Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 55 of 62
Found at i:12905661 original size:21 final size:21
Alignment explanation
Indices: 12905637--12905677 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12905627 GTAGTTCTTA
*
12905637 CTGTCGAGATGTTTCTCTGTC
1 CTGTCGAGACGTTTCTCTGTC
12905658 CTGTCGAGACGTTTCTCTGT
1 CTGTCGAGACGTTTCTCTGT
12905678 ACTGGCGACA
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:0.10, C:0.24, G:0.24, T:0.41
Consensus pattern (21 bp):
CTGTCGAGACGTTTCTCTGTC
Found at i:12906114 original size:20 final size:22
Alignment explanation
Indices: 12906078--12906120 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
12906068 TTACTAACCC
*
12906078 TATAAAGTTATATTATAA-TTA
1 TATAAAGTTAAATTATAAGTTA
12906099 TATAAA-TTAAATTATAAGTTA
1 TATAAAGTTAAATTATAAGTTA
12906120 T
1 T
12906121 GTGTAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
TATAAAGTTAAATTATAAGTTA
Found at i:12907516 original size:15 final size:15
Alignment explanation
Indices: 12907478--12907569 Score: 77
Period size: 15 Copynumber: 6.3 Consensus size: 15
12907468 ATATTATTTA
*
12907478 ATAATACTAATAT-T
1 ATAATAATAATATAT
12907492 ATTAAT-ATAATATAT
1 A-TAATAATAATATAT
**
12907507 ATAATAATAACGTAT
1 ATAATAATAATATAT
* *
12907522 ATAATAAAAACATAT
1 ATAATAATAATATAT
12907537 ATAATTAATAAT-TA-
1 ATAA-TAATAATATAT
12907551 ATAATATATAATA-AT
1 ATAATA-ATAATATAT
12907566 ATAA
1 ATAA
12907570 ACAGACAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
13 2 0.03
14 21 0.33
15 36 0.56
16 5 0.08
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (15 bp):
ATAATAATAATATAT
Found at i:12907812 original size:41 final size:42
Alignment explanation
Indices: 12907752--12907854 Score: 136
Period size: 42 Copynumber: 2.5 Consensus size: 42
12907742 GCCCAAATGT
* * * * *
12907752 CTGACGGATGGCCCTAAGGACTT-ATCATCTTGCTCGAAAGA
1 CTGACAGATGACCCGAAGGACTTAAACATCATGCTCGAAAGA
*
12907793 CTGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGA
1 CTGACAGATGACCCGAAGGACTTAAACATCATGCTCGAAAGA
*
12907835 CTTACAGATGACCCGAAGGA
1 CTGACAGATGACCCGAAGGA
12907855 TTTACAAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 19 0.35
42 35 0.65
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (42 bp):
CTGACAGATGACCCGAAGGACTTAAACATCATGCTCGAAAGA
Found at i:12907833 original size:42 final size:42
Alignment explanation
Indices: 12907777--12907858 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
12907767 AAGGACTTAT
*
12907777 CATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAA
1 CATCATGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAA
*
12907819 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTA
1 CATCATGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
12907859 CAAATTTGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAA
Found at i:12907859 original size:20 final size:20
Alignment explanation
Indices: 12907796--12907860 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
12907786 CGAAAGACTG
12907796 ACAGATGACCCGAAGGATTT
1 ACAGATGACCCGAAGGATTT
* * * *
12907816 AAACATCATG-CTCGAAAGACTT
1 --ACA-GATGACCCGAAGGATTT
12907838 ACAGATGACCCGAAGGATTT
1 ACAGATGACCCGAAGGATTT
12907858 ACA
1 ACA
12907861 AATTTGTGAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 3 0.09
20 15 0.45
22 12 0.36
23 3 0.09
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (20 bp):
ACAGATGACCCGAAGGATTT
Found at i:12908170 original size:249 final size:250
Alignment explanation
Indices: 12907730--12908199 Score: 764
Period size: 249 Copynumber: 1.9 Consensus size: 250
12907720 AATTAAAGAG
* * * * *
12907730 TGTAAACATCCTGCCCAAATGTCTGACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACT
1 TGTAAACATCCTACCCAAAGGTCTAACGGATGGCCCTAAGGACTTATCATATGGCTCGAAAGACT
*
12907795 GACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAC
66 GACAGATGACCCGAAGGATTTAAACATCATGCTCAAAAGACTTACAGATGACCCGAAGGATTTAC
* * *
12907860 AAATTTGTGATAAATAATTTACTGAGTAAGAGACTTCTTACTTTTAAAAAATTTGATTTTCT-AG
131 AAATTTGTGATAAATAATTTACTGAGTAAGAAACTTCTTACTTTTAAAAAATTTCATTTTCTAAA
12907924 AACAATAAATGAGAAACTTTGAAAATTGCTATCTCATTTTCATGCGAAAATCATA
196 AACAATAAATGAGAAACTTTGAAAATTGCTATCTCATTTTCATGCGAAAATCATA
* *
12907979 TGTAAACATCCTACCCAAAGGTTTAACGGATGGCCCTAAGGATTTATCATATGGCTCGAAAGACT
1 TGTAAACATCCTACCCAAAGGTCTAACGGATGGCCCTAAGGACTTATCATATGGCTCGAAAGACT
* * *
12908044 GATAGATGACCCGAAGGTTTTAAGCATCATGCTCAAAAGACTTACAGATGACCCGAAGGATTTAC
66 GACAGATGACCCGAAGGATTTAAACATCATGCTCAAAAGACTTACAGATGACCCGAAGGATTTAC
* *
12908109 AAATTTGTGGTAAATAATTTACT-AGGTAAGAAACTTCTTACTTTTCAAAAATTTCATTTTCTAA
131 AAATTTGTGATAAATAATTTACTGA-GTAAGAAACTTCTTACTTTTAAAAAATTTCATTTTCTAA
*
12908173 AAAGAATAAATGAGAAACTTTGAAAAT
195 AAACAATAAATGAGAAACTTTGAAAAT
12908200 CGTTTTCCCA
Statistics
Matches: 202, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
248 1 0.00
249 175 0.87
250 26 0.13
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (250 bp):
TGTAAACATCCTACCCAAAGGTCTAACGGATGGCCCTAAGGACTTATCATATGGCTCGAAAGACT
GACAGATGACCCGAAGGATTTAAACATCATGCTCAAAAGACTTACAGATGACCCGAAGGATTTAC
AAATTTGTGATAAATAATTTACTGAGTAAGAAACTTCTTACTTTTAAAAAATTTCATTTTCTAAA
AACAATAAATGAGAAACTTTGAAAATTGCTATCTCATTTTCATGCGAAAATCATA
Found at i:12908758 original size:22 final size:22
Alignment explanation
Indices: 12908730--12908773 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12908720 GCTTTCTATA
12908730 TTTGAAAAGAGAATATATCATC
1 TTTGAAAAGAGAATATATCATC
*
12908752 TTTGAAAAGAGAATCTATCATC
1 TTTGAAAAGAGAATATATCATC
12908774 CTGACAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (22 bp):
TTTGAAAAGAGAATATATCATC
Found at i:12908946 original size:57 final size:56
Alignment explanation
Indices: 12908865--12908976 Score: 197
Period size: 57 Copynumber: 2.0 Consensus size: 56
12908855 TTGAAATACA
*
12908865 TCACAAGAAGGATTTATCTTAATTCCTTTCATGTCTCCACATCTAATCAAATCTCT
1 TCACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCACATCTAATCAAATCTCT
*
12908921 TCACAAGAAGGAGTTTATCCTAATTCCTTTCATGTCTCCACATCTAATCATATCTC
1 TCACAAGAAGGA-TTTATCCTAATTCCTTTCATGTCTCCACATCTAATCAAATCTC
12908977 AAATAAGGTT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
56 12 0.23
57 41 0.77
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (56 bp):
TCACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCACATCTAATCAAATCTCT
Found at i:12914711 original size:89 final size:89
Alignment explanation
Indices: 12914581--12914758 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
12914571 GTGCCGATTT
12914581 TGGAACCTACAGTGTAGTACACAATCGAACAAAGCATAAAAAAATAGGCCCAGCTGTGTGCACCG
1 TGGAACCTACAGTGTAGTACACAATCGAACAAAGCATAAAAAAATAGGCCCAGCTGTGTGCACCG
12914646 TTTCATTAATGACGCACGTTAGTA
66 TTTCATTAATGACGCACGTTAGTA
12914670 TGGAACCTACAGTGTAGTACACAATCGAACAAAGCATAAAAAAATAGGCCCAGCTGTGTGCACCG
1 TGGAACCTACAGTGTAGTACACAATCGAACAAAGCATAAAAAAATAGGCCCAGCTGTGTGCACCG
12914735 TTTCATTAATGACGCACGTTAGTA
66 TTTCATTAATGACGCACGTTAGTA
12914759 GAACCCAAGG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (89 bp):
TGGAACCTACAGTGTAGTACACAATCGAACAAAGCATAAAAAAATAGGCCCAGCTGTGTGCACCG
TTTCATTAATGACGCACGTTAGTA
Found at i:12922334 original size:12 final size:12
Alignment explanation
Indices: 12922317--12922347 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12922307 TATCCAGAGT
12922317 CTTCTTCCTCAG
1 CTTCTTCCTCAG
*
12922329 CTTCTTCCTCAT
1 CTTCTTCCTCAG
12922341 CTTCTTC
1 CTTCTTC
12922348 TTCTCCCCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.42, G:0.03, T:0.48
Consensus pattern (12 bp):
CTTCTTCCTCAG
Found at i:12923964 original size:22 final size:23
Alignment explanation
Indices: 12923928--12923982 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
12923918 TATGGCACAT
*
12923928 CGGTGCATTTCTACGCGGCACTA
1 CGGTGCAATTCTACGCGGCACTA
* *
12923951 CGGT-CAATTCTACGTGGCACTT
1 CGGTGCAATTCTACGCGGCACTA
12923973 CGGTGCAATT
1 CGGTGCAATT
12923983 TATATGAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.29
Consensus pattern (23 bp):
CGGTGCAATTCTACGCGGCACTA
Found at i:12927083 original size:24 final size:24
Alignment explanation
Indices: 12927056--12927105 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
12927046 TGGTGGTTGA
12927056 TTTAATGGTTGT-TTGAACTTTATT
1 TTTAATGG-TGTATTGAACTTTATT
* *
12927080 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTGAACTTTATT
12927104 TT
1 TT
12927106 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTATTGAACTTTATT
Found at i:12929809 original size:202 final size:203
Alignment explanation
Indices: 12929463--12929868 Score: 805
Period size: 202 Copynumber: 2.0 Consensus size: 203
12929453 ATGATGATAG
12929463 AGTTATTGAGAAGGACAAGGAGGAGGATTCTGCTAAGATACCAGATTCTGATGCCAAGACAAAAG
1 AGTTATTGAGAAGGACAAGGAGGAGGATTCTGCTAAGATACCAGATTCTGATGCCAAGACAAAAG
12929528 CAAATTCTATTCCCGCAGCTAAGGAACCTAAACCTCCCCCACCCTTCCCGCAAAGATTGAAGAAG
66 CAAATTCTATTCCCGCAGCTAAGGAACCTAAACCTCCCCCACCCTTCCCGCAAAGATTGAAGAAG
12929593 CATAATGATGAAGTTCAGTTCAAGAAGTTCATGGAC-TTCTTGATCAGCTCCATATCAATATACC
131 CATAATGATGAAGTTCAGTTCAAGAAGTTCATGGACATTCTTGATCAGCTCCATATCAATATACC
12929657 TCTCTTGA
196 TCTCTTGA
12929665 AGTTATTGAGAAGGACAAGGAGGAGGATTCTGCTAAGATACCAGATTCTGATGCCAAGACAAAAG
1 AGTTATTGAGAAGGACAAGGAGGAGGATTCTGCTAAGATACCAGATTCTGATGCCAAGACAAAAG
12929730 CAAATTCTATTCCCGCAGCTAAGGAACCTAAACCTCCCCCACCCTTCCCGCAAAGATTGAAGAAG
66 CAAATTCTATTCCCGCAGCTAAGGAACCTAAACCTCCCCCACCCTTCCCGCAAAGATTGAAGAAG
12929795 CATAATGATGAAGTTCAGTTCAAGAAGTTCATGGACATTCTTGATCAGCTCCATATCAATATACC
131 CATAATGATGAAGTTCAGTTCAAGAAGTTCATGGACATTCTTGATCAGCTCCATATCAATATACC
12929860 TCTCTTGA
196 TCTCTTGA
12929868 A
1 A
12929869 AGCTGTTGAA
Statistics
Matches: 203, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
202 166 0.82
203 37 0.18
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (203 bp):
AGTTATTGAGAAGGACAAGGAGGAGGATTCTGCTAAGATACCAGATTCTGATGCCAAGACAAAAG
CAAATTCTATTCCCGCAGCTAAGGAACCTAAACCTCCCCCACCCTTCCCGCAAAGATTGAAGAAG
