATGGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGG
65 GGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGG
32219512 CGAG
130 CGAG
* * *
32219516 TCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTAAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA-TAGTCTTATCTTCCTGAAGTTGCA
* * * *
32219581 AGAAGCAGACTGAAAAGTTATAGATCTTATCTCCATGTATCAGCTATAGAGCAGATCAGAAATGG
65 GGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGG
32219646 CGAG
130 CGAG
* * * *
32219650 TCATATCTCCATGTATCGGTTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCTTGAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA-TAGTCTTATCTTCCTGAAGTTGCA
* *
32219715 GGAAGCAGACT-AAAAATTACAGATCTTATCTCCATGTATCGGCTATCGAGCAGATCAGAAATGG
65 GGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGG
32219779 CGAG
130 CGAG
* * * *
32219783 TCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTTTCTGA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA-TAGTCTTATCTTCCTGA
32219841 GGTAGCAAGA
Statistics
Matches: 419, Mismatches: 37, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
132 1 0.00
133 173 0.41
134 245 0.58
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (133 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCATAGTCTTATCTTCCTGAAGTTGCAG
GAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGC
GAG
Found at i:32219744 original size:267 final size:267
Alignment explanation
Indices: 32219249--32219835 Score: 928
Period size: 267 Copynumber: 2.2 Consensus size: 267
32219239 AAATTATAGA
* * *
32219249 TCTTATCTTCATGTATCGACTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
1 TCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTAAAGTTGCA
* *
32219314 GGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATAGC
66 AGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGACTATAGAGCAGATCAGAAATAGC
* * * *
32219379 GAGTCTTATCTCCATGTATTGGCTATGGAGTAGATTTTAGCCATAAGTCTTATCTTCCTGAAGTT
131 GAGTCATATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCATAAGTCTTATCTTCCTGAAGTT
* ** *
32219444 ACAGGAAGCAGACTGAAAAGTTATGGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAA
196 ACAGGAAGCAGACTGAAAAATTACAGATCTTATCTCCATGTATCGGCTATCGAGCAGATCAGAAA
32219509 TGGCGAG
261 TGGCGAG
**
32219516 TCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTAAAGTTGCA
1 TCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTAAAGTTGCA
* *
32219581 AGAAGCAGACTGAAAAGTTATAGATCTTATCTCCATGTATC-AGCTATAGAGCAGATCAGAAATG
66 AGAAGCAGACTG-AAAGTTACAGATCTTATCTCCATGTATCGA-CTATAGAGCAGATCAGAAATA
* *
32219645 GCGAGTCATATCTCCATGTATCGGTTATAGAGCAGATTTTAGCCACT-AGTCTTATCTTCTTGAA
129 GCGAGTCATATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCA-TAAGTCTTATCTTCCTGAA
*
32219709 GTTGCAGGAAGCAGACT-AAAAATTACAGATCTTATCTCCATGTATCGGCTATCGAGCAGATCAG
193 GTTACAGGAAGCAGACTGAAAAATTACAGATCTTATCTCCATGTATCGGCTATCGAGCAGATCAG
32219773 AAATGGCGAG
258 AAATGGCGAG
* *
32219783 TCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTT
1 TCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACAAGTCTTATCTT
32219836 TCTGAGGTAG
Statistics
Matches: 293, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
267 174 0.59
268 118 0.40
269 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (267 bp):
TCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTAAAGTTGCA
AGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGACTATAGAGCAGATCAGAAATAGC
GAGTCATATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCATAAGTCTTATCTTCCTGAAGTT
ACAGGAAGCAGACTGAAAAATTACAGATCTTATCTCCATGTATCGGCTATCGAGCAGATCAGAAA
TGGCGAG
Found at i:32219875 original size:133 final size:133
Alignment explanation
Indices: 32219065--32219883 Score: 829
Period size: 133 Copynumber: 6.1 Consensus size: 133
32219055 CGGTAAAAAT
* *
32219065 TACAGATCTTATCTCTATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTTCATGT
1 TACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGT
* * * * * * * **
32219130 ATC-AGCTATAGAGTAGATTTAAGCCATC-GGCCTTATC-TCTCTGAGGCAGCAAGAGAGCAGGT
66 ATCGA-CTATGGAGCAGATTTTAGCCA-CAAGTCTTATCTTC-CTGAAGTAGCAAGA-AGCAGAC
32219192 TG-AAGA
127 TGAAAGA
* * * * * * * * * ***
32219198 TAC-GAGCCTTAACCCCCTAAGCAGTAGGGTAATAG-GCTGA--A-AAAT-TATAGATCTTATCT
1 TACAGA-TCTT-ATCTCC-ATGTA-TCGGCT-ATGGAGCAGATCAGAAATGGCGAG-TCTTATCT
* * * *
32219257 TCATGTATCGACTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGAAGCAG
60 CCATGTATCGACTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTAGCAAGAAGCAG
*
32219322 ACTGAAAGT
125 ACTGAAAGA
* *
32219331 TACAGATCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATAGCGAGTCTTATCTCCATGT
1 TACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGT
* * * * *
32219396 ATTGGCTATGGAGTAGATTTTAGCCATAAGTCTTATCTTCCTGAAGTTA-CAGGAAGCAGACTGA
66 ATCGACTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAG-TAGCAAGAAGCAGACTG-
*
32219460 AAAGT
129 AAAGA
**
32219465 TATGGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGT
1 TACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGT
** * *
32219530 ATCGGTTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTAAAGTTGCAAGAAGCAGACTGAA
66 ATCGACTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTAGCAAGAAGCAGACTG-A
*
32219595 AAGT
130 AAGA
* * * *
32219599 TATAGATCTTATCTCCATGTATCAGCTATAGAGCAGATCAGAAATGGCGAGTCATATCTCCATGT
1 TACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGT
** * * * * *
32219664 ATCGGTTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACT-AA
66 ATCGACTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTAGCAAGAAGCAGACTGAA
*
32219728 AAA
131 AGA
*
32219731 TTACAGATCTTATCTCCATGTATCGGCTATCGAGCAGATCAGAAATGGCGAGTCTTATCTCCATG
1 -TACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATG
* * * * **
32219796 TATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTG
65 TATCGACTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTAGCAAGA-AGCAGACTG
32219861 -AAGA
129 AAAGA
*
32219865 TACA-AGTCTTATCTTCATG
1 TACAGA-TCTTATCTCCATG
32219884 AAGTTGCAAG
Statistics
Matches: 578, Mismatches: 85, Indels: 46
0.82 0.12 0.06
Matches are distributed among these distances:
129 3 0.01
130 7 0.01
131 3 0.01
132 21 0.04
133 265 0.46
134 265 0.46
135 3 0.01
136 8 0.01
137 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (133 bp):
TACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGT
ATCGACTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTAGCAAGAAGCAGACTGAA
AGA
Found at i:32219915 original size:178 final size:177
Alignment explanation
Indices: 32219692--32220018 Score: 503
Period size: 178 Copynumber: 1.8 Consensus size: 177
32219682 TTTAGCCACT
* * * * *
32219692 AGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGG
1 AGTCTTATCTTCATGAAGTTGCAAGAAGCAAAATAAAAATTACAGATCTTATCTCCATGTATCGA
*
32219757 CTATCGAGCAGATCAGAAATGGCGAGTCTTATCTCC-ATGTATCGACTATGGAGCAGATTTTAGC
66 CTATCGAGCAAATCAGAAATGGCGAGTCTTATCTCCAAT-TATCGACTATGGAGCAGATTTTAGC
32219821 CACCAGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
130 CACCAGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
* *
32219869 AGTCTTATCTTCATGAAGTTGCAAGAAGCAAAATGAAAATTTACAGATCTTATCTCCATGTATCT
1 AGTCTTATCTTCATGAAGTTGCAAGAAGCAAAAT-AAAAATTACAGATCTTATCTCCATGTATCG
* * * *
32219934 ACTATGGAGCAAATCAGAAATGGCGAGTCTTATCTCCAATTATTGGCTTTGGAGCAGATTTTAGC
65 ACTATCGAGCAAATCAGAAATGGCGAGTCTTATCTCCAATTATCGACTATGGAGCAGATTTTAGC
* *
32219999 CACTAGTCTTATCTTTCTGA
130 CACCAGCCTTATCTTTCTGA
32220019 AGTTGCAGGA
Statistics
Matches: 134, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
177 30 0.22
178 102 0.76
179 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (177 bp):
AGTCTTATCTTCATGAAGTTGCAAGAAGCAAAATAAAAATTACAGATCTTATCTCCATGTATCGA
CTATCGAGCAAATCAGAAATGGCGAGTCTTATCTCCAATTATCGACTATGGAGCAGATTTTAGCC
ACCAGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
Found at i:32219924 original size:311 final size:312
Alignment explanation
Indices: 32219555--32220125 Score: 927
Period size: 311 Copynumber: 1.8 Consensus size: 312
32219545 GATTTTAGCC
* * * *
32219555 ACAAGTCTTATCTTCCTAAAGTTGCAAGAAGCAGACTGAAAAGTTATAGATCTTATCTCCATGTA
1 ACAAGTCTTATCTTCATAAAGTTGCAAGAAGCAAAATGAAAAGTTACAGATCTTATCTCCATGTA
*
32219620 TC-AGCTATAGAGCAGATCAGAAATGGCGAGTCATATCTCC-ATGTATCGG-TTATAGAGCAGAT
66 TCTA-CTATAGAGCAAATCAGAAATGGCGAGTCATATCTCCAAT-TATCGGCTT-TAGAGCAGAT
32219682 TTTAGCCACTAGTCTTATC-TTCTTGAAGTTGCAGGAAGCAGACTAAAAA-TTACAGATCTTATC
128 TTTAGCCACTAGTCTTATCTTTC-TGAAGTTGCAGGAAGCAGACTAAAAAGTTACAGATCTTATC
32219745 TCCATGTATCGGCTATCGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGACTATGGAG
192 TCCATGTATCGGCTATCGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGACTATGGAG
32219810 CAGATTTTAGCCACCAGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
257 CAGATTTTAGCCACCAGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* *
32219866 ACAAGTCTTATCTTCATGAAGTTGCAAGAAGCAAAATGAAAATTTACAGATCTTATCTCCATGTA
1 ACAAGTCTTATCTTCATAAAGTTGCAAGAAGCAAAATGAAAAGTTACAGATCTTATCTCCATGTA
* * * *
32219931 TCTACTATGGAGCAAATCAGAAATGGCGAGTCTTATCTCCAATTATTGGCTTTGGAGCAGATTTT
66 TCTACTATAGAGCAAATCAGAAATGGCGAGTCATATCTCCAATTATCGGCTTTAGAGCAGATTTT
32219996 AGCCACTAGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACTAAAAAGTTACAGATCTTATCTCCA
131 AGCCACTAGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACTAAAAAGTTACAGATCTTATCTCCA
* * * * *
32220061 TGTATCGGTTATGGAGTAGTTCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGA
