Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_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: 5892847
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 27
Found at i:695343 original size:23 final size:23
Alignment explanation
Indices: 695313--695357 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
695303 GCAGAACTGG
695313 AAGCATAATTCAGTATACAAACC
1 AAGCATAATTCAGTATACAAACC
695336 AAGCATAATTCAGTATACAAAC
1 AAGCATAATTCAGTATACAAAC
695358 AGTTTACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.22
Consensus pattern (23 bp):
AAGCATAATTCAGTATACAAACC
Found at i:699067 original size:24 final size:24
Alignment explanation
Indices: 699008--699060 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
698998 TTTAATTAAT
** * *
699008 TTTATGTCAGTTCGTTTATGTTCG
1 TTTATGTTTGTTCATTTACGTTCG
*
699032 TTTGTGTTTGTTCATTTACGTTCG
1 TTTATGTTTGTTCATTTACGTTCG
699056 TTTAT
1 TTTAT
699061 TTGTGTTTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.58
Consensus pattern (24 bp):
TTTATGTTTGTTCATTTACGTTCG
Found at i:699072 original size:14 final size:14
Alignment explanation
Indices: 699032--699074 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
699022 TTTATGTTCG
*
699032 TTTGTGTTTGTTCA
1 TTTGTGTTTGTTTA
** *
699046 TTTACGTTCGTTTA
1 TTTGTGTTTGTTTA
699060 TTTGTGTTTGTTTA
1 TTTGTGTTTGTTTA
699074 T
1 T
699075 CATTTTAACG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.09, C:0.07, G:0.19, T:0.65
Consensus pattern (14 bp):
TTTGTGTTTGTTTA
Found at i:702507 original size:23 final size:23
Alignment explanation
Indices: 702453--702498 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
702443 AACCGTAAGC
*
702453 TACCA-AAAGATAAAGAAAAATG
1 TACCACAAAGATAAAGAAAAACG
*
702475 TACCACAAAGATAAAGATAAACG
1 TACCACAAAGATAAAGAAAAACG
702498 T
1 T
702499 GACATAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.59, C:0.13, G:0.13, T:0.15
Consensus pattern (23 bp):
TACCACAAAGATAAAGAAAAACG
Found at i:704999 original size:310 final size:312
Alignment explanation
Indices: 704432--705057 Score: 1206
Period size: 309 Copynumber: 2.0 Consensus size: 312
704422 TTACTGCATT
704432 GATTACCATATCTCCATCGATCCCTCTCAAACCAACCACCCAACAACAAAAGAGAAGAAGATGAA
1 GATTACCATATCTCCATCGATCCCTCTCAAACCAACCACCCAACAACAAAAGAGAAGAAGATGAA
704497 TCGCTATGAGCTTTGCTCCCTCCTCGTTATCATCTTGTTTTTTACTTGCAGGATTCAAACATCTG
66 TCGCTATGAGCTTTGCTCCCTCCTCGTTATCATCTTGTTTTTTACTTGCAGGATTCAAACATCTG
704562 GTGTTTCAGCCCAACATGGCAGACAACCTCATCAACATGTTTTTCGTCCATGGTCGTCTTCAACT
131 GTGTTTCAGCCCAACATGGCAGACAACCTCATCAACATGTTTTTCGTCCATGGTCGTCTTCAACT
704627 AGTCCCCCTTCCAAAGAACAACCAAACCCCCATGTTGGTGAAGAAAACGAAGAGTTCCCACCGGC
196 AGTCCCCCTTCCAAAGAACAACCAAACCCCCATGTTGGTGAAGAAAACGAAGAGTTCCCACCGGC
704692 TCCAACCCA-TGCAT-ACAGGCGATGAAAACCAAGAAAAAAGGGACAACTCC
261 TCCAACCCATTGCATAACAGGCGATGAAAACCAAGAAAAAAGGGACAACTCC
704742 GATTACCATATCTCCATCGATCCCTCTCAAACCAACCACCCAACAACAAAAGAGAAGAAGATGAA
1 GATTACCATATCTCCATCGATCCCTCTCAAACCAACCACCCAACAACAAAAGAGAAGAAGATGAA
704807 TCGCTATGAGCTTTG-TCCCTCCTCGTTATCATCTTGTTTTTTACTTGCAGGATTCAAACATCTG
66 TCGCTATGAGCTTTGCTCCCTCCTCGTTATCATCTTGTTTTTTACTTGCAGGATTCAAACATCTG
704871 GTGTTTCAGCCCAACATGGCAGACAACCTCATCAACATGTTTTTCGTCCATGGTCGTCTTCAACT
131 GTGTTTCAGCCCAACATGGCAGACAACCTCATCAACATGTTTTTCGTCCATGGTCGTCTTCAACT
704936 AGTCCCCCTTCCAAAGAACAACC-AACCACCCATGTTGGTGAAGAAAAACGAAGAGTTCCCACCG
196 AGTCCCCCTTCCAAAGAACAACCAAACC-CCCATGTTGGTGAAG-AAAACGAAGAGTTCCCACCG
705000 GCTCCAACCCATTGCATAACAGGCGATGAAAACCAAGAAAAAAGGGACAACTCC
259 GCTCCAACCCATTGCATAACAGGCGATGAAAACCAAGAAAAAAGGGACAACTCC
705054 GATT
1 GATT
705058 TCAGATAATC
Statistics
Matches: 312, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
308 4 0.01
309 152 0.49
310 111 0.36
311 5 0.02
312 40 0.13
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (312 bp):
GATTACCATATCTCCATCGATCCCTCTCAAACCAACCACCCAACAACAAAAGAGAAGAAGATGAA
TCGCTATGAGCTTTGCTCCCTCCTCGTTATCATCTTGTTTTTTACTTGCAGGATTCAAACATCTG
GTGTTTCAGCCCAACATGGCAGACAACCTCATCAACATGTTTTTCGTCCATGGTCGTCTTCAACT
AGTCCCCCTTCCAAAGAACAACCAAACCCCCATGTTGGTGAAGAAAACGAAGAGTTCCCACCGGC
TCCAACCCATTGCATAACAGGCGATGAAAACCAAGAAAAAAGGGACAACTCC
Found at i:712710 original size:16 final size:17
Alignment explanation
Indices: 712689--712721 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
712679 CGGTCAGAAA
712689 AATTAT-TTTTTATAAT
1 AATTATATTTTTATAAT
*
712705 AATTATATTTTTTTAAT
1 AATTATATTTTTATAAT
712722 TCATTGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTATATTTTTATAAT
Found at i:712865 original size:23 final size:22
Alignment explanation
Indices: 712813--712878 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 22
712803 AAATTTGTGC
712813 TATATTTTTTATTTTTGAATAAT
1 TATA-TTTTTATTTTTGAATAAT
* *
712836 T-TAATTTTTATTTTTGGTATTAT
1 TAT-ATTTTTATTTTT-GAATAAT
*
712859 TATA-TTTAAGTTTTTGAATA
1 TATATTTTTA-TTTTTGAATA
712879 TTTTTATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
22 19 0.56
23 14 0.41
24 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.64
Consensus pattern (22 bp):
TATATTTTTATTTTTGAATAAT
Found at i:712904 original size:31 final size:33
Alignment explanation
Indices: 712844--712904 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
712834 ATTTAATTTT
* *
712844 TATTTTTGGTATTATTATATTTAAGTTTTTGAA
1 TATTTTTGATATTATTAAATTTAAGTTTTTGAA
*
712877 TATTTTT-ATATT-TTAAATTTAATTTTTT
1 TATTTTTGATATTATTAAATTTAAGTTTTT
712905 TTAAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 14 0.56
32 4 0.16
33 7 0.28
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (33 bp):
TATTTTTGATATTATTAAATTTAAGTTTTTGAA
Found at i:719723 original size:48 final size:48
Alignment explanation
Indices: 719664--719769 Score: 203
Period size: 48 Copynumber: 2.2 Consensus size: 48
719654 TTCCAATACT
719664 AGAGAGAATTTAGAGAGTTTCTTGAGAGTTGTTTTCTCCTTTTTATCA
1 AGAGAGAATTTAGAGAGTTTCTTGAGAGTTGTTTTCTCCTTTTTATCA
*
719712 AGAGAAAATTTAGAGAGTTTCTTGAGAGTTGTTTTCTCCTTTTTATCA
1 AGAGAGAATTTAGAGAGTTTCTTGAGAGTTGTTTTCTCCTTTTTATCA
719760 AGAGAGAATT
1 AGAGAGAATT
719770 ATCATTGTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (48 bp):
AGAGAGAATTTAGAGAGTTTCTTGAGAGTTGTTTTCTCCTTTTTATCA
Found at i:720313 original size:18 final size:18
Alignment explanation
Indices: 720290--720326 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
720280 CAGCCCACTG
720290 CCCATTTAAATTTTAAAA
1 CCCATTTAAATTTTAAAA
720308 CCCATTTAAATTTTAAAA
1 CCCATTTAAATTTTAAAA
720326 C
1 C
720327 TAAATAAAAT
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:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (18 bp):
CCCATTTAAATTTTAAAA
Found at i:722778 original size:18 final size:18
Alignment explanation
Indices: 722755--722790 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
722745 ACTTTTAAGG
*
722755 GATGTTTAATTAAGTGTT
1 GATGTTGAATTAAGTGTT
*
722773 GATGTTGAATTTAGTGTT
1 GATGTTGAATTAAGTGTT
722791 ATGGCCATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (18 bp):
GATGTTGAATTAAGTGTT
Found at i:724202 original size:23 final size:23
Alignment explanation
Indices: 724171--724215 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
724161 AGTGTAAACT
724171 GTTTGTATACTGAATTATGCTTG
1 GTTTGTATACTGAATTATGCTTG
*
724194 GTTTTTATACTGAATTATGCTT
1 GTTTGTATACTGAATTATGCTT
724216 CCAGTTCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.09, G:0.18, T:0.51
Consensus pattern (23 bp):
GTTTGTATACTGAATTATGCTTG
Found at i:724497 original size:30 final size:30
Alignment explanation
Indices: 724440--724499 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
724430 CCGAAATTTG
** ** *
724440 TTCGGTTCGGTTAATTTTTTCATAAAAAAA
1 TTCGGTTCGGTTAATGATTAAAGAAAAAAA
724470 TTCGGTTCGGTTAATGATTAAAGAAAAAAA
1 TTCGGTTCGGTTAATGATTAAAGAAAAAAA
724500 AATTCAGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (30 bp):
TTCGGTTCGGTTAATGATTAAAGAAAAAAA
Found at i:725630 original size:187 final size:185
Alignment explanation
Indices: 725261--725652 Score: 615
Period size: 187 Copynumber: 2.1 Consensus size: 185
725251 ATTTCGAATT
* * * * *
725261 TATATAA-AAATTAAATATTTTTTAACTCAAAAAAATAGTTTATAATTAATTTAAATAATATGTA
1 TATATAATATATTTAATATTTTTTAACTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
725325 ATTATAAAATAAAAATTTTATATAAAATTTTAATTAATTAATATTAATTTAAGTTTAAAAGTTAT
66 ATTATAAAATAAAAATTTTATATAAAATTTTAATTAATTAATATTAATTTAAGTTTAAAAGTTAT
* * * * *
725390 TGGATCTTAAATTATTAATTGGGTTTTAAATAGTTTGGGCTTAGCCCATATGTTA
131 TGAATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGACTAAACCCATATGTTA
*
725445 TATATAATATATTTAATATTTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTTTAACTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
** * *
725510 ATTATAAAATAAAAATTTTATATAATTTTTTTAAATTAATTAATATTGATTTAGGTTTAAAAGTT
66 ATTATAAAATAAAAATTTTATATAA-AATTTT-AATTAATTAATATTAATTTAAGTTTAAAAGTT
*
725575 ATTGAATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGACTAAACCCATATGTTA
129 ATTGAATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGACTAAACCCATATGTTA
725632 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
725653 AATTTTTAAT
Statistics
Matches: 189, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
184 7 0.04
185 76 0.40
186 4 0.02
187 102 0.54
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (185 bp):
TATATAATATATTTAATATTTTTTAACTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
ATTATAAAATAAAAATTTTATATAAAATTTTAATTAATTAATATTAATTTAAGTTTAAAAGTTAT
TGAATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGACTAAACCCATATGTTA
Found at i:733894 original size:2 final size:2
Alignment explanation
Indices: 733887--733931 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
733877 TGTAGAAAAT
733887 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
733929 TA T
1 TA T
733932 TAAAAGATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:746959 original size:18 final size:17
Alignment explanation
Indices: 746936--746969 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
746926 CGAGATCATA
*
746936 ATATTATTTTTTCATATT
1 ATATTATATTTT-ATATT
746954 ATATTATATTTTATAT
1 ATATTATATTTTATAT
746970 AAATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:747671 original size:39 final size:37