CATAATGATGAAGTTCAGTTCAAGAAGTTCATGGACATTCTTGATCAGCTCCATATCAATATACC
TCTCTTGA
Found at i:12937151 original size:24 final size:24
Alignment explanation
Indices: 12937122--12937171 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
12937112 TGGTGGTTGA
12937122 TTTAATGGTTGT-TTGAACTTTATT
1 TTTAATGG-TGTATTGAACTTTATT
* *
12937146 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTGAACTTTATT
12937170 TT
1 TT
12937172 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTATTGAACTTTATT
Found at i:12938939 original size:2 final size:2
Alignment explanation
Indices: 12938932--12938959 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12938922 TATGAGATTA
12938932 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12938960 TAGGAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12940003 original size:23 final size:23
Alignment explanation
Indices: 12939969--12940024 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
12939959 TATGGAACTT
* *
12939969 CGGTGCATTTCTACGCGGCACTA
1 CGGTGCAATTCTACGCAGCACTA
* *
12939992 CGGTGCAATTCTACGTAGCACTT
1 CGGTGCAATTCTACGCAGCACTA
12940015 CGGTGCAATT
1 CGGTGCAATT
12940025 TCTATGAGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.29
Consensus pattern (23 bp):
CGGTGCAATTCTACGCAGCACTA
Found at i:12942405 original size:18 final size:20
Alignment explanation
Indices: 12942363--12942400 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
12942353 GGATCATATG
*
12942363 TAATATTATTTA-ATAATAC
1 TAATATTATTAATATAATAC
12942382 TAATATTATTAATATAATA
1 TAATATTATTAATATAATA
12942401 TATATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATATTATTAATATAATAC
Found at i:12942428 original size:15 final size:15
Alignment explanation
Indices: 12942404--12942453 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
12942394 TATAATATAT
*
12942404 ATAATATATATAATA
1 ATAACATATATAATA
*
12942419 ATAACGTATATAATA
1 ATAACATATATAATA
*
12942434 AAAACATATATAATTA
1 ATAACATATATAA-TA
12942450 ATAA
1 ATAA
12942454 TTAATAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 24 0.83
16 5 0.17
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAACATATATAATA
Found at i:12946867 original size:18 final size:18
Alignment explanation
Indices: 12946844--12946880 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
12946834 ACTCACACCA
12946844 AACACATTTCTATCCCAC
1 AACACATTTCTATCCCAC
12946862 AACACATTTCTATCCCAC
1 AACACATTTCTATCCCAC
12946880 A
1 A
12946881 GTGAGATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (18 bp):
AACACATTTCTATCCCAC
Found at i:12951589 original size:228 final size:227
Alignment explanation
Indices: 12951187--12951634 Score: 783
Period size: 228 Copynumber: 2.0 Consensus size: 227
12951177 GTAAATTATC
* * *
12951187 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
*
12951252 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
12951317 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
12951382 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
12951415 TATCATTTTTAT-AAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
12951479 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAAT-ATAAT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAT-AT
* *
12951543 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
12951608 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
12951635 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
227 30 0.14
228 180 0.86
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:12951723 original size:20 final size:19
Alignment explanation
Indices: 12951700--12951745 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
12951690 CGATATACCA
12951700 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
12951720 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
12951740 GGTAAA
1 GGTAAA
12951746 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:12951890 original size:20 final size:19
Alignment explanation
Indices: 12951867--12951913 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
12951857 CGATATAACA
12951867 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
12951887 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
12951907 GGTAAAA
1 GGTAAAA
12951914 TGATACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:12951915 original size:17 final size:18
Alignment explanation
Indices: 12951871--12951918 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
12951861 ATAACAGGTA
12951871 AAAATATGATAAAACCGGT
1 AAAA-ATGATAAAACCGGT
12951890 AACAAAATGATAAAACCGGT
1 -A-AAAATGATAAAACCGGT
12951910 -AAAATGATA
1 AAAAATGATA
12951919 CCGGATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (18 bp):
AAAAATGATAAAACCGGT
Found at i:12954282 original size:33 final size:33
Alignment explanation
Indices: 12954240--12954305 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
12954230 AAATAGATGG
*
12954240 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
12954273 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
12954306 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:12956120 original size:19 final size:19
Alignment explanation
Indices: 12956096--12956144 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
12956086 AATGTCGAGT
12956096 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
12956115 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
12956134 TATTTTTGTAT
1 TAATTTTGTAT
12956145 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:12956999 original size:198 final size:199
Alignment explanation
Indices: 12956263--12958025 Score: 3425
Period size: 198 Copynumber: 8.9 Consensus size: 199
12956253 CAATATGGCC
* *
12956263 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAATCATCGAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
12956328 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
12956393 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
12956458 TGGAA
195 TGGAA
12956463 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12956528 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12956593 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12956658 GGAA
196 GGAA
12956662 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12956727 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12956792 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12956857 GG-A
196 GGAA
12956860 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12956925 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12956990 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12957055 GG-A
196 GGAA
12957058 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12957122 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12957187 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12957252 GGAA
196 GGAA
12957256 AACAAGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12957319 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12957384 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12957449 GG-A
196 GGAA
*
12957452 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATTGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12957517 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12957582 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12957647 GG-A
196 GGAA
12957650 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12957715 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12957780 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12957845 GGAA
196 GGAA
*
12957849 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCCAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12957914 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12957978 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
12958026 AATTTAAATA
Statistics
Matches: 1553, Mismatches: 5, Indels: 12
0.99 0.00 0.01
Matches are distributed among these distances:
196 34 0.02
197 322 0.21
198 715 0.46
199 448 0.29
200 34 0.02
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
GGAA
Found at i:12957481 original size:592 final size:594
Alignment explanation
Indices: 12956263--12958025 Score: 3433
Period size: 592 Copynumber: 3.0 Consensus size: 594
12956253 CAATATGGCC
* *
12956263 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAATCATCGAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
12956328 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
12956393 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
12956458 TGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TGG-AAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
12956523 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
259 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
12956588 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAA
324 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAA
12956653 TGAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
389 TGAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAAT
12956718 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
453 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
12956783 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCC
518 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCC
12956848 AGAATGAATGGA
583 AGAATGAATGGA
12956860 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12956925 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12956990 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12957055 GGAAACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGA
196 GGAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
12957119 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
12957184 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
12957249 AATGGAAAACAAGGTGCACCCATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAATCAT
391 AATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCAT
12957313 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
456 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
12957378 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGA
521 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGA
12957443 ATGAATGGA
586 ATGAATGGA
*
12957452 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATTGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12957517 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12957582 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12957647 GGAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GGAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
12957712 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
12957777 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
12957842 AATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
391 AATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCA
*
12957907 TCCAACCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTT
455 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
12957971 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
520 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
12958026 AATTTAAATA
Statistics
Matches: 1159, Mismatches: 4, Indels: 9
0.99 0.00 0.01
Matches are distributed among these distances:
592 399 0.34
593 192 0.17
594 281 0.24
595 92 0.08
596 161 0.14
597 34 0.03
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (594 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
GGAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
AATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCAT
CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGA
ATGAATGGA
Found at i:12961406 original size:23 final size:23
Alignment explanation
Indices: 12961375--12961438 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
12961365 ATAGGTAAAC
*
12961375 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
12961398 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
12961421 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
12961439 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:12961445 original size:23 final size:23
Alignment explanation
Indices: 12961375--12961447 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
12961365 ATAGGTAAAC
* **
12961375 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
12961398 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
12961421 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
12961444 ATAT
1 ATAT
12961448 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:12961836 original size:23 final size:23
Alignment explanation
Indices: 12961805--12961868 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
12961795 ATAGGTAAAC
*
12961805 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
12961828 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
12961851 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
12961869 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:12961875 original size:23 final size:23
Alignment explanation
Indices: 12961805--12961877 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
12961795 ATAGGTAAAC
* **
12961805 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
12961828 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
12961851 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
12961874 ATAT
1 ATAT
12961878 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:12962176 original size:25 final size:25
Alignment explanation
Indices: 12962142--12962192 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
12962132 ACAACAAATC
*
12962142 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
12962167 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
12962192 A
1 A
12962193 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:12962462 original size:18 final size:18
Alignment explanation
Indices: 12962441--12962477 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12962431 GTAATTGGAG
12962441 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
12962459 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
12962477 T
1 T
12962478 ATATTTCGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:12962860 original size:39 final size:39
Alignment explanation
Indices: 12962733--12962858 Score: 225
Period size: 39 Copynumber: 3.2 Consensus size: 39
12962723 TCCGATGCTC
* *
12962733 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
12962772 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
*
12962811 ATCAAAATCTAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
12962850 ATCAAAATC
1 ATCAAAATC
12962859 TACAACTTGA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.48, C:0.20, G:0.13, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
Found at i:12963292 original size:23 final size:23
Alignment explanation
Indices: 12963261--12963324 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
12963251 ATAGGTAAAC
*
12963261 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
12963284 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
12963307 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
12963325 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:12963331 original size:23 final size:23
Alignment explanation
Indices: 12963261--12963333 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
12963251 ATAGGTAAAC
* **
12963261 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
12963284 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
12963307 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
12963330 ATAT
1 ATAT
12963334 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:12967298 original size:23 final size:23
Alignment explanation
Indices: 12967251--12967300 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
12967241 AATAACATAT
**
12967251 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
12967274 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
12967297 TAGG
1 TAGG
12967301 CATTTAACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:12970801 original size:9 final size:9
Alignment explanation
Indices: 12970784--12970826 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
12970774 CTTCTTCCTT
*
12970784 CTCCACTGC
1 CTCCTCTGC
12970793 CTCCTCTGC
1 CTCCTCTGC
* *
12970802 TTACTCTGC
1 CTCCTCTGC
12970811 CTCCTCTGC
1 CTCCTCTGC
12970820 CTCCTCT
1 CTCCTCT
12970827 AACTCCTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.05, C:0.51, G:0.09, T:0.35
Consensus pattern (9 bp):
CTCCTCTGC
Found at i:12971304 original size:182 final size:182
Alignment explanation
Indices: 12970992--12972051 Score: 1479
Period size: 182 Copynumber: 5.8 Consensus size: 182
12970982 ACGGATGCGT
* *
12970992 GACACTTTTTAAGCACAATAACTTTTCCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAA
1 GACACTTTTTAAGCACTATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAA
* *
12971057 TTATCGACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCTATTTTAT
66 TTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCTGTTTTAT
*
12971122 CATATTTTTACCTGTTATATTGGAAAGGATCGATACATTTTCATAAAGTGTC
131 CATATTTTTACCTGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTC
* * *
12971174 GACACTTTTTAGGCGCTATAACTTTTTTTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAA
1 GACACTTTTTAAGCACTATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAA
* * *
12971239 TTATCGACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTTAGACTTGTTTTAT
66 TTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCTGTTTTAT
*
12971304 CATATTTTTATCTGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTC
131 CATATTTTTACCTGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTC
** * * *
12971356 GACACTTTTTTGGCACTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAG
1 GACACTTTTTAAGCACTATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAA
* * * *
12971421 TTATCGACACTTTCAATATATCCGGTAACTTTTTTCGGTTTTGTCATTTTTGATACCAGTTTTAT
66 TTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCTGTTTTAT
* ** * ** *
12971486 CATATTTTTA-CTCGTTATATTGTTGTGGATCGATATATTTTTTTAAAGTATC
131 CATATTTTTACCT-GTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTC
* * * *
12971538 GACACTTTATAGGCGCTATAAC---TTCTCTTTTAAATTCAGAAAGTTTCGATACTTATATTAAA
1 GACACTTTTTAAGCACTATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAA
* * * * *
12971600 TTATCGACACTTTCAATATATCCGAT-AGTGTTTTACTGGTTTTGTCAATTTTGAGACCTGTTTT
66 TTATCGACACTTTCAACATATCCGGTAACT-TTTT-CCGGTTTTGTCATTTTTGAGACCTGTTTT
* *
12971664 ATCATATTTTTACATGTTATATTGTTATA-GATCGATACATTTTCATAAAGTGTC
129 ATCATATTTTTACCTGTTATATTGGTA-AGGATCGATACATTTTCATAAAGTGTC
*
12971718 GACACTTTTTAAGCACAATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAA
1 GACACTTTTTAAGCACTATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAA
* * * *
12971783 TTATAGACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTGTTATTTTTGAGACCTATTTTAT
66 TTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCTGTTTTAT
*
12971848 CATATTTTTACCTGTTATATTGGTAAGGATCGGTACATTTTCATAAAGTGTC
131 CATATTTTTACCTGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTC
* * * *
12971900 GACACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATGCAGAAAGTGTCGATACTAATATTAAA
1 GACACTTTTTAAGCACTATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAA
* * ** * * *
12971965 TTATCTACACCTTCATTATATCCGGT-AGTGTTTTACCGGTTTTGTCATTTTTG-GATCGGTTTT
66 TTATCGACACTTTCAACATATCCGGTAACT-TTTT-CCGGTTTTGTCATTTTTGAGACCTGTTTT
* * *
12972028 GTCATATTTGTACCTGTAATATTG
129 ATCATATTTTTACCTGTTATATTG
12972052 CTATGGAGCG
Statistics
Matches: 780, Mismatches: 86, Indels: 24
0.88 0.10 0.03
Matches are distributed among these distances:
178 2 0.00
179 66 0.08
180 86 0.11
181 6 0.01