196 TGTATCGGCTATCGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGACTATGGAGCAGA
32220126 CTGAGAAATA
Statistics
Matches: 239, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
311 153 0.64
312 86 0.36
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (312 bp):
ACAAGTCTTATCTTCATAAAGTTGCAAGAAGCAAAATGAAAAGTTACAGATCTTATCTCCATGTA
TCTACTATAGAGCAAATCAGAAATGGCGAGTCATATCTCCAATTATCGGCTTTAGAGCAGATTTT
AGCCACTAGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACTAAAAAGTTACAGATCTTATCTCCA
TGTATCGGCTATCGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGACTATGGAGCAGA
TTTTAGCCACCAGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
Found at i:32220022 original size:134 final size:134
Alignment explanation
Indices: 32219869--32220125 Score: 365
Period size: 134 Copynumber: 1.9 Consensus size: 134
32219859 TGAAGATACA
* * *
32219869 AGTCTTATCTTCATGAAGTTGCAAGAAGCAAAATGAAAATTTACAGATCTTATCTCCATGTATCT
1 AGTCTTATCTTCATGAAGTTGCAAGAAGCAAAATAAAAAGTTACAGATCTTATCTCCATGTATCG
* *
32219934 ACTATGGAGCAAATCAGAAATGGCGAGTCTTATCTCCAAT-TATTGGCTTTGGAGCAGATTTTAG
66 ACTATGGAGCAAATCAGAAATGGCGAGTCTTATCTCC-ATGTATCGGCTATGGAGCAGATTTTAG
32219998 CCACT
130 CCACT
* * *
32220003 AGTCTTATCTTTC-TGAAGTTGCAGGAAGCAGACTAAAAAGTTACAGATCTTATCTCCATGTATC
1 AGTCTTATC-TTCATGAAGTTGCAAGAAGCAAAATAAAAAGTTACAGATCTTATCTCCATGTATC
** * **
32220067 GGTTATGGAGTAGTTCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGA
65 GACTATGGAGCAAATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGA
32220126 CTGAGAAATA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
133 2 0.02
134 103 0.95
135 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (134 bp):
AGTCTTATCTTCATGAAGTTGCAAGAAGCAAAATAAAAAGTTACAGATCTTATCTCCATGTATCG
ACTATGGAGCAAATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
CACT
Found at i:32220235 original size:44 final size:43
Alignment explanation
Indices: 32220181--32220463 Score: 179
Period size: 44 Copynumber: 6.5 Consensus size: 43
32220171 GACAGCGAGC
* **
32220181 CTTAACTCCCTAAGCAGTAAAGTAACAAGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGTAAC-AGCTGAAAATTACAGAT
* * * *
32220225 CTTATCTCCCTAAGCAGTAGTG-AAGCAGATCGAAGACAGTA-AG-C
1 CTTATCTCCCTAAGCAGTAGGGTAA-CAGCT-GAA-A-ATTACAGAT
*
32220269 CTTAAC-CCCTTAAGCAGTAGGGTAACAGACTGAAAATTACAGAT
1 CTTATCTCCC-TAAGCAGTAGGGTAACAG-CTGAAAATTACAGAT
* * * * * * *
32220313 CTTATTTCCTTAAGCAGTAGTGG-AGCAGATCGAAAACGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAG-GGTAACAGCT-GAAAA--TTACAGAT
* * * *
32220357 CTTATC-CCCTTAAGCAGTGGGGAAACAAGCTG-AAATTATAAAT
1 CTTATCTCCC-TAAGCAGTAGGGTAAC-AGCTGAAAATTACAGAT
* * *
32220400 CTTACCTTCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGTAAC-AGCTGAAAATTACAGAT
32220444 CTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTAAGCAGTAG
32220464 CGGAGCAGAT
Statistics
Matches: 183, Mismatches: 35, Indels: 42
0.70 0.13 0.16
Matches are distributed among these distances:
41 1 0.01
42 4 0.02
43 45 0.25
44 114 0.62
45 15 0.08
46 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (43 bp):
CTTATCTCCCTAAGCAGTAGGGTAACAGCTGAAAATTACAGAT
Found at i:32220257 original size:88 final size:88
Alignment explanation
Indices: 32220160--32220419 Score: 337
Period size: 88 Copynumber: 3.0 Consensus size: 88
32220150 ACAATAGTAG
* **
32220160 AGCAGATCGAAGACAGCGAGCCTTAACTCCC-TAAGCAGTAAAGTAACAAGCTGAAAATTACAGA
1 AGCAGATCGAAGACAGTGAGCCTTAAC-CCCTTAAGCAGTAGGGTAACAAGCTGAAAATTACAGA
32220224 TCTTATCTCCCTAAGCAGTAGTGA
65 TCTTATCTCCCTAAGCAGTAGTGA
*
32220248 AGCAGATCGAAGACAGTAAGCCTTAACCCCTTAAGCAGTAGGGTAAC-AGACTGAAAATTACAGA
1 AGCAGATCGAAGACAGTGAGCCTTAACCCCTTAAGCAGTAGGGTAACAAG-CTGAAAATTACAGA
* * *
32220312 TCTTATTTCCTTAAGCAGTAGTGG
65 TCTTATCTCCCTAAGCAGTAGTGA
* * * * * * *
32220336 AGCAGATCGAAAACGGTGAGCCTTATCCCCTTAAGCAGTGGGGAAACAAGCTG-AAATTATAAAT
1 AGCAGATCGAAGACAGTGAGCCTTAACCCCTTAAGCAGTAGGGTAACAAGCTGAAAATTACAGAT
* *
32220400 CTTACCTTCCTAAGCAGTAG
66 CTTATCTCCCTAAGCAGTAG
32220420 GGAAACAAGC
Statistics
Matches: 150, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
87 30 0.20
88 118 0.79
89 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (88 bp):
AGCAGATCGAAGACAGTGAGCCTTAACCCCTTAAGCAGTAGGGTAACAAGCTGAAAATTACAGAT
CTTATCTCCCTAAGCAGTAGTGA
Found at i:32220520 original size:131 final size:132
Alignment explanation
Indices: 32220279--32220582 Score: 348
Period size: 131 Copynumber: 2.3 Consensus size: 132
32220269 CTTAACCCCT
* * * *
32220279 TAAGCAGTAGGGTAACAGACTGAAAATTACAGATCTTATTTCCTTAAGCAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGAAACAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATC
* * * *
32220344 GAAAACGGTGAGCCTTATCCCCTTAAGCAGTGGGGAAACAAGCTG-AAATTATAAATCTTACCTT
66 GAAAACGATGAGCCTTATCCCCTTAAGCAATGGGGAAACAAGCTGAAAATTACAAATCTTACCTC
32220408 CC
131 CC
32220410 TAAGCAGTAGGGAAACA-AGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGAT
1 TAAGCAGTAGGGAAACAGA-CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGAT
* * * * * ** * *
32220474 TGGAAACGATGAGCCTTATCTCCC-TGAGTAATAGTGG-AGTAGGCTGAAAATTACAAATGTTAC
65 CGAAAACGATGAGCCTTATC-CCCTTAAGCAAT-GGGGAAACAAGCTGAAAATTACAAATCTTAC
32220537 CTCCC
128 CTCCC
* * *
32220542 TAAGCAGTAGTGG-AGCAGACTGAAGATTAACAGATTTTATC
1 TAAGCAGTAG-GGAAACAGACTGAAAATT-ACAGATCTTATC
32220583 CTCTTTAAGT
Statistics
Matches: 146, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
130 1 0.01
131 86 0.59
132 45 0.31
133 14 0.10
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (132 bp):
TAAGCAGTAGGGAAACAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATC
GAAAACGATGAGCCTTATCCCCTTAAGCAATGGGGAAACAAGCTGAAAATTACAAATCTTACCTC
CC
Found at i:32221614 original size:15 final size:14
Alignment explanation
Indices: 32221558--32221658 Score: 64
Period size: 15 Copynumber: 6.9 Consensus size: 14
32221548 TTATTATGTT
*
32221558 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
32221572 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
32221586 TACTATTATTATTTA
1 T-CTATTTTTATTTA
32221601 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
32221616 TCTATTTATATTTC
1 TCTATTTTTATTTA
*
32221630 TACTATTATTATATT-
1 T-CTATTTTTAT-TTA
32221645 TCTATTTTTTATTT
1 TCTA-TTTTTATTT
32221659 CTATTTATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
12 6 0.09
13 2 0.03
14 20 0.29
15 30 0.43
16 4 0.06
17 7 0.10
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:32221627 original size:29 final size:28
Alignment explanation
Indices: 32221558--32221628 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
32221548 TTATTATGTT
32221558 TCTATTTATATTTATTTTGTTATTCTAA
1 TCTATTTATATTTATTTTGTTATTCTAA
*
32221586 TACTA-TTATTATTTATCTAATTTTTATT-T-A
1 T-CTATTTA-TATTTAT-T--TTGTTATTCTAA
32221616 TCTATTTATATTT
1 TCTATTTATATTT
32221629 CTACTATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
28 4 0.11
29 18 0.50
30 6 0.17
31 1 0.03
32 7 0.19
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (28 bp):
TCTATTTATATTTATTTTGTTATTCTAA
Found at i:32221695 original size:42 final size:44
Alignment explanation
Indices: 32221546--32221680 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
32221536 TTATCGCTAT
* *
32221546 TATTATTATGTTTCTA-TTTATATTTAT-T-TTGT-TATT-CTAA
1 TATTATTATATTTCTATTTTTTATTTATCTATT-TATATTACTAA
* * * *
32221586 TACTATTATTATTTATCTAATTTTTATTTATCTATTTATATTTCTAC
1 TATTATTA-TA-TT-TCTATTTTTTATTTATCTATTTATATTACTAA
32221633 TATTATTATATTTCTATTTTTTA-TT-TCTATTTATA-TACTAA
1 TATTATTATATTTCTATTTTTTATTTATCTATTTATATTACTAA
32221674 TATTATT
1 TATTATT
32221681 TTCATTATTA
Statistics
Matches: 79, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
40 7 0.09
41 12 0.15
42 12 0.15
43 6 0.08
44 20 0.25
45 4 0.05
46 8 0.10
47 10 0.13
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (44 bp):
TATTATTATATTTCTATTTTTTATTTATCTATTTATATTACTAA
Found at i:32222201 original size:127 final size:126
Alignment explanation
Indices: 32222047--32222287 Score: 295
Period size: 127 Copynumber: 1.9 Consensus size: 126
32222037 GTTCGAAGAA
* * * * * ** * *
32222047 TCGTGCCCTATCATGCTAGGTTTCGATTTTTCGTTCAATTAAAAT-GTGAAATATCCTTTTGAGA
1 TCGTGCCCAATCATGCTAGGCTTCGATTTTCCATTCAACTAAAATACAG-AACATCCTTTTGAAA
* * *
32222111 TTTCATCCATGTTTTTTTAAAATTAAAACGAGGCAATATTTTGTGTTTGGAGGGTTTGGGAGG
65 TTTCATCCATG-TTTTCTAAAATTAAAACGAGGCAATATTTCGTATTTGGAGGGTTTGGGAGG
* * *
32222174 TCGTGCCCAATCGTGCTGGGCTTCGATTTTCCATTCGACTAAAATACAGAACATCCTTTTGAAAT
1 TCGTGCCCAATCATGCTAGGCTTCGATTTTCCATTCAACTAAAATACAGAACATCCTTTTGAAAT
* * *
32222239 TTCATCCATGTTTTCTCAAATTAAAATGAGGCAATGTTTCGTATTTGGA
66 TTCATCCATGTTTTCTAAAATTAAAACGAGGCAATATTTCGTATTTGGA
32222288 AATTCATAAA
Statistics
Matches: 95, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
126 33 0.35
127 61 0.64
128 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (126 bp):
TCGTGCCCAATCATGCTAGGCTTCGATTTTCCATTCAACTAAAATACAGAACATCCTTTTGAAAT
TTCATCCATGTTTTCTAAAATTAAAACGAGGCAATATTTCGTATTTGGAGGGTTTGGGAGG
Found at i:32225981 original size:16 final size:16
Alignment explanation
Indices: 32225960--32225991 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32225950 ATGTTAACAA
32225960 GTAGATACTGTTAGCT
1 GTAGATACTGTTAGCT
*
32225976 GTAGATGCTGTTAGCT
1 GTAGATACTGTTAGCT
32225992 ATATGTGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (16 bp):
GTAGATACTGTTAGCT
Found at i:32232657 original size:21 final size:22
Alignment explanation
Indices: 32232621--32232662 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