Alignment explanation
Indices: 747614--747690 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
747604 TCCTCACAGA
* *
747614 CGCACTCTCTTCAAAAAAAAATGAACCTTTTTGTAAAGG
1 CGCACTCTCTTC--AAAAAAATGAACCATTTTGCAAAGG
* *
747653 CGCACTCTCTTTAGAAAAATGAACCATTTTGCAAAGG
1 CGCACTCTCTTCAAAAAAATGAACCATTTTGCAAAGG
747690 C
1 C
747691 TTTCTTTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 23 0.68
39 11 0.32
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (37 bp):
CGCACTCTCTTCAAAAAAATGAACCATTTTGCAAAGG
Found at i:748289 original size:22 final size:22
Alignment explanation
Indices: 748253--748295 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
748243 TTAAATTTAA
* * *
748253 AAATTAAACATTTTATTAAATT
1 AAATTAAAAAATTTAATAAATT
748275 AAATTAAAAAATTTAATAAAT
1 AAATTAAAAAATTTAATAAAT
748296 ATTTAGTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATTAAAAAATTTAATAAATT
Found at i:748970 original size:25 final size:25
Alignment explanation
Indices: 748942--748989 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
748932 ATTATAAATA
*
748942 TAATAATAATATAAA-CAATTTAATT
1 TAATAA-AATATAAATAAATTTAATT
748967 TAATAAAATATAAATAAATTTAA
1 TAATAAAATATAAATAAATTTAA
748990 ATATTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
TAATAAAATATAAATAAATTTAATT
Found at i:751961 original size:22 final size:23
Alignment explanation
Indices: 751935--751978 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
751925 CCAATTTCAA
* *
751935 AAATT-AAACATTTTATTAAATT
1 AAATTAAAACAATTTAATAAATT
751957 AAATTAAAACAATTTAATAAAT
1 AAATTAAAACAATTTAATAAAT
751979 ATTTACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATTAAAACAATTTAATAAATT
Found at i:753779 original size:28 final size:28
Alignment explanation
Indices: 753739--753795 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
753729 ACATATACAT
753739 ATGTGGTAGATAGTAGATAAACCAGACA
1 ATGTGGTAGATAGTAGATAAACCAGACA
753767 ATGTGGTAGATAGTAGATAAACCAGACA
1 ATGTGGTAGATAGTAGATAAACCAGACA
753795 A
1 A
753796 GTTATTCCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.21
Consensus pattern (28 bp):
ATGTGGTAGATAGTAGATAAACCAGACA
Found at i:758537 original size:56 final size:56
Alignment explanation
Indices: 758451--758671 Score: 415
Period size: 56 Copynumber: 3.9 Consensus size: 56
758441 ATAAAAGAAC
*
758451 CAGATAGACTAGCATTACCCAGGAATAAATAGTTTAATTCATAATTCATACATACT
1 CAGATAGACTAGCATTACCCAGGAATAAATAGTTTAGTTCATAATTCATACATACT
*
758507 CAGATAGACTAGCATTACCCAGGAATAAATAGTTTAGCTCATAATTCATACATACT
1 CAGATAGACTAGCATTACCCAGGAATAAATAGTTTAGTTCATAATTCATACATACT
*
758563 CAGATAGACTCGCATTACCCAGGAATAAATAGTTTAGTTCATAATTCATACATACT
1 CAGATAGACTAGCATTACCCAGGAATAAATAGTTTAGTTCATAATTCATACATACT
758619 CAGATAGACTAGCATTACCCAGGAATAAATAGTTTAGTTCATAATTCATACAT
1 CAGATAGACTAGCATTACCCAGGAATAAATAGTTTAGTTCATAATTCATACAT
758672 GCAAAAAGGC
Statistics
Matches: 160, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 160 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (56 bp):
CAGATAGACTAGCATTACCCAGGAATAAATAGTTTAGTTCATAATTCATACATACT
Found at i:759926 original size:21 final size:21
Alignment explanation
Indices: 759873--759926 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
759863 AAGATTTTAT
759873 TTTTTTATATT-AAATATTAA
1 TTTTTTATATTAAAATATTAA
* *
759893 TTTAGTTA-CTTAAAATA-TATA
1 TTT-TTTATATTAAAATATTA-A
759914 TTTTTTATATTAA
1 TTTTTTATATTAA
759927 TATTTTTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTTTTATATTAAAATATTAA
Found at i:759954 original size:34 final size:39
Alignment explanation
Indices: 759874--759953 Score: 96
Period size: 41 Copynumber: 2.1 Consensus size: 39
759864 AGATTTTATT
*
759874 TTTTTATATTAAATATTAATTTAGTTACTTAAAATATATA
1 TTTTTATATTAAATATT-ATTTAGTTACATAAAATATATA
*
759914 TTTTTTATATT-AATATT-TTTAG-TAGATAAAATA-ATA
1 -TTTTTATATTAAATATTATTTAGTTACATAAAATATATA
759950 TTTT
1 TTTT
759954 AGGTAGCGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
35 4 0.11
36 3 0.08
37 9 0.24
38 5 0.14
40 6 0.16
41 10 0.27
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (39 bp):
TTTTTATATTAAATATTATTTAGTTACATAAAATATATA
Found at i:759959 original size:21 final size:21
Alignment explanation
Indices: 759924--760000 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 21
759914 TTTTTTATAT
759924 TAATATTTTTA-GTAGATAAAA
1 TAATA-TTTTAGGTAGATAAAA
* *
759945 TAATATTTTAGGTAGCGTTTAATAT
1 TAATATTTTAGGTA--G-ATAA-AA
* *
759970 TAATATTTTCGGTA-AAAAAA
1 TAATATTTTAGGTAGATAAAA
759990 TAATATTTTAG
1 TAATATTTTAG
760001 ATAGCGTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
20 16 0.36
21 10 0.23
23 1 0.02
24 3 0.07
25 14 0.32
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.44
Consensus pattern (21 bp):
TAATATTTTAGGTAGATAAAA
Found at i:759998 original size:45 final size:46
Alignment explanation
Indices: 759920--760008 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 46
759910 TATATTTTTT
* * *
759920 ATATTAATATTTTTAGTAGATAAAATAATATTTTAGGTAGCGTTTA
1 ATATTAATATTTTCAGTAGAAAAAATAATATTTTAGATAGCGTTTA
*
759966 ATATTAATATTTTCGGTA-AAAAAATAATATTTTAGATAGCGTT
1 ATATTAATATTTTCAGTAGAAAAAATAATATTTTAGATAGCGTT
760009 ATATCGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 23 0.59
46 16 0.41
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.44
Consensus pattern (46 bp):
ATATTAATATTTTCAGTAGAAAAAATAATATTTTAGATAGCGTTTA
Found at i:767261 original size:32 final size:32
Alignment explanation
Indices: 767225--767287 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
767215 CTAAATCTGT
767225 CAATTTTAATGATTCAATATTACAGTGCCTGC
1 CAATTTTAATGATTCAATATTACAGTGCCTGC
767257 CAATTTTAATGATTCAATATTACAGTGCCTG
1 CAATTTTAATGATTCAATATTACAGTGCCTG
767288 AAACATTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (32 bp):
CAATTTTAATGATTCAATATTACAGTGCCTGC
Found at i:773212 original size:26 final size:25
Alignment explanation
Indices: 773171--773219 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
773161 ATTCTATTAA
*
773171 TAAAATTCAATTATTTGAATTTACT
1 TAAAATTCAATAATTTGAATTTACT
773196 TAAAATATCAATAATTTGAATTTA
1 TAAAAT-TCAATAATTTGAATTTA
773220 ATTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (25 bp):
TAAAATTCAATAATTTGAATTTACT
Found at i:775279 original size:54 final size:48
Alignment explanation
Indices: 775168--775305 Score: 186
Period size: 48 Copynumber: 2.8 Consensus size: 48
775158 CTCCACCGGA
* *
775168 GGCGGCTTCACCACAGGAGGTGATGGAGGAGGCAGAGTTGGTGGCGTT
1 GGCGGCTTCACGATAGGAGGTGATGGAGGAGGCAGAGTTGGTGGCGTT
775216 GGCGGCTTCACGATAGGAGGTGATGGAGGAGGCAGAGTTGGTGGCGTTGGTGTT
1 GGCGGCTTCACGATAGGAGGTGATGGAGGAGGCAGAGTTGGTGGC------GTT
* *
775270 GGTGGCTTCACGATAGGAGGTGATGGAGGTGGCAGA
1 GGCGGCTTCACGATAGGAGGTGATGGAGGAGGCAGA
775306 ATCGGCGGTG
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
48 43 0.54
54 37 0.46
ACGTcount: A:0.19, C:0.13, G:0.47, T:0.21
Consensus pattern (48 bp):
GGCGGCTTCACGATAGGAGGTGATGGAGGAGGCAGAGTTGGTGGCGTT
Found at i:775319 original size:54 final size:54
Alignment explanation
Indices: 775168--775321 Score: 167
Period size: 54 Copynumber: 3.0 Consensus size: 54
775158 CTCCACCGGA
* * ** *
775168 GGCGGCTTCACCACAGGAGGTGATGGAGGAGGCAG-A---GTTG-G-TGGCGTT
1 GGCGGCTTCACGATAGGAGGTGATGGAGGAGGCAGAATCGGCGGCGTTGGTGTT
* * *
775216 GGCGGCTTCACGATAGGAGGTGATGGAGGAGGCAGAGTTGGTGGCGTTGGTGTT
1 GGCGGCTTCACGATAGGAGGTGATGGAGGAGGCAGAATCGGCGGCGTTGGTGTT
* * *
775270 GGTGGCTTCACGATAGGAGGTGATGGAGGTGGCAGAATCGGCGGTGTTGGTG
1 GGCGGCTTCACGATAGGAGGTGATGGAGGAGGCAGAATCGGCGGCGTTGGTG
775322 GATTCACTAT
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
48 33 0.37
52 3 0.03
53 1 0.01
54 52 0.58
ACGTcount: A:0.18, C:0.13, G:0.47, T:0.22
Consensus pattern (54 bp):
GGCGGCTTCACGATAGGAGGTGATGGAGGAGGCAGAATCGGCGGCGTTGGTGTT
Found at i:775320 original size:48 final size:48
Alignment explanation
Indices: 775171--775328 Score: 172
Period size: 48 Copynumber: 3.2 Consensus size: 48
775161 CACCGGAGGC
* * * * * *
775171 GGCTTCACCACAGGAGGTGATGGAGGAGGCAGAGTTGGTGGCGTTGGC
1 GGCTTCACGATAGGAGGTGATGGAGGAGGCAGAATTGGCGGTGTTGGT
*
775219 GGCTTCACGATAGGAGGTGATGGAGGAGGCAGAGTTGGTGGCGTTGGTGTTGGT
1 GGCTTCACGATAGGAGGTGATGGAGGAGGCAGA-AT--TGGC---GGTGTTGGT
* *
775273 GGCTTCACGATAGGAGGTGATGGAGGTGGCAGAATCGGCGGTGTTGGT
1 GGCTTCACGATAGGAGGTGATGGAGGAGGCAGAATTGGCGGTGTTGGT
*
775321 GGATTCAC
1 GGCTTCAC
775329 TATCGGGGGC
Statistics
Matches: 94, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
48 47 0.50
49 1 0.01
51 6 0.06
53 1 0.01
54 39 0.41
ACGTcount: A:0.18, C:0.13, G:0.46, T:0.23
Consensus pattern (48 bp):
GGCTTCACGATAGGAGGTGATGGAGGAGGCAGAATTGGCGGTGTTGGT
Found at i:775469 original size:36 final size:36
Alignment explanation
Indices: 775423--775547 Score: 241
Period size: 36 Copynumber: 3.5 Consensus size: 36
775413 GGGTTTAACC
*
775423 ACAGGAGGTTTGGGTACGTAAGGTGGAGGCTTTACA
1 ACAGGTGGTTTGGGTACGTAAGGTGGAGGCTTTACA
775459 ACAGGTGGTTTGGGTACGTAAGGTGGAGGCTTTACA
1 ACAGGTGGTTTGGGTACGTAAGGTGGAGGCTTTACA
775495 ACAGGTGGTTTGGGTACGTAAGGTGGAGGCTTTACA
1 ACAGGTGGTTTGGGTACGTAAGGTGGAGGCTTTACA
775531 ACAGGTGGTTTGGGTAC
1 ACAGGTGGTTTGGGTAC
775548 ATAGGGAGGT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 88 1.00
ACGTcount: A:0.22, C:0.11, G:0.39, T:0.27
Consensus pattern (36 bp):
ACAGGTGGTTTGGGTACGTAAGGTGGAGGCTTTACA
Found at i:775850 original size:72 final size:72
Alignment explanation
Indices: 775576--775823 Score: 370
Period size: 72 Copynumber: 3.4 Consensus size: 72
775566 CGGAGGCTTA
*
775576 GGAGGATGGGGTGGATGCTTAGGCGGTTTAGGATGATAGGGAGGGTTAACAACCGGAGGCTTCGG
1 GGAGGATGCGGTGGATGCTTAGGCGGTTTAGGATGATAGGGAGGGTTAACAACCGGAGGCTTCGG
775641 CGTTTTG
66 CGTTTTG
* * * *
775648 GGAGGATGGGGTGGATGCTTAGGCGGTTTAGGATGGTAGGGCGGGTTAACAACGGGAGGCTTCGG
1 GGAGGATGCGGTGGATGCTTAGGCGGTTTAGGATGATAGGGAGGGTTAACAACCGGAGGCTTCGG
775713 CGTTTTG
66 CGTTTTG
* * * *
775720 GGAGGAAGCGGTGGATGCTTAGGTGGTTTAGGATGATATGGAGGGTTAACCACCGGAGGCTTCGG
1 GGAGGATGCGGTGGATGCTTAGGCGGTTTAGGATGATAGGGAGGGTTAACAACCGGAGGCTTCGG
* *
775785 TGGTTTG
66 CGTTTTG
* * *
775792 GGAGGATGCGGTGGATGTTTTGGTGGTTTAGG
1 GGAGGATGCGGTGGATGCTTAGGCGGTTTAGG
775824 GTGAAACGGA
Statistics
Matches: 160, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 160 1.00
ACGTcount: A:0.18, C:0.10, G:0.46, T:0.27
