Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 321 of 325
Found at i:103319374 original size:29 final size:29
Alignment explanation
Indices: 103319317--103319374 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
103319307 TTATACCCCC
* * *
103319317 GCGAGCGAGAAAGAGAGAAAGAGAGAAAA
1 GCGAGCGAGAAAGAGAGAAAAAAAAAAAA
103319346 GCGAGCGAGAAAGAGAGAAAAAAAAAAAA
1 GCGAGCGAGAAAGAGAGAAAAAAAAAAAA
103319375 TAAAGGGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.60, C:0.07, G:0.33, T:0.00
Consensus pattern (29 bp):
GCGAGCGAGAAAGAGAGAAAAAAAAAAAA
Found at i:103325642 original size:7 final size:7
Alignment explanation
Indices: 103325630--103325662 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
103325620 TACTTTTTGT
103325630 AAATTTA
1 AAATTTA
103325637 AAATTTA
1 AAATTTA
103325644 AAATTTA
1 AAATTTA
103325651 AAATTTA
1 AAATTTA
103325658 AAATT
1 AAATT
103325663 AAATTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:103325856 original size:29 final size:28
Alignment explanation
Indices: 103325824--103325891 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
103325814 TAAATTGTGT
103325824 AATTTTGAAATATAAAAAGAAAAAAATTA
1 AATTTT-AAATATAAAAAGAAAAAAATTA
* * *
103325853 AATTCTTAGAA-ATAAAAATATAAAGATTA
1 AATT-TTA-AATATAAAAAGAAAAAAATTA
103325882 AATTTTAAAT
1 AATTTTAAAT
103325892 TTATGAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 2 0.06
28 3 0.09
29 24 0.73
30 4 0.12
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (28 bp):
AATTTTAAATATAAAAAGAAAAAAATTA
Found at i:103329367 original size:4 final size:4
Alignment explanation
Indices: 103329358--103329420 Score: 126
Period size: 4 Copynumber: 15.8 Consensus size: 4
103329348 GAAATCTGAT
103329358 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
103329406 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
103329421 TATATATAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:103341561 original size:11 final size:11
Alignment explanation
Indices: 103341545--103341569 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
103341535 AAATTATATT
103341545 ATTTTCCCAAA
1 ATTTTCCCAAA
103341556 ATTTTCCCAAA
1 ATTTTCCCAAA
103341567 ATT
1 ATT
103341570 CTCCACAATT
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:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTTTCCCAAA
Found at i:103345119 original size:10 final size:10
Alignment explanation
Indices: 103345104--103345144 Score: 59
Period size: 9 Copynumber: 4.3 Consensus size: 10
103345094 AACAATTAAT
103345104 TATTTTATAA
1 TATTTTATAA
103345114 TATTTTATAA
1 TATTTTATAA
*
103345124 T-TTTTAAAA
1 TATTTTATAA
103345133 T-TTTTATAA
1 TATTTTATAA
103345142 TAT
1 TAT
103345145 ATTTTTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 16 0.57
10 12 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TATTTTATAA
Found at i:103355092 original size:3 final size:3
Alignment explanation
Indices: 103355084--103355115 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
103355074 TGAATAAATG
*
103355084 AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
103355116 CTTTAGGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:103357533 original size:14 final size:14
Alignment explanation
Indices: 103357516--103357544 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
103357506 GTCCAATAAG
103357516 AATATTAGAAATAT
1 AATATTAGAAATAT
103357530 AATATTAGAAATAT
1 AATATTAGAAATAT
103357544 A
1 A
103357545 TTTTTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AATATTAGAAATAT
Found at i:103357767 original size:16 final size:17
Alignment explanation
Indices: 103357746--103357782 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
103357736 TTGTGTTAAA
103357746 AAAACTA-AATATAATC
1 AAAACTATAATATAATC
*
103357762 AAAACTATAATATAATT
1 AAAACTATAATATAATC
103357779 AAAA
1 AAAA
103357783 TATGAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAACTATAATATAATC
Found at i:103363860 original size:29 final size:28
Alignment explanation
Indices: 103363776--103363865 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 28
103363766 TTTTGATCCG
**
103363776 TTAATTATAAAATATTATAAAATAAACAT
1 TTAATTATAAAATATTATAAAAT-ATTAT
* * * *
103363805 TCAATTATTAAAATTTTTTTAAA-ATTAT
1 TTAATTA-TAAAATATTATAAAATATTAT
*
103363833 TTAATTATAAAAAATTATAAAATTATTAT
1 TTAATTATAAAATATTATAAAA-TATTAT
103363862 TTAA
1 TTAA
103363866 CTATTTAAAT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
27 11 0.23
28 9 0.19
29 15 0.32
30 12 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
TTAATTATAAAATATTATAAAATATTAT
Found at i:103365454 original size:30 final size:30
Alignment explanation
Indices: 103365420--103365478 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
103365410 AATTAAAATT
* *
103365420 TATCTTTTTAGTTTTTCATTTAATCCCACC
1 TATCTTTTGAATTTTTCATTTAATCCCACC
103365450 TATCTTTTGAATTTTTCATTTAATCCCAC
1 TATCTTTTGAATTTTTCATTTAATCCCAC