182 536 0.69
183 82 0.11
184 2 0.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.44
Consensus pattern (182 bp):
GACACTTTTTAAGCACTATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAA
TTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCTGTTTTAT
CATATTTTTACCTGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTC
Found at i:12975015 original size:17 final size:15
Alignment explanation
Indices: 12974984--12975021 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 15
12974974 AATACTCGGA
12974984 TCGAATGGACTCGAC
1 TCGAATGGACTCGAC
12974999 TCGAACTGGATCTCGAC
1 TCGAA-TGGA-CTCGAC
12975016 TCGAAT
1 TCGAAT
12975022 TCTTAACGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 5 0.24
17 11 0.52
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (15 bp):
TCGAATGGACTCGAC
Found at i:12979974 original size:180 final size:182
Alignment explanation
Indices: 12979532--12979983 Score: 687
Period size: 182 Copynumber: 2.5 Consensus size: 182
12979522 CCATATCAAT
* ** * * * *
12979532 ATAACAGGTAAAAATATGACAAAATCGGTCA-AGAAAAAATAATACTGGTAAAGCGCTACCGAAT
1 ATAACAGGTAAAAATATGACAAAATCGGT-ATCGAAATGATAAAACCGGTAAATCGCTACCGGAT
* *
12979596 ATATTGAAAGTGTCGATATTTTAATATAAGTATTGACACTTTGTGAATTTAAAAAATAAGCAGTT
65 ATATTGAAAGTGTCGATACTTTAATATAAGTATTGACACTTTGTGAATTTAAAAAAGAAGCAGTT
*
12979661 TTAGCGTCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGAT
130 TTAGCGTCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGAA
* * * **
12979714 ATAACAAGTAAAAATATGACAAAACCGGTATCAAAATGATAAAACCGGTAAATTTCTACCGGATA
1 ATAACAGGTAAAAATATGACAAAATCGGTATCGAAATGATAAAACCGGTAAATCGCTACCGGATA
* *
12979779 TACTGAAAGTGTCGATACTTTAATATAAGTATCT-ACACTTTGTGAATTTAAAAGAGAAGCAGTT
66 TATTGAAAGTGTCGATACTTTAATATAAGTAT-TGACACTTTGTGAATTTAAAAAAGAAGCAGTT
*
12979843 TTAGCGTCTATAAAGTGTCGATAC-TT-TAAAAATGTATCGATCCACAATGAA
130 TTAGCGTCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGAA
*
12979894 ATAACAGGTAAAAATATGACAAAATCGATATCGAAATGATAAAACCGGTAAATCGCTACCGGATA
1 ATAACAGGTAAAAATATGACAAAATCGGTATCGAAATGATAAAACCGGTAAATCGCTACCGGATA
12979959 TATTGAAAGTGTCGATACTTTAATA
66 TATTGAAAGTGTCGATACTTTAATA
12979984 AGTTCGTGTA
Statistics
Matches: 243, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
180 106 0.44
181 3 0.01
182 133 0.55
183 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (182 bp):
ATAACAGGTAAAAATATGACAAAATCGGTATCGAAATGATAAAACCGGTAAATCGCTACCGGATA
TATTGAAAGTGTCGATACTTTAATATAAGTATTGACACTTTGTGAATTTAAAAAAGAAGCAGTTT
TAGCGTCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGAA
Found at i:12980183 original size:48 final size:48
Alignment explanation
Indices: 12980054--12980184 Score: 244
Period size: 48 Copynumber: 2.7 Consensus size: 48
12980044 TCGACACCTG
* *
12980054 ACATAAAAGTATCGACACTTTTGTAGTTGTATCAATTAAATATGAATA
1 ACATAAAAGTATCGACACTTTTGTAGTTGTATCGATTAAATATAAATA
12980102 ACATAAAAGTATCGACACTTTTGTAGTTGTATCGATTAAATATAAATA
1 ACATAAAAGTATCGACACTTTTGTAGTTGTATCGATTAAATATAAATA
12980150 ACATAAAAGTATCGACACTTTTGTAGTTGTATCGA
1 ACATAAAAGTATCGACACTTTTGTAGTTGTATCGA
12980185 AGCGTAATTG
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (48 bp):
ACATAAAAGTATCGACACTTTTGTAGTTGTATCGATTAAATATAAATA
Found at i:12982309 original size:18 final size:18
Alignment explanation
Indices: 12982286--12982337 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
12982276 ATATAACACA
12982286 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
*
12982304 TATGTCCCAAAGGACCAC
1 TATGTCCCGAAGGACCAC
12982322 TATGTCCCGAAGGACC
1 TATGTCCCGAAGGACC
12982338 GCGTACACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:12982692 original size:37 final size:37
Alignment explanation
Indices: 12982635--12982707 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
12982625 GCATAATCTC
** *
12982635 TATCATATATACATTTTTTCACTTATCTCATAGTTATG
1 TATCATATATACATAATTTCACTTATATCATA-TTATG
12982673 TATCATAT-TACATAATTTCACTTATATCATATTAT
1 TATCATATATACATAATTTCACTTATATCATATTAT
12982708 CATGTGTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 4 0.12
37 20 0.62
38 8 0.25
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.49
Consensus pattern (37 bp):
TATCATATATACATAATTTCACTTATATCATATTATG
Found at i:12983141 original size:24 final size:20
Alignment explanation
Indices: 12983088--12983145 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
12983078 TTCCCCTTGA
*
12983088 AGTGCATCGCTGCATTCTAC
1 AGTGCATCGATGCATTCTAC
12983108 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
12983131 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
12983146 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:12983205 original size:65 final size:63
Alignment explanation
Indices: 12983133--12983267 Score: 164
Period size: 65 Copynumber: 2.1 Consensus size: 63
12983123 TCTTTAACAT
* * *
12983133 GTGCATCGATGCACTACC-CATGCATCGATACACAAATTACCTTCGATGTTTTCATTTTTAAAGG
1 GTGCATCGATGCACT-CCTCATGCATCAATACACAAATTACATTCGATG-TTTCATTTTTAAAGA
* * * * *
12983197 GATGCATCGATGCACTCCTTATGCATCAATGCACCAATTGCATTCGATGTTTCTTTTTTAAAGA
1 G-TGCATCGATGCACTCCTCATGCATCAATACACAAATTACATTCGATGTTTCATTTTTAAAGA
12983261 GTGCATC
1 GTGCATC
12983268 AATGTGCAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
63 6 0.10
64 17 0.28
65 38 0.62
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTCATGCATCAATACACAAATTACATTCGATGTTTCATTTTTAAAGA
Found at i:12986360 original size:18 final size:18
Alignment explanation
Indices: 12986337--12986380 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
12986327 ATATAACACA
12986337 TATGTCCCAAAGGACCAC
1 TATGTCCCAAAGGACCAC
12986355 TATGTCCCAAAGGACCAC
1 TATGTCCCAAAGGACCAC
*
12986373 TGTGTCCC
1 TATGTCCC
12986381 GAAGAACCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.20
Consensus pattern (18 bp):
TATGTCCCAAAGGACCAC
Found at i:12986744 original size:37 final size:37
Alignment explanation
Indices: 12986686--12986758 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
12986676 ACATAATCTC
* *
12986686 TATCATATATACATTTCTTCACTTATCTCATAGTTATG
1 TATCATATATACATATCTTCACTTATATCATA-TTATG
12986724 TATCATAT-TACATAAT-TTCACTTATATCATATTAT
1 TATCATATATACAT-ATCTTCACTTATATCATATTAT
12986759 CATGTGTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 4 0.12
37 19 0.59
38 9 0.28
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.48
Consensus pattern (37 bp):
TATCATATATACATATCTTCACTTATATCATATTATG
Found at i:12987176 original size:20 final size:22
Alignment explanation
Indices: 12987151--12987208 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
12987141 TTCCCCTTGA
12987151 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
*
12987171 AGTGCATCAATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
12987194 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
12987209 CTACCCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 3 0.09
24 12 0.38
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:12987270 original size:65 final size:63
Alignment explanation
Indices: 12987196--12987335 Score: 174
Period size: 65 Copynumber: 2.2 Consensus size: 63
12987186 TCTTTAACAT
* * * *
12987196 GTGCATCGATGCACTACC-CATGCATCGATACACAAATTACCTTCGATGTTTTTATTTTTAAAGG
1 GTGCATCGATGCACT-CCTCATGCATCGATACACAAATTACATTCGATGTTTCT-TCTTTAAAGA
* * * *
12987260 GATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTCCTCATGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGA
12987324 GTGCATCGATGC
1 GTGCATCGATGC
12987336 GCATTCAATG
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
63 11 0.17
64 12 0.18
65 43 0.65
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTCATGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGA
Found at i:12991777 original size:198 final size:197
Alignment explanation
Indices: 12991304--12991873 Score: 706
Period size: 198 Copynumber: 2.9 Consensus size: 197
12991294 ACCTAAATAT
*
12991304 GTGTCGATACATTTTCTACAAGTATCGA-CCCAAAAAACATCAAAACCAATAATTATAATGTAAT
1 GTGTCGATACA-TTTATA-AAGTATCGATCCC-AAAAACATCAAAACCAATAATTATAATGTAAT
* * * *
12991368 AGGTAAATTAATAATGTAACCGATATAAATATACCGG-TTAATTG-G-AAAGAGGTCAACATAAT
63 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTA-TGAGAAAATAGGTC-ACATAAT
* ** *
12991430 GTATCGACACTTGTGGAATTTGTGTCGATACTTATTGTCTAGAATGAATGCCCAAATGAGGTGCA
126 GTATCGACACTTTTTAAATTTGTGTCGATACTT-TTGTCCAGAATGAATGCCCAAATGAGGTGCA
* *
12991495 CGCATAAA
190 AGAATAAA
* * *
12991503 GTGTCGATACATTTATTAAGTATAGATCCCAAAAACATCAAAACCGATAATTATAATGTAATAGG
1 GTGTCGATACATTTATAAAGTATCGATCCCAAAAACATCAAAACCAATAATTATAATGTAATAGG
* *
12991568 TAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAAGTCAGCATAAAGTAT
66 TAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCA-CATAATGTAT
* * *
12991633 TGACACTTTTTAAATTTGTGTCGACACATTTTGTCCATAATGAATGCCC-AATGAGGTGCAAGAA
130 CGACACTTTTTAAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCCAAATGAGGTGCAAGAA
12991697 TAAA
194 TAAA
* * * * *
12991701 GTGTTGATACATTTA-AAATTGTATCGATCCCAAAAACATCGAAA-CAAAAATTACAATGTGATA
1 GTGTCGATACATTTATAAA--GTATCGATCCCAAAAACATCAAAACCAATAATTATAATGTAATA
* * * *
12991764 GGTAAATTTACAATGT-ACCGGGTATAAATATATCAGTTTTATGAGAAAATAGGTCTAAATAATG
64 GGTAAATTTACAATGTAACC-GATATAAATATACCGGTTTTATGAGAAAATAGGTC-ACATAATG
* *
12991828 TATCGACACTTTTTTAATTTGTGTCGATACTTTTTTCCAGAATGAA
127 TATCGACACTTTTTAAATTTGTGTCGATACTTTTGTCCAGAATGAA
12991874 ATATGAATAC
Statistics
Matches: 323, Mismatches: 38, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
197 95 0.29
198 137 0.42
199 89 0.28
200 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (197 bp):
GTGTCGATACATTTATAAAGTATCGATCCCAAAAACATCAAAACCAATAATTATAATGTAATAGG
TAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCACATAATGTATC
GACACTTTTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCCAAATGAGGTGCAAGAATA
AA
Found at i:12994257 original size:21 final size:21
Alignment explanation
Indices: 12994241--12994294 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