32232611 TTAAATATTC
*
32232621 AAATTTGTTTAATATTCTCTTG
1 AAATTTGTTCAATATTCTCTTG
32232643 AAATTT-TTCAATATTCTCTT
1 AAATTTGTTCAATATTCTCTT
32232663 TTTCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (22 bp):
AAATTTGTTCAATATTCTCTTG
Found at i:32233536 original size:44 final size:47
Alignment explanation
Indices: 32233487--32233581 Score: 135
Period size: 48 Copynumber: 2.1 Consensus size: 47
32233477 ACGTTCAAAC
*
32233487 AAACAAAAGTATAAGA-T-TA-TGCTTGGTTAG-TTGGAAAATTGAAG
1 AAACAAAAGTATAAGATTATACTGCTTGGTT-GTTTGGAAAAGTGAAG
32233531 AAACAAAAGTATAAGATTATACTTGCTTGGTTGTTTGGAAAAGTGAAG
1 AAACAAAAGTATAAGATTATAC-TGCTTGGTTGTTTGGAAAAGTGAAG
32233579 AAA
1 AAA
32233582 TGGAAGAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
44 16 0.36
45 1 0.02
46 2 0.04
47 1 0.02
48 25 0.56
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.29
Consensus pattern (47 bp):
AAACAAAAGTATAAGATTATACTGCTTGGTTGTTTGGAAAAGTGAAG
Found at i:32238637 original size:42 final size:43
Alignment explanation
Indices: 32238587--32238692 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 43
32238577 CCTGATCAGT
32238587 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
** * * *
32238629 ATACGACACA-CGAGATGCTTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAG-TGCCTAAAACGACACACGAGGTGCCTG-A
32238673 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
32238693 GATCGGTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.04
42 34 0.65
44 14 0.27
45 2 0.04
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:32238639 original size:23 final size:21
Alignment explanation
Indices: 32238587--32238682 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
32238577 CCTGATCAGT
** * *
32238587 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
32238608 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
32238629 ATACGACACACGAGATGCTTG
1 ATACGACACACGAGGTGCCTG
32238650 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
32238671 AAATACGACACA
1 --ATACGACACA
32238683 TAAAGTGCCT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 53 0.84
23 10 0.16
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:32238690 original size:23 final size:22
Alignment explanation
Indices: 32238587--32238694 Score: 89
Period size: 21 Copynumber: 5.0 Consensus size: 22
32238577 CCTGATCAGT
*
32238587 ATACGACACATAAAGTGCCT-A
1 ATACGACACACAAAGTGCCTGA
* * *
32238608 AAACGACACACGAGGTGCCTG-
1 ATACGACACACAAAGTGCCTGA
* *
32238629 ATACGACACAC-GAGATGCTTG-
1 ATACGACACACAAAG-TGCCTGA
* *
32238650 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTG-A
*
32238673 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
32238695 TCGGTAAAGC
Statistics
Matches: 68, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.01
21 47 0.69
22 2 0.03
23 18 0.26
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTGA
Found at i:32239088 original size:15 final size:15
Alignment explanation
Indices: 32239063--32239120 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
32239053 AATCATATAT
32239063 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
32239079 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
32239094 AATAATTTCAATCAA
1 TATAAATTCAATCAA
32239109 TATAAATTCAAT
1 TATAAATTCAAT
32239121 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:32240857 original size:44 final size:43
Alignment explanation
Indices: 32240737--32240857 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 43
32240727 TCATAGTTTT
* ** *
32240737 AATCTGCTCCACTGCAACTTCAAGGAAATAAAATCTGCTATCTTC
1 AATCTGCTCTACTGCAACTTC-AGGAAAT-AAGGCTGCTAGCTTC
* * * * *
32240782 AGTCTGCTCTGCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTC
1 AATCTGCTCTACTGCAACTTCAG-GAAATAAGGCTGCTAGCTTC
32240826 AATCTGCTCTACTGCAACTTCAGGAATATAAG
1 AATCTGCTCTACTGCAACTTCAGGAA-ATAAG
32240858 ATTCGCCATA
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
43 2 0.03
44 38 0.61
45 22 0.35
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
AATCTGCTCTACTGCAACTTCAGGAAATAAGGCTGCTAGCTTC
Found at i:32240926 original size:143 final size:143
Alignment explanation
Indices: 32240737--32241431 Score: 917
Period size: 143 Copynumber: 4.9 Consensus size: 143
32240727 TCATAGTTTT
* * * * * * **
32240737 AATCTGCTCCACTGCAACTTCAAGGAAATAAAATCTGCTATCTTCAGTCTGCTCTGCTGCAACTT
1 AATCTGTTCCACTGCAACATCAAGGAAATAAGATTTGCTGTTTTCAGTCTGCTCCACTGCAACTT
* *
32240802 CAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCTACTGCAACTTCAGGAATATAAGATTCGCCAT
66 CAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCAT
*
32240867 AATTTTTAGCTTC
131 AATTTGTAGCTTC
* * * * *
32240880 AATCTGTTCCATTGCATCATCAAGGAAATAAAATTTGATGTTTTCAGTCTGCTCCGCTGCAACTT
1 AATCTGTTCCACTGCAACATCAAGGAAATAAGATTTGCTGTTTTCAGTCTGCTCCACTGCAACTT
* * * *
32240945 CAGAGAGATAAGGGTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAAATTCGTCAT
66 CAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCAT
32241010 AATTTGTAGCTTC
131 AATTTGTAGCTTC
* * * * * *
32241023 AATCTGTTCCACTGCAACATCAGGGAAATAAGATTTGTTGTCTTT-AGTTTACTCCATTACAACT
1 AATCTGTTCCACTGCAACATCAAGGAAATAAGATTTGCTGT-TTTCAGTCTGCTCCACTGCAACT
* * * *
32241087 TCAGGGAGATAAGGCTAGTGGCTTCAATCTGTTCCAATGCAACTTCAGGAAGATAAGATTCGCCA
65 TCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCA
* *
32241152 TAATTTGTAACTTT
130 TAATTTGTAGCTTC
* * * *
32241166 AATTTGTTCCACTGCAACATCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCATTGCAACTT
1 AATCTGTTCCACTGCAACATCAAGGAAATAAGATTTGCTGTTTTCAGTCTGCTCCACTGCAACTT
* *
32241231 CAGAGAGATAAGGCTGGTGGCTTCAATTTGCTCGACTGCAACTTCAGGAAGATAAGATTCGCCAT
66 CAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCAT
* *
32241296 AATTTATAGCTTT
131 AATTTGTAGCTTC
* ** * *
32241309 AATCTGTTCCACTGCAACGTCGTGGAAATAAGATTCGCTGTCTTT-AGTCTGCTCCACTACAACT
1 AATCTGTTCCACTGCAACATCAAGGAAATAAGATTTGCTGT-TTTCAGTCTGCTCCACTGCAACT
* * * *
32241373 TTAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCTACTGCAACTTCAGGAAGATAAGAT
65 TCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
32241432 CTGCCATCTT
Statistics
Matches: 486, Mismatches: 63, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
142 2 0.00
143 479 0.99
144 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (143 bp):
AATCTGTTCCACTGCAACATCAAGGAAATAAGATTTGCTGTTTTCAGTCTGCTCCACTGCAACTT
CAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCAT
AATTTGTAGCTTC
Found at i:32241385 original size:45 final size:45
Alignment explanation
Indices: 32241305--32241476 Score: 118
Period size: 45 Copynumber: 3.8 Consensus size: 45
32241295 TAATTTATAG
* * * * *
32241305 CTTTAATCTGTTCCACTGCAAC-GTCGTGGAAATAAGATTCGCTGT
1 CTTTAGTCTGCTCCACTGCAACTTTAG-GGAGATAAGATTCGCTGT
* ** * *
32241350 CTTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGGCTAG-TGG
1 CTTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTGT
* * * * * **
32241394 CTTCAATCTGCTCTACTGCAACTTCAGGAAGATAAGA-TCTGCCAT
1 CTTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGATTC-GCTGT
* *
32241439 CTTT-GATCTACTCCACTGCAACTTTAAGGAGATAAGAT
1 CTTTAG-TCTGCTCCACTGCAACTTTAGGGAGATAAGAT
32241477 CTACAACTTC
Statistics
Matches: 94, Mismatches: 28, Indels: 9
0.72 0.21 0.07
Matches are distributed among these distances:
43 1 0.01
44 33 0.35
45 58 0.62
46 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
CTTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTGT
Found at i:32246871 original size:16 final size:16
Alignment explanation
Indices: 32246850--32246882 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32246840 AAGCTTTTCC
32246850 TGTGTA-TATATTACTT
1 TGTGTATTAT-TTACTT
32246866 TGTGTATTATTTACTT
1 TGTGTATTATTTACTT
32246882 T
1 T
32246883 TAATCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (16 bp):
TGTGTATTATTTACTT
Found at i:32248825 original size:21 final size:21
Alignment explanation
Indices: 32248799--32248839 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
32248789 CCTATTTGCT
32248799 AGGCACCTCGTGTGTCGTATC
1 AGGCACCTCGTGTGTCGTATC
*
32248820 AGGCACCTCGTGTGTTGTAT
1 AGGCACCTCGTGTGTCGTAT
32248840 ACTGATCAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.24, G:0.29, T:0.32
Consensus pattern (21 bp):
AGGCACCTCGTGTGTCGTATC
Found at i:32250274 original size:27 final size:27
Alignment explanation
Indices: 32250241--32250300 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
32250231 AAAAACCATC
*
32250241 AACCCAAACTAAACCCAATCCCAACCA
1 AACCCAAACTAAACCCAATCCCAAACA
32250268 AACCCAAACTAAACCCAATCCCAAACA
1 AACCCAAACTAAACCCAATCCCAAACA
32250295 AACCCA
1 AACCCA
32250301 CTTAACCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (27 bp):
AACCCAAACTAAACCCAATCCCAAACA
Found at i:32250299 original size:16 final size:17
Alignment explanation
Indices: 32250265--32250300 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
32250255 CCAATCCCAA
32250265 CCAAACCCAAACTAAAC
1 CCAAACCCAAACTAAAC
*
32250282 CCAATCCCAAAC-AAAC
1 CCAAACCCAAACTAAAC
32250298 CCA
1 CCA
32250301 CTTAACCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.50, C:0.44, G:0.00, T:0.06
Consensus pattern (17 bp):
CCAAACCCAAACTAAAC
Found at i:32250857 original size:13 final size:13
Alignment explanation
Indices: 32250841--32250866 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32250831 TATATCTTTG
32250841 CTCATATTACTGT
1 CTCATATTACTGT
32250854 CTCATATTACTGT
1 CTCATATTACTGT
32250867 TGTTAGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