103365479 TTTAATTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.03, T:0.53
Consensus pattern (30 bp):
TATCTTTTGAATTTTTCATTTAATCCCACC
Found at i:103365497 original size:42 final size:42
Alignment explanation
Indices: 103365450--103365559 Score: 166
Period size: 42 Copynumber: 2.6 Consensus size: 42
103365440 TAATCCCACC
* * * *
103365450 TATCTTTTGAATTTTTCATTTAATCCCACTTTAATTAGGATT
1 TATCTTTTTAATTTTTCATTTAATCCCACCTCAATTACGATT
*
103365492 TATCTTTTTAATTTTTCATTTAACCCCACCTCAATTACGATT
1 TATCTTTTTAATTTTTCATTTAATCCCACCTCAATTACGATT
*
103365534 TATCTTTTTATTTTTTCATTTAATCC
1 TATCTTTTTAATTTTTCATTTAATCC
103365560 GTGTTTGCTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.25, C:0.18, G:0.04, T:0.54
Consensus pattern (42 bp):
TATCTTTTTAATTTTTCATTTAATCCCACCTCAATTACGATT
Found at i:103369932 original size:29 final size:30
Alignment explanation
Indices: 103369898--103369970 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 30
103369888 ATGGGGACTA
* *
103369898 GATCAAATTAGTCCCTCTATTATT-AAAAG
1 GATCAAATTAGTCCCTATAATATTAAAAAG
* *
103369927 GATCAATTTAGTCCTTATAATATTAAAAAG
1 GATCAAATTAGTCCCTATAATATTAAAAAG
*
103369957 GATCAAATAAGTCC
1 GATCAAATTAGTCC
103369971 AAATTGTAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (30 bp):
GATCAAATTAGTCCCTATAATATTAAAAAG
Found at i:103372149 original size:16 final size:16
Alignment explanation
Indices: 103372128--103372159 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
103372118 GGAATAAGTG
*
103372128 CTCAAAAACCATTCTA
1 CTCAAAAACCACTCTA
103372144 CTCAAAAACCACTCTA
1 CTCAAAAACCACTCTA
103372160 AGACTGCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (16 bp):
CTCAAAAACCACTCTA
Found at i:103375052 original size:13 final size:13
Alignment explanation
Indices: 103375034--103375059 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
103375024 CCTCTATCTC
103375034 CTTTTTTTTTTTT
1 CTTTTTTTTTTTT
103375047 CTTTTTTTTTTTT
1 CTTTTTTTTTTTT
103375060 AAAATTGTCA
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
CTTTTTTTTTTTT
Found at i:103380991 original size:17 final size:17
Alignment explanation
Indices: 103380969--103381002 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
103380959 ATCCACTAAT
*
103380969 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
103380986 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
103381003 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:103385621 original size:17 final size:17
Alignment explanation
Indices: 103385599--103385632 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
103385589 ATCCACTAAT
*
103385599 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
103385616 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
103385633 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:103390494 original size:18 final size:17
Alignment explanation
Indices: 103390468--103390502 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
103390458 AAATCAGAAG
103390468 TTTACTAGTTCATATATA
1 TTTACTAGTT-ATATATA
*
103390486 TTTATTAGTTATATATA
1 TTTACTAGTTATATATA
103390503 ATCTATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTACTAGTTATATATA
Found at i:103390509 original size:18 final size:18
Alignment explanation
Indices: 103390473--103390510 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
103390463 AGAAGTTTAC
*
103390473 TAGTTCATATATATTTAT
1 TAGTTCATATATATCTAT
103390491 TAGTT-ATATATAATCTAT
1 TAGTTCATATAT-ATCTAT
103390509 TA
1 TA
103390511 AACCGTTCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (18 bp):
TAGTTCATATATATCTAT
Found at i:103390570 original size:3 final size:3
Alignment explanation
Indices: 103390562--103390594 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
103390552 ATAGATGATT
103390562 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
103390595 ACCTACCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:103391386 original size:15 final size:15
Alignment explanation
Indices: 103391368--103391399 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
103391358 TCGCCGTGAA
*
103391368 GGTGGATATGGAGGT
1 GGTGGATACGGAGGT
103391383 GGTGGATACGGAGGT
1 GGTGGATACGGAGGT
103391398 GG
1 GG
103391400 ACGCCGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.56, T:0.22
Consensus pattern (15 bp):
GGTGGATACGGAGGT
Found at i:103403165 original size:3 final size:3
Alignment explanation
Indices: 103403116--103403154 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
103403106 AAGTACATAC
103403116 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
103403155 CATCAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:103404540 original size:14 final size:15
Alignment explanation
Indices: 103404509--103404543 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
103404499 TACAATAACC
*
103404509 AAAATTAATTAAATT
1 AAAATTAATTAAACT
103404524 AAAATTAA-TAAACT
1 AAAATTAATTAAACT
103404538 AAAATT
1 AAAATT
103404544 CGTAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATTAATTAAACT
Found at i:103412742 original size:17 final size:17
Alignment explanation
Indices: 103412720--103412753 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
103412710 GATCAATTGT
*
103412720 TTTAAGGATATCATATG
1 TTTAAGGATATAATATG
103412737 TTTAAGGATATAATATG
1 TTTAAGGATATAATATG
103412754 AGATAGTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTAAGGATATAATATG
Found at i:103416028 original size:13 final size:14
Alignment explanation
Indices: 103416004--103416038 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
103415994 CTCTTAGGTT
103416004 TTTTTATTATTATAAA
1 TTTTTATTA-TAT-AA
103416020 TTTTTATTATATAA
1 TTTTTATTATATAA
103416034 TTTTT
1 TTTTT
103416039 TAGCACTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 3 0.16
16 9 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTATTATATAA
Found at i:103416032 original size:15 final size:16
Alignment explanation
Indices: 103416004--103416040 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
103415994 CTCTTAGGTT
103416004 TTTTTATTATTATAAA
1 TTTTTATTATTATAAA
*
103416020 TTTTTATTA-TATAAT
1 TTTTTATTATTATAAA
103416035 TTTTTA
1 TTTTTA
103416041 GCACTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTATTATTATAAA
Found at i:103416604 original size:14 final size:13
Alignment explanation
Indices: 103416583--103416628 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
103416573 TTTGTAATTG
103416583 TGTATTTTTAATA
1 TGTATTTTTAATA
103416596 TGTATTTTTTAATA
1 TGTA-TTTTTAATA
* *
103416610 TATATTATTAATA
1 TGTATTTTTAATA
103416623 TG-ATTT
1 TGTATTT
103416629 AAAAAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (13 bp):
TGTATTTTTAATA
Found at i:103417217 original size:13 final size:13
Alignment explanation
Indices: 103417199--103417223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103417189 TTAACAATAC
103417199 AAATATTTTATAA
1 AAATATTTTATAA
103417212 AAATATTTTATA
1 AAATATTTTATA
103417224 TATTTTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTTTATAA
Found at i:103419167 original size:30 final size:30
Alignment explanation
Indices: 103419133--103419195 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
103419123 TGTAAATATA
103419133 AACTTAGTAAAGGGATAAAACACAGAATTT
1 AACTTAGTAAAGGGATAAAACACAGAATTT
103419163 AACTTAGTAAAGGGATAAAACACAGAATTT
1 AACTTAGTAAAGGGATAAAACACAGAATTT
103419193 AAC
1 AAC
103419196 CAAATTTCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (30 bp):
AACTTAGTAAAGGGATAAAACACAGAATTT
Found at i:103420803 original size:20 final size:20
Alignment explanation
Indices: 103420765--103420804 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
103420755 ATTTATTGAT
103420765 ATTGATGAAGACCAAAGAAAA
1 ATTGATGAAGA-CAAAGAAAA
103420786 ATTGATGAAAGA-AAAGAAA
1 ATTGATG-AAGACAAAGAAA
103420805 TGGAAAGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.60, C:0.05, G:0.20, T:0.15
Consensus pattern (20 bp):
ATTGATGAAGACAAAGAAAA
Found at i:103420894 original size:10 final size:10
Alignment explanation
Indices: 103420879--103420905 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
103420869 GTCTTAGTTT
103420879 TGCAAGTGTA
1 TGCAAGTGTA
103420889 TGCAAGTGTA
1 TGCAAGTGTA
103420899 TGCAAGT
1 TGCAAGT
103420906 TGGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (10 bp):
TGCAAGTGTA
Found at i:103431971 original size:13 final size:13
Alignment explanation
Indices: 103431953--103431977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103431943 TTTTTATTTC
103431953 ACTATTATTTTGT
1 ACTATTATTTTGT
103431966 ACTATTATTTTG
1 ACTATTATTTTG
103431978 CCTTTATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (13 bp):
ACTATTATTTTGT
Found at i:103432074 original size:13 final size:12
Alignment explanation
Indices: 103432051--103432097 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
103432041 TCACGTTTTC
103432051 TTTTTTG-TTAT
1 TTTTTTGTTTAT
103432062 TTTTTTGTCTTAT
1 TTTTTTGT-TTAT
*
103432075 TTGTTTTATTTAT
1 TT-TTTTGTTTAT
*
103432088 TTTATTGTTT
1 TTTTTTGTTT
103432098 CTAATTTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 7 0.23
12 6 0.20
13 12 0.40
14 5 0.17
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.79
Consensus pattern (12 bp):
TTTTTTGTTTAT
Found at i:103439134 original size:44 final size:44
Alignment explanation
Indices: 103438991--103439387 Score: 236
Period size: 44 Copynumber: 9.1 Consensus size: 44
103438981 GGAATTATGA
*
103438991 TTTCTTCGATCTACTTCCTA-CCAATATAGGAAGACAAGATCTGC
1 TTTCTTCGATCTACTT-CTACCCAATACAGGAAGACAAGATCTGC
* * * * * *
103439035 -ATCGTCGATCCAGTTCCTA-CCAATATAGGAAGACAGGA-CATG-
1 TTTCTTCGATCTACTT-CTACCCAATACAGGAAGACAAGATC-TGC
* *
103439077 TTATCTTTGATCTACTT-TACGCCAATACATGAAGACAAGATCTGC
1 TT-TCTTCGATCTACTTCTAC-CCAATACAGGAAGACAAGATCTGC
* *
103439122 TTTCTTCAATCTACTTCCTA-CCAATATAGGAAGAC-AGAATCTGC
1 TTTCTTCGATCTACTT-CTACCCAATACAGGAAGACAAG-ATCTGC
* * * * * * *
103439166 -ATCGTCGATCCACTTCCTA-CCAATATAGGAGGACAGGACCTG-