Consensus pattern (72 bp):
GGAGGATGCGGTGGATGCTTAGGCGGTTTAGGATGATAGGGAGGGTTAACAACCGGAGGCTTCGG
CGTTTTG
Found at i:785155 original size:43 final size:44
Alignment explanation
Indices: 785096--785187 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 44
785086 ATTTTCTTAA
785096 AAATAAAGGGTATGTAA-TTTTTTTCATTTTTCCTTAATATATT
1 AAATAAAGGGTATGTAATTTTTTTTCATTTTTCCTTAATATATT
785139 AAATAAAGGGTATGTAATTTTTTTTTCATTTTTCCTTAATATATT
1 AAATAAAGGGTATGTAA-TTTTTTTTCATTTTTCCTTAATATATT
785184 AAAT
1 AAAT
785188 TAAATTTCAC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 17 0.36
45 30 0.64
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.51
Consensus pattern (44 bp):
AAATAAAGGGTATGTAATTTTTTTTCATTTTTCCTTAATATATT
Found at i:793426 original size:19 final size:21
Alignment explanation
Indices: 793387--793427 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
793377 TTATTTTTTT
*
793387 AAATATTTGTTTCTATTTGAA
1 AAATATTTATTTCTATTTGAA
793408 AAATATTTATTT-T-TTTGAA
1 AAATATTTATTTCTATTTGAA
793427 A
1 A
793428 TGAAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 1 0.05
21 11 0.58
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (21 bp):
AAATATTTATTTCTATTTGAA
Found at i:797057 original size:19 final size:18
Alignment explanation
Indices: 797033--797098 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 18
797023 AATACCCCCC
797033 ATATATTATTTTTAATTAA
1 ATATATTATTTTTAA-TAA
797052 ATATATT-TTTATTGAATAA
1 ATATATTATTT-TT-AATAA
*
797071 GTA-A-TATTTTTTAATAA
1 ATATATTA-TTTTTAATAA
797088 ATATATTATTT
1 ATATATTATTT
797099 CGGGTCGGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
17 8 0.21
18 10 0.26
19 19 0.49
20 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
ATATATTATTTTTAATAA
Found at i:797439 original size:18 final size:19
Alignment explanation
Indices: 797378--797449 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 19
797368 ATACCCCTCC
797378 ATATATTATTATTTTTAATTAA
1 ATATA-TATT-TTTTTAA-TAA
797400 ATATATATTTTTATTGAATAA
1 ATATATATTTTT-TT-AATAA
797421 AGTA-ATA-TTTTTTAATAA
1 A-TATATATTTTTTTAATAA
797439 ATATATTATTT
1 ATATA-TATTT
797450 CGGGTCGGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
17 2 0.05
18 7 0.16
19 4 0.09
20 9 0.20
21 13 0.30
22 9 0.20
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
ATATATATTTTTTTAATAA
Found at i:797557 original size:351 final size:343
Alignment explanation
Indices: 796922--797601 Score: 1270
Period size: 351 Copynumber: 2.0 Consensus size: 343
796912 TTTTTACAAA
796922 AAAATTGAGTTCGGGCTGGGTTCAGATTTAGGGTGAAAAATACCCGACCCGAACCGGAAAAAAAT
1 AAAATTGAGTTCGGGCTGGGTTCAGATTTAGGGTGAAAAATACCCGACCCGAACCGGAAAAAAAT
796987 TGTAATTTTACCTTATATATTTAAGGATATTGCAATAATACCCCCCATATATTATTTTTAATTAA
66 TGTAATTTTACCTTATATATTTAAGGATATTGCAATAATACCCCCCATATATTATTTTTAATTAA
797052 ATATATTTTTATTGAATAAGTAATATTTTTTAATAAATATATTATTTCGGGTCGGTCGGGTGGAG
131 ATATATTTTTATTGAATAAGTAATATTTTTTAATAAATATATTATTTCGGGTCGGTCGGGTGGAG
797117 GATGTATAATTTTTGGGTCGGGTCAGGTGGACCGACAATCCGATGCGACCCATGTCCATCCCTAG
196 GATGTATAATTTTTGGGTCGGGTCAGGTGGACCGACAATCCGATGCGACCCATGTCCATCCCTAG
*
797182 GTGGGGGTGTTGATCAATGAAACTTGATTGTTATATTCAAACATTTTGGTGATCAGGATTTGAAG
261 GTGGGGGTGTTGATCAATGAAACTTGATTGTTATATTCAAACATTTTGGTGATCAGGATTTGAAA
797247 GGTTTAGGGTGATCAATG
326 GGTTTAGGGTGATCAATG
*
797265 AAAATTGAGTTCGGGCTGGGTTCAGATTTAGGGTGAAAAATACCCGTCCCGAACCGGAAAAAAAT
1 AAAATTGAGTTCGGGCTGGGTTCAGATTTAGGGTGAAAAATACCCGACCCGAACCGGAAAAAAAT
797330 TGTAATTTTACCTTATATATTTAAGGATAATTGCAATAATACCCCTCCATATATTATTATTTTTA
66 TGTAATTTTACCTTATATATTTAAGGAT-ATTGCAATAATACCCC-CC--ATA-TATTATTTTTA
797395 ATTAAATATATATTTTTATTGAATAAAGTAATATTTTTTAATAAATATATTATTTCGGGTCGGTC
126 ATT-AA-ATATATTTTTATTGAAT-AAGTAATATTTTTTAATAAATATATTATTTCGGGTCGGTC
797460 GGGTGGAGGATGTATAATTTTTGGGTCGGGTCAGGTGGACCGACAATCCGATGCGACCCATGTCC
188 GGGTGGAGGATGTATAATTTTTGGGTCGGGTCAGGTGGACCGACAATCCGATGCGACCCATGTCC
797525 ATCCCTAGGTGGGGGTGTTGATCAATGAAACTTGATTGTTATATTCAAACATTTTGGTGATCAGG
253 ATCCCTAGGTGGGGGTGTTGATCAATGAAACTTGATTGTTATATTCAAACATTTTGGTGATCAGG
797590 ATTTGAAAGGTT
318 ATTTGAAAGGTT
797602 GGCAATATCT
Statistics
Matches: 327, Mismatches: 2, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
343 92 0.28
344 16 0.05
345 2 0.01
347 3 0.01
348 14 0.04
349 2 0.01
350 17 0.05
351 181 0.55
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (343 bp):
AAAATTGAGTTCGGGCTGGGTTCAGATTTAGGGTGAAAAATACCCGACCCGAACCGGAAAAAAAT
TGTAATTTTACCTTATATATTTAAGGATATTGCAATAATACCCCCCATATATTATTTTTAATTAA
ATATATTTTTATTGAATAAGTAATATTTTTTAATAAATATATTATTTCGGGTCGGTCGGGTGGAG
GATGTATAATTTTTGGGTCGGGTCAGGTGGACCGACAATCCGATGCGACCCATGTCCATCCCTAG
GTGGGGGTGTTGATCAATGAAACTTGATTGTTATATTCAAACATTTTGGTGATCAGGATTTGAAA
GGTTTAGGGTGATCAATG
Found at i:801331 original size:3 final size:3
Alignment explanation
Indices: 801323--801352 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
801313 TTCCAAAATA
801323 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
801353 GAAGATGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:802541 original size:15 final size:15
Alignment explanation
Indices: 802521--802549 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
802511 ATTTTTAACT
802521 TATAATTTTATCATG
1 TATAATTTTATCATG
802536 TATAATTTTATCAT
1 TATAATTTTATCAT
802550 TTTAAAGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.55
Consensus pattern (15 bp):
TATAATTTTATCATG
Found at i:803239 original size:259 final size:259
Alignment explanation
Indices: 802730--803247 Score: 968
Period size: 259 Copynumber: 2.0 Consensus size: 259
802720 CATTTATTTA
802730 TATATTTTCATCAAAACTTTAAATTTAGAAGCAAATTCTAGAAGACTGAAATGTGATCCATTATG
1 TATATTTTCATCAAAACTTTAAATTTAGAAGCAAATTCTAGAAGACTGAAATGTGATCCATTATG
802795 TATAAACTAATAAATAGTAGTTAACATTTTGATTTTTTTTTTTGAATTGAAAGAAGCCTAAAACA
66 TATAAACTAATAAATAGTAGTTAACATTTTGATTTTTTTTTTTGAATTGAAAGAAGCCTAAAACA
**
802860 GTAGGCTATGCGCGTATACTCTCGTCAGTTTGCTGCGCAACAACAGTGTCTAAAGCTAAGAGGTT
131 GTAGGCTATGCGCGTATACTCTCGTCAGTTTGCTAAGCAACAACAGTGTCTAAAGCTAAGAGGTT
*
802925 TACTAGCTCATCCGGGGGGGAGTCAAAGTGAACCAAGTTGTAGTTTGCCGCGAAGCTAGCTTTG
196 TACTAGCTCATCCGGGGGGGAGTCAAAGTGAACCAAGTTGTAGTTTGCAGCGAAGCTAGCTTTG
802989 TATATTTTCATCAAAACTTTAAATTTAGAAGCAAATTCTAGAAGACTGAAATGTGATCCATTATG
1 TATATTTTCATCAAAACTTTAAATTTAGAAGCAAATTCTAGAAGACTGAAATGTGATCCATTATG
803054 TATAAACTAATAAATAGTAGTTCAACATTTTGA-TTTTTTTTTTGAATTGAAAGAAGCCTAAAAC
66 TATAAACTAATAAATAGTAGTT-AACATTTTGATTTTTTTTTTTGAATTGAAAGAAGCCTAAAAC
*
803118 AGTAGGCTA-GCGCGTATACTCTCGTCAGTTTGCTAAGCAACAACATTGTCTAAAGCTAAGAGGT
130 AGTAGGCTATGCGCGTATACTCTCGTCAGTTTGCTAAGCAACAACAGTGTCTAAAGCTAAGAGGT
803182 TTACTAGCTCATCCGGGGGGGAGTCAAAGTGAACCAAGTTGTAGTGTTGCAGCGAAGCTAGCTTT
195 TTACTAGCTCATCCGGGGGGGAGTCAAAGTGAACCAAGTTGTAGT-TTGCAGCGAAGCTAGCTTT
803247 G
259 G
803248 CCATCCTATC
Statistics
Matches: 253, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
258 97 0.38
259 146 0.58
260 10 0.04
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (259 bp):
TATATTTTCATCAAAACTTTAAATTTAGAAGCAAATTCTAGAAGACTGAAATGTGATCCATTATG
TATAAACTAATAAATAGTAGTTAACATTTTGATTTTTTTTTTTGAATTGAAAGAAGCCTAAAACA
GTAGGCTATGCGCGTATACTCTCGTCAGTTTGCTAAGCAACAACAGTGTCTAAAGCTAAGAGGTT
TACTAGCTCATCCGGGGGGGAGTCAAAGTGAACCAAGTTGTAGTTTGCAGCGAAGCTAGCTTTG
Found at i:808388 original size:103 final size:103
Alignment explanation
Indices: 808060--808380 Score: 570
Period size: 103 Copynumber: 3.1 Consensus size: 103
808050 AGTGAGGGTC
* *
808060 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACACGTGTGAAGTATGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
808125 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
*
808163 TATGTTGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
808228 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
* * * *
808266 TATATGGTCTTTTGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
808331 TTGATCCGTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
808369 TATGTGGTCCTT
1 TATGTGGTCCTT
808381 ATGGACATTA
Statistics
Matches: 207, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 207 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:808464 original size:23 final size:23
Alignment explanation
Indices: 808396--808456 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
808386 CATTATTATA
*
808396 TGGCACTATGGTGCAATTCTACG
1 TGGCACTATGGTGCAATTCTATG
* *
808419 CGGCACTACGGTGCAATTCTATG
1 TGGCACTATGGTGCAATTCTATG
*
808442 TGGCACTTTGGTGCA
1 TGGCACTATGGTGCA
808457 TTTATATGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.30
Consensus pattern (23 bp):
TGGCACTATGGTGCAATTCTATG
Found at i:810665 original size:135 final size:135
Alignment explanation
Indices: 810423--810697 Score: 514
Period size: 135 Copynumber: 2.0 Consensus size: 135
810413 TCATGTATTG
* *
810423 TGCAGGATCAGTGAGTTTACCATATGTAGAAAGATGAGGTTTATCACTTACTTGAGAGTGGTTTG
1 TGCAGGATCAGTGAGTTTACCATATGTAGAAAGATGAGGTTCATCACTTACTTGAGAGTAGTTTG
*
810488 TATCCGTTGGCTTACGTGGAATTAACTTGTGCTGGGAGTTCTCTTGTGTGGCATGCGAGATGATA
66 TATCCGTTGGCTTACGTGGAATTAACTTGTGCTGGGAGTTCTCTTGTGTGACATGCGAGATGATA
810553 TCATC
131 TCATC
*
810558 TGCAGGATCAGTGAGTTTACCATATGTAGAAAGATGAGGTTCATCACTTACTTGAGCGTAGTTTG
1 TGCAGGATCAGTGAGTTTACCATATGTAGAAAGATGAGGTTCATCACTTACTTGAGAGTAGTTTG
810623 TATCCGTTGGCTTACGTGGAATTAACTTGTGCTGGGAGTTCTCTTGTGTGACATGCGAGATGATA
66 TATCCGTTGGCTTACGTGGAATTAACTTGTGCTGGGAGTTCTCTTGTGTGACATGCGAGATGATA
810688 TCATC
131 TCATC
810693 TGCAG
1 TGCAG
810698 TGTTCGGATT
Statistics
Matches: 136, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
135 136 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (135 bp):
TGCAGGATCAGTGAGTTTACCATATGTAGAAAGATGAGGTTCATCACTTACTTGAGAGTAGTTTG
TATCCGTTGGCTTACGTGGAATTAACTTGTGCTGGGAGTTCTCTTGTGTGACATGCGAGATGATA
TCATC
Found at i:812064 original size:17 final size:17
Alignment explanation
Indices: 812042--812075 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
812032 CTAGGTTTTC
812042 CATTTTAACTTTTTTAA
1 CATTTTAACTTTTTTAA
* *
812059 CATTTTGATTTTTTTAA
1 CATTTTAACTTTTTTAA
812076 ATCGATTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (17 bp):
CATTTTAACTTTTTTAA
Found at i:814918 original size:54 final size:54
Alignment explanation