CTCATATTACTGT
Found at i:32259964 original size:10 final size:10
Alignment explanation
Indices: 32259945--32259983 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
32259935 TTAAATTCTA
32259945 AAAGATAAAT
1 AAAGATAAAT
32259955 ACAA-ATAAAT
1 A-AAGATAAAT
32259965 AAAGATAAAT
1 AAAGATAAAT
*
32259975 GAAGATAAA
1 AAAGATAAA
32259984 AACTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:32262376 original size:23 final size:23
Alignment explanation
Indices: 32262348--32262396 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
32262338 TCAAATAGAG
*
32262348 TAAAAAGTGAAATGAAAATGAAAT
1 TAAAATGTGAAATG-AAATGAAAT
* *
32262372 TAAAATTTGGAATGAAATGAAAT
1 TAAAATGTGAAATGAAATGAAAT
32262395 TA
1 TA
32262397 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.16, T:0.27
Consensus pattern (23 bp):
TAAAATGTGAAATGAAATGAAAT
Found at i:32262485 original size:22 final size:21
Alignment explanation
Indices: 32262460--32262515 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
32262450 GAAATGAAGT
32262460 TGAAATTAAATTAAAATTGGAA
1 TGAAATTAAATTAAAATT-GAA
* *
32262482 TGAAATGAAATTCAAATTGAA
1 TGAAATTAAATTAAAATTGAA
32262503 TAGAAATTGAAAT
1 T-GAAATT-AAAT
32262516 GAATATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.14
22 21 0.72
23 4 0.14
ACGTcount: A:0.54, C:0.02, G:0.14, T:0.30
Consensus pattern (21 bp):
TGAAATTAAATTAAAATTGAA
Found at i:32262487 original size:33 final size:33
Alignment explanation
Indices: 32262449--32262518 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
32262439 ACTTTTTAAT
* * *
32262449 TGAAATGAAGTTGAAATTAAATTA-AAATTGGAA
1 TGAAATGAAATTCAAATTAAA-TAGAAATTGAAA
*
32262482 TGAAATGAAATTCAAATTGAATAGAAATTGAAA
1 TGAAATGAAATTCAAATTAAATAGAAATTGAAA
32262515 TGAA
1 TGAA
32262519 TATATAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.53, C:0.01, G:0.17, T:0.29
Consensus pattern (33 bp):
TGAAATGAAATTCAAATTAAATAGAAATTGAAA
Found at i:32262502 original size:17 final size:17
Alignment explanation
Indices: 32262446--32262515 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
32262436 TGAACTTTTT
*
32262446 AATTGAAATGAAGTTGA
1 AATTGAAATGAAATTGA
* *
32262463 AATT-AAATTAAAATTGG
1 AATTGAAA-TGAAATTGA
*
32262480 AA-TGAAATGAAATTCA
1 AATTGAAATGAAATTGA
32262496 AATTG-AATAGAAATTGA
1 AATTGAAAT-GAAATTGA
32262513 AAT
1 AAT
32262516 GAATATATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
16 15 0.36
17 27 0.64
ACGTcount: A:0.53, C:0.01, G:0.16, T:0.30
Consensus pattern (17 bp):
AATTGAAATGAAATTGA
Found at i:32262767 original size:28 final size:28
Alignment explanation
Indices: 32262708--32262766 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
32262698 AAAAAAGGTG
* *
32262708 AAATGAATATGGAATGAAATGAAATTTA
1 AAATGAATATGGAATGAAATAAAATATA
32262736 AAATGAATAT-GAGATGAAATTAAAATATA
1 AAATGAATATGGA-ATGAAA-TAAAATATA
32262765 AA
1 AA
32262767 TTTAAATGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 2 0.07
28 16 0.59
29 9 0.33
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (28 bp):
AAATGAATATGGAATGAAATAAAATATA
Found at i:32262813 original size:21 final size:21
Alignment explanation
Indices: 32262757--32262926 Score: 88
Period size: 21 Copynumber: 7.9 Consensus size: 21
32262747 AGATGAAATT
* *
32262757 AAAATATAAATTTAAATGAGA
1 AAAAAATAAATTGAAATGAGA
*
32262778 AAAAAATGAA-T---ATGA-A
1 AAAAAATAAATTGAAATGAGA
*
32262794 AAAAGAATAAATTGGAATGAGA
1 AAAA-AATAAATTGAAATGAGA
*
32262816 GAAAAATAAATTGAAATGAGATTA
1 AAAAAATAAATTGAAATGAG---A
* *
32262840 AAATGTGAAATGAATATGAAATTA-A
1 AAA----AAATAAAT-TGAAATGAGA
32262865 ATTAAAATATAAATTGAAATGA-A
1 A--AAAA-ATAAATTGAAATGAGA
32262888 AAAATAATAAATTGAAAT--GA
1 AAAA-AATAAATTGAAATGAGA
*
32262908 AAAAAATAAATTTAAATGA
1 AAAAAATAAATTGAAATGA
32262927 AATGAAATGA
Statistics
Matches: 117, Mismatches: 11, Indels: 42
0.69 0.06 0.25
Matches are distributed among these distances:
16 5 0.04
17 9 0.08
18 1 0.01
19 12 0.10
20 6 0.05
21 42 0.36
22 5 0.04
23 11 0.09
24 8 0.07
25 2 0.02
27 2 0.02
28 7 0.06
29 7 0.06
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.25
Consensus pattern (21 bp):
AAAAAATAAATTGAAATGAGA
Found at i:32262860 original size:29 final size:28
Alignment explanation
Indices: 32262819--32262888 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
32262809 AATGAGAGAA
* * *
32262819 AAATAAAT-TGAAATGAGATTAAAATGT
1 AAATGAATATGAAATGAAATTAAAATAT
*
32262846 GAAATGAATATGAAATTAAATTAAAATAT
1 -AAATGAATATGAAATGAAATTAAAATAT
32262875 AAATTGAA-ATGAAA
1 AAA-TGAATATGAAA
32262889 AAATAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 16 0.44
29 20 0.56
ACGTcount: A:0.59, C:0.00, G:0.13, T:0.29
Consensus pattern (28 bp):
AAATGAATATGAAATGAAATTAAAATAT
Found at i:32262862 original size:94 final size:91
Alignment explanation
Indices: 32262759--32262926 Score: 225
Period size: 94 Copynumber: 1.8 Consensus size: 91
32262749 ATGAAATTAA
*
32262759 AATATAAATTTAAATGAGAAA-A-AAA-TGAATATGAAAAAAGAATAAATTGGAATGAGAGAAAA
1 AATATAAA-TTAAATGA-AAATATAAATTGAA-ATGAAAAAAGAATAAATTGAAATGA-A-AAAA
32262821 ATAAATTGAAATGAGATTAAAATGTGAAATG
61 ATAAATTGAAATGAGATTAAAATGTGAAATG
* *
32262852 AATATGAAATTAAATTAAAATATAAATTGAAATGAAAAAATAATAAATTGAAATGAAAAAAATAA
1 AATAT-AAATTAAATGAAAATATAAATTGAAATGAAAAAAGAATAAATTGAAATGAAAAAAATAA
*
32262917 ATTTAAATGA
65 ATTGAAATGA
32262927 AATGAAATGA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
92 20 0.30
93 14 0.21
94 29 0.43
95 4 0.06
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (91 bp):
AATATAAATTAAATGAAAATATAAATTGAAATGAAAAAAGAATAAATTGAAATGAAAAAAATAAA
TTGAAATGAGATTAAAATGTGAAATG
Found at i:32262873 original size:18 final size:18
Alignment explanation
Indices: 32262750--32263008 Score: 113
Period size: 18 Copynumber: 13.6 Consensus size: 18
32262740 GAATATGAGA
*
32262750 TGAAATTAAAATATAAAT
1 TGAAATGAAAATATAAAT
*
32262768 TTAAATGAGAAA-A-AAA-
1 TGAAATGA-AAATATAAAT
*
32262784 TGAATATGAAAAAAGAATAAAT
1 TGAA-ATG--AAAA-TATAAAT
* *
32262806 TGGAATGAGAGAAAAATAAAT
1 TGAAAT--GA-AAATATAAAT
* *
32262827 TGAAATGAGATTA-AAAT
1 TGAAATGAAAATATAAAT
32262844 GTGAAATG--AATATGAAAT
1 -TGAAATGAAAATAT-AAAT
*
32262862 T-AAATTAAAATATAAAT
1 TGAAATGAAAATATAAAT
32262879 TGAAATGAAAAAATAATAAAT
1 TGAAATG--AAAAT-ATAAAT
*
32262900 TGAAATGAAAAAAATAAAT
1 TGAAATG-AAAATATAAAT
* * *
32262919 TTAAATGAAATGAAATGAATTT
1 TGAAATGAAA--ATAT-AA-AT
32262941 TGAAATGAAAATGAAATGAAATT
1 TGAAATGAAAAT---AT-AAA-T
* *
32262964 TGAAATGAAAAT-GACA-
1 TGAAATGAAAATATAAAT
*
32262980 TGAAATTAAAATATAAAT
1 TGAAATGAAAATATAAAT
32262998 TGAAATGAAAA
1 TGAAATGAAAA
32263009 AAAAATAACA
Statistics
Matches: 188, Mismatches: 23, Indels: 60
0.69 0.08 0.22
Matches are distributed among these distances:
16 21 0.11
17 18 0.10
18 47 0.25
19 18 0.10
20 16 0.09
21 33 0.18
22 16 0.09
23 19 0.10
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (18 bp):
TGAAATGAAAATATAAAT
Found at i:32262931 original size:5 final size:5
Alignment explanation
Indices: 32262845--32262985 Score: 63
Period size: 5 Copynumber: 26.2 Consensus size: 5
32262835 GATTAAAATG
* * * **
32262845 TGAAA TGAATA TGAAA TTAAA TTAAAA TATAAA TTGAAA TGAAA AAATAA
1 TGAAA TGAA-A TGAAA TGAAA -TGAAA T-GAAA -TGAAA TGAAA TGA-AA
* * *
32262895 T-AAA TTGAAA TGAAA -AAAA T-AAA TTTAAA TGAAA TGAAA TGAATTT
1 TGAAA -TGAAA TGAAA TGAAA TGAAA -TGAAA TGAAA TGAAA TGAA--A
*
32262941 TGAAA TGAAAA TGAAA TGAAA TTTGAAA TGAAAA TGACA TGAAA T
1 TGAAA TG-AAA TGAAA TGAAA --TGAAA TG-AAA TGAAA TGAAA T
32262986 TAAAATATAA
Statistics
Matches: 107, Mismatches: 13, Indels: 32
0.70 0.09 0.21
Matches are distributed among these distances:
4 8 0.07
5 56 0.52
6 33 0.31
7 10 0.09
ACGTcount: A:0.59, C:0.01, G:0.13, T:0.28
Consensus pattern (5 bp):
TGAAA
Found at i:32262946 original size:12 final size:11
Alignment explanation
Indices: 32262911--32262972 Score: 56
Period size: 12 Copynumber: 5.6 Consensus size: 11
32262901 GAAATGAAAA
*
32262911 AAATAAATTT-
1 AAATGAATTTG
*
32262921 AAATGAA-ATG
1 AAATGAATTTG
32262931 AAATGAATTTTG
1 AAATGAA-TTTG
**
32262943 AAATGAAAATG
1 AAATGAATTTG
32262954 AAATGAAATTTG
1 AAATG-AATTTG
32262966 AAATGAA
1 AAATGAA
32262973 AATGACATGA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 1 0.02
10 13 0.32
11 9 0.22
12 18 0.44
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (11 bp):
AAATGAATTTG
Found at i:32262956 original size:23 final size:23
Alignment explanation
Indices: 32262878--32263007 Score: 127
Period size: 23 Copynumber: 6.0 Consensus size: 23
32262868 AAAATATAAA
*
32262878 TTGAAATGAAAA-AATAAT-AAA-
1 TTGAAATGAAAATGA-AATGAAAT
32262899 TTGAAATGAAAA--AAAT-AAAT
1 TTGAAATGAAAATGAAATGAAAT
*
32262919 TT-AAATG-AAATGAAATGAATT
1 TTGAAATGAAAATGAAATGAAAT
32262940 TTGAAATGAAAATGAAATGAAAT
1 TTGAAATGAAAATGAAATGAAAT
*
32262963 TTGAAATGAAAATGACATGAAA-
1 TTGAAATGAAAATGAAATGAAAT
*
32262985 TTAAAAT-ATAAATTGAAATGAAA
1 TTGAAATGA-AAA-TGAAATGAAA
32263008 AAAAAATAAC
Statistics
Matches: 96, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.03
19 11 0.11
20 7 0.07
21 18 0.19
22 14 0.15
23 43 0.45
ACGTcount: A:0.59, C:0.01, G:0.13, T:0.27
Consensus pattern (23 bp):
TTGAAATGAAAATGAAATGAAAT
Found at i:32263266 original size:23 final size:21
Alignment explanation
Indices: 32263231--32263295 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 21
32263221 ACTTGAAATG
32263231 AATATGAAA-TGAAATGAAATTAA
1 AATAT-AAATTGAAATGAAA--AA
32263254 AATATAAATTGAAAT-AAAAA
1 AATATAAATTGAAATGAAAAA