1 TTTCTTCGATCTACTT-CTACCCAATACAGGAAGACAAGATCTGC
* * *
103439208 TTATCTTTGATCTACTTC-ACGCTAATACATGAAGACAAGATCTGC
1 TT-TCTTCGATCTACTTCTAC-CCAATACAGGAAGACAAGATCTGC
*
103439253 TTTCTGCGATCTACTTCGT-CACCAATA-AGGGAAGACAAGATCTGC
1 TTTCTTCGATCTACTTC-TAC-CCAATACA-GGAAGACAAGATCTGC
* * * * * * *
103439298 -ATCGTCAATCCACTTCCTA-CCAATATAGGAAGACAGGACCTG-
1 TTTCTTCGATCTACTT-CTACCCAATACAGGAAGACAAGATCTGC
* * *
103439340 TTATCTTTGATCTACTTC-ACGCTAATACATGAAGACAAGATCTGC
1 TT-TCTTCGATCTACTTCTAC-CCAATACAGGAAGACAAGATCTGC
103439385 TTT
1 TTT
103439388 AATGACTTCA
Statistics
Matches: 270, Mismatches: 56, Indels: 54
0.71 0.15 0.14
Matches are distributed among these distances:
42 5 0.02
43 91 0.34
44 143 0.53
45 29 0.11
46 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (44 bp):
TTTCTTCGATCTACTTCTACCCAATACAGGAAGACAAGATCTGC
Found at i:103439335 original size:132 final size:131
Alignment explanation
Indices: 103438991--103439387 Score: 672
Period size: 131 Copynumber: 3.0 Consensus size: 131
103438981 GGAATTATGA
*
103438991 TTTCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCATCGTCGATCCAGTTCCTACC
1 TTTCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACC
* * *
103439056 AATATAGGAAGACAGGACATGTTATCTTTGATCTACTTTACGCCAATACATGAAGACAAGATCTG
66 AATATAGGAAGACAGGACCTGTTATCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTG
103439121 C
131 C
*
103439122 TTTCTTCAATCTACTTCCTACCAATATAGGAAGAC-AGAATCTGCATCGTCGATCCACTTCCTAC
1 TTTCTTCGATCTACTTCCTACCAATATAGGAAGACAAG-ATCTGCATCGTCGATCCACTTCCTAC
*
103439186 CAATATAGGAGGACAGGACCTGTTATCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCT
65 CAATATAGGAAGACAGGACCTGTTATCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCT
103439251 GC
130 GC
* * *
103439253 TTTCTGCGATCTACTTCGTCACCAATA-AGGGAAGACAAGATCTGCATCGTCAATCCACTTCCTA
1 TTTCTTCGATCTACTTCCT-ACCAATATA-GGAAGACAAGATCTGCATCGTCGATCCACTTCCTA
103439317 CCAATATAGGAAGACAGGACCTGTTATCTTTGATCTACTTCACGCTAATACATGAAGACAAGATC
64 CCAATATAGGAAGACAGGACCTGTTATCTTTGATCTACTTCACGCTAATACATGAAGACAAGATC
103439382 TGC
129 TGC
103439385 TTT
1 TTT
103439388 AATGACTTCA
Statistics
Matches: 251, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
130 2 0.01
131 139 0.55
132 108 0.43
133 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (131 bp):
TTTCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACC
AATATAGGAAGACAGGACCTGTTATCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTG
C
Found at i:103452508 original size:44 final size:44
Alignment explanation
Indices: 103452434--103453001 Score: 459
Period size: 44 Copynumber: 13.0 Consensus size: 44
103452424 GTCATTAAAG
* * * * *
103452434 CAGATATTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAA
* * * * *
103452478 CAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAA
* *
103452521 CAGATCTTGTCTTCCCT-TATTGGTGGCGAAGTAGATCGCAGA-AA
1 CAGATCTTGTCTT-CCTATATTGGTAG-GAAGTAGATCGAAGATAA
* * * *
103452565 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAA
1 -CAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAA
* * * * * *
103452610 CAGGTCCTGTCCTCCTATATTGGTAGGAAGTGGATCGACGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAA
103452653 CAGAT-TCTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGA-AA
1 CAGATCT-TGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAA
* * * * *
103452696 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGACCAAAGATAA
1 -CAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAA
* * * * *
103452741 CAGGTCATGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAA
103452784 CAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAA
* * * *
103452827 GCAGATCTTGTCTTCATGTATTAGCGT--GAAGCAGATCAAAGATAA
1 -CAGATCTTGTCTTCCTATATT-G-GTAGGAAGTAGATCGAAGATAA
* * * * *
103452872 CAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAA
* * *
103452915 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAA
* * *
103452959 GCAGATCTTATCTT-CAAGTATTGG-CGTGAAGTAGATCGAAGAT
1 -CAGATCTTGTCTTCCTA-TATTGGTAG-GAAGTAGATCGAAGAT
103453002 GGCAGATTTT
Statistics
Matches: 413, Mismatches: 84, Indels: 53
0.75 0.15 0.10
Matches are distributed among these distances:
42 2 0.00
43 114 0.28
44 248 0.60
45 47 0.11
46 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
CAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAA
Found at i:103452757 original size:131 final size:132
Alignment explanation
Indices: 103452430--103453001 Score: 972
Period size: 131 Copynumber: 4.3 Consensus size: 132
103452420 TGAAGTCATT
*
103452430 AAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
*
103452495 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCT-TATTGGTGGCGAAGTAGATCG
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTT-CCTATATTGGTAGCGAAGTAGATCG
*
103452559 CAG
130 AAG
*
103452562 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCCTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