12994231 GCGTTGCATT
12994241 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
12994262 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
12994283 TCGCGTTGCGAT
1 TCGCGTTGCGAT
12994295 TTTCCATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:12994438 original size:6 final size:6
Alignment explanation
Indices: 12994427--12994469 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
12994417 GACACGTATT
*
12994427 ACCACG ACCACG ACCACG ACCACG ACTACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
12994470 TTATTAAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.35, C:0.47, G:0.16, T:0.02
Consensus pattern (6 bp):
ACCACG
Found at i:12998814 original size:5 final size:5
Alignment explanation
Indices: 12998806--12998831 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12998796 TTAAAAAAAA
12998806 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
12998832 ACAGTACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:12998830 original size:45 final size:44
Alignment explanation
Indices: 12998766--12998871 Score: 185
Period size: 45 Copynumber: 2.4 Consensus size: 44
12998756 TTCACCCTAA
12998766 ACCCGACCCGACCCGACCCGAACAGTACATTTAAAAAAAAACCCG
1 ACCCGACCCGACCCGACCCGAACAGTACATTT-AAAAAAAACCCG
12998811 ACCCGACCCGACCCGACCCGAACAGTACATTTAAAAAAAACCCG
1 ACCCGACCCGACCCGACCCGAACAGTACATTTAAAAAAAACCCG
*
12998855 ACCCGACTCGAACCCGA
1 ACCCGACCCG-ACCCGA
12998872 ACCCAAAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
44 21 0.36
45 38 0.64
ACGTcount: A:0.38, C:0.40, G:0.14, T:0.08
Consensus pattern (44 bp):
ACCCGACCCGACCCGACCCGAACAGTACATTTAAAAAAAACCCG
Found at i:12999442 original size:39 final size:39
Alignment explanation
Indices: 12999388--12999473 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
12999378 CAAGTTGTAG
*
12999388 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* * *
12999427 ATTTTGATTTCCTTTTGCTTGGTACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
12999466 ATTTTGAT
1 ATTTTGAT
12999474 GAGCATCGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.50
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:12999756 original size:18 final size:18
Alignment explanation
Indices: 12999733--12999769 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12999723 CGAAATATAT
12999733 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
12999751 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
12999769 A
1 A
12999770 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:13000231 original size:23 final size:23
Alignment explanation
Indices: 13000205--13000267 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
13000195 ATATAACCAC
13000205 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
13000228 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
13000251 TACCTATTACATCATAT
1 TACCTATTACATTATAT
13000268 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:13000670 original size:25 final size:25
Alignment explanation
Indices: 13000613--13000678 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
13000603 CACTCAAAAG
*
13000613 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
13000638 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
13000663 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
13000679 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:13003673 original size:183 final size:183
Alignment explanation
Indices: 13003148--13003640 Score: 880
Period size: 183 Copynumber: 2.7 Consensus size: 183
13003138 TTAAAATTAC
*
13003148 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
13003213 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* *
13003278 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* * *
13003331 TGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
13003396 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
13003461 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
13003514 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
13003578 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
13003641 ATAGCATTGC
Statistics
Matches: 296, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
183 293 0.99
184 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:13005148 original size:3 final size:3
Alignment explanation
Indices: 13005140--13005214 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
13005130 ACTTGTTTGG
* * * ** * *
13005140 ATC ATC ATC TTC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
13005188 ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
13005215 GTCAGCTTCA
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:13005157 original size:12 final size:12
Alignment explanation
Indices: 13005144--13005226 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
13005134 GTTTGGATCA
*
13005144 TCATCTTCATCA
1 TCATCTTCATCG
* * *
13005156 TCATCATCGTCA
1 TCATCTTCATCG
13005168 TCATCTTCATCG
1 TCATCTTCATCG
* *
13005180 CCAGCTTCATCG
1 TCATCTTCATCG
*
13005192 TCATCATCATCG
1 TCATCTTCATCG
13005204 TCATCTTCATCG
1 TCATCTTCATCG
*
13005216 TCAGCTTCATC
1 TCATCTTCATC
13005227 CTCTGCGACC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:13005188 original size:36 final size:36
Alignment explanation
Indices: 13005148--13005226 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
13005138 GGATCATCAT
*
13005148 CTTCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
13005184 CTTCATCGTCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCTTCATCGCCAG
13005220 CTTCATC
1 CTTCATC
13005227 CTCTGCGACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.20, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
CTTCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:13007388 original size:199 final size:199
Alignment explanation
Indices: 13006697--13007867 Score: 2150
Period size: 199 Copynumber: 5.9 Consensus size: 199
13006687 TTTAAATTAG
13006697 TATCGACACAAACTATA--ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
*
13006760 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
*
13006825 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGAACCCTGTTTTCCATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AA
13006890 AAAAAA
194 AAAAAA
*
13006896 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
13006961 ATTGTACCGGTTAGATTGAAAAATTACATATTTCATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
13007026 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
13007090 AAAA
196 AAAA
13007094 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
13007159 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
13007224 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
13007289 AAAA
196 AAAA
* * *
13007293 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
13007358 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
13007423 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
13007488 AAAA
196 AAAA
13007492 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
13007557 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTTGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
13007622 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTTCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
13007687 AAAA
196 AAAA
*
13007691 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * * *
13007756 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGAGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
13007821 TTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
13007868 GGCCATATTG
Statistics
Matches: 945, Mismatches: 23, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
198 179 0.19
199 556 0.59
200 209 0.22
201 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAA
Found at i:13008001 original size:19 final size:19
Alignment explanation
Indices: 13007977--13008016 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
13007967 CATTCATAAA
13007977 TATAAATCGTATACAAAAT
1 TATAAATCGTATACAAAAT
*
13007996 TATAAATCTTATACAAAAT
1 TATAAATCGTATACAAAAT
13008015 TA
1 TA
13008017 ACCCTACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.35
Consensus pattern (19 bp):
TATAAATCGTATACAAAAT
Found at i:13009845 original size:33 final size:33
Alignment explanation
Indices: 13009808--13009873 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
13009798 CATCTTAATA
*
13009808 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
13009841 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
13009874 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:13009932 original size:21 final size:21
Alignment explanation
Indices: 13009907--13009971 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
13009897 CCCCTTATGC
* *
13009907 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
13009928 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
13009949 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
13009970 CT
1 CT
13009972 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:13012224 original size:17 final size:18
Alignment explanation
Indices: 13012202--13012244 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
13012192 ATATATCCGG
13012202 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
13012219 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
13012239 TATCAT
1 TATCAT
13012245 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:13012262 original size:20 final size:19
Alignment explanation
Indices: 13012207--13012253 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
13012197 TCCGGTATCA
13012207 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
13012226 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
13012247 TTTTACC
1 TTTTACC
13012254 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:13012415 original size:20 final size:20
Alignment explanation