32263274 AAT-T-AATTGAAATGAGAAAA
1 AATATAAATTGAAATGA-AAAA
32263294 AA
1 AA
32263296 ATTGAAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
18 9 0.23
19 2 0.05
20 11 0.28
22 6 0.15
23 11 0.28
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.25
Consensus pattern (21 bp):
AATATAAATTGAAATGAAAAA
Found at i:32263271 original size:17 final size:17
Alignment explanation
Indices: 32263245--32263304 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
32263235 TGAAATGAAA
*
32263245 TGAAATTAAAATATAAAT
1 TGAAA-TAAAAAATAAAT
*
32263263 TGAAATAAAAAAATTAAT
1 TGAAAT-AAAAAATAAAT
*
32263281 TGAAATGAGAAAA-AAAT
1 TGAAAT-AAAAAATAAAT
32263298 TGAAATA
1 TGAAATA
32263305 TTAAATAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 1 0.03
17 10 0.28
18 25 0.69
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (17 bp):
TGAAATAAAAAATAAAT
Found at i:32263287 original size:41 final size:42
Alignment explanation
Indices: 32263259--32263632 Score: 141
Period size: 41 Copynumber: 9.3 Consensus size: 42
32263249 ATTAAAATAT
32263259 AAAT-TGAAATAAAAAAATTAATTGAAATGAGAAAAAAATTG
1 AAATATGAAATAAAAAAATTAATTGAAATGAGAAAAAAATTG
* * * * * **
32263300 AAATATTAAATAAAAAAATT-GTTAAAAAGTTGAAATGCAA-TG
1 AAATATGAAATAAAAAAATTAATTGAAATG-AGAAA-AAAATTG
** *
32263342 AAATATGAAAT---GTAATGTAATTTGAAATGA-ATATAAAATT-
1 AAATATGAAATAAAAAAAT-TAA-TTGAAATGAGA-AAAAAATTG
*
32263382 -AA-ATGAAAGTTGAAATAAA-T-A-TGAAATGA-AAATAAAATAT-
1 AAATATGAAA--T-AAAAAAATTAATTGAAATGAGAAA-AAAAT-TG
* * *
32263422 AAAT-TGCAAT--TAAAA--AATTGAAATCAGACAAAAAA-T-
1 AAATATGAAATAAAAAAATTAATTGAAATGAGA-AAAAAATTG
* *
32263458 -AATATG-AA-AAAAGAATAAATTGAAATGAGAAAAAAATTG
1 AAATATGAAATAAAAAAATTAATTGAAATGAGAAAAAAATTG
32263497 AAATATGAAAT---AAAATGTAATTTGAAATGA-AAATAAAATAT-
1 AAATATGAAATAAAAAAAT-TAA-TTGAAATGAGAAA-AAAAT-TG
* * *
32263538 AAAT-TGAAATGAAAAACACTAAATTGAAATGGGACAAAAAATT-
1 AAATATGAAAT-AAAAA-AATTAATTGAAATGAGA-AAAAAATTG
* * *
32263581 -AATAT-AAAAAAAAAGAATAAATTGAAATGAGAAAAAATTTG
1 AAATATGAAATAAAAA-AATTAATTGAAATGAGAAAAAAATTG
32263622 AAATATGAAAT
1 AAATATGAAAT
32263633 GAAATGAAAA
Statistics
Matches: 248, Mismatches: 38, Indels: 92
0.66 0.10 0.24
Matches are distributed among these distances:
35 5 0.02
36 10 0.04
37 13 0.05
38 25 0.10
39 26 0.10
40 30 0.12
41 59 0.24
42 49 0.20
43 15 0.06
44 12 0.05
45 4 0.02
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (42 bp):
AAATATGAAATAAAAAAATTAATTGAAATGAGAAAAAAATTG
Found at i:32263350 original size:17 final size:17
Alignment explanation
Indices: 32263330--32263370 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
32263320 GTTAAAAAGT
32263330 TGAAATGCAATGAAATA
1 TGAAATGCAATGAAATA
* * *
32263347 TGAAATGTAATGTAATT
1 TGAAATGCAATGAAATA
32263364 TGAAATG
1 TGAAATG
32263371 AATATAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (17 bp):
TGAAATGCAATGAAATA
Found at i:32263380 original size:28 final size:29
Alignment explanation
Indices: 32263338--32263414 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
32263328 GTTGAAATGC
* *
32263338 AATGAAATATGAAATGT-AATGTAATTTGA
1 AATG-AATATGAAATGTAAATGAAAGTTGA
*
32263367 AATGAATATAAAAT-TAAATGAAAGTTGA
1 AATGAATATGAAATGTAAATGAAAGTTGA
* *
32263395 AATAAATATGAAATGAAAAT
1 AATGAATATGAAATGTAAAT
32263415 AAAATATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 1 0.03
28 31 0.77
29 8 0.20
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.30
Consensus pattern (29 bp):
AATGAATATGAAATGTAAATGAAAGTTGA
Found at i:32263408 original size:23 final size:23
Alignment explanation
Indices: 32263369--32263412 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
32263359 TAATTTGAAA
*
32263369 TGAATATAAAATTAAATGAAAGT
1 TGAATATAAAATGAAATGAAAGT
32263392 TGAA-ATAAATATGAAATGAAA
1 TGAATATAAA-ATGAAATGAAA
32263413 ATAAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (23 bp):
TGAATATAAAATGAAATGAAAGT
Found at i:32263506 original size:17 final size:18
Alignment explanation
Indices: 32263474--32263512 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
32263464 AAAAAAGAAT
32263474 AAATTGAAATGAGAAA-A
1 AAATTGAAATGAGAAATA
32263491 AAATTGAAAT-ATGAAATA
1 AAATTGAAATGA-GAAATA
32263509 AAAT
1 AAAT
32263513 GTAATTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.05
17 14 0.70
18 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (18 bp):
AAATTGAAATGAGAAATA
Found at i:32263523 original size:155 final size:155
Alignment explanation
Indices: 32263340--32263889 Score: 413
Period size: 155 Copynumber: 3.5 Consensus size: 155
32263330 TGAAATGCAA
** * *
32263340 TGAAAT-ATGAAATGTAATGTAATTTGAAATGAATATAAAATTAAATGAAAGTTGAAATAAATAT
1 TGAAATAATGAAATAAAATGTAATATGAAATGAATATAAAATGAAATGAAAGTTGAAATAAATAT
* *
32263404 GAAATGAAAATAAAATATAAATTGCAATTAAAAAATTGAAATCAGACAAAAAATAATATGAAAAA
66 GAAATGAAAATAAAATATAAATTGAAATAAAAAAATTGAAAT-AGACAAAAAATAATATGAAAAA
32263469 AGAATAAATTGAAATGAGAAAAAAAT
130 AGAATAAATTGAAATGAGAAAAAAAT
* * * ***
32263495 TGAAAT-ATGAAATAAAATGTAATTTGAAATGAAAATAAAATATAAATTGAAATGAAAAACACTA
1 TGAAATAATGAAATAAAATGTAATATGAAATGAATATAAAAT-GAAA-TGAAA-GTTGAA-A-TA
* * *
32263559 AAT-TGAAATGGGACAAAAAATTAATATAAA---AAAAAAGAATAAATTGAAAT-GAGAAAAAAT
61 AATATGAAAT--GA-AAATAA--AATATAAATTGAAATAA-AA-AAATTGAAATAGACAAAAAAT
* *
32263619 --T-TGAAATATG---AAA-TGAAAT--GAAAAAAAT
119 AATATGAAAAAAGAATAAATTGAAATGAGAAAAAAAT
* *
32263647 TGAAATGCAATGAAATATGAAT-TGAATATGGAATGGAATATAATTTGAAATGAAATGAAAGTTG
1 TGAAAT--AATGAAATA-AAATGT-AATATGAAAT-GAATAT-A----AAATGAAATGAAAGTTG
* *
32263711 AAATGAATATGAAATGAAAATAAAACATAAATTGAAATAAAAAAACTTGAAATGAGACAAAAAAT
56 AAATAAATATGAAATGAAAATAAAATATAAATTGAAATAAAAAAA-TTGAAAT-AGACAAAAAA-
32263776 TAATATGAAAAAA-AACGTAAATTGAAATGAGAAAAAAA-
118 TAATATGAAAAAAGAA--TAAATTGAAATGAGAAAAAAAT
* * * * * * *
32263814 T-AAATTGAAATGAAAAAAAATTTAA-ATGTAATGAAATATGAAATGAAATGTAATTTGAAATGA
1 TGAAA-T--AATGAAATAAAATGTAATATGAAATG-AATATAAAATGAAATGAAAGTTGAAATAA
32263877 ATATGAAATGAAA
62 ATATGAAATGAAA
32263890 GCTGAAATGA
Statistics
Matches: 315, Mismatches: 35, Indels: 85
0.72 0.08 0.20
Matches are distributed among these distances:
152 15 0.05
153 7 0.02
154 9 0.03
155 64 0.20
156 22 0.07
157 22 0.07
158 19 0.06
159 11 0.03
160 45 0.14
161 23 0.07
162 11 0.03
163 10 0.03
164 9 0.03
165 14 0.04
166 14 0.04
167 12 0.04
168 8 0.03
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.25
Consensus pattern (155 bp):
TGAAATAATGAAATAAAATGTAATATGAAATGAATATAAAATGAAATGAAAGTTGAAATAAATAT
GAAATGAAAATAAAATATAAATTGAAATAAAAAAATTGAAATAGACAAAAAATAATATGAAAAAA
GAATAAATTGAAATGAGAAAAAAAT
Found at i:32263563 original size:84 final size:84
Alignment explanation
Indices: 32263473--32263636 Score: 201
Period size: 84 Copynumber: 1.9 Consensus size: 84
32263463 GAAAAAAGAA
* * *
32263473 TAAATTGAAATGAGA-AAAAAATTGAAATATGAAATAAAATG-TAATTTGAAATGAAAATAAAAT
1 TAAATTGAAATGAGACAAAAAATT--AATAT-AAAAAAAAAGATAAATTGAAATGAAAA-AAAAT
32263536 AT-AAAT-TGAAATGAAAAACAC
62 ATGAAATATGAAATGAAAAACAC
* * *
32263557 TAAATTGAAATGGGACAAAAAATTAATATAAAAAAAAAGAATAAATTGAAATGAGAAAAAATTTG
1 TAAATTGAAATGAGACAAAAAATTAATATAAAAAAAAAG-ATAAATTGAAATGAAAAAAAATATG
32263622 AAATATGAAATGAAA
65 AAATATGAAATGAAA
32263637 TGAAAAAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
82 8 0.12
83 11 0.16
84 32 0.46
85 18 0.26
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.24
Consensus pattern (84 bp):
TAAATTGAAATGAGACAAAAAATTAATATAAAAAAAAAGATAAATTGAAATGAAAAAAAATATGA
AATATGAAATGAAAAACAC
Found at i:32263614 original size:125 final size:116
Alignment explanation
Indices: 32263403--32263638 Score: 328
Period size: 125 Copynumber: 2.0 Consensus size: 116
32263393 GAAATAAATA
* * *
32263403 TGAAATGAAAATAAAATATAAATTGCAATTAAAAAATTGAAATCAGACAAAAAATAATATGAAAA
1 TGAAATGAAAATAAAATATAAATTGAAATAAAAAAATTGAAATCAGACAAAAAATAATATAAAAA
32263468 AAGAATAAATTGAAATGAGAAAAAAATTGAAATATGAAATAAAATGTAATT
66 AAGAATAAATTGAAATGAGAAAAAAATTGAAATATGAAATAAAATGTAATT
**
32263519 TGAAATGAAAATAAAATATAAATTGAAATGAAAAACACTAAATTGAAATGGGACAAAAAATTAAT
1 TGAAATGAAAATAAAATATAAATTGAAAT---AAA-A--AAATTGAAATCAGACAAAAAA-TAAT
* *
32263584 ATAAAAAAAAAGAATAAATTGAAATGAGAAAAAATTTGAAATATGAAATGAAATG
59 AT--AAAAAAAGAATAAATTGAAATGAGAAAAAAATTGAAATATGAAATAAAATG
32263639 AAAAAAATTG
Statistics
Matches: 104, Mismatches: 7, Indels: 9
0.87 0.06 0.08
Matches are distributed among these distances:
116 28 0.27
119 2 0.02
120 1 0.01
122 19 0.18
123 6 0.06
125 48 0.46
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.23
Consensus pattern (116 bp):
TGAAATGAAAATAAAATATAAATTGAAATAAAAAAATTGAAATCAGACAAAAAATAATATAAAAA
AAGAATAAATTGAAATGAGAAAAAAATTGAAATATGAAATAAAATGTAATT
Found at i:32263626 original size:27 final size:26
Alignment explanation
Indices: 32263603--32263662 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 26
32263593 AAGAATAAAT
32263603 TGAAATGAGAAAAAATTTGAAATATGAAA
1 TGAAATGA-AAAAAA-TTGAAATA-GAAA
*
32263632 TGAAATGAAAAAAATTGAAAT-GCAA
1 TGAAATGAAAAAAATTGAAATAGAAA
32263657 TGAAAT
1 TGAAAT
32263663 ATGAATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 9 0.30
27 7 0.23
28 6 0.20
29 8 0.27
ACGTcount: A:0.58, C:0.02, G:0.17, T:0.23
Consensus pattern (26 bp):
TGAAATGAAAAAAATTGAAATAGAAA
Found at i:32263636 original size:5 final size:5
Alignment explanation
Indices: 32263626--32264003 Score: 75
Period size: 5 Copynumber: 68.2 Consensus size: 5
32263616 AATTTGAAAT
* * *
32263626 ATGAA ATGAA ATGAA A-AAA ATTGAA ATGCA ATGAAA TATGAA TTGAA