103452627 TATTGGTAGGAAGTGGATCGACGATGCAGAT-TCTGTCTTCCTATATTGGTAG-GAAGTAGATCG
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCT-TGTCTTCCTATATTGGTAGCGAAGTAGATCG
103452690 AAG
130 AAG
* *
103452693 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGACCAAAGATAACAGGTCATGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
103452758 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGA
103452822 AG
131 AG
* *
103452824 AAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGCAGATCAAAGATAACAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
* * *
103452889 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGA
103452954 AG
131 AG
* * *
103452956 AAAGCAGATCTTATCTTCAAGTATTGGCGTGAAGTAGATCGAAGAT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT
103453002 GGCAGATTTT
Statistics
Matches: 417, Mismatches: 19, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
131 253 0.61
132 164 0.39
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGA
AG
Found at i:103453076 original size:45 final size:45
Alignment explanation
Indices: 103453025--103453182 Score: 124
Period size: 45 Copynumber: 3.4 Consensus size: 45
103453015 TCCCTGACCA
* *
103453025 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
* * * * * *
103453070 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAATACATTGAAG--C--CGAT---A-ATTCTATCTCCCTGTATTTGG
*
103453120 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
* *
103453165 CAGTAGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
103453183 ATTGCAGATC
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
42 12 0.14
43 2 0.02
44 1 0.01
45 31 0.37
46 3 0.04
47 1 0.01
48 1 0.01
49 3 0.04
50 16 0.19
51 1 0.01
52 2 0.02
53 11 0.13
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
Found at i:103453154 original size:95 final size:95
Alignment explanation
Indices: 103452991--103453184 Score: 352
Period size: 95 Copynumber: 2.0 Consensus size: 95
103452981 GGCGTGAAGT
*
103452991 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
103453056 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTAGAATAGATTGA
* *
103453086 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
103453151 CTCCCTGTATTTGGCAGTAGAATAGATTGA
66 CTCCCTGTATTTGGCAGTAGAATAGATTGA
103453181 AGAT
1 AGAT
103453185 TGCAGATCTT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTAGAATAGATTGA
Found at i:103453485 original size:43 final size:41
Alignment explanation
Indices: 103453438--103453566 Score: 147
Period size: 40 Copynumber: 3.1 Consensus size: 41
103453428 ACAGTCGAAT
*
103453438 AGATCGAAGATTACAATCTTATCTCCCTAAGCAGTAGTGGAGT
1 AGATCG-A-ATTACAATCTTATCTCCCTAAGCAGTAGTGGAGC
* *
103453481 AGATCGCATTA-AGTCTTATCTCCCTAAGCAGTAGTGGAGC
1 AGATCGAATTACAATCTTATCTCCCTAAGCAGTAGTGGAGC
** * *
103453521 AGA-C-AACCACAGATCTTATTTCCCTAAGCAATAGTGGAGC
1 AGATCGAATTACA-ATCTTATCTCCCTAAGCAGTAGTGGAGC
103453561 AGATCG
1 AGATCG
103453567 CATCAATATT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
38 2 0.03
39 2 0.03
40 58 0.79
41 5 0.07
43 6 0.08
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (41 bp):
AGATCGAATTACAATCTTATCTCCCTAAGCAGTAGTGGAGC
Found at i:103453505 original size:40 final size:42
Alignment explanation
Indices: 103453453--103453571 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 42
103453443 GAAGATTACA
* *
103453453 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTA-AG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCACAG
* *
103453494 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-C-AACCACAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCACAG
* *
103453533 ATCTTATTTCCCTAAGCAATAGTGGAGCAGATCGCATCA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCA
103453572 ATATTGGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.03
39 3 0.05
40 57 0.86
41 1 0.02
42 3 0.05
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (42 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCACAG
Found at i:103455940 original size:95 final size:93
Alignment explanation
Indices: 103455758--103456001 Score: 246
Period size: 81 Copynumber: 2.7 Consensus size: 93
103455748 TGCATGAAGC
*
103455758 TTATTAATTGGACCAACCATGCAACTACAAAAGAGTTGGAATCAACACAACATTGGAGCATGGAG
1 TTATTAATTGGACCAACCATGCAACTACAAAAGAGTTGGAATCAACACAACAATGGAGCATGGAG
* *
103455823 CATGTAGCATGTGCCTTCTTAATGGGAGT
66 CATGTA-CATGGGCCTTATTAATGGGAGT
* * *
103455852 TTATTAATTGGACCAACAGATGGAACTTA-AAAAGAGTTGGAATCAACACAACAATGGCGCATGG
1 TTATTAATTGGACCAAC-CATGCAAC-TACAAAAGAGTTGGAATCAACACAACAATGGAGCATGG
103455916 -GC--GT---T----C---TTAATGGGAGT
64 AGCATGTACATGGGCCTTATTAATGGGAGT
* * * * * *
103455933 TTATTAATTGGACCAACGCTTGCAACTGCAATAGAGTTGGAATCAACATAACATTGGAGCATGTA
1 TTATTAATTGGACCAAC-CATGCAACTACAAAAGAGTTGGAATCAACACAACAATGGAGCATGGA
103455998 GCAT
65 GCAT
103456002 CTGCCTTCTT
Statistics
Matches: 130, Mismatches: 14, Indels: 22
0.78 0.08 0.13