Indices: 13012388--13012434 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
13012378 TCCGGTAACA
13012388 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
13012407 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
13012428 TTTTACC
1 TTTTACC
13012435 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:13012478 original size:181 final size:182
Alignment explanation
Indices: 13012174--13012646 Score: 707
Period size: 181 Copynumber: 2.6 Consensus size: 182
13012164 CGTACTTACG
* *
13012174 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
13012239 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
13012304 AGGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
13012355 AAAGTATCGACACTTTTAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
13012420 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** * *
13012485 AGGATTTAAAACTGTTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * ** *
13012537 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACATTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
13012601 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
13012647 AATTTGGATC
Statistics
Matches: 264, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
181 166 0.63
182 97 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:13013122 original size:229 final size:228
Alignment explanation
Indices: 13012713--13013199 Score: 866
Period size: 229 Copynumber: 2.1 Consensus size: 228
13012703 ACCTACTTTT
*
13012713 ATAAGTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTAA
1 ATAAGTATGAACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTAA
13012778 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
66 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
13012843 ATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
13012908 CAAATATAATAATAAATATGTTTTCAACAGTGAA
196 CAAAGATAATAATAAATATATTTTC-ACAGTGAA
* *
13012942 GTAAGTATGAACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGAACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTAA
*
13013007 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
13013072 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
*
13013137 TAAAGATAATAATAAATATATTTTCACAGTGAA
196 CAAAGATAATAATAAATATATTTTCACAGTGAA
* *
13013170 ATAAGTATGGACACTTTTATAAAAAGGATA
1 ATAAGTATGAACACTTTTATAAAAATGATA
13013200 GATAATTTAC
Statistics
Matches: 246, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
228 35 0.14
229 211 0.86
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (228 bp):
ATAAGTATGAACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTAA
ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
CAAAGATAATAATAAATATATTTTCACAGTGAA
Found at i:13019873 original size:26 final size:27
Alignment explanation
Indices: 13019828--13019885 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 27
13019818 TGTTCGGGTA
*
13019828 GGGTCGGATTTTTTAAGTGTGATATTC
1 GGGTCGGAGTTTTTAAGTGTGATATTC
13019855 GGGTCGG-GTTTTTAAGTGTGATATTC
1 GGGTCGGAGTTTTTAAGTGTGATATTC
13019881 GGGTC
1 GGGTC
13019886 AAGTCGGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.16, C:0.09, G:0.34, T:0.41
Consensus pattern (27 bp):
GGGTCGGAGTTTTTAAGTGTGATATTC
Found at i:13020511 original size:18 final size:18
Alignment explanation
Indices: 13020472--13020536 Score: 96
Period size: 18 Copynumber: 3.7 Consensus size: 18
13020462 TATAGAATTG
*
13020472 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
*
13020489 GATTCCAATTCCTTCATA
1 GATTCCAATTCCTTCACA
13020507 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
*
13020525 GATTTCAATTCC
1 GATTCCAATTCC
13020537 CTCATAAACA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
17 12 0.28
18 31 0.72
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.35
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:13020512 original size:35 final size:36
Alignment explanation
Indices: 13020472--13020542 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
13020462 TATAGAATTG
* *
13020472 GATTCCAATTCC-TGACAGATTCCAATTCCTTCATA
1 GATTCCAATTCCTTCACAGATTCCAATTCCCTCATA
*
13020507 GATTCCAATTCCTTCACAGATTTCAATTCCCTCATA
1 GATTCCAATTCCTTCACAGATTCCAATTCCCTCATA
13020543 AACATTCCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 12 0.38
36 20 0.62
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (36 bp):
GATTCCAATTCCTTCACAGATTCCAATTCCCTCATA
Found at i:13023985 original size:31 final size:31
Alignment explanation
Indices: 13023947--13024106 Score: 178
Period size: 31 Copynumber: 5.1 Consensus size: 31
13023937 GAACCTCGAC
* *
13023947 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* **
13023978 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* *
13024009 TACTGTCCATATGTCCCGAAAAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* *
13024040 ATTCTGTCCATATGTCCCGAA-AGCCATAGGTA
1 A-ACTGTCCATATGTCCCGAAGA-ACATAGGTA
* * *
13024072 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTCCCGAAGAACATAGGTA
13024104 AAC
1 AAC
13024107 CCACGACTCT
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
31 54 0.50
32 54 0.50
33 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:13024052 original size:32 final size:32
Alignment explanation
Indices: 13023948--13024104 Score: 185
Period size: 32 Copynumber: 5.0 Consensus size: 32
13023938 AACCTCGACA
* *
13023948 ACTGTCCATAGGTCCCGAAGAACCTAGGTAA-
1 ACTGTCCATATGTCCCGAAGAACATAGGTAAT
* **
13023979 ACTGTCCATATGTTCCTTAGAACATAGGT-AT
1 ACTGTCCATATGTCCCGAAGAACATAGGTAAT
*
13024010 ACTGTCCATATGTCCCGAAAAACATAGGTAAT
1 ACTGTCCATATGTCCCGAAGAACATAGGTAAT
* *
13024042 TCTGTCCATATGTCCCGAA-AGCCATAGGTAAT
1 ACTGTCCATATGTCCCGAAGA-ACATAGGTAAT
* * *
13024074 TCTGTCCATATGTTCCGTAGAACATAGGTAA
1 ACTGTCCATATGTCCCGAAGAACATAGGTAA
13024105 ACCCACGACT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.01
31 50 0.46
32 56 0.52
33 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (32 bp):
ACTGTCCATATGTCCCGAAGAACATAGGTAAT
Found at i:13026316 original size:40 final size:40
Alignment explanation
Indices: 13026272--13026352 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
13026262 ATTACCAAAC
*
13026272 TTGTTTTCCATCATCATTTGACCAAGAACACAACCTTAAA
1 TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
13026312 TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
1 TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
13026352 T
1 T
13026353 CTTCTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (40 bp):
TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
Found at i:13028962 original size:40 final size:40
Alignment explanation
Indices: 13028918--13028998 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
13028908 ATTACCAAAC
*
13028918 TTGTTTTCCATCATCATTTGACCAAGAACACAACCTTAAA
1 TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
13028958 TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
1 TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
13028998 T
1 T
13028999 CTTCTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (40 bp):
TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
Found at i:13031607 original size:40 final size:40
Alignment explanation
Indices: 13031563--13031643 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
13031553 ATTACCAAAC
*
13031563 TTGTTTTCCATCATCATTTGACCAAGAACACAACCTTAAA
1 TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
13031603 TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
1 TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
13031643 T
1 T
13031644 CTTCTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (40 bp):
TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
Found at i:13034107 original size:22 final size:23
Alignment explanation
Indices: 13034055--13034107 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
13034045 GAAATTTCAA
*
13034055 TCCATTTCTGTCTTTTCTCTTCT
1 TCCATTTCTGTATTTTCTCTTCT
*
13034078 TCTA-TTCTGTATTTTC-CTT-T
1 TCCATTTCTGTATTTTCTCTTCT
13034098 TACCATTTCT
1 T-CCATTTCT
13034108 AAAATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.08
21 5 0.20
22 15 0.60
23 3 0.12
ACGTcount: A:0.09, C:0.26, G:0.04, T:0.60
Consensus pattern (23 bp):
TCCATTTCTGTATTTTCTCTTCT
Found at i:13034253 original size:40 final size:40
Alignment explanation
Indices: 13034209--13034289 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
13034199 ATTACCAAAC
*
13034209 TTGTTTTCCATCATCATTTGACCAAGAACACAACCTTAAA
1 TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
*
13034249 TTGTTTTTCATAATCATTTGACCAAGAACACAACCTTAAA
1 TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
13034289 T
1 T
13034290 CTTCTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (40 bp):
TTGTTTTCCATAATCATTTGACCAAGAACACAACCTTAAA
Found at i:13036901 original size:40 final size:40
Alignment explanation
Indices: 13036857--13036934 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
13036847 ACCAAACTTG
*
13036857 TTTTCCATCATCATTTGACCAAGAACACAACCTTAAATTA
1 TTTTCCATAATCATTTGACCAAGAACACAACCTTAAATTA
13036897 TTTTCCATAATCATTTGACCAAGAACACAACCTTAAAT
1 TTTTCCATAATCATTTGACCAAGAACACAACCTTAAAT
13036935 CTTCTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.32
Consensus pattern (40 bp):
TTTTCCATAATCATTTGACCAAGAACACAACCTTAAATTA
Found at i:13039298 original size:16 final size:17
Alignment explanation
Indices: 13039277--13039308 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13039267 GTGCCCATTA
13039277 TATACATTCAT-TACTT
1 TATACATTCATCTACTT
13039293 TATACATTCATCTACT
1 TATACATTCATCTACT
13039309 GTCTCTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (17 bp):
TATACATTCATCTACTT
Found at i:13039546 original size:40 final size:40
Alignment explanation
Indices: 13039502--13039579 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
13039492 ACCAAACTTG
*
13039502 TTTTCCATCATCATTTGACCAAGAACACAACCTTAAATTT