1 ATGAA ATGAA ATGAA ATGAA A-TGAA ATGAA ATG-AA -ATGAA ATGAA
* *
32263673 TATGGA ATGGAA TAT-AA TTTGAA ATGAA ATGAA AGTTGAA ATGAA TATGAA
1 -ATGAA AT-GAA -ATGAA -ATGAA ATGAA ATGAA A--TGAA ATGAA -ATGAA
* * **
32263724 ATGAAA ATAAAA CAT-AA ATTGAA AT-AA A-AAA ACTTGAA ATGAGA CAAAAA
1 ATG-AA AT-GAA -ATGAA A-TGAA ATGAA ATGAA A--TGAA ATGA-A -ATGAA
* ** * **
32263774 ATTAA TATGAA AAAAA ACGTAA ATTGAA ATGAGA AAAAA AT-AA ATTGAA
1 ATGAA -ATGAA ATGAA ATG-AA A-TGAA ATGA-A ATGAA ATGAA A-TGAA
** * * *
32263823 ATGAA AAAAA ATTTAA ATGTA ATGAAA TATGAA ATGAA ATGTAA TTTGAA
1 ATGAA ATGAA A-TGAA ATGAA ATG-AA -ATGAA ATGAA ATG-AA -ATGAA
* * *
32263873 ATGAA TATGAA ATGAA AGCTGAA ATGAA TACGAA ATGAAA ATAAA ATATAA
1 ATGAA -ATGAA ATGAA A--TGAA ATGAA -ATGAA ATG-AA ATGAA AT-GAA
* * * *
32263924 ATTAAA ATGTGGA ATGAAA ATGAA ATTAA GTGAA ATTTGAA ATGAAA ATGAA
1 A-TGAA A--TGAA ATG-AA ATGAA ATGAA ATGAA A--TGAA ATG-AA ATGAA
*
32263976 ATTAA ATGAA ATGAAA TATGAA ATGAA A
1 ATGAA ATGAA ATG-AA -ATGAA ATGAA A
32264004 AAAAAAATGA
Statistics
Matches: 277, Mismatches: 49, Indels: 94
0.66 0.12 0.22
Matches are distributed among these distances:
4 13 0.05
5 137 0.49
6 87 0.31
7 40 0.14
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.25
Consensus pattern (5 bp):
ATGAA
Found at i:32263637 original size:12 final size:12
Alignment explanation
Indices: 32263620--32263729 Score: 56
Period size: 11 Copynumber: 9.4 Consensus size: 12
32263610 AGAAAAAATT
32263620 TGAAATATGAAA
1 TGAAATATGAAA
**
32263632 TGAAATGAAAAAAA
1 TGAAAT--ATGAAA
*
32263646 TTG-AA-ATGCAA
1 -TGAAATATGAAA
*
32263657 TGAAATATGAAT
1 TGAAATATGAAA
*
32263669 TG-AATATGGAA
1 TGAAATATGAAA
* *
32263680 TGGAATAT-AATT
1 TGAAATATGAA-A
32263692 TG-AA-ATGAAA
1 TGAAATATGAAA
32263702 TGAAAGT-TGAAA
1 TGAAA-TATGAAA
32263714 TG-AATATGAAA
1 TGAAATATGAAA
32263725 TGAAA
1 TGAAA
32263730 ATAAAACATA
Statistics
Matches: 73, Mismatches: 12, Indels: 26
0.66 0.11 0.23
Matches are distributed among these distances:
10 7 0.10
11 30 0.41
12 28 0.38
14 6 0.08
15 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.19, T:0.26
Consensus pattern (12 bp):
TGAAATATGAAA
Found at i:32263666 original size:27 final size:29
Alignment explanation
Indices: 32263603--32263667 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 29
32263593 AAGAATAAAT
*
32263603 TGAAATGA-GAAAAAATTTGAAATATGAAA
1 TGAAAT-ATGAAAAAAATTGAAATATGAAA
*
32263632 TG-AA-ATGAAAAAAATTG-AA-ATGCAA
1 TGAAATATGAAAAAAATTGAAATATGAAA
32263657 TGAAATATGAA
1 TGAAATATGAA
32263668 TTGAATATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
25 7 0.23
26 5 0.16
27 15 0.48
28 2 0.06
29 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.17, T:0.23
Consensus pattern (29 bp):
TGAAATATGAAAAAAATTGAAATATGAAA
Found at i:32263731 original size:17 final size:15
Alignment explanation
Indices: 32263626--32264003 Score: 75
Period size: 17 Copynumber: 22.7 Consensus size: 15
32263616 AATTTGAAAT
32263626 ATGAAATGAAATGAA
1 ATGAAATGAAATGAA
* *
32263641 A-AAAATTGAAATGCA
1 ATGAAA-TGAAATGAA
*
32263656 ATGAAATATGAATTGAA
1 ATG-AA-ATGAAATGAA
*
32263673 TATGGAATGGAATAT-AA
1 -ATGAAAT-GAA-ATGAA
*
32263690 TTTGAAATGAAATGAA
1 -ATGAAATGAAATGAA
32263706 AGTTGAAATGAATATGAA
1 A--TGAAATGAA-ATGAA
*
32263724 ATGAAAATAAAACAT-AA
1 ATG-AAAT-GAA-ATGAA
*
32263741 ATTGAAAT-AAA-AAA
1 A-TGAAATGAAATGAA
**
32263755 ACTTGAAATGAGACAAAAA
1 A--TGAAATGA-A-ATGAA
* **
32263774 ATTAATATGAAAAAAA
1 ATGAA-ATGAAATGAA
*
32263790 ACGTAAATTGAAATGAGA
1 ATG-AAA-TGAAATGA-A
**
32263808 AAAAAAT-AAATTGAA
1 ATGAAATGAAA-TGAA
** *
32263823 ATGAAAAAAAATTTAA
1 ATGAAATGAAA-TGAA
*
32263839 ATGTAATGAAATATGAA
1 ATGAAATG-AA-ATGAA
*
32263856 ATGAAATGTAATTTGAA
1 ATGAAATG-AA-ATGAA
32263873 ATGAATATGAAATGAA
1 ATGAA-ATGAAATGAA
*
32263889 AGCTGAAATGAATACGAA
1 A--TGAAATGAA-ATGAA
* *
32263907 ATGAAAATAAAATATAA
1 ATG-AAATGAAAT-GAA
* *
32263924 ATTAAAATGTGGAATGAAA
1 A-TGAAA--TGAAATG-AA
* *
32263943 ATGAAATTAAGTGAA
1 ATGAAATGAAATGAA
32263958 ATTTGAAATGAAAATGAA
1 A--TGAAATG-AAATGAA
*
32263976 ATTAAATGAAATGAAA
1 ATGAAATGAAATG-AA
32263992 TATGAAATGAAA
1 -ATGAAATGAAA
32264004 AAAAAAATGA
Statistics
Matches: 273, Mismatches: 47, Indels: 84
0.68 0.12 0.21
Matches are distributed among these distances:
14 7 0.03
15 37 0.14
16 53 0.19
17 116 0.42
18 49 0.18
19 11 0.04
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.25
Consensus pattern (15 bp):
ATGAAATGAAATGAA
Found at i:32263764 original size:38 final size:36
Alignment explanation
Indices: 32263720--32263841 Score: 120
Period size: 38 Copynumber: 3.2 Consensus size: 36
32263710 GAAATGAATA
*
32263720 TGAAATGAAAATAAAACATAAATTGAAATAAAAAAACT
1 TGAAATGAAAA-AAAA-ATAAATTGAAATAAAAAAAAT
* *
32263758 TGAAATGAGACAAAAAATTAATATGAAA-AAAAACGTAAAT
1 TGAAATGA-AAAAAAAATAAAT-TGAAATAAAAA---AAAT
*
32263798 TGAAATGAGAAAAAAATAAATTGAAATGAAAAAAAAT
1 TGAAATGAAAAAAAAATAAATTGAAAT-AAAAAAAAT
*
32263835 TTAAATG
1 TGAAATG
32263842 TAATGAAATA
Statistics
Matches: 70, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
37 20 0.29
38 22 0.31
39 12 0.17
40 16 0.23
ACGTcount: A:0.64, C:0.03, G:0.11, T:0.21
Consensus pattern (36 bp):
TGAAATGAAAAAAAAATAAATTGAAATAAAAAAAAT
Found at i:32263798 original size:22 final size:20
Alignment explanation
Indices: 32263743--32263834 Score: 84
Period size: 21 Copynumber: 4.5 Consensus size: 20
32263733 AAACATAAAT
*
32263743 TGAAATAAAAA-AACTTGAAA
1 TGAAA-AAAAATAAATTGAAA
* *
32263763 TG-AGACAAA-AAATT-AATA
1 TGAAAAAAAATAAATTGAA-A
32263781 TGAAAAAAAACGTAAATTGAAA
1 TGAAAAAAAA--TAAATTGAAA
32263803 TGAGAAAAAAATAAATTGAAA
1 TGA-AAAAAAATAAATTGAAA
32263824 TGAAAAAAAAT
1 TGAAAAAAAAT
32263835 TTAAATGTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
17 2 0.03
18 11 0.18
19 6 0.10
20 10 0.17
21 13 0.22
22 9 0.15
23 9 0.15
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.20
Consensus pattern (20 bp):
TGAAAAAAAATAAATTGAAA
Found at i:32263849 original size:21 final size:20
Alignment explanation
Indices: 32263461--32263834 Score: 135
Period size: 23 Copynumber: 17.6 Consensus size: 20
32263451 AAAAAATAAT
32263461 ATGAAAAAAGAATAAATTGAA
1 ATGAAAAAA-AATAAATTGAA
32263482 ATGAGAAAAAAATTGAAATATGAA
1 ATGA-AAAAAAA-T-AAAT-TGAA
** *
32263506 AT---AAAATGTAATTTGAA
1 ATGAAAAAAAATAAATTGAA
32263523 ATGAAAATAAAATATAAATTGAA
1 ATG-AAA-AAAA-ATAAATTGAA
* *
32263546 ATGAAAAACACTAAATTGAA
1 ATGAAAAAAAATAAATTGAA
* *
32263566 ATGGGACAAAAAATTAATAT-AA
1 AT--GAAAAAAAATAAAT-TGAA
32263588 A--AAAAAAGAATAAATTGAA
1 ATGAAAAAA-AATAAATTGAA
*
32263607 ATGAGAAAAAATTTGAAATATGAA
1 ATGA-AAAAAA-AT-AAAT-TGAA
*
32263631 ATGAAATGAAAA-AAATTGAA
1 ATGAAA-AAAAATAAATTGAA
* * *
32263651 ATGCAATGAAATATGAATTGAA
1 ATG-AA-AAAAAATAAATTGAA
** * *
32263673 TATGGAATGGAATATAATTTGAA
1 -AT-GAA-AAAAAATAAATTGAA
**
32263696 ATGAAATGAAAGTTGAAA-TGAA
1 ATGAAA--AAAAAT-AAATTGAA
* *
32263718 TATGAAATGAAAATAAAACAT-AA
1 -ATGAAA-AAAAAT-AAA-TTGAA
*
32263741 ATTGAAATAAAAA-AACTTGAA
1 A-TGAAA-AAAAATAAATTGAA
* *
32263762 ATG-AGACAAA-AAATT-AA
1 ATGAAAAAAAATAAATTGAA
32263779 TATGAAAAAAAACGTAAATTGAA
1 -ATGAAAAAAAA--TAAATTGAA
32263802 ATGAGAAAAAAATAAATTGAA
1 ATGA-AAAAAAATAAATTGAA
32263823 ATGAAAAAAAAT
1 ATGAAAAAAAAT
32263835 TTAAATGTAA
Statistics
Matches: 269, Mismatches: 42, Indels: 85
0.68 0.11 0.21
Matches are distributed among these distances:
17 8 0.03
18 20 0.07
19 16 0.06
20 33 0.12
21 42 0.16
22 63 0.23
23 68 0.25
24 19 0.07
ACGTcount: A:0.61, C:0.02, G:0.14, T:0.23
Consensus pattern (20 bp):
ATGAAAAAAAATAAATTGAA
Found at i:32263886 original size:23 final size:23
Alignment explanation
Indices: 32263851--32263912 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
32263841 GTAATGAAAT
* **
32263851 ATGAA-ATGAAATGTAATTTGAA
1 ATGAATATGAAATGAAAGCTGAA
32263873 ATGAATATGAAATGAAAGCTGAA
1 ATGAATATGAAATGAAAGCTGAA
*
32263896 ATGAATACGAAATGAAA
1 ATGAATATGAAATGAAA
32263913 ATAAAATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 5 0.14
23 30 0.86
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.24
Consensus pattern (23 bp):
ATGAATATGAAATGAAAGCTGAA
Found at i:32263968 original size:28 final size:28
Alignment explanation
Indices: 32263904--32263987 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 28
32263894 AAATGAATAC
* * *
32263904 GAAATGAAAATAAAATATAAATTAAAATGT
1 GAAATGAAAATGAAAT-TAAA-TGAAATTT
* *
32263934 GGAATGAAAATGAAATTAAGTGAAATTT
1 GAAATGAAAATGAAATTAAATGAAATTT
32263962 GAAATGAAAATGAAATTAAATGAAAT
1 GAAATGAAAATGAAATTAAATGAAAT
32263988 GAAATATGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 30 0.64
29 3 0.06
30 14 0.30
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.26
Consensus pattern (28 bp):
GAAATGAAAATGAAATTAAATGAAATTT
Found at i:32263996 original size:28 final size:25
Alignment explanation
Indices: 32263811--32264003 Score: 100
Period size: 28 Copynumber: 6.9 Consensus size: 25
32263801 AATGAGAAAA
**
32263811 AAAT-AAATTGAAATGAAAAAAAATTT
1 AAATGAAA-TGAAATGAAATGAAA-TT
*
32263837 AAATGTAATGAAATATGAAATGAAATGT
1 AAATGAAATG-AA-ATGAAATGAAAT-T
* *
32263865 AATTTGAAATGAATATGAAATGAAAGCTG
1 AA-ATGAAATGAA-ATGAAATGAAA--TT
* *
32263894 AAATGAATACGAAATGAAAATAAAATAT
1 AAATGAA-ATGAAATG-AAATGAAAT-T
* *
32263922 AAATTAAAATGTGGAATGAAAATGAAATT
1 AAA-TGAAA--TGAAATG-AAATGAAATT
*
32263951 AAGTGAAATTTGAAATGAAAATGAAATT
1 AAATGAAA--TGAAATG-AAATGAAATT
32263979 AAATGAAATGAAATATGAAATGAAA
1 AAATGAAATG-AA-ATGAAATGAAA
32264004 AAAAAAATGA
Statistics
Matches: 133, Mismatches: 19, Indels: 29