Matches are distributed among these distances:
80 1 0.01
81 63 0.48
82 2 0.02
84 1 0.01
88 1 0.01
92 2 0.02
94 19 0.15
95 39 0.30
96 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (93 bp):
TTATTAATTGGACCAACCATGCAACTACAAAAGAGTTGGAATCAACACAACAATGGAGCATGGAG
CATGTACATGGGCCTTATTAATGGGAGT
Found at i:103458089 original size:23 final size:23
Alignment explanation
Indices: 103458057--103458105 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
103458047 TAGAATTTAG
*
103458057 TTTTTATATTTTTATT-TTTAAGA
1 TTTTTATATTTTT-TTATTTAAAA
*
103458080 TTTTTTTATTTTTTTATTTAAAA
1 TTTTTATATTTTTTTATTTAAAA
103458103 TTT
1 TTT
103458106 CAGGTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTATATTTTTTTATTTAAAA
Found at i:103459063 original size:3 final size:3
Alignment explanation
Indices: 103459055--103459081 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
103459045 GAACATATTT
103459055 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
103459082 GCTATGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:103481668 original size:19 final size:19
Alignment explanation
Indices: 103481646--103481684 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
103481636 ATAACCAGAC
103481646 AGTGACACATGAACCTCAT
1 AGTGACACATGAACCTCAT
103481665 AGTGACACATGAACCTCAT
1 AGTGACACATGAACCTCAT
103481684 A
1 A
103481685 TTGATATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (19 bp):
AGTGACACATGAACCTCAT
Found at i:103483535 original size:19 final size:19
Alignment explanation
Indices: 103483509--103483558 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
103483499 TAATAAAAAA
103483509 TATAAAAAT-TATTAAATTT
1 TATAAAAATAT-TTAAATTT
103483528 TAATAAAAATATTTAAATTT
1 T-ATAAAAATATTTAAATTT
103483548 TATAAAAATAT
1 TATAAAAATAT
103483559 AAAAAATGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.38
20 17 0.59
21 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TATAAAAATATTTAAATTT
Found at i:103483563 original size:9 final size:9
Alignment explanation
Indices: 103483551--103483629 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
103483541 TAAATTTTAT
103483551 AAAAATATA
1 AAAAATATA
*
103483560 AAAAATGGT-
1 AAAAAT-ATA
103483569 AAAAATATA
1 AAAAATATA
*
103483578 AAAAATGTA
1 AAAAATATA
**
103483587 AAATTTATA
1 AAAAATATA
*
103483596 AAAATTATTA
1 AAAAATA-TA
103483606 AAAAATTATA
1 AAAAA-TATA
* *
103483616 AAATACATA
1 AAAAATATA
103483625 AAAAA
1 AAAAA
103483630 AACTCTTTAA
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
8 1 0.02
9 39 0.71
10 13 0.24
11 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (9 bp):
AAAAATATA
Found at i:103483565 original size:20 final size:20
Alignment explanation
Indices: 103483509--103483583 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
103483499 TAATAAAAAA
**
103483509 TATAAAAAT-TATTAAATTT
1 TATAAAAATATAAAAAATTT
**
103483528 TAATAAAAATAT-TTAAATTT
1 T-ATAAAAATATAAAAAATTT
103483548 TATAAAAATATAAAAAA--T
1 TATAAAAATATAAAAAATTT
**
103483566 GGTAAAAATATAAAAAAT
1 TATAAAAATATAAAAAAT
103483584 GTAAAATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
18 16 0.33
19 11 0.23
20 20 0.42
21 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
TATAAAAATATAAAAAATTT
Found at i:103483600 original size:17 final size:18
Alignment explanation
Indices: 103483550--103483599 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
103483540 TTAAATTTTA
103483550 TAAAAATATAAAAAATGG
1 TAAAAATATAAAAAATGG
103483568 TAAAAATATAAAAAAT-G
1 TAAAAATATAAAAAATGG
*
103483585 TAAAATTTATAAAAA
1 TAAAA-ATATAAAAA
103483600 TTATTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 6 0.20
18 24 0.80
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
TAAAAATATAAAAAATGG
Found at i:103483611 original size:11 final size:10
Alignment explanation
Indices: 103483501--103483618 Score: 51
Period size: 9 Copynumber: 12.6 Consensus size: 10
103483491 CACGTGTATA
103483501 ATAAAAAA-T
1 ATAAAAAATT
103483510 AT-AAAAATT
1 ATAAAAAATT
* **
103483519 ATTAAATTTT
1 ATAAAAAATT
103483529 AATAAAAATATT
1 -ATAAAAA-ATT
**
103483541 -T-AAATTTT
1 ATAAAAAATT
103483549 AT-AAAAA-T
1 ATAAAAAATT
*
103483557 ATAAAAAATG
1 ATAAAAAATT
*
103483567 GT-AAAAA-T
1 ATAAAAAATT
103483575 ATAAAAAA-T
1 ATAAAAAATT
* *
103483584 GT-AAAATTT
1 ATAAAAAATT
103483593 AT-AAAAATT
1 ATAAAAAATT
103483602 ATTAAAAAATT
1 A-TAAAAAATT
103483613 ATAAAA
1 ATAAAA
103483619 TACATAAAAA
Statistics
Matches: 81, Mismatches: 17, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
8 15 0.19
9 38 0.47
10 13 0.16
11 13 0.16
12 2 0.02
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:103483740 original size:27 final size:25
Alignment explanation
Indices: 103483710--103483797 Score: 79
Period size: 29 Copynumber: 3.2 Consensus size: 25
103483700 ATCCTTTTCA
103483710 AATTTTATATTTCTTTACATTTTTTAT
1 AATTTTATATTT-TTTA-ATTTTTTAT
*
103483737 AATTTTCATATTATTTTAAGATTTTTATAA
1 AATTTT-ATATT-TTTT-A-ATTTTT-TAT
*
103483767 AATTTTAAATTTTTATAA-TTTTTAT