1 TTTTCCATAATCATTTGACCAAGAACACAACCTTAAATTT
13039542 TTTTCCATAATCATTTGACCAAGAACACAACCTTAAAT
1 TTTTCCATAATCATTTGACCAAGAACACAACCTTAAAT
13039580 CTTCTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (40 bp):
TTTTCCATAATCATTTGACCAAGAACACAACCTTAAATTT
Found at i:13046766 original size:32 final size:31
Alignment explanation
Indices: 13046613--13046768 Score: 145
Period size: 32 Copynumber: 4.9 Consensus size: 31
13046603 GCCTCGACAA
* * *
13046613 CTGTCCATAGGTCCCGAAGAACCTAGGTAAAT
1 CTGTCCATATGTCCCGAA-AACATAGGTAATT
** *
13046645 -TGTCCATATGTTCCTTAAAACATAGGT-ATA
1 CTGTCCATATG-TCCCGAAAACATAGGTAATT
13046675 CTGTCCATATGTCCCGAAAGACATAGGTAATT
1 CTGTCCATATGTCCCGAAA-ACATAGGTAATT
* * *
13046707 CTATACATATGTCCCGAAAGACGTAGGTAATT
1 CTGTCCATATGTCCCGAAA-ACATAGGTAATT
* * *
13046739 CTGTCCATATATTCCGTAGAACATAGGTAA
1 CTGTCCATATGTCCCG-AAAACATAGGTAA
13046769 ACCCTCTACT
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
30 7 0.07
31 35 0.35
32 57 0.56
33 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (31 bp):
CTGTCCATATGTCCCGAAAACATAGGTAATT
Found at i:13065174 original size:24 final size:24
Alignment explanation
Indices: 13065144--13065190 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
13065134 TTATTTCCCT
*
13065144 CTAAATTGATTGTTTTCCTTAACC
1 CTAAATTGATTATTTTCCTTAACC
13065168 CTAAATTGATTATTTTCCTTAAC
1 CTAAATTGATTATTTTCCTTAAC
13065191 ACAGACCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (24 bp):
CTAAATTGATTATTTTCCTTAACC
Found at i:13068280 original size:15 final size:15
Alignment explanation
Indices: 13068260--13068290 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13068250 GTGCTGATAC
13068260 ACTCTCTAAGATAGG
1 ACTCTCTAAGATAGG
13068275 ACTCTCTAAGATAGG
1 ACTCTCTAAGATAGG
13068290 A
1 A
13068291 TGTAATCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (15 bp):
ACTCTCTAAGATAGG
Found at i:13073471 original size:8 final size:8
Alignment explanation
Indices: 13073458--13073484 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
13073448 CAATCAATGG
13073458 TCTCTCCC
1 TCTCTCCC
13073466 TCTCTCCC
1 TCTCTCCC
13073474 TCTCTCCC
1 TCTCTCCC
13073482 TCT
1 TCT
13073485 ATATCTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (8 bp):
TCTCTCCC
Found at i:13073868 original size:23 final size:23
Alignment explanation
Indices: 13073842--13073931 Score: 72
Period size: 23 Copynumber: 3.9 Consensus size: 23
13073832 TTATTTATTG
*
13073842 TTCAGGAACATATTCATTTAATA
1 TTCATGAACATATTCATTTAATA
* * * *
13073865 TTCACGAACGTGTTTATTTATATA
1 TTCATGAACATATTCATTTA-ATA
* * * **
13073889 TCCATGAACGTGTTCATTTAACG
1 TTCATGAACATATTCATTTAATA
*
13073912 TTCATGAACATATTCGTTTA
1 TTCATGAACATATTCATTTA
13073932 GTGTTCGTTT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 33 0.62
24 20 0.38
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (23 bp):
TTCATGAACATATTCATTTAATA
Found at i:13073897 original size:24 final size:23
Alignment explanation
Indices: 13073854--13073909 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 23
13073844 CAGGAACATA
*
13073854 TTCATTTAATATTCACGAACGTG
1 TTCATTTAATATCCACGAACGTG
* *
13073877 TTTATTTATATATCCATGAACGTG
1 TTCATTTA-ATATCCACGAACGTG
13073901 TTCATTTAA
1 TTCATTTAA
13073910 CGTTCATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (23 bp):
TTCATTTAATATCCACGAACGTG
Found at i:13075830 original size:37 final size:37
Alignment explanation
Indices: 13075789--13075884 Score: 133
Period size: 37 Copynumber: 2.6 Consensus size: 37
13075779 AGAAATCTGT
*
13075789 AAATATAATTGAACAAAAAATCAATTGATGATCC-GTA
1 AAATATAATTGAACAAAAAATCAACTGATGA-CCAGTA
**
13075826 AAATATAATCAAACAAAAAATCAACTGATGACCAGTA
1 AAATATAATTGAACAAAAAATCAACTGATGACCAGTA
13075863 AAATATAATTGAA-AAATAAATC
1 AAATATAATTGAACAAA-AAATC
13075885 TAACAGAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
36 5 0.10
37 47 0.90
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.24
Consensus pattern (37 bp):
AAATATAATTGAACAAAAAATCAACTGATGACCAGTA
Found at i:13076214 original size:14 final size:14
Alignment explanation
Indices: 13076195--13076225 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13076185 GTAAAACAAT
13076195 CCTTCCATATCCAA
1 CCTTCCATATCCAA
13076209 CCTTCCATATCCAA
1 CCTTCCATATCCAA
13076223 CCT
1 CCT
13076226 GTGCAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.45, G:0.00, T:0.29
Consensus pattern (14 bp):
CCTTCCATATCCAA
Found at i:13079649 original size:23 final size:23
Alignment explanation
Indices: 13079616--13079667 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
13079606 AACCAAACGG
*
13079616 GGGAATGTGTATTCCATTCCCGA-
1 GGGAATATGTATTCCATTCCC-AT
13079639 GGGAATATGTATTCCATTCCCAT
1 GGGAATATGTATTCCATTCCCAT
13079662 GGGAAT
1 GGGAAT
13079668 CTCACATTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (23 bp):
GGGAATATGTATTCCATTCCCAT
Found at i:13079685 original size:42 final size:42
Alignment explanation
Indices: 13079630--13079717 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
13079620 ATGTGTATTC
*
13079630 CATTCCCGAGGGAATATGTATTCCATTCCCATGGGAATCTCA
1 CATTCCCGAGGGAATATGTATTCCATTCCCATGAGAATCTCA
* * * * *
13079672 CATTCCTGGGGGAATGTGTATTTCATTCTCATGAGAATCTCA
1 CATTCCCGAGGGAATATGTATTCCATTCCCATGAGAATCTCA
13079714 CATT
1 CATT
13079718 ACCTCAACCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (42 bp):
CATTCCCGAGGGAATATGTATTCCATTCCCATGAGAATCTCA
Found at i:13080813 original size:20 final size:20
Alignment explanation
Indices: 13080731--13080903 Score: 93
Period size: 20 Copynumber: 8.6 Consensus size: 20
13080721 ATAACCAACG
*
13080731 AATTCGCAACGCG-ATTTCAA
1 AATTCGCAACACGAATTT-AA
* **
13080751 AA-TCGCAACACGAACTCCA
1 AATTCGCAACACGAATTTAA
* * * *
13080770 ATTTCGCAATAC-AGTTTCCA
1 AATTCGCAACACGAATTT-AA
*
13080790 AATTCGCAACACGAATTTAG
1 AATTCGCAACACGAATTTAA
*
13080810 AATTCGCAACACAGAA-GTAA
1 AATTCGCAACAC-GAATTTAA
*
13080830 AATTCGCAACTCGAATTTGACA
1 AATTCGCAACACGAATTT-A-A
* * **
13080852 ATTTCGTAACACGAATTTCT
1 AATTCGCAACACGAATTTAA
** * * *
13080872 TTTTCGAAACACGATTTTTA
1 AATTCGCAACACGAATTTAA
13080892 AATTCGCAACAC
1 AATTCGCAACAC
13080904 AAGAGTCCTT
Statistics
Matches: 114, Mismatches: 31, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
19 16 0.14
20 74 0.65
21 8 0.07
22 16 0.14
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (20 bp):
AATTCGCAACACGAATTTAA
Found at i:13081017 original size:20 final size:20
Alignment explanation
Indices: 13080951--13081023 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
13080941 AGCGCGTTTC
*
13080951 AATTTCGCAACACGAATTTT
1 AATTTCGAAACACGAATTTT
* *
13080971 ATTTTCGAAACTCG-ATTTT
1 AATTTCGAAACACGAATTTT
*
13080990 CGAA-TTCGAAACACGAATATT
1 --AATTTCGAAACACGAATTTT
*
13081011 AATTTCGTAACAC
1 AATTTCGAAACAC
13081024 AAATGTAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
19 7 0.17
20 30 0.71
21 5 0.12
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (20 bp):
AATTTCGAAACACGAATTTT
Found at i:13081083 original size:27 final size:27
Alignment explanation
Indices: 13081045--13081140 Score: 156
Period size: 27 Copynumber: 3.6 Consensus size: 27
13081035 GTATATCCCG
* *
13081045 TAAATCGCAACTCAAAACATAAACCTC
1 TAAATCGCAACTCAAAACCTAAACCCC
13081072 TAAATCGCAACTCAAAACCTAAACCCC
1 TAAATCGCAACTCAAAACCTAAACCCC
**
13081099 TAAATCATAACTCAAAACCTAAACCCC
1 TAAATCGCAACTCAAAACCTAAACCCC
13081126 TAAATCGCAACTCAA
1 TAAATCGCAACTCAA
13081141 TCTCATCTCC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.18
Consensus pattern (27 bp):
TAAATCGCAACTCAAAACCTAAACCCC
Found at i:13081194 original size:22 final size:22
Alignment explanation
Indices: 13081169--13081216 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
13081159 CTCTCTACGG
*
13081169 CGACATCCGTCCCCATCTCCGA
1 CGACATCCGTCCCCATATCCGA
13081191 CGACATCCGTCCCCATATCCGA
1 CGACATCCGTCCCCATATCCGA
13081213 CGAC
1 CGAC
13081217 CCCACTCCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.48, G:0.15, T:0.17
Consensus pattern (22 bp):
CGACATCCGTCCCCATATCCGA
Found at i:13081612 original size:21 final size:20
Alignment explanation
Indices: 13081583--13081621 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13081573 TCGTAACACG
* *
13081583 AAAATCGCAGCTCGAAAATT
1 AAAATCGCAACGCGAAAATT
13081603 AAAATTCGCAACGCGAAAA
1 AAAA-TCGCAACGCGAAAA
13081622 AGAAATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.21, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATT
Found at i:13083265 original size:42 final size:42
Alignment explanation
Indices: 13083202--13083404 Score: 229
Period size: 42 Copynumber: 5.0 Consensus size: 42
13083192 CCCTACTTTT
* * * *
13083202 TCATCGAGTCGATTCTTCACTTTGACACCGAGATCCATCACC
1 TCATCGAGCCGATTCTACACCTCGACACCGAGATCCATCACC
* * *
13083244 TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
1 TCATCGAGCCGATTCTACACCTCGACACCGAGATCCATCACC
* * * *
13083286 TGATCGAGCTGATTCTACACCTCGACACTGAGAGCCATCACC
1 TCATCGAGCCGATTCTACACCTCGACACCGAGATCCATCACC
* * *
13083328 TC-T--AGCCGACTCTACACCTCGACACCAAGAGCCATCACC
1 TCATCGAGCCGATTCTACACCTCGACACCGAGATCCATCACC
*
13083367 TC-T--AGCCGACTCTACACCTCGACACCGAGATCCATCAC
1 TCATCGAGCCGATTCTACACCTCGACACCGAGATCCATCAC
13083405 ATATTCCATC
Statistics
Matches: 145, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 68 0.47
41 1 0.01
42 76 0.52
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.22
Consensus pattern (42 bp):
TCATCGAGCCGATTCTACACCTCGACACCGAGATCCATCACC
Found at i:13083359 original size:39 final size:39
Alignment explanation
Indices: 13083225--13083404 Score: 198
Period size: 39 Copynumber: 4.5 Consensus size: 39
13083215 TCTTCACTTT
* * * * *
13083225 GACACCGAGATCCATCACCTCATCGAGTCGATTCTCCACTTC
1 GACACCGAGAGCCATCACCTC-T--AGCCGACTCTACACCTC
* * * *
13083267 GACACCGAGATCCATCACCTGATCGAGCTGATTCTACACCTC
1 GACACCGAGAGCCATCACC---TCTAGCCGACTCTACACCTC
*
13083309 GACACTGAGAGCCATCACCTCTAGCCGACTCTACACCTC
1 GACACCGAGAGCCATCACCTCTAGCCGACTCTACACCTC