0.73 0.10 0.16
Matches are distributed among these distances:
26 8 0.06
27 16 0.12
28 69 0.52
29 25 0.19
30 15 0.11
ACGTcount: A:0.58, C:0.01, G:0.16, T:0.26
Consensus pattern (25 bp):
AAATGAAATGAAATGAAATGAAATT
Found at i:32267898 original size:40 final size:40
Alignment explanation
Indices: 32267843--32268070 Score: 411
Period size: 40 Copynumber: 5.7 Consensus size: 40
32267833 GAGCATTGGA
32267843 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
32267883 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
32267923 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
32267963 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
32268003 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
32268043 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
32268071 ATGTGTTTGC
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:32275837 original size:40 final size:39
Alignment explanation
Indices: 32275806--32276015 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
32275796 GGACTAAGAT
* *
32275806 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
32275846 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
32275886 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
32275926 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
32275966 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
32276005 CCGAAGGCATT
1 CCGAAGGCATT
32276016 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:32275969 original size:120 final size:120
Alignment explanation
Indices: 32275753--32276015 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
32275743 TTGAATGCTG
* *
32275753 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
32275817 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
32275873 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
32275936 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
32275992 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
32276016 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:32276035 original size:79 final size:80
Alignment explanation
Indices: 32275754--32276050 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
32275744 TGAATGCTGT
* ** * * * **
32275754 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
32275817 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
32275834 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
32275898 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
32275914 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
32275978 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
32275993 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
32276051 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:32278697 original size:18 final size:17
Alignment explanation
Indices: 32278659--32278702 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
32278649 AGTCTAAATA
32278659 TTTTATTTATTCATTTAT
1 TTTTATTTATT-ATTTAT
32278677 TTTTATTTATT-TTTAGT
1 TTTTATTTATTATTTA-T
*
32278694 TTTTTTTTA
1 TTTTATTTA
32278703 AAGAGGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 9 0.38
18 11 0.46
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTATTTATTATTTAT
Found at i:32278700 original size:11 final size:10
Alignment explanation
Indices: 32278660--32278702 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
32278650 GTCTAAATAT
32278660 TTTATTTATTCA
1 TTTATTT-TT-A
32278672 TTTATTTTTA
1 TTTATTTTTA
32278682 TTTATTTTTA
1 TTTATTTTTA
*
32278692 GTTTTTTTTTA
1 -TTTATTTTTA
32278703 AAGAGGCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 11 0.38
11 11 0.38
12 7 0.24
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:32280361 original size:27 final size:27
Alignment explanation
Indices: 32280331--32280399 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
32280321 AGTATAAAGA
*
32280331 GTATAACAGTCATTTCACCCTACAGGG
1 GTATTACAGTCATTTCACCCTACAGGG
32280358 GTATTACAGTCATTTCACCCTACAGGG
1 GTATTACAGTCATTTCACCCTACAGGG
32280385 GTATTACAGTCATTT
1 GTATTACAGTCATTT
32280400 TCGTCAGAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (27 bp):
GTATTACAGTCATTTCACCCTACAGGG
Found at i:32287419 original size:29 final size:30
Alignment explanation
Indices: 32287387--32287452 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
32287377 ATATATAACG
**
32287387 AAATTTCTGTAATTAAAAGTAGA-ATGACT-
1 AAATTTCTAAAATTAAAAGTAGAGAT-ACTA
*
32287416 AAATTTTTAAAATTAAAAGTAGAGATACTA
1 AAATTTCTAAAATTAAAAGTAGAGATACTA
32287446 AAATTTC
1 AAATTTC
32287453 AATTGTGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 23 0.74
30 8 0.26
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (30 bp):
AAATTTCTAAAATTAAAAGTAGAGATACTA
Found at i:32293351 original size:13 final size:13
Alignment explanation
Indices: 32293333--32293357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32293323 TCACTACTAC
32293333 TATTATTATTAAA
1 TATTATTATTAAA
32293346 TATTATTATTAA
1 TATTATTATTAA
32293358 CATTTTTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATTATTAAA
Found at i:32294127 original size:12 final size:12
Alignment explanation
Indices: 32294110--32294134 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32294100 TAGTCAACAT
32294110 AGAAAGAGGAAG
1 AGAAAGAGGAAG
32294122 AGAAAGAGGAAG
1 AGAAAGAGGAAG
32294134 A
1 A
32294135 TGTTTTTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (12 bp):
AGAAAGAGGAAG
Found at i:32308081 original size:123 final size:124
Alignment explanation
Indices: 32307948--32308196 Score: 295
Period size: 124 Copynumber: 2.0 Consensus size: 124
32307938 ATTTCTTAAC
* * ** * * *
32307948 AAAAATTTCACTCAATGTTACTATCATGTTGTAGACATTAAAATAATA-TAAAATAATTATTTTG
1 AAAAAATTCACACAATCATACTATCATGCTATAAACATTAAAATAATATTAAAATAATTATTTTG
** *** *
32308012 A-CTTTGGATTTATAGTTTTGAAACCACTGTTATGATTTGACTAAAAACGGGCTGTTACA
66 ACCTCAGG-TTTATAGTCCCGAAACCACTGTTACGATTTGACTAAAAACGGGCTGTTACA
* *
32308071 AAAAAATTCACACAATCATATTATCATGCTATAAATATTAAAATAATATTAAAATAATTATTTTG
1 AAAAAATTCACACAATCATACTATCATGCTATAAACATTAAAATAATATTAAAATAATTATTTTG
* * * * *
32308136 ACCTCAGGTTTGTGGTCCCGAAACCACTGTTCCGGTTTGACTAAAAACGGGTTGTTACA
66 ACCTCAGGTTTATAGTCCCGAAACCACTGTTACGATTTGACTAAAAACGGGCTGTTACA
32308195 AA
1 AA
32308197 CATGTGACAA
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
123 39 0.38
124 61 0.59
125 4 0.04
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (124 bp):
AAAAAATTCACACAATCATACTATCATGCTATAAACATTAAAATAATATTAAAATAATTATTTTG
ACCTCAGGTTTATAGTCCCGAAACCACTGTTACGATTTGACTAAAAACGGGCTGTTACA
Found at i:32308132 original size:12 final size:11
Alignment explanation
Indices: 32308104--32308128 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32308094 TCATGCTATA
32308104 AATATTAAAAT
1 AATATTAAAAT
32308115 AATATTAAAAT
1 AATATTAAAAT
32308126 AAT
1 AAT
32308129 TATTTTGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:32311046 original size:3 final size:3
Alignment explanation
Indices: 32311038--32311084 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
32311028 TATGTAAATA
* *
32311038 AAT AAT AAT AGAT AA- AAT AAT AAT AAT GAT AGT AAT AAT AAAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
32311084 A
1 A
32311085 TATATAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:32311059 original size:18 final size:19
Alignment explanation
Indices: 32311033--32311084 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
32311023 AAACATATGT
32311033 AAATAAATAATAATAGATA-
1 AAAT-AATAATAATAGATAG
32311052 AAATAATAATAAT-GATAG
1 AAATAATAATAATAGATAG
*
32311070 TAATAATAAATAATA
1 AAATAAT-AATAATA
32311085 TATATAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 4 0.14
18 15 0.52
19 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (19 bp):
AAATAATAATAATAGATAG
Found at i:32312290 original size:45 final size:44
Alignment explanation
Indices: 32312129--32312611 Score: 150
Period size: 44 Copynumber: 10.6 Consensus size: 44
32312119 TCGTTCCAAC
* * * * * *
32312129 CCACTGCAACTTCAAGGG-TATAGGAATTGTCGATTCAATCTGCT
1 CCACTGCAACTTC-GGGGAGATAAGATTTGTAGATTTAATCTGCT
* * * *
32312173 CCACTGCATCTTCAGGGG-GATTAGACTTGTAGATTTAATCTACT
1 CCACTGCAACTTC-GGGGAGATAAGATTTGTAGATTTAATCTGCT
* * * * *
32312217 CCACTGCAACTTCGGGTAGTTGATATTTGTA-ACTTTTGATCTGCT
1 CCACTGCAACTTCGGGGAGATAAGATTTGTAGA--TTTAATCTGCT
* * * *
32312262 CCACCGCAACTTCGGGGAGATAAGATTTGCCATGATACCTTCAATCCGTT
1 CCACTGCAACTTCGGGGAGATAAGATTTG-TA-GAT---TT-AATCTGCT
* * * * *
32312312 CCATTGTAACTTCAGGGGTATGGGATTTATA-ATTTGTAGCTTAAATCTGTT
1 CCACTGCAACTTC-GGGG-A---GA--TA-AGATTTGTAGATTTAATCTGCT
* * ** ** * * *
32312363 CCACTGCAACTTCAGGGAAATAAGATCCGCTATCTTCAACCTACT
1 CCACTGCAACTTCGGGGAGATAAGATTTG-TAGATTTAATCTGCT
* ** * ** * *
32312408 CCATTGCAACTTTAGGGAGATAAGGTTAATGGCTTTAATCTGCT
1 CCACTGCAACTTCGGGGAGATAAGATTTGTAGATTTAATCTGCT
* * * *
32312452 CCACTGCAACTTCAGAGAGATAAGATTTGCCA-TTTTCAATCTGCT
1 CCACTGCAACTTCGGGGAGATAAGATTTG-TAGATTT-AATCTGCT
* * * * * * * *
32312497 CCACTGTAACTTCAGGGAGTTGAGGTTCGTA-ACTTCAATGTGCT
1 CCACTGCAACTTCGGGGAGATAAGATTTGTAGA-TTTAATCTGCT
** * * * * * **
32312541 CCACTGCAACTTTAGGGAGACAAGGTTTATGGCTTTAATCTAAT
1 CCACTGCAACTTCGGGGAGATAAGATTTGTAGATTTAATCTGCT
**
32312585 CCACTGCAACTTCAAGGAGATAAGATT
1 CCACTGCAACTTCGGGGAGATAAGATT
32312612 CATCATGGTA
Statistics
Matches: 323, Mismatches: 92, Indels: 48
0.70 0.20 0.10
Matches are distributed among these distances:
43 5 0.02
44 158 0.49
45 98 0.30
46 3 0.01
48 1 0.00