1 AATTTTATATTTTT-TAATTTTTTAT
103483792 AATTTT
1 AATTTT
103483798 TTTTCACATA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
25 8 0.15
26 4 0.08
27 7 0.13
28 12 0.23
29 13 0.25
30 8 0.15
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (25 bp):
AATTTTATATTTTTTAATTTTTTAT
Found at i:103483742 original size:9 final size:9
Alignment explanation
Indices: 103483730--103483798 Score: 70
Period size: 9 Copynumber: 7.6 Consensus size: 9
103483720 TTCTTTACAT
103483730 TTTTTATAA
1 TTTTTATAA
* *
103483739 TTTTCATAT
1 TTTTTATAA
103483748 TATTTTA-AGA
1 T-TTTTATA-A
103483758 TTTTTATAAA
1 TTTTTAT-AA
*
103483768 ATTTTA-AA
1 TTTTTATAA
103483776 TTTTTATAA
1 TTTTTATAA
103483785 TTTTTATAA
1 TTTTTATAA
103483794 TTTTT
1 TTTTT
103483799 TTTCACATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
8 7 0.14
9 30 0.61
10 11 0.22
11 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:103483753 original size:19 final size:18
Alignment explanation
Indices: 103483731--103483798 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
103483721 TCTTTACATT
* *
103483731 TTTTATAATTTTCATATTA
1 TTTTA-AATTTTTATAATA
*
103483750 TTTTAAGATTTTTATAAAA
1 TTTTAA-ATTTTTATAATA
103483769 TTTTAAATTTTTATAAT-
1 TTTTAAATTTTTATAATA
103483786 TTTTATAATTTTT
1 TTTTA-AATTTTT
103483799 TTTCACATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
17 5 0.12
18 18 0.42
19 20 0.47
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTTAAATTTTTATAATA
Found at i:103506996 original size:17 final size:17
Alignment explanation
Indices: 103506974--103507006 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
103506964 AATTTTATTA
103506974 AAATATTATAA-AATTTC
1 AAATA-TATAATAATTTC
103506991 AAATATATAATAATTT
1 AAATATATAATAATTT
103507007 GGAGACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATATAATAATTTC
Found at i:103507377 original size:4 final size:4
Alignment explanation
Indices: 103507368--103507395 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
103507358 CCAAGTGGGG
103507368 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
103507396 TAATAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:103517978 original size:33 final size:35
Alignment explanation
Indices: 103517941--103518006 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
103517931 TAACTTTTTT
*
103517941 AAATATATATTTTAGAA-TTTTATAATT-TTTTAA
1 AAATATAAATTTTAGAATTTTTATAATTATTTTAA
*
103517974 AAATATAAATTTTGGAATTTTTATAATTATTTT
1 AAATATAAATTTTAGAATTTTTATAATTATTTT
103518007 GAATTTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 15 0.52
34 10 0.34
35 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (35 bp):
AAATATAAATTTTAGAATTTTTATAATTATTTTAA
Found at i:103518012 original size:19 final size:20
Alignment explanation
Indices: 103517982--103518034 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
103517972 AAAAATATAA
* *
103517982 ATTTTGGAATTTTT-ATAATT
1 ATTTT-GAATTTTTGAAAACT
103518002 ATTTTGAATTTTTGAAAACT
1 ATTTTGAATTTTTGAAAACT
103518022 ATTTTGAATTTTT
1 ATTTTGAATTTTT
103518035 TTTGTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAACT
Found at i:103521165 original size:18 final size:18
Alignment explanation
Indices: 103521142--103521185 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
103521132 ATTAAGATGA
*
103521142 ATTATTTTAGGTTTCGTG
1 ATTATTTTAGGGTTCGTG
103521160 ATTATTTTAGGGTTCGTG
1 ATTATTTTAGGGTTCGTG
*
103521178 ATTGTTTT
1 ATTATTTT
103521186 CTTAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.05, G:0.23, T:0.57
Consensus pattern (18 bp):
ATTATTTTAGGGTTCGTG
Found at i:103525541 original size:30 final size:30
Alignment explanation
Indices: 103525506--103525567 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
103525496 AATAGATATG
*
103525506 AAAATTATTAA-ACAATCAGATTTAAGTATA
1 AAAATTATAAATACAATCAGATTTAAG-ATA
* *
103525536 AAAATTATAAATAGAATTAGATTTAAGATA
1 AAAATTATAAATACAATCAGATTTAAGATA
103525566 AA
1 AA
103525568 TTCAAAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.32
Consensus pattern (30 bp):
AAAATTATAAATACAATCAGATTTAAGATA
Found at i:103526911 original size:7 final size:7
Alignment explanation
Indices: 103526901--103526936 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
103526891 GTTCGAGTTT
103526901 AAGGTTC
1 AAGGTTC
103526908 AAGGTTC
1 AAGGTTC
103526915 AAGGTTC
1 AAGGTTC
103526922 AAGGTTC
1 AAGGTTC
*
103526929 GAGGTTC
1 AAGGTTC
103526936 A
1 A
103526937 GAGTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.28
Consensus pattern (7 bp):
AAGGTTC
Found at i:103530582 original size:4 final size:4
Alignment explanation
Indices: 103530573--103530600 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
103530563 CCAAGGCAGG
103530573 TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA
103530601 CTCTTTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:103533129 original size:12 final size:12
Alignment explanation