Indices: 814854--814961 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
814844 CATGATCTCA
814854 TGTAAAAGACCAGAGTGATTAAACCCAATGATTTTGTGA-CTGCTACTAAAAGAT
1 TGTAAAAGACCAGAGTGATT-AACCCAATGATTTTGTGACCTGCTACTAAAAGAT
814908 TGTAAAAGACCAGAGTGATTAACCCAATGATTTTGTGACCTGCTACTAAAAGAT
1 TGTAAAAGACCAGAGTGATTAACCCAATGATTTTGTGACCTGCTACTAAAAGAT
814962 AGGCCTGGAG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
53 18 0.34
54 35 0.66
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (54 bp):
TGTAAAAGACCAGAGTGATTAACCCAATGATTTTGTGACCTGCTACTAAAAGAT
Found at i:817324 original size:2 final size:2
Alignment explanation
Indices: 817317--817343 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
817307 AGTTCAATGA
817317 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
817344 ATCACCAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:820821 original size:22 final size:23
Alignment explanation
Indices: 820783--820826 Score: 72
Period size: 22 Copynumber: 1.9 Consensus size: 23
820773 GTAAATATTG
820783 TCATGTTCATATCATTTAAAATAA
1 TCATGTTCA-ATCATTTAAAATAA
820807 TCATGTTC-ATCATTTAAAAT
1 TCATGTTCAATCATTTAAAAT
820827 TTATTCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
24 8 0.40
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.43
Consensus pattern (23 bp):
TCATGTTCAATCATTTAAAATAA
Found at i:820839 original size:24 final size:22
Alignment explanation
Indices: 820793--820840 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
820783 TCATGTTCAT
*
820793 ATCATTTAAAATAATCATGTTC
1 ATCATTTAAAATAATCATATTC
*
820815 ATCATTTAAAATTTATTCATATTC
1 ATCATTTAAAA--TAATCATATTC
820839 AT
1 AT
820841 ATTATTTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.50
24 11 0.50
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (22 bp):
ATCATTTAAAATAATCATATTC
Found at i:824986 original size:17 final size:16
Alignment explanation
Indices: 824960--824992 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
824950 ACAACCATCA
824960 AACAATAAAATTTTGC
1 AACAATAAAATTTTGC
824976 AACACATAAAATTTTGC
1 AACA-ATAAAATTTTGC
824993 CATGACTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.30
Consensus pattern (16 bp):
AACAATAAAATTTTGC
Found at i:826366 original size:50 final size:51
Alignment explanation
Indices: 826292--826389 Score: 180
Period size: 50 Copynumber: 1.9 Consensus size: 51
826282 AGTGTAACTT
826292 TTTTTTTTAATTTTACATTAATTTAGAACTATTAGATGAGTGAAAGTATAC
1 TTTTTTTTAATTTTACATTAATTTAGAACTATTAGATGAGTGAAAGTATAC
*
826343 TTTTTTTT-ATTTTACATTAATTTAGAACTATTGGATGAGTGAAAGTA
1 TTTTTTTTAATTTTACATTAATTTAGAACTATTAGATGAGTGAAAGTA
826390 AATTGAAGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 38 0.83
51 8 0.17
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (51 bp):
TTTTTTTTAATTTTACATTAATTTAGAACTATTAGATGAGTGAAAGTATAC
Found at i:833439 original size:21 final size:21
Alignment explanation
Indices: 833334--833432 Score: 110
Period size: 21 Copynumber: 4.7 Consensus size: 21
833324 GCGTGCGAGA
* **
833334 CCTCTTGAACGATGACAGAAG
1 CCTCTTGAACGATGAGAGGGG
* *
833355 CCTCTTAAACGGTGAGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
833376 CCTCTTCAATGATGAGAGGGG
1 CCTCTTGAACGATGAGAGGGG
*
833397 CCTCTTGAACGAT-AGGAGGTG
1 CCTCTTGAACGATGA-GAGGGG
833418 CCTCTTGAACGATGA
1 CCTCTTGAACGATGA
833433 TAGGTGCATC
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
20 1 0.02
21 63 0.97
22 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:833604 original size:4 final size:4
Alignment explanation
Indices: 833572--833617 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
833562 GGGCCGCTGA
* * * *
833572 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
833618 TGTCAAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:835500 original size:20 final size:20
Alignment explanation
Indices: 835474--835558 Score: 109
Period size: 20 Copynumber: 4.2 Consensus size: 20
835464 AAACTTAAAT
*
835474 TCGCAACACGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
* *
835494 TCACAACGCGAAAATTAAAA
1 TCGCAACGCGAAAATGAAAA
*
835514 TCGCAACGCGAAACTAGAAAA
1 TCGCAACGCGAAAAT-GAAAA
*
835535 TCGCAACGCGAAACT-AAAA
1 TCGCAACGCGAAAATGAAAA
835554 TCGCA
1 TCGCA
835559 TTGCGATTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.16
20 30 0.52
21 19 0.33
ACGTcount: A:0.49, C:0.24, G:0.15, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:835526 original size:40 final size:41
Alignment explanation
Indices: 835463--835558 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 41
835453 AGTAGTTTCT
* *
835463 GAAACTTAAATTCGCAACACGAAAAT-GAAAATCACAACGC
1 GAAAATTAAAATCGCAACACGAAAATAGAAAATCACAACGC
* * *
835503 GAAAATTAAAATCGCAACGCGAAACTAGAAAATCGCAACGC
1 GAAAATTAAAATCGCAACACGAAAATAGAAAATCACAACGC
*
835544 G-AAACTAAAATCGCA
1 GAAAATTAAAATCGCA
835559 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
40 35 0.71
41 14 0.29
ACGTcount: A:0.50, C:0.22, G:0.15, T:0.14
Consensus pattern (41 bp):
GAAAATTAAAATCGCAACACGAAAATAGAAAATCACAACGC
Found at i:835564 original size:19 final size:19
Alignment explanation
Indices: 835463--835558 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 19
835453 AGTAGTTTCT
* *
835463 GAAACTTAAATTCGCAACAC
1 GAAAC-TAAAATCGCAACGC
* *
835483 GAAAATGAAAATCACAACGC
1 GAAACT-AAAATCGCAACGC
*
835503 GAAAATTAAAATCGCAACGC
1 G-AAACTAAAATCGCAACGC
835523 GAAACTAGAAAATCGCAACGC
1 GAAACT--AAAATCGCAACGC
835544 GAAACTAAAATCGCA
1 GAAACTAAAATCGCA
835559 TTGCGATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
19 14 0.22
20 28 0.43
21 23 0.35
ACGTcount: A:0.50, C:0.22, G:0.15, T:0.14
Consensus pattern (19 bp):
GAAACTAAAATCGCAACGC
Found at i:835582 original size:20 final size:20
Alignment explanation
Indices: 835554--835596 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
835544 GAAACTAAAA
835554 TCGCATTGCGATTTTCATTT
1 TCGCATTGCGATTTTCATTT
*
835574 TCGCGTTGCGATTTTCATTT
1 TCGCATTGCGATTTTCATTT
835594 TCG
1 TCG
835597 TGTTACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.49
Consensus pattern (20 bp):
TCGCATTGCGATTTTCATTT
Found at i:835946 original size:22 final size:22
Alignment explanation
Indices: 835919--835960 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
835909 GATGGAGATA
835919 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
835941 GACGGATTTCGTCGGAGATG
1 GACGGATTTCGCCGGAGATG
835961 TGATTGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.17, G:0.43, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:836111 original size:20 final size:20
Alignment explanation
Indices: 836086--836134 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
836076 TAAACGCGCT
836086 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTATGTG
*
836106 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTATGTG
836126 TTGC-AATTT
1 TTGCGAATTT
836135 ACAAATTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.18, C:0.10, G:0.22, T:0.49
Consensus pattern (20 bp):
TTGCGAATTTGACTTATGTG
Found at i:836162 original size:21 final size:21
Alignment explanation
Indices: 836132--836196 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
836122 TGTGTTGCAA
836132 TTTACAAATTAGCGTTGCGAT
1 TTTACAAATTAGCGTTGCGAT
* * *
836153 TTTCCAAATTCGCGTTGTGA-
1 TTTACAAATTAGCGTTGCGAT
*
836173 TTTACATATTCA-CGTTGCGAT
1 TTTACAAATT-AGCGTTGCGAT
836194 TTT
1 TTT
836197 GGAAAATCGC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 15 0.43
21 20 0.57
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (21 bp):
TTTACAAATTAGCGTTGCGAT
Found at i:836194 original size:20 final size:20
Alignment explanation
Indices: 836125--836195 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
836115 TGACTTTTGT
*
836125 GTTGCAATTTACAAATT-AGC
1 GTTGCGATTTACAAATTCA-C
* *
836145 GTTGCGATTTTCCAAATTCGC
1 GTTGCGA-TTTACAAATTCAC
* *
836166 GTTGTGATTTACATATTCAC
1 GTTGCGATTTACAAATTCAC
836186 GTTGCGATTT
1 GTTGCGATTT
836196 TGGAAAATCG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 25 0.61
21 16 0.39
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCAC
Found at i:838861 original size:31 final size:32
Alignment explanation
Indices: 838809--838869 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 32
838799 TTTGATATTG
838809 ATTTTAATATTCAATGTGATACTT-AATTTTC
1 ATTTTAATATTCAATGTGATACTTGAATTTTC
838840 ATTTTAATA-TCTAAT-TAGATACTTGAATTT
1 ATTTTAATATTC-AATGT-GATACTTGAATTT
838870 AACTTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 3 0.11
31 19 0.70
32 5 0.19
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (32 bp):
ATTTTAATATTCAATGTGATACTTGAATTTTC
Found at i:839294 original size:16 final size:16
Alignment explanation
Indices: 839270--839317 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
839260 TTTAAATTAA
*
839270 ATTAATGATGCTCATC
1 ATTAGTGATGCTCATC
*
839286 ATTAGTGATGCTCGTC
1 ATTAGTGATGCTCATC
*
839302 ATTAGTGGTGCTCATC
1 ATTAGTGATGCTCATC
839318 GCTGCTCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (16 bp):
ATTAGTGATGCTCATC
Found at i:839868 original size:26 final size:26
Alignment explanation
Indices: 839834--839888 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
839824 TTAATATTTT
* *
839834 CCTTCTAAAATTTTATAAATTCAC-C
1 CCTTCTAAAAATTTAGAAATTCACTC
839859 CCTTCCTAAAAATTTAGAAATTCACTC
1 CCTT-CTAAAAATTTAGAAATTCACTC
839886 CCT
1 CCT
839889 CTGTGTAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 4 0.15
26 18 0.69
27 4 0.15
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (26 bp):
CCTTCTAAAAATTTAGAAATTCACTC
Found at i:844251 original size:23 final size:24
Alignment explanation
Indices: 844206--844251 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
844196 CGTAAGTTAC
*
844206 CAAATGACAGAGAAAAATATGTCT
1 CAAATGACAGAGAAAAACATGTCT
* *
844230 CAAA-GACAGAGATAAACGTGTC
1 CAAATGACAGAGAAAAACATGTC
844252 ATAAAGCCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (24 bp):
CAAATGACAGAGAAAAACATGTCT
Found at i:846558 original size:22 final size:22
Alignment explanation
Indices: 846530--846577 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
846520 CGTATAAGTA
846530 TAAATTAGTTAAAATTTAAA-GG
1 TAAATTAGTTAAAA-TTAAAGGG
*
846552 TAAATTATTTAAAATTAAAGGG
1 TAAATTAGTTAAAATTAAAGGG