*
13083348 GACACCAAGAGCCATCACCTCTAGCCGACTCTACACCTC
1 GACACCGAGAGCCATCACCTCTAGCCGACTCTACACCTC
*
13083387 GACACCGAGATCCATCAC
1 GACACCGAGAGCCATCAC
13083405 ATATTCCATC
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 70 0.58
42 49 0.40
45 2 0.02
ACGTcount: A:0.27, C:0.39, G:0.15, T:0.19
Consensus pattern (39 bp):
GACACCGAGAGCCATCACCTCTAGCCGACTCTACACCTC
Found at i:13083544 original size:19 final size:20
Alignment explanation
Indices: 13083520--13083571 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
13083510 AGTTAGGTTC
13083520 TTTACGTGATGAGGTCAGT-
1 TTTACGTGATGAGGTCAGTA
*
13083539 TTTACGTGATGAGGTCGGTGA
1 TTTACGTGATGAGGTCAGT-A
13083560 TTTACGTGATGA
1 TTTACGTGATGA
13083572 TAATGGTGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
21 12 0.40
ACGTcount: A:0.21, C:0.10, G:0.33, T:0.37
Consensus pattern (20 bp):
TTTACGTGATGAGGTCAGTA
Found at i:13083609 original size:21 final size:21
Alignment explanation
Indices: 13083498--13083618 Score: 65
Period size: 21 Copynumber: 5.9 Consensus size: 21
13083488 CGTTCTCCAC
* * *
13083498 CTTTACGGGATGAGTTAGGTT
1 CTTTACGTGATGAGGTAGGGT
13083519 CTTTACGTGATGAGGTCA--GT
1 CTTTACGTGATGAGGT-AGGGT
*
13083539 -TTTACGTGATGAGGT-CGGT
1 CTTTACGTGATGAGGTAGGGT
* *
13083558 GATTTACGTGATGA--TAATGGT
1 -CTTTACGTGATGAGGT-AGGGT
* **
13083579 GCATGGCGTGATGAGGTAGGGT
1 -CTTTACGTGATGAGGTAGGGT
* *
13083601 CTTTACGTGGTAAGGTAG
1 CTTTACGTGATGAGGTAG
13083619 TTATTTTACG
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
19 18 0.23
20 1 0.01
21 52 0.68
22 5 0.06
23 1 0.01
ACGTcount: A:0.21, C:0.10, G:0.36, T:0.34
Consensus pattern (21 bp):
CTTTACGTGATGAGGTAGGGT
Found at i:13083665 original size:21 final size:20
Alignment explanation
Indices: 13083585--13083693 Score: 65
Period size: 21 Copynumber: 5.2 Consensus size: 20
13083575 TGGTGCATGG
* *
13083585 CGTGATGAGGTAGGGTCTTTA
1 CGTGGTGAGGTAGTG-CTTTA
* **
13083606 CGTGGTAAGGTAGTTATTTTA
1 CGTGGTGAGGTAG-TGCTTTA
* **
13083627 CGTGATGATAATAGTGCTTTA
1 CGTGGTGA-GGTAGTGCTTTA
13083648 CGTGGTGAGGTAGCTGCTTTA
1 CGTGGTGAGGTAG-TGCTTTA
* ** *
13083669 CATTATGAGGTAAGTGCTCTA
1 CGTGGTGAGGT-AGTGCTTTA
13083690 CGTG
1 CGTG
13083694 AGATTATTTC
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
20 3 0.05
21 56 0.88
22 5 0.08
ACGTcount: A:0.22, C:0.11, G:0.31, T:0.36
Consensus pattern (20 bp):
CGTGGTGAGGTAGTGCTTTA
Found at i:13084018 original size:21 final size:21
Alignment explanation
Indices: 13083978--13084018 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13083968 GAAGAAGCCT
**
13083978 GATCCACCTACCATTGTTCAG
1 GATCCACCTACCATAATTCAG
*
13083999 GATCCACCTCCCATAATTCA
1 GATCCACCTACCATAATTCA
13084019 ATAGGCCCCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.37, G:0.10, T:0.27
Consensus pattern (21 bp):
GATCCACCTACCATAATTCAG
Found at i:13084076 original size:21 final size:21
Alignment explanation
Indices: 13084005--13084100 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 21
13083995 TCAGGATCCA
** * *
13084005 CCTCCCATAATTCAATAGGCC
1 CCTCCCATCGTTCAAGAGGAC
* * *
13084026 CCTTCCATCATTCAAGAGGCC
1 CCTCCCATCGTTCAAGAGGAC
* *
13084047 CCTCCCATCGTTCATGAGGGC
1 CCTCCCATCGTTCAAGAGGAC
* * *
13084068 CCTCCCATCGTTCACGAGAAT
1 CCTCCCATCGTTCAAGAGGAC
13084089 CCTCCCATCGTT
1 CCTCCCATCGTT
13084101 TAGGATCCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.21, C:0.40, G:0.15, T:0.25
Consensus pattern (21 bp):
CCTCCCATCGTTCAAGAGGAC
Found at i:13084131 original size:21 final size:21
Alignment explanation
Indices: 13084089--13084131 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13084079 TCACGAGAAT
* *
13084089 CCTCCCATCGTTTAGGATCCA
1 CCTCCCATCGTTCAGGACCCA
*
13084110 CCTCCCATCGTTCAGGGCCCA
1 CCTCCCATCGTTCAGGACCCA
13084131 C
1 C
13084132 ATTCTATACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.44, G:0.16, T:0.23
Consensus pattern (21 bp):
CCTCCCATCGTTCAGGACCCA
Found at i:13084914 original size:19 final size:19
Alignment explanation
Indices: 13084890--13084931 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
13084880 CATACCATTG
13084890 TTTGATTTGAAAGATATTA
1 TTTGATTTGAAAGATATTA
13084909 TTTGATTTGAAAGATATTA
1 TTTGATTTGAAAGATATTA
13084928 TTTG
1 TTTG
13084932 CAGGGATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (19 bp):
TTTGATTTGAAAGATATTA
Found at i:13086615 original size:19 final size:19
Alignment explanation
Indices: 13086587--13086632 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
13086577 GAGTCTTCTT
*
13086587 GTTGACTCCAAAAACTCAC
1 GTTGATTCCAAAAACTCAC
*
13086606 GTTGATTCCAAAAACTCGC
1 GTTGATTCCAAAAACTCAC
13086625 GTTGATTC
1 GTTGATTC
13086633 TAAAGTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (19 bp):
GTTGATTCCAAAAACTCAC
Found at i:13087943 original size:45 final size:45
Alignment explanation
Indices: 13087879--13087968 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
13087869 GTTGGATTTT
13087879 AATTTTGACTAAAATTTGTTGCGATAAATAATGTACCGAACAAAA
1 AATTTTGACTAAAATTTGTTGCGATAAATAATGTACCGAACAAAA
13087924 AATTTTGACTAAAATTTGTTGCGATAAATAATGTACCGAACAAAA
1 AATTTTGACTAAAATTTGTTGCGATAAATAATGTACCGAACAAAA
13087969 TTATGATATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (45 bp):
AATTTTGACTAAAATTTGTTGCGATAAATAATGTACCGAACAAAA
Found at i:13088114 original size:3 final size:3
Alignment explanation
Indices: 13088108--13088146 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
13088098 TTGAAAAAAA
*
13088108 TAT TAT TAT CAT TAT TAT TA- TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13088147 ACAAAATTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:13088137 original size:14 final size:14
Alignment explanation
Indices: 13088108--13088146 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
13088098 TTGAAAAAAA
*
13088108 TATTATTATCATTAT
1 TATTA-TATTATTAT
13088123 TATTATATTATTAT
1 TATTATATTATTAT
13088137 TATTATATTA
1 TATTATATTA
13088147 ACAAAATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATATTATTAT
Found at i:13091181 original size:189 final size:183
Alignment explanation
Indices: 13090829--13091200 Score: 681
Period size: 189 Copynumber: 2.0 Consensus size: 183
13090819 TGAGAGCATG
13090829 TATATGCGAACATGTGTTATGATAAGAATCATGACTATGAAATATGTGAAAAAGAATACAAGTAA
1 TATATGCGAACATGTGTTATGATAAGAATCATGACTATGAAATATGTGAAAAAGAATACAAGTAA
13090894 AGTAAGAAGCTATGTGATAAGAATGTGAATTACATGGAACTACGCTACGTGAAGTAAACTATGTG
66 AGTAAGAAGCTATGTGATAAGAATGTGAATTACATGGAACTACGCTACGTGAAGTAAACTATGTG
*
13090959 TCTACGTGAATATTTTAAAAGATATAAAAGGTAACGTCTATGTAATGTGTTAT
131 TCTACGTGAATATGTTAAAAGATATAAAAGGTAACGTCTATGTAATGTGTTAT
13091012 TATATGCGAACATGTGTTATGTGATAAGAATCATGACTATGAAATATGTGAAAAAGAATACAAGT
1 TATATGCGAACATGTGTTA--TGATAAGAATCATGACTATGAAATATGTGAAAAAGAATACAAGT
13091077 AAAAGTAAGAAGCTATGTGATAAGTGAATGTGAATTACATGGAACTACGCTACGTGAAAGTAAAC
64 -AAAGTAAGAAGCTATGTGATAA--GAATGTGAATTACATGGAACTACGCTACGTG-AAGTAAAC
13091142 TATGTGTCTACGTGAATATGTTAAAAGATATAAAAGGTAACGTCTATGTAATGTGTTAT
125 TATGTGTCTACGTGAATATGTTAAAAGATATAAAAGGTAACGTCTATGTAATGTGTTAT
13091201 GAGAGTTATA
Statistics
Matches: 182, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
183 19 0.10
185 44 0.24
186 22 0.12
188 31 0.17
189 66 0.36
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.30
Consensus pattern (183 bp):
TATATGCGAACATGTGTTATGATAAGAATCATGACTATGAAATATGTGAAAAAGAATACAAGTAA
AGTAAGAAGCTATGTGATAAGAATGTGAATTACATGGAACTACGCTACGTGAAGTAAACTATGTG
TCTACGTGAATATGTTAAAAGATATAAAAGGTAACGTCTATGTAATGTGTTAT
Found at i:13091298 original size:28 final size:28
Alignment explanation
Indices: 13091267--13091337 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
13091257 GGATATAGTA
*
13091267 GTCCTACGAGACATATGTGTTCTACGTG
1 GTCCTACGAGACATATGTGCTCTACGTG
13091295 GTCCTACGAGACATATGTGCTCTACGTG
1 GTCCTACGAGACATATGTGCTCTACGTG
*
13091323 GTCCTACGGGACATA
1 GTCCTACGAGACATA
13091338 GTGGTCCTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (28 bp):
GTCCTACGAGACATATGTGCTCTACGTG
Found at i:13091347 original size:28 final size:27
Alignment explanation
Indices: 13091267--13091348 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 27
13091257 GGATATAGTA
*
13091267 GTCCTACGAGACATATGTGTTCTACGTG
1 GTCCTACGAGACATA-GTGGTCTACGTG
*
13091295 GTCCTACGAGACATATGTGCTCTACGTG
1 GTCCTACGAGACATA-GTGGTCTACGTG
*
13091323 GTCCTACGGGACATAGTGGTCCTACG
1 GTCCTACGAGACATAGTGGT-CTACG
13091349 GGAAAAATTC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
27 4 0.08
28 46 0.92
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (27 bp):
GTCCTACGAGACATAGTGGTCTACGTG
Found at i:13094647 original size:18 final size:18
Alignment explanation
Indices: 13094624--13094670 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
13094614 TGTGTTCTGC
*
13094624 GTGGTCCTATGGGACATA
1 GTGGTCCTACGGGACATA
13094642 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
13094660 GTGGTCCTACG
1 GTGGTCCTACG
13094671 AAACAAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (18 bp):
GTGGTCCTACGGGACATA
Found at i:13095648 original size:17 final size:16
Alignment explanation
Indices: 13095602--13095661 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
13095592 TAGGTCCTTG
13095602 TATTTTTTTTATTTTA
1 TATTTTTTTTATTTTA
* *
13095618 TATTTCTTTATATTTTT
1 TATTT-TTTTTATTTTA
*
13095635 TGTTGTTTTTTATTTTA
1 TATT-TTTTTTATTTTA
*
13095652 -ATTATTTTTA
1 TATTTTTTTTA
13095662 AGTTTATTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 6 0.17
16 7 0.20
17 21 0.60
18 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (16 bp):
TATTTTTTTTATTTTA
Found at i:13095810 original size:13 final size:13
Alignment explanation
Indices: 13095792--13095817 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13095782 AAAAATGCCA
13095792 GATTATTCGAATC
1 GATTATTCGAATC
13095805 GATTATTCGAATC
1 GATTATTCGAATC
13095818 CTTAAAATAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GATTATTCGAATC
Done.