49 3 0.01
50 18 0.06
51 22 0.07
52 2 0.01
55 4 0.01
56 1 0.00
57 7 0.02
58 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
CCACTGCAACTTCGGGGAGATAAGATTTGTAGATTTAATCTGCT
Found at i:32312472 original size:44 final size:43
Alignment explanation
Indices: 32312406--32312608 Score: 183
Period size: 44 Copynumber: 4.6 Consensus size: 43
32312396 CTTCAACCTA
* *
32312406 CTCCATTGCAACTTTAGGGAGATAAGGTTAATGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGGTT-ATGGCTTTAATCTG
* * *
32312450 CTCCACTGCAACTTCAGAGAGATAAGATT-TGCCATTTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGGTTATGGC--TTT-AATCTG
* * * * ** * *
32312495 CTCCACTGTAACTTCAGGGAGTTGAGGTTCGTAACTTCAATGTG
1 CTCCACTGCAACTTCAGGGAGATAAGGTT-ATGGCTTTAATCTG
* * *
32312539 CTCCACTGCAACTTTAGGGAGACAAGGTTTATGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGG-TTATGGCTTTAATCTG
* *
32312583 ATCCACTGCAACTTCAAGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
32312609 ATTCATCATG
Statistics
Matches: 124, Mismatches: 29, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
42 3 0.02
44 85 0.69
45 34 0.27
47 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGGTTATGGCTTTAATCTG
Found at i:32312508 original size:89 final size:89
Alignment explanation
Indices: 32312348--32312552 Score: 221
Period size: 89 Copynumber: 2.3 Consensus size: 89
32312338 TTATAATTTG
* * * *
32312348 TAGCTTAAATCTGTTCCACTGCAACTTCAGGGAAATAAGATCCGCTATCTTCAACCTACTCCATT
1 TAGCTTAAATCTGCTCCACTGCAACTTCAGAGAAATAAGATCCGCCATCTTCAACCTACTCCACT
*
32312413 GCAACTTTAGGGAGATAAGGTTAA
66 GCAACTTCAGGGAGATAAGGTTAA
* * * ** * * *
32312437 TGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCCATTTTCAATCTGCTCCACT
1 TAGCTTAAATCTGCTCCACTGCAACTTCAGAGAAATAAGATCCGCCATCTTCAACCTACTCCACT
* * * **
32312502 GTAACTTCAGGGAGTTGAGGTTCG
66 GCAACTTCAGGGAGATAAGGTTAA
* * *
32312526 TAACTTCAATGTGCTCCACTGCAACTT
1 TAGCTTAAATCTGCTCCACTGCAACTT
32312553 TAGGGAGACA
Statistics
Matches: 94, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
89 94 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (89 bp):
TAGCTTAAATCTGCTCCACTGCAACTTCAGAGAAATAAGATCCGCCATCTTCAACCTACTCCACT
GCAACTTCAGGGAGATAAGGTTAA
Found at i:32313485 original size:4 final size:4
Alignment explanation
Indices: 32313471--32313502 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
32313461 CCTTAGCCTC
32313471 TCTT T-TT TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
32313503 TTTTATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TCTT
Found at i:32323290 original size:24 final size:24
Alignment explanation
Indices: 32323240--32323290 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
32323230 GTGTTATGTA
* * *
32323240 GAGGAAATCAATGAGAGGATTGGG
1 GAGGAAATCAAGGAGAAGATTAGG
*
32323264 GAGGAAATCAAGGAGAAGATTATG
1 GAGGAAATCAAGGAGAAGATTAGG
32323288 GAG
1 GAG
32323291 AGATTTTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.39, T:0.16
Consensus pattern (24 bp):
GAGGAAATCAAGGAGAAGATTAGG
Found at i:32324585 original size:18 final size:18
Alignment explanation
Indices: 32324544--32324586 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32324534 CGTGGTATTT
32324544 ATGGGCTTGATGGGCCAC
1 ATGGGCTTGATGGGCCAC
*
32324562 ACGGGCTTG-TGGGCCTAC
1 ATGGGCTTGATGGGCC-AC
*
32324580 TTGGGCT
1 ATGGGCT
32324587 GCATAATGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.12, C:0.23, G:0.40, T:0.26
Consensus pattern (18 bp):
ATGGGCTTGATGGGCCAC
Found at i:32326219 original size:18 final size:18
Alignment explanation
Indices: 32326196--32326245 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
32326186 TCAATAATAT
*
32326196 TCATTTATTCAGTATCAG
1 TCATTTATTCAGTAACAG
*
32326214 TCATTTATTCTGTAACAG
1 TCATTTATTCAGTAACAG
*
32326232 TCAATTATTCAGTA
1 TCATTTATTCAGTA
32326246 GCAGACAGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (18 bp):
TCATTTATTCAGTAACAG
Found at i:32327260 original size:46 final size:46
Alignment explanation
Indices: 32327144--32327412 Score: 309
Period size: 46 Copynumber: 6.2 Consensus size: 46
32327134 TTTGATGTGA
* * * * ** * *
32327144 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
32327191 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
32327237 TGCCATGGTATCTTTCAATCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
32327275 TGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
32327321 TGCCATGGTATCTTTCAATCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
32327359 TGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
32327405 TGCCATGG
1 TGCCATGG
32327413 NNNNNNNNNN
Statistics
Matches: 190, Mismatches: 16, Indels: 33
0.79 0.07 0.14
Matches are distributed among these distances:
38 62 0.33
39 2 0.01
40 6 0.03
41 2 0.01
43 2 0.01
44 6 0.03
45 2 0.01
46 79 0.42
47 29 0.15
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:32327284 original size:38 final size:38
Alignment explanation
Indices: 32327232--32327391 Score: 212
Period size: 38 Copynumber: 4.0 Consensus size: 38
32327222 CATTTCATAT
*
32327232 CAGGTTGCCATGGTATCTTTCAATCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
32327270 CAGGTTGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
*
32327315 TCAGGTTGCCATGGTATCTTTCAATCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
32327354 CAGGTTGCCTTGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
32327392 TTTCATATCA
Statistics
Matches: 108, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
38 67 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 31 0.29
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:32327330 original size:84 final size:84
Alignment explanation
Indices: 32327189--32327412 Score: 439
Period size: 84 Copynumber: 2.7 Consensus size: 84
32327179 TTTTTGTCAT
*
32327189 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
32327254 ATCATGGTCTTACACACAG
66 ATCATGGTCTTACACACAG
32327273 GTTGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
32327338 ATCATGGTCTTACACACAG
66 ATCATGGTCTTACACACAG
32327357 GTTGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 GTTGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
32327413 NNNNNNNNNN
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 139 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (84 bp):
GTTGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
ATCATGGTCTTACACACAG
Found at i:32327584 original size:23 final size:24
Alignment explanation
Indices: 32327513--32327601 Score: 153
Period size: 24 Copynumber: 3.8 Consensus size: 24
32327503 NNNNNNNNNN
*
32327513 GGGCATAAGCCCTTTTGACAACTG
1 GGGCATAAGCCCTTTTGATAACTG
32327537 GGGCATAAGCCCTTTTGATAACTG
1 GGGCATAAGCCCTTTTGATAACTG
*
32327561 GGGCATAAGCCC-TTTAATAACTG
1 GGGCATAAGCCCTTTTGATAACTG
32327584 GGGCATAAGCCCTTTTGA
1 GGGCATAAGCCCTTTTGA
32327602 ACTTCCTCCA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
23 22 0.36
24 39 0.64
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (24 bp):
GGGCATAAGCCCTTTTGATAACTG
Found at i:32327663 original size:20 final size:20
Alignment explanation
Indices: 32327638--32327675 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32327628 ACCCAAGTGT
*
32327638 ATATCATACATGTCATGTGC
1 ATATCATACATATCATGTGC
32327658 ATATCATACATATCATGT
1 ATATCATACATATCATGT
32327676 TTATCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (20 bp):
ATATCATACATATCATGTGC
Found at i:32327754 original size:25 final size:24
Alignment explanation
Indices: 32327712--32327759 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
32327702 ATATATAAAC
* * *
32327712 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
32327737 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
32327760 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:32335303 original size:31 final size:31
Alignment explanation
Indices: 32335265--32335327 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
32335255 CTTTTCACAC
*
32335265 TTCATATTTCGTAACACTGGGCCCAAGCCTT
1 TTCATATTTCATAACACTGGGCCCAAGCCTT
** *
32335296 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCCAAGCCTT
32335327 T
1 T
32335328 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCCAAGCCTT
Found at i:32335641 original size:9 final size:9
Alignment explanation
Indices: 32335627--32335683 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
32335617 ATCTCGTGTG
32335627 CATATCATA
1 CATATCATA
*
32335636 CATATCATGTG
1 CATATCA--TA
32335647 CATATCATA
1 CATATCATA
* *
32335656 CATGTCATGTG
1 CATATCA--TA
32335667 CATATCATA
1 CATATCATA
32335676 CATATCAT
1 CATATCAT
32335684 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:32335646 original size:20 final size:20
Alignment explanation
Indices: 32335623--32335685 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
32335613 GAACATCTCG
32335623 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
32335643 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
32335663 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
32335683 TGT
1 TGT
32335686 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:32335764 original size:25 final size:24
Alignment explanation
Indices: 32335722--32335769 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
32335712 ATATATAAAC
* * *
32335722 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
32335747 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
32335770 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Done.