846574 TAAA
1 TAAA
846578 CTATATTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.35
Consensus pattern (22 bp):
TAAATTAGTTAAAATTAAAGGG
Found at i:847323 original size:22 final size:22
Alignment explanation
Indices: 847295--847346 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
847285 GATCAGTGCT
847295 ATAATTTACCATTT-AATTTTAA
1 ATAATTTACC-TTTAAATTTTAA
847317 ATAATTTACCTTTAAATTTTAA
1 ATAATTTACCTTTAAATTTTAA
*
847339 CTAATTTA
1 ATAATTTA
847347 TAATTATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTTACCTTTAAATTTTAA
Found at i:848285 original size:17 final size:18
Alignment explanation
Indices: 848259--848293 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
848249 AGAGAAAAAG
848259 ATAATAAAAATAT-ATAA
1 ATAATAAAAATATGATAA
*
848276 ATAATTAAAATATGATAA
1 ATAATAAAAATATGATAA
848294 TTTAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAATAAAAATATGATAA
Found at i:852000 original size:12 final size:13
Alignment explanation
Indices: 851983--852011 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
851973 ACATTCACAT
851983 ATTTACA-TTTGC
1 ATTTACATTTTGC
851995 ATTTACATTTTGC
1 ATTTACATTTTGC
852008 ATTT
1 ATTT
852012 TTACGTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (13 bp):
ATTTACATTTTGC
Found at i:852014 original size:27 final size:28
Alignment explanation
Indices: 851984--852039 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
851974 CATTCACATA
*
851984 TTTACATTTGCATTTACA-TTTTGCATT
1 TTTACATTTACATTTACATTTTTGCATT
* * *
852011 TTTACGTTTATATTTTCATTTTTGCATT
1 TTTACATTTACATTTACATTTTTGCATT
852039 T
1 T
852040 GCATCTTTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.61
Consensus pattern (28 bp):
TTTACATTTACATTTACATTTTTGCATT
Found at i:854479 original size:15 final size:14
Alignment explanation
Indices: 854459--854518 Score: 61
Period size: 15 Copynumber: 4.3 Consensus size: 14
854449 AAAAAAGAAA
*
854459 AAAAAAAGAAAAAGG
1 AAAAAAACAAAAA-G
854474 AAAAAAACAAAAAG
1 AAAAAAACAAAAAG
*
854488 AAAAAAA-TAAAA-
1 AAAAAAACAAAAAG
*
854500 ACAAAAACAAAAAGG
1 AAAAAAACAAAAA-G
854515 AAAA
1 AAAA
854519 GGAAAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
12 6 0.16
13 8 0.22
14 8 0.22
15 15 0.41
ACGTcount: A:0.83, C:0.05, G:0.10, T:0.02
Consensus pattern (14 bp):
AAAAAAACAAAAAG
Found at i:854485 original size:14 final size:14
Alignment explanation
Indices: 854468--854518 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
854458 AAAAAAAAGA
854468 AAAAGGAAAAAAAC
1 AAAAGGAAAAAAAC
* *
854482 AAAAAGAAAAAAAT
1 AAAAGGAAAAAAAC
*
854496 AAAA--ACAAAAAC
1 AAAAGGAAAAAAAC
854508 AAAAAGGAAAA
1 -AAAAGGAAAA
854519 GGAAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 16 0.55
15 3 0.10
ACGTcount: A:0.82, C:0.06, G:0.10, T:0.02
Consensus pattern (14 bp):
AAAAGGAAAAAAAC
Found at i:854485 original size:20 final size:21
Alignment explanation
Indices: 854456--854518 Score: 87
Period size: 20 Copynumber: 3.1 Consensus size: 21
854446 AGGAAAAAAG
854456 AAAAA-AAAAAGAAAAAGGAA
1 AAAAACAAAAAGAAAAAGGAA
854476 AAAAACAAAAAGAAAAA--AA
1 AAAAACAAAAAGAAAAAGGAA
*
854495 TAAAAACAAAAACAAAAAGGAA
1 -AAAAACAAAAAGAAAAAGGAA
854517 AA
1 AA
854519 GGAAAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 2 0.05
20 21 0.55
21 13 0.34
22 2 0.05
ACGTcount: A:0.84, C:0.05, G:0.10, T:0.02
Consensus pattern (21 bp):
AAAAACAAAAAGAAAAAGGAA
Found at i:859480 original size:22 final size:22
Alignment explanation
Indices: 859452--859508 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
859442 ACATCTATAT
859452 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
859474 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
859496 TTTTCAAAGATGA
1 TCTTCAAAGATGA
859509 AAACTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:860273 original size:113 final size:113
Alignment explanation
Indices: 860058--860339 Score: 494
Period size: 113 Copynumber: 2.5 Consensus size: 113
860048 ATAGATCAGC
* *
860058 ATCAACATTTCCA-GAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCA
1 ATCAACATTACCAGGTA-GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCA
*
860122 TAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCATTCGATGG
65 TAATGAGAAGAACTTATTCAACTTTTTGCTCGAATTCATCATTCGATGG
* * *
860171 ATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAATAAGTTCAT
1 ATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCAT
860236 AATGAGAAGAACTTATTCAACTTTTTGCTCGAATTCATCATTCGATGG
66 AATGAGAAGAACTTATTCAACTTTTTGCTCGAATTCATCATTCGATGG
860284 ATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 ATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
860340 GTTCATTGTA
Statistics
Matches: 160, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
113 158 0.99
114 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
ATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCAT
AATGAGAAGAACTTATTCAACTTTTTGCTCGAATTCATCATTCGATGG
Found at i:861134 original size:13 final size:13
Alignment explanation
Indices: 861134--861193 Score: 57
Period size: 13 Copynumber: 4.2 Consensus size: 13
861124 CCGTTGACCC
861134 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
861147 TACCTGACCCGTT
1 GACCCGACCCGTT
861160 GACCCGACCCGACCCGTT
1 G-----ACCCGACCCGTT
861178 GACCCGACCCGTT
1 GACCCGACCCGTT
861191 GAC
1 GAC
861194 TGTTGACCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
13 26 0.68
18 12 0.32
ACGTcount: A:0.17, C:0.45, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:861135 original size:18 final size:18
Alignment explanation
Indices: 861112--861188 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
861102 ACCGGTCACA
861112 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
861130 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
* *
861147 ----TACCTGACCCGTTG
1 ACCCGACCCGACCCGTTG
861161 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
861179 ACCCGACCCG
1 ACCCGACCCG
861189 TTGACTGTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
13 11 0.22
18 39 0.78
ACGTcount: A:0.17, C:0.49, G:0.21, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:861159 original size:31 final size:31
Alignment explanation
Indices: 861116--861193 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
861106 GTCACAACCC
861116 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* *
861147 TACCTGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
861178 GACCCGACCCGTTGAC
1 GACCCGACCCGTTGAC
861194 TGTTGACCCG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.17, C:0.46, G:0.22, T:0.15
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:861214 original size:15 final size:14
Alignment explanation
Indices: 861170--861216 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
861160 GACCCGACCC
*
861170 GACCCGTTGACC-C
1 GACCCGTTGACCTT
*
861183 GACCCGTTGACTGTT
1 GACCCGTTGAC-CTT
861198 GACCCGTTGACCATT
1 GACCCGTTGACC-TT
861213 GACC
1 GACC
861217 GGAGTTGACC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 11 0.39
15 17 0.61
ACGTcount: A:0.17, C:0.36, G:0.23, T:0.23
Consensus pattern (14 bp):
GACCCGTTGACCTT
Found at i:862532 original size:18 final size:18
Alignment explanation
Indices: 862506--862540 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
862496 TCGAAAGGAC
*
862506 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
862524 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
862541 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:865129 original size:113 final size:113
Alignment explanation
Indices: 864931--865639 Score: 962
Period size: 113 Copynumber: 6.3 Consensus size: 113
864921 GGGTGTTACA
* * * * * * *
864931 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCATTCGATGGATCATCATTTCT
1 TTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACTTTTCC
* *
864996 AGAGAAAATTCATAATGAGAAGATCTCATCTGAAGAAGGAAGAAGAAG
66 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * *
865044 TTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTTAAATCCATCACTTGATGGATCAGCTTTTCC
1 TTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACTTTTCC
* *
865109 AGAGAAAGTTCATAATGAGAAGAACCCATCTGAAGAAGAAAGAAGAAG
66 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* *
865157 TTCATAATGAAAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACTTTTCT
1 TTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACTTTTCC
*
865222 AGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAG
66 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* *
865270 TTCATAATGAAAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCC
1 TTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACTTTTCC
* * *
865335 AGAGAAAGTTCATAATGAGAAAAACTTATCTGAAGAAGGAAAAAGAAG
66 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * * * * * *
865383 TTCATAATAAGAAGAGCTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCC
1 TTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACTTTTCC
*
865448 AG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-
66 AGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAG
* ** * * ** *
865495 TTCATAATGATAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGGATCAACTTTTCC
1 TTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACTTTTCC
* *
865560 AGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAA-CAAGAAGAAG
66 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
*
865607 TTCATAATGAGAAGAGCTTCTTCAACCTTTTGC
1 TTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
865640 ATAACTCTAT
Statistics
Matches: 530, Mismatches: 58, Indels: 17
0.88 0.10 0.03
Matches are distributed among these distances:
109 14 0.03
110 2 0.00
111 2 0.00
112 104 0.20
113 392 0.74
114 1 0.00
115 4 0.01
116 11 0.02
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (113 bp):
TTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACTTTTCC
AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
Found at i:865725 original size:123 final size:124
Alignment explanation
Indices: 865555--865865 Score: 331
Period size: 121 Copynumber: 2.6 Consensus size: 124
865545 TGGATCAACT
* * *
865555 TTTCCAG-AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAACAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAAG-AAGTTCATAATGAGAAAAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGA
* * *
865619 AGAGCTTCTTCAACCTTTTGCA-TA-ACT-CTATCACAGAAGGAGAT-ATATCATCATCAGCA
65 AGAACTTCTTCAAACTTTT-CACTAGACTAC-ATCACAGAAGGAGATGA-ATCATCATCACCA
* * *
865678 TTTCCAGAAGAAGTTCATAATGACAAAAACTCATCT---GACGAAGAAGAAGTTCATAATTAGAA
1 TTTCCAGAAGAAGTTCATAATGAGAAAAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAA
* * * ** *
865740 GAACTTGTTCAAACTTTTTACTAGATTACATCACAGAAGGAGATGAATTGTCATCCCCA
66 GAACTTCTTCAAACTTTTCACTAGACTACATCACAGAAGGAGATGAATCATCATCACCA
* * *
865799 -GT--GGAAG-AGTTCATAATGAGAAAAACTCATCTGAAGAATGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAAGAAGTTCATAATGAGAAAAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGA
865860 AGAACT
65 AGAACT
865866 CATCTAAAGA
Statistics
Matches: 158, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
117 24 0.15
118 4 0.03
119 1 0.01
120 43 0.27
121 52 0.33
122 2 0.01
123 30 0.19
124 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.25
Consensus pattern (124 bp):
TTTCCAGAAGAAGTTCATAATGAGAAAAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAA
GAACTTCTTCAAACTTTTCACTAGACTACATCACAGAAGGAGATGAATCATCATCACCA
Found at i:865845 original size:39 final size:39
Alignment explanation
Indices: 865802--865943 Score: 207
Period size: 39 Copynumber: 3.6 Consensus size: 39
865792 ATCCCCAGTG
*
865802 GAAG-AGTTCATAATGAGAAAAACTCATCTGAAGAATGAA
1 GAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAA
* *
865841 GAAGAAATTCATAATGAGAAGAACTCATCTAAAGAAGAA
1 GAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
* *
865880 GAATAAGTTCATAATGAGAAGAACTCATCTTG-AGAGGAA
1 GAAGAAGTTCATAATGAGAAGAACTCATC-TGAAGAAGAA
865919 GAAGAAGTTCATAATGAGAAGAACT
1 GAAGAAGTTCATAATGAGAAGAACT
865944 TGTTCGACAT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
39 64 0.69
40 29 0.31
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.20
Consensus pattern (39 bp):
GAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
Found at i:867585 original size:143 final size:140
Alignment explanation
Indices: 867438--867729 Score: 292
Period size: 143 Copynumber: 2.0 Consensus size: 140
867428 ATATATATAT
*
867438 TAAATA-AAATTCCTAT-TTA-A-A-ATTTTAATTTTATATAAATTACTTTTAAGAAAAATAATC
1 TAAATACAAATTCCTATATTATATATATATTAA-TTTATATAAATTA-TTTTAAGAAAAAT-AT-
* * * *
867498 ATATTTTAATATTTATTTTTTAATATTAAGAAATGGGA-TGTCTTAAAGCACCTAGAAGTCCTTT
62 -TATTTTAATATTTATTTATT--T-TTAAGAAA-AGAACTGTCTTAAAGCACCTAGAAGTCATTT
867562 TCTGATA-TTCTTAAATAAA
122 TCTGATATTTC-TAAATAAA
* ** * * * * *
867581 TAAATATCATATTTTTATAAATTATATATATATTAATTTATTTTAATTATTTTTAGAAAGATGTT
1 TAAATA-CAAATTCCTAT--ATTATATATATATTAATTTATATAAATTATTTTAAGAAAAATATT
*
867646 ATTTTAATATTTATTTATTTTTAAGAAAAGAACTGTCTTAAGGCACCTAGAAGTCATTTTCTGAT
63 ATTTTAATATTTATTTATTTTTAAGAAAAGAACTGTCTTAAAGCACCTAGAAGTCATTTTCTGAT
867711 ATTTCTAAATAAA
128 ATTTCTAAATAAA
867724 TAAATA
1 TAAATA
867730 TTTTATTTAT
Statistics
Matches: 125, Mismatches: 14, Indels: 20
0.79 0.09 0.13
Matches are distributed among these distances:
142 2 0.02
143 59 0.47
144 4 0.03
145 7 0.06
146 19 0.15
148 4 0.03
149 12 0.10
150 12 0.10
151 6 0.05
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (140 bp):
TAAATACAAATTCCTATATTATATATATATTAATTTATATAAATTATTTTAAGAAAAATATTATT
TTAATATTTATTTATTTTTAAGAAAAGAACTGTCTTAAAGCACCTAGAAGTCATTTTCTGATATT
TCTAAATAAA
Found at i:867737 original size:143 final size:142
Alignment explanation
Indices: 867499--867757 Score: 364
Period size: 143 Copynumber: 1.8 Consensus size: 142
867489 AAAATAATCA
* * * *
867499 TATTTTAATATTTATTTTTTAATATTAAGAAATGGGATGTCTTAAAGCACCTAGAAGTCCTTTTC
1 TATTTTAATATTTATTTATT-ATATTAAGAAATAGAATGTCTTAAAGCACCTAGAAGTCATTTTC
*
867564 TGATATTCTTAAATAAATAAATATCATATTTTTATAAATTATATATATATTAATTTATTTTAATT
65 TGATATTCTTAAATAAATAAATATCATA--TTTATAAA-TATATATAAATTAATTTATTTTAATT
867629 ATTTTTAGAAAGATGT
127 ATTTTTAGAAAGATGT
*
867645 TATTTTAATATTTATTTATT-T-TTAAGAAA-AGAACTGTCTTAAGGCACCTAGAAGTCATTTTC
1 TATTTTAATATTTATTTATTATATTAAGAAATAGAA-TGTCTTAAAGCACCTAGAAGTCATTTTC
**
867707 TGATATT-TCTAAATAAATAAATATTTTATTTATAAATATATATAAATTAAT
65 TGATATTCT-TAAATAAATAAATATCATATTTATAAATATATATAAATTAAT
867758 AGATTTTCTT
Statistics
Matches: 103, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
140 14 0.14
141 8 0.08
142 3 0.03
143 58 0.56
144 1 0.01
146 19 0.18
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.47
Consensus pattern (142 bp):
TATTTTAATATTTATTTATTATATTAAGAAATAGAATGTCTTAAAGCACCTAGAAGTCATTTTCT
GATATTCTTAAATAAATAAATATCATATTTATAAATATATATAAATTAATTTATTTTAATTATTT
TTAGAAAGATGT
Found at i:876636 original size:3 final size:3
Alignment explanation
Indices: 876628--876653 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
876618 GTTAAATAAG
876628 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
876654 TCAAATTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:878059 original size:25 final size:25
Alignment explanation
Indices: 878031--878087 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
878021 GACAAAGATA
878031 AAGAAAAAAAAAAAAGGAGATAAAG
1 AAGAAAAAAAAAAAAGGAGATAAAG
* * *
878056 AAGATAAAGAAAAAAGGGGATAAAG
1 AAGAAAAAAAAAAAAGGAGATAAAG
878081 AA-AAAAA
1 AAGAAAAA
878088 GTTCCTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (25 bp):
AAGAAAAAAAAAAAAGGAGATAAAG
Found at i:880570 original size:18 final size:17
Alignment explanation
Indices: 880542--880587 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
880532 TCAAAAAGGA
880542 AAAAGGAAAAAGTAAAAG
1 AAAA-GAAAAAGTAAAAG
880560 CAAAAGAAAAAGTAAAAG
1 -AAAAGAAAAAGTAAAAG
*
880578 TAAAGAAAAA
1 AAAAGAAAAA
880588 ATTGTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 9 0.35
18 13 0.50
19 4 0.15
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAAGAAAAAGTAAAAG
Found at i:881530 original size:22 final size:20
Alignment explanation
Indices: 881502--881555 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
881492 CTGTTTTGTT
881502 TTATTTTAATTTAG-TCACTG
1 TTATTTTAATTTAGCT-ACTG
*
881522 TTAGTTTTTGATTTAGCTACTG
1 TTA--TTTTAATTTAGCTACTG
881544 TTATTTTAATTT
1 TTATTTTAATTT
881556 TTTTCATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 11 0.38
22 17 0.59
23 1 0.03
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (20 bp):
TTATTTTAATTTAGCTACTG
Found at i:886697 original size:21 final size:22
Alignment explanation
Indices: 886673--886725 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
886663 ATTCGCATCG
*
886673 TCCACGCCGACCGGGCA-TTCC
1 TCCAAGCCGACCGGGCATTTCC
886694 TCCAAGCCGACCGGGCATTTCC
1 TCCAAGCCGACCGGGCATTTCC
886716 TCCAAGCCGA
1 TCCAAGCCGA
886726 AGGCAATGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.19, C:0.43, G:0.23, T:0.15
Consensus pattern (22 bp):
TCCAAGCCGACCGGGCATTTCC
Found at i:889122 original size:20 final size:20
Alignment explanation
Indices: 889099--889154 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
889089 TGCGATTTTC
889099 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* * **
889119 CAAATTTGCAAC-TGAATTT
1 CAAATTCGCAACGCGAAAGT
889138 CAAATTCGCAACGCGAA
1 CAAATTCGCAACGCGAA
889155 TTTAATTTCG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.21
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:889157 original size:20 final size:20
Alignment explanation
Indices: 889058--889157 Score: 89
Period size: 20 Copynumber: 5.0 Consensus size: 20
889048 AAATGACCAA
889058 CAAATTCGCAACGCGAATATGT
1 CAAATTCGCAACGCGAAT-T-T
** *
889080 -AAA-TCGCATTGCGATTTT
1 CAAATTCGCAACGCGAATTT
**
889098 CCAAATTCGCAACGCGAAAGT
1 -CAAATTCGCAACGCGAATTT
* *
889119 CAAATTTGCAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
889138 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
889158 AATTTCGTAA
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
18 1 0.02
19 16 0.27
20 30 0.50
21 13 0.22
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:890099 original size:24 final size:24
Alignment explanation
Indices: 890067--890120 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
890057 GTATTCGAAA
890067 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
890091 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
890115 TTTGAT
1 TTTGAT
890121 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:892725 original size:20 final size:20
Alignment explanation
Indices: 892700--892737 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
892690 CGCAAAATAA
892700 GCGTTGCGAATTTACCTTTC
1 GCGTTGCGAATTTACCTTTC
892720 GCGTTGCGAATTTACCTT
1 GCGTTGCGAATTTACCTT
892738 CAACATGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (20 bp):
GCGTTGCGAATTTACCTTTC
Found at i:892836 original size:25 final size:25
Alignment explanation
Indices: 892798--892847 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
892788 AAATCAATTA
* *
892798 AACATTGTTGTGGGTACATTATTTG
1 AACATTGATATGGGTACATTATTTG
892823 AACATTGATATGGGTACATTATTTG
1 AACATTGATATGGGTACATTATTTG
892848 GAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (25 bp):
AACATTGATATGGGTACATTATTTG
Found at i:893248 original size:18 final size:18
Alignment explanation
Indices: 893227--893263 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
893217 GTAATTGGAG
893227 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
893245 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
893263 T
1 T
893264 ATAAATTTCG
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:893270 original size:24 final size:24
Alignment explanation
Indices: 893219--893271 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
893209 ATTTATATGT
* * *
893219 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
893243 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
893267 AATTT
1 AATTT
893272 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:897749 original size:19 final size:20
Alignment explanation
Indices: 897727--897766 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
897717 AATTCGCAAC
897727 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCAGTTTCGCGTT
*
897746 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCAGTTTCGCGTT
897766 G
1 G
897767 TGAATTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.10, C:0.17, G:0.25, T:0.47
Consensus pattern (20 bp):
GCGATTTTCAGTTTCGCGTT
Found at i:898069 original size:22 final size:22
Alignment explanation
Indices: 898023--898070 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
898013 AGATGGAGAT
* * *
898023 AGACGGATTTCGTCGGAAATGG
1 AGACAGATTTCGTCAGAAATAG
*
898045 AGACAGATTTCGTCAGAGATAG
1 AGACAGATTTCGTCAGAAATAG
898067 AGAC
1 AGAC
898071 TGATGTCGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (22 bp):
AGACAGATTTCGTCAGAAATAG
Found at i:898257 original size:20 final size:19
Alignment explanation
Indices: 898202--898305 Score: 91
Period size: 20 Copynumber: 5.3 Consensus size: 19
898192 GCGTAAAAAC
*
898202 ATTTGACTTCGCGTTGCAA
1 ATTTGACTTCGCGTTGCGA
898221 ATTTGACTATCGCGTTGCGA
1 ATTTGACT-TCGCGTTGCGA
*
898241 ATTTGACTTCTGTGTTGCGA
1 ATTTGACTTC-GCGTTGCGA
* * *
898261 TTTATAAATTCGCGTTGCGAA
1 ATT-TGACTTCGCGTTGCG-A
* * **
898282 ATTGGAATTTACGTTGCGA
1 ATTTGACTTCGCGTTGCGA
898301 ATTTG
1 ATTTG
898306 TTGGTCATTT
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
19 15 0.22
20 46 0.67
21 8 0.12
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.39
Consensus pattern (19 bp):
ATTTGACTTCGCGTTGCGA
Found at i:900269 original size:9 final size:9
Alignment explanation
Indices: 900240--900278 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
900230 ACTGGAAAAT
900240 CGGTTTGAC
1 CGGTTTGAC
*
900249 CGGTTCGAAC
1 CGGTTTG-AC
900259 CGGTTTGAC
1 CGGTTTGAC
*
900268 CGGTCTGAC
1 CGGTTTGAC
900277 CG
1 CG
900279 ACCCGACCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.13, C:0.28, G:0.33, T:0.26
Consensus pattern (9 bp):
CGGTTTGAC
Found at i:900344 original size:28 final size:28
Alignment explanation
Indices: 900313--900399 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 28
900303 TGATATTCTC
* *
900313 GGAATTAATTCGAAATGATGCTATTTTG
1 GGAATTAATTCGAAAGGGTGCTATTTTG
* *
900341 GGAATTAATTCAAAAAGGGTACTATTTTG
1 GGAATTAATTC-GAAAGGGTGCTATTTTG
* *
900370 GTAATTAATTTGAAAAGGGTGCTATTTTG
1 GGAATTAATTCG-AAAGGGTGCTATTTTG
900399 G
1 G
900400 TTATTATTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 11 0.22
29 38 0.78
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (28 bp):
GGAATTAATTCGAAAGGGTGCTATTTTG
Found at i:900426 original size:30 final size:29
Alignment explanation
Indices: 900331--900426 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
900321 TTCGAAATGA
* *
900331 TGCTATTTTGGGAATTAATTCAAAAAGGG
1 TGCTATTTTGGTAATTAATTTAAAAAGGG
* *
900360 TACTATTTTGGTAATTAATTTGAAAAGGG
1 TGCTATTTTGGTAATTAATTTAAAAAGGG
* *
900389 TGCTATTTTGGTTATTATTTTAAAAAGGGG
1 TGCTATTTTGGTAATTAATTTAAAAA-GGG
*
900419 TGTTATTT
1 TGCTATTT
900427 ATGTAAAATG
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
29 47 0.82
30 10 0.18
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (29 bp):
TGCTATTTTGGTAATTAATTTAAAAAGGG
Found at i:901147 original size:31 final size:31
Alignment explanation
Indices: 901111--901204 Score: 95
Period size: 31 Copynumber: 3.0 Consensus size: 31
901101 CCCGAAGGAC
* *
901111 CAGTCCATAGATTCCGAAGAACCTAGGTAAT
1 CAGTCCATAGATTCCGAAGAACATAGGTAAA
*
901142 CAGTCCAT--ATCTCTCGAAGAACATAGGCAAA
1 CAGTCCATAGAT-TC-CGAAGAACATAGGTAAA
* *
901173 CGGTCCATATG-TCCCGAAGAACATAGGTAAA
1 CAGTCCATA-GATTCCGAAGAACATAGGTAAA
901204 C
1 C
901205 CCTCGACCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
29 2 0.04
30 2 0.04
31 46 0.88
32 1 0.02
33 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATAGATTCCGAAGAACATAGGTAAA
Found at i:904270 original size:2 final size:2
Alignment explanation
Indices: 904263--904305 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
904253 ATATGTTCAC
* *
904263 AT AT AT AT CAT AT -T AT AT AA AC 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 AT AT AT AT AT AT AT
904305 A
1 A
904306 ACTCATAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
1 1 0.03
2 33 0.92
3 2 0.06
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:904287 original size:22 final size:22
Alignment explanation
Indices: 904261--904303 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
904251 GTATATGTTC
904261 ACATATATATCATAT-TATATAA
1 ACATATATAT-ATATATATATAA
904283 ACATATATATATATATATATA
1 ACATATATATATATATATATA
904304 TAACTCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (22 bp):
ACATATATATATATATATATAA
Found at i:905125 original size:31 final size:31
Alignment explanation
Indices: 905087--905180 Score: 145
Period size: 31 Copynumber: 3.0 Consensus size: 31
905077 CCCGAAGGAC
* * *
905087 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
905118 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
905149 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
905180 C
1 C
905181 CCTCGACCCT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 58 0.98
32 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:910133 original size:746 final size:748
Alignment explanation
Indices: 908764--910259 Score: 2848
Period size: 746 Copynumber: 2.0 Consensus size: 748
908754 TGAAACAATC
908764 TCCCTTTCCACGTGCATTTATCCTTACCAATCCCATTTTTAATTCATTTCTTGGTCAATTGACCC
1 TCCCTTTCCACGTGCATTTATCCTTACCAATCCCATTTTTAATTCATTTCTTGGTCAATTGACCC
908829 TTTTGCCCTTTATTTTCTTTAATAATTACTAAATAACCTTCATCATATATATCCAATAATCATTG
66 TTTTGCCCTTTATTTTCTTTAATAATTACTAAATAACCTTCATCA-ATATATCCAATAATCATTG
908894 AACTATTTTATTCTTATACTTTAGTCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCGA
130 AACTATTTTATTCTTATACTTTAGTCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCGA
908959 TATTGTGGATGTTACAAATCTCCCCTCATTTTTAAGAAAATTCGTCCTCGAATTTTCACTGGACA
195 TATTGTGGATGTTACAAATCTCCCCTCATTTTTAAGAAAATTCGTCCTCGAATTTTCACTGGACA
909024 TCTTGATAAGAACATGTCTGCTAATGTTCTCATGTTGTTTCCTTTACTTAATCTTTTTCCCTTAG
260 TCTTGATAAGAACATGTCTGCTAATGTTCTCATGTTGTTTCCTTTACTTAATCTTTTTCCCTTAG
909089 TTCTTCAACTATTTTTTTTTACATCCCTTATCATGTCACTTATCATATAACCAATATCATCAGTT
325 TTCTTCAACTATTTTTTTTTACATCCCTTATCATGTCACTTATCATATAACCAATATCATCAG-T
909154 CTTATCACTCAAAATCATCAATCAATCAAATTCCTTATCAATCTTTAATTTACTTGCAGTAATAA
389 CTTATCACTCAAAATCATCAATCAATCAAATTCCTTATCAATCTTTAATTTACTTGCAGTAATAA
909219 CGAACTTTTATTCCATCAACGCTTAATTACTTCTTAAATTCCTTAATACATATAAATTATTCTTT
454 CGAACTTTTATTCCATCAACGCTTAATTACTTCTTAAATTCCTTAATACATATAAATTATTCTTT
909284 ATTCCTCTGACTAAATCTCCTTGACCAAGAAACATAACCTTTATCACATCTGATTCTTTAAACTT
519 ATTCCTCTGACTAAATCTCCTTGACCAAGAAACATAACCTTTATCACATCTGATTCTTTAAACTT
909349 TTTCCTTTCATTTCCTTATTCCATTATTCCTTTATTCATTCAAAAATCAAAATCTCCTTATACAC
584 TTTCCTTTCATTTCCTTATTCCATTATTCCTTTATTCATTCAAAAATC-AAATCTCCTTATACAC
909414 AAATCATATATATTTCTTTCATGCTCACATACTCTTTTCTTCTCAC-TATGCCCATCTCTGATTA
648 AAATCATATAT-TTTCTTTCATGCTCACATACTCTTTTCTTCTCACTTATGCCCATCTCTGATTA
909478 CTAATCTTTATCATCTCTTCATAACTTTGATAATCAA
712 CTAATCTTTATCATCTCTTCATAACTTTGATAATCAA
909515 TCCCTTTCCACGTGCATTTATCCTTACCAATCCCATTTTTAATTCATTTCTTGGTCAATTGACCC
1 TCCCTTTCCACGTGCATTTATCCTTACCAATCCCATTTTTAATTCATTTCTTGGTCAATTGACCC
909580 TTTTGCCCTTTATTTTCTTTAATAATTACTAAATAACCTTCATC-ATATATCCAATAATCATTGA
66 TTTTGCCCTTTATTTTCTTTAATAATTACTAAATAACCTTCATCAATATATCCAATAATCATTGA
909644 ACTATTTTATTCTTATACTTTAGTCACCAAATTCTGAAACTTTACAATTTGGTCACTAA-CCGAT
131 ACTATTTTATTCTTATACTTTAGTCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCGAT
909708 ATTG-GGATGTTACAAATCTCCCCTCATTTTTAAGAAAATTCGTCCTCGAATTTTCACTGGACAT
196 ATTGTGGATGTTACAAATCTCCCCTCATTTTTAAGAAAATTCGTCCTCGAATTTTCACTGGACAT
909772 CTTGATAAGAACATGTCTGCTAATGTTCTCATGTTGTTTCCTTTACTTAATCTTTCTTTCCCTTA
261 CTTGATAAGAACATGTCTGCTAATGTTCTCATGTTGTTTCCTTTACTTAATC-TT-TTTCCCTTA
909837 GTTCTTCAACTATTTTTTTTTTTACATCCCTTATCATGTCACTTATCATATAACC-A-AT-ATCA
324 GTTCTTCAACTA--TTTTTTTTTACATCCCTTATCATGTCACTTATCATATAACCAATATCATCA
909899 -TCTTATCACTCAAAATCATCAATCAATCAAATTCCTTATCAATCTTTAATTTACTTGCAGTAAT
387 GTCTTATCACTCAAAATCATCAATCAATCAAATTCCTTATCAATCTTTAATTTACTTGCAGTAAT
909963 AACGAACTTTTATTCCATCAACGCTTAATTACTTCTTAAATTTCCTTAATACATATAAATTATTC
452 AACGAACTTTTATTCCATCAACGCTTAATTACTTCTTAAA-TTCCTTAATACATATAAATTATTC
910028 TTTATTCCTCTGACTAAATCTCCTTGACCAAG-AACATAACCTTTATCACATCTGATTCTTTAAA
516 TTTATTCCTCTGACTAAATCTCCTTGACCAAGAAACATAACCTTTATCACATCTGATTCTTTAAA
910092 CTTTTTCCTTTCATTTCCTTATTCCATTATTCCTTTATTCATTCAAAAATCAAATCTCCTTATAC
581 CTTTTTCCTTTCATTTCCTTATTCCATTATTCCTTTATTCATTCAAAAATCAAATCTCCTTATAC
910157 ACAAATCATATATTTTCTTTCATGCTCACATACTCTTTTCTTCTCACTTATGCCCATCTCTGATT
646 ACAAATCATATATTTTCTTTCATGCTCACATACTCTTTTCTTCTCACTTATGCCCATCTCTGATT
910222 ACTAATCTTTATCATCTCTTCATAACTTTGATAATCAA
711 ACTAATCTTTATCATCTCTTCATAACTTTGATAATCAA
910260 CACTCCTTGC
Statistics
Matches: 739, Mismatches: 0, Indels: 18
0.98 0.00 0.02
Matches are distributed among these distances:
744 34 0.05
745 82 0.11
746 187 0.25
747 168 0.23
748 15 0.02
749 102 0.14
750 1 0.00
751 150 0.20
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (748 bp):
TCCCTTTCCACGTGCATTTATCCTTACCAATCCCATTTTTAATTCATTTCTTGGTCAATTGACCC
TTTTGCCCTTTATTTTCTTTAATAATTACTAAATAACCTTCATCAATATATCCAATAATCATTGA
ACTATTTTATTCTTATACTTTAGTCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCGAT
ATTGTGGATGTTACAAATCTCCCCTCATTTTTAAGAAAATTCGTCCTCGAATTTTCACTGGACAT
CTTGATAAGAACATGTCTGCTAATGTTCTCATGTTGTTTCCTTTACTTAATCTTTTTCCCTTAGT
TCTTCAACTATTTTTTTTTACATCCCTTATCATGTCACTTATCATATAACCAATATCATCAGTCT
TATCACTCAAAATCATCAATCAATCAAATTCCTTATCAATCTTTAATTTACTTGCAGTAATAACG
AACTTTTATTCCATCAACGCTTAATTACTTCTTAAATTCCTTAATACATATAAATTATTCTTTAT
TCCTCTGACTAAATCTCCTTGACCAAGAAACATAACCTTTATCACATCTGATTCTTTAAACTTTT
TCCTTTCATTTCCTTATTCCATTATTCCTTTATTCATTCAAAAATCAAATCTCCTTATACACAAA
TCATATATTTTCTTTCATGCTCACATACTCTTTTCTTCTCACTTATGCCCATCTCTGATTACTAA
TCTTTATCATCTCTTCATAACTTTGATAATCAA
Found at i:912751 original size:31 final size:31
Alignment explanation
Indices: 912713--912806 Score: 136
Period size: 31 Copynumber: 3.0 Consensus size: 31
912703 CCCGAAGGAC
* * *
912713 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
912744 CAGTCCATATGTCCCGAAGAACATAGGCAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
912775 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
912806 C
1 C
912807 CCTCGACCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 56 0.98
32 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:917829 original size:758 final size:754
Alignment explanation
Indices: 916378--917889 Score: 2988
Period size: 758 Copynumber: 2.0 Consensus size: 754
916368 TGAAACAATC
916378 TCCCTTTCCACGTGCATTTATCCTTACCAATCCCATTTTTAATTCATTTCTTGGTCAATTGACCC
1 TCCCTTTCCACGTGCATTTATCCTTACCAATCCCATTTTTAATTCATTTCTTGGTCAATTGACCC
916443 TTTTGCCCTTTATTTTCTTTAATAATTACTAAATAACCTTCATCATATATATCCAATAATCATTG
66 TTTTGCCCTTTATTTTCTTTAATAATTACTAAATAACCTTCATCATATATATCCAATAATCATTG
916508 AACTATTTTATTCTTATACTTTAGTCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCGA
131 AACTATTTTATTCTTATACTTTAGTCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCGA
916573 TATTGTGGATGTTACAATCTCCCCTCATTTTAAGAAAATTCGTCCTCGAATTTTCACTGGACATC
196 TATTGTGGATGTTACAATCTCCCCTCATTTTAAGAAAATTCGTCCTCGAATTTTCACTGGACATC
916638 TTGATAAGAACATGTCTGCTAATGTTCTCATGTTGTTTCCTTTACTTAATCTTTCTTTCCCTTAG
261 TTGATAAGAACATGTCTGCTAATGTTCTCATGTTGTTTCCTTTACTTAATCTTTCTTTCCCTTAG
916703 TTCTTCAACTATTTTTTTTTACATCCCTTATCATGTCACTTATCATATAACCAATATCATCAGTT
326 TTCTTCAACTATTTTTTTTTACATCCCTTATCATGTCACTTATCATATAACCAATATCATCAGTT
916768 CTTATCACTCAAAATCATCAATCAATCAAATTCCTTATCAATCTTTAATTTACTTGCAGTAATAA
391 CTTATCACTCAAAATCATCAATCAATCAAATTCCTTATCAATCTTTAATTTACTTGCAGTAATAA
916833 CGAACTTTTATTCCATCAACGCTTAATTACTTCTTAAATTTCCTTAATACATATAAATTATTCTT
456 CGAACTTTTATTCCATCAACGCTTAATTACTTCTTAAATTTCCTTAATACATATAAATTATTCTT
916898 TATTCCTCTGACTAAATCTCCTTGACCAAGAAACATAACCTTTATCACATCTGATTCTTTAAACT
521 TATTCCTCTGACTAAATCTCCTTGACCAAGAAACATAACCTTTATCACATCTGATTCTTTAAACT
916963 TTTTCCTTTCATTTCCTTATTCCATTATTCCTTTATTCATTCAAAAATCAAAATCTCCTTATACA
586 TTTTCCTTTCATTTCCTTATTCCATTATTCCTTTATTCATTCAAAAATCAAAATCTCCTTATACA
917028 CAAATCATATATATTTTCTTTCATGCTCACATACTCTTTTCTTCTCACTTATGCCCATCTCTGAT
651 CAAATCATATATATTTTCTTTCATGCTCACATACTCTTTTCTTCTCACTTATGCCCATCTCTGAT
917093 TACTAATCTTTATCATCTCTTCATAACTTTGATAATCAA
716 TACTAATCTTTATCATCTCTTCATAACTTTGATAATCAA
917132 TCCCTTTCCACGTGCATTTATCCTTACCAATCCCATTTTTAATTCATTTCTTGGTCAATTGACCC
1 TCCCTTTCCACGTGCATTTATCCTTACCAATCCCATTTTTAATTCATTTCTTGGTCAATTGACCC
917197 TTTTGCCCTTTATTTTCTTTAATAATTACTAAATAACCTTCATCATATATATCCAATAATCATTG
66 TTTTGCCCTTTATTTTCTTTAATAATTACTAAATAACCTTCATCATATATATCCAATAATCATTG
917262 AACTATTTTATTCTTATACTTTAGTCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCGA
131 AACTATTTTATTCTTATACTTTAGTCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCGA
917327 TATTGTGGATGTTACAAATCTCCCCTCATTTTTAAGAAAATTCGTCCTCGAATTTTCACTGGACA
196 TATTGTGGATGTTAC-AATCTCCCCTCA-TTTTAAGAAAATTCGTCCTCGAATTTTCACTGGACA
917392 TCTTGATAAGAACATGTCTGCTAATGTTCTCATGTTGTTTCCTTTACTTAATCTTTCTTTCCCTT
259 TCTTGATAAGAACATGTCTGCTAATGTTCTCATGTTGTTTCCTTTACTTAATCTTTCTTTCCCTT
917457 AGTTCTTCAACTATTTTTTTTTTTACATCCCTTATCATGTCACTTATCATATAACCAATATCATC
324 AGTTCTTCAACTA--TTTTTTTTTACATCCCTTATCATGTCACTTATCATATAACCAATATCATC
917522 AGTTCTTATCACTCAAAATCATCAATCAATCAAATTCCTTATCAATCTTTAATTTACTTGCAGTA
387 AGTTCTTATCACTCAAAATCATCAATCAATCAAATTCCTTATCAATCTTTAATTTACTTGCAGTA
917587 ATAACGAACTTTTATTCCATCAACGCTTAATTACTTCTTAAATTTCCTTAATACATATAAATTAT
452 ATAACGAACTTTTATTCCATCAACGCTTAATTACTTCTTAAATTTCCTTAATACATATAAATTAT
917652 TCTTTATTCCTCTGACTAAATCTCCTTGACCAAGAAACATAACCTTTATCACATCTGATTCTTTA
517 TCTTTATTCCTCTGACTAAATCTCCTTGACCAAGAAACATAACCTTTATCACATCTGATTCTTTA
917717 AACTTTTTCCTTTCATTTCCTTATTCCATTATTCCTTTATTCATTCAAAAATCAAAATCTCCTTA
582 AACTTTTTCCTTTCATTTCCTTATTCCATTATTCCTTTATTCATTCAAAAATCAAAATCTCCTTA
917782 TACACAAATCATATATATTTTCTTTCATGCTCACATACTCTTTTCTTCTCACTTATGCCCATCTC
647 TACACAAATCATATATATTTTCTTTCATGCTCACATACTCTTTTCTTCTCACTTATGCCCATCTC
917847 TGATTACTAATCTTTATCATCTCTTCATAACTTTGATAATCAA
712 TGATTACTAATCTTTATCATCTCTTCATAACTTTGATAATCAA
917890 CACTCCTTGC
Statistics
Matches: 754, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
754 210 0.28
755 12 0.02
756 114 0.15
758 418 0.55
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.43
Consensus pattern (754 bp):
TCCCTTTCCACGTGCATTTATCCTTACCAATCCCATTTTTAATTCATTTCTTGGTCAATTGACCC
TTTTGCCCTTTATTTTCTTTAATAATTACTAAATAACCTTCATCATATATATCCAATAATCATTG
AACTATTTTATTCTTATACTTTAGTCACCAAATTCTGAAACTTTACAATTTGGTCACTAACCCGA
TATTGTGGATGTTACAATCTCCCCTCATTTTAAGAAAATTCGTCCTCGAATTTTCACTGGACATC
TTGATAAGAACATGTCTGCTAATGTTCTCATGTTGTTTCCTTTACTTAATCTTTCTTTCCCTTAG
TTCTTCAACTATTTTTTTTTACATCCCTTATCATGTCACTTATCATATAACCAATATCATCAGTT
CTTATCACTCAAAATCATCAATCAATCAAATTCCTTATCAATCTTTAATTTACTTGCAGTAATAA
CGAACTTTTATTCCATCAACGCTTAATTACTTCTTAAATTTCCTTAATACATATAAATTATTCTT
TATTCCTCTGACTAAATCTCCTTGACCAAGAAACATAACCTTTATCACATCTGATTCTTTAAACT
TTTTCCTTTCATTTCCTTATTCCATTATTCCTTTATTCATTCAAAAATCAAAATCTCCTTATACA
CAAATCATATATATTTTCTTTCATGCTCACATACTCTTTTCTTCTCACTTATGCCCATCTCTGAT
TACTAATCTTTATCATCTCTTCATAACTTTGATAATCAA
Found at i:919542 original size:20 final size:20
Alignment explanation
Indices: 919517--919554 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
919507 GTTCACATAT
919517 CATATATCATAT-TATATAAA
1 CATATAT-ATATATATATAAA
919537 CATATATATATATATATA
1 CATATATATATATATATA
919555 TCTCATAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (20 bp):
CATATATATATATATATAAA
Found at i:920391 original size:31 final size:31
Alignment explanation
Indices: 920353--920446 Score: 136
Period size: 31 Copynumber: 3.0 Consensus size: 31
920343 CCCGAAGGAC
* * *
920353 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
920384 CAGTCCATATGTCCCGAAGAACATAGGCAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
920415 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
920446 C
1 C
920447 CCTCGACCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 56 0.98
32 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:924369 original size:31 final size:31
Alignment explanation
Indices: 924331--924423 Score: 111
Period size: 31 Copynumber: 3.0 Consensus size: 31
924321 CCCGAAGGAC
* *
924331 CAGTCCATAGATTCCGAAGAACCTAGGTAAT
1 CAGTCCATAGATTCCGAAGAACATAGGTAAA
* *
924362 CAGTCCATATG-TCCCGAAGAACATAGGCAAA
1 CAGTCCATA-GATTCCGAAGAACATAGGTAAA
924393 CAGTCCAT--ATGTCCGAAGAACATAGGTAAA
1 CAGTCCATAGAT-TCCGAAGAACATAGGTAAA
924423 C
1 C
924424 CCTCGACCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
29 1 0.02
30 18 0.34
31 33 0.62
32 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATAGATTCCGAAGAACATAGGTAAA
Found at i:924411 original size:30 final size:30
Alignment explanation
Indices: 924343--924423 Score: 126
Period size: 31 Copynumber: 2.7 Consensus size: 30
924333 GTCCATAGAT
* *
924343 TCCGAAGAACCTAGGTAATCAGTCCATATG
1 TCCGAAGAACATAGGTAAACAGTCCATATG
*
924373 TCCCGAAGAACATAGGCAAACAGTCCATATG
1 T-CCGAAGAACATAGGTAAACAGTCCATATG
924404 TCCGAAGAACATAGGTAAAC
1 TCCGAAGAACATAGGTAAAC
924424 CCTCGACCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 19 0.41
31 27 0.59
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (30 bp):
TCCGAAGAACATAGGTAAACAGTCCATATG
Found at i:928366 original size:31 final size:31
Alignment explanation
Indices: 928278--928371 Score: 127
Period size: 31 Copynumber: 3.0 Consensus size: 31
928268 CCCGAATGAC
* * * *
928278 CAGTCCATA-GATTCCGAAGAACCTAGATAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
928309 CAGTCCATATGTCCCGAAGAACATAGGCAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
928340 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
928371 C
1 C
928372 CCTCGACCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 55 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:929924 original size:24 final size:24
Alignment explanation
Indices: 929897--929957 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
929887 TACCTGATTG
*
929897 TTGACTTGGATTCAAATATGATAC
1 TTGACATGGATTCAAATATGATAC
* * ***
929921 TTGACCTGAATTTTTATATGATAC
1 TTGACATGGATTCAAATATGATAC
929945 TTGACATGGATTC
1 TTGACATGGATTC
929958 TGATTTGTTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (24 bp):
TTGACATGGATTCAAATATGATAC
Found at i:930997 original size:34 final size:34
Alignment explanation
Indices: 930938--931004 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
930928 TTTTTTAGAG
*
930938 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTTA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTGTTA
930972 TTGTTTTCTCCTTGTTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
931005 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTTA
Found at i:934385 original size:14 final size:14
Alignment explanation
Indices: 934345--934386 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
934335 TAGGTAATTG
* **
934345 TTTGTTTATGTTCG
1 TTTGTTTATATTTA
934359 TTTGTTTATATTTA
1 TTTGTTTATATTTA
934373 TTTGTTTATATTTA
1 TTTGTTTATATTTA
934387 GTCCAATGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.69
Consensus pattern (14 bp):
TTTGTTTATATTTA
Found at i:948151 original size:36 final size:36
Alignment explanation
Indices: 948065--948331 Score: 261
Period size: 37 Copynumber: 7.2 Consensus size: 36
948055 TTTTGACAAA
* * *
948065 ATATAATATATAATTTTCAAAAAACGATTTTCGAAAATTT
1 ATATAATATATAGTTTT--TAAAAC-ATTTT-GAAAAATT
* * **
948105 ATATATTATATAGTTTTTTAAAATATTTT-AAAAAAG
1 ATATAATATATAG-TTTTTAAAACATTTTGAAAAATT
*
948141 ATATAATATATAGTTTTGAAAACATTTTGAAAACATTT
1 ATATAATATATAGTTTTTAAAACATTTTGAAAA-A-TT
* * *
948179 ATATATTATATAATTTTTAAAACA-TTTGAAAACTT
1 ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
* *
948214 ATATAGTATATAATTTTTAAAACATTTTTGAAAAATT
1 ATATAATATATAGTTTTTAAAACA-TTTTGAAAAATT
* * *
948251 ATATAATGTATAG-TTTAAAAATATTTTTGAAAAATT
1 ATATAATATATAGTTTTTAAAACA-TTTTGAAAAATT
* *
948287 ATATAATATATAGTTTTAAAAACATTTTTGAAAACTT
1 ATATAATATATAGTTTTTAAAACA-TTTTGAAAAATT
948324 ATATAATA
1 ATATAATA
948332 ATTTTAAAAC
Statistics
Matches: 194, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
35 38 0.20
36 53 0.27
37 58 0.30
38 26 0.13
39 4 0.02
40 11 0.06
41 4 0.02
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
Found at i:948170 original size:11 final size:11
Alignment explanation
Indices: 948154--948178 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
948144 TAATATATAG
948154 TTTTGAAAACA
1 TTTTGAAAACA
948165 TTTTGAAAACA
1 TTTTGAAAACA
948176 TTT
1 TTT
948179 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Done.