Indices: 103533112--103533139 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
103533102 ACCTTCAATG
103533112 AAAAAAATAGAA
1 AAAAAAATAGAA
103533124 AAAAAAATAGAA
1 AAAAAAATAGAA
103533136 AAAA
1 AAAA
103533140 GACCAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAAAATAGAA
Found at i:103544275 original size:20 final size:20
Alignment explanation
Indices: 103544250--103544327 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
103544240 AACATTTAAT
103544250 TAATTTTTATTTTTAAAAAA
1 TAATTTTTATTTTTAAAAAA
*
103544270 TAATTTTTATAATTTTAAATAATTTT
1 TAATTTTTAT--TTTTAAA-AA---A
*
103544296 TACGATTTTTATTTTTTAAAAA
1 TA--ATTTTTATTTTTAAAAAA
103544318 TAATTTTTAT
1 TAATTTTTAT
103544328 AGTTTTTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
20 18 0.38
22 9 0.19
23 2 0.04
25 2 0.04
26 8 0.17
28 8 0.17
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (20 bp):
TAATTTTTATTTTTAAAAAA
Found at i:103544303 original size:19 final size:19
Alignment explanation
Indices: 103544267--103544304 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
103544257 TATTTTTAAA
*
103544267 AAATAATTTTTATAATTTT
1 AAATAATTTTTACAATTTT
*
103544286 AAATAATTTTTACGATTTT
1 AAATAATTTTTACAATTTT
103544305 TATTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
AAATAATTTTTACAATTTT
Found at i:103544303 original size:28 final size:28
Alignment explanation
Indices: 103544272--103544326 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
103544262 TTAAAAAATA
103544272 ATTTTTATAATTTT-AAATAATTTTTACG
1 ATTTTTAT-ATTTTAAAATAATTTTTACG
*
103544300 ATTTTTATTTTTTAAAAATAATTTTTA
1 ATTTTTATATTTT-AAAATAATTTTTA
103544327 TAGTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 8 0.33
29 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTTTTATATTTTAAAATAATTTTTACG
Found at i:103544770 original size:17 final size:17
Alignment explanation
Indices: 103544748--103544783 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
103544738 TCGAACCCAT
103544748 ATCCTCTTATATTGACA
1 ATCCTCTTATATTGACA
103544765 ATCCTCTTATATTGACA
1 ATCCTCTTATATTGACA
103544782 AT
1 AT
103544784 AATACACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (17 bp):
ATCCTCTTATATTGACA
Found at i:103546198 original size:85 final size:83
Alignment explanation
Indices: 103545992--103546307 Score: 322
Period size: 81 Copynumber: 3.8 Consensus size: 83
103545982 ATTTAGATGT
* *
103545992 ATATGAAAGCATTGGTTTATGGTTGAAATAGGAGAAAAGGGTTGTTGAAAATGTCGAGATTCGAA
1 ATATGAAA-CATTGG-TTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAA
* *
103546057 TCTTAGATT-CATGAAAAT-TG
64 TATTGGATTAC-T-AAAATATG
* * * * * *
103546077 TGTATCAAACATTGGTTTTGGTTGAAATAAGAGAAAGGGGTTCTTGTAAATGTCGAGATTCAAAT
1 -ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAAT
*
103546142 GTTGGACTTACTAAAATATG
65 ATTGGA-TTACTAAAATATG
* * *
103546162 AATATGACACATTGGTTATGATTGAAATAGGAGAAA--GG--GTTGTAAATGTTGAGATTCGAAT
1 -ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAAT
* *
103546223 ATTGAATTTACGAAAAGCTAT-
65 ATTGGA-TTACTAAAA--TATG
* * *
103546244 ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAATTGTCAAAATTCGAAT
1 ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAAT
103546308 CCCGAACTTA
Statistics
Matches: 191, Mismatches: 30, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
81 65 0.34
83 7 0.04
84 53 0.28
85 59 0.31
86 7 0.04
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (83 bp):
ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAATA
TTGGATTACTAAAATATG
Found at i:103546319 original size:166 final size:170
Alignment explanation
Indices: 103545992--103546320 Score: 400
Period size: 166 Copynumber: 2.0 Consensus size: 170
103545982 ATTTAGATGT
*
103545992 ATATGAAAGCATTGGTTTATGGTTGAAATAGGAGAAAAGGGTTGTTGAAAATGTCGAGATTCGAA
1 ATATGAAAGCATTGGTTTATGATTGAAATAGGAGAAAAGGGTTGTT-AAAATGTCGAGATTCGAA
* * * * * *
103546057 TCTTAGATTCATGAAAATTGTGTATCAAACATTGGTTTTGGTTGAAATAAGAGAAAGGGGTTCTT
65 TATTAGATTCACGAAAACTATATATCAAACATTGGTTATGGTTGAAATAAGAGAAAGGGGTTCTT
* * *** *
103546122 GTAAATGTCGAGATTCAAATGTTGGACTTACTAAAATATGA
130 GTAAATGTCAAAATTCAAATCCCGAACTTACTAAAATATGA
* *
103546163 ATATGACA-CATTGG-TTATGATTGAAATAGGAG-AAAGGGTTG-T-AAATGTTGAGATTCGAAT
1 ATATGAAAGCATTGGTTTATGATTGAAATAGGAGAAAAGGGTTGTTAAAATGTCGAGATTCGAAT
* * * *
103546223 ATT-GAATTTACGAAAAGCTATATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGT
66 ATTAG-ATTCACGAAAA-CTATATATCAAACATTGGTTATGGTTGAAATAAGAGAAAGGGGTTCT
* *
103546287 TGTAATTGTCAAAATTCGAATCCCGAACTTACTA
129 TGTAAATGTCAAAATTCAAATCCCGAACTTACTA
103546321 TCTAATTATA
Statistics
Matches: 135, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
164 1 0.01
165 28 0.21
166 66 0.49
167 1 0.01
168 9 0.07
169 17 0.13
170 6 0.04
171 7 0.05
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (170 bp):
ATATGAAAGCATTGGTTTATGATTGAAATAGGAGAAAAGGGTTGTTAAAATGTCGAGATTCGAAT
ATTAGATTCACGAAAACTATATATCAAACATTGGTTATGGTTGAAATAAGAGAAAGGGGTTCTTG
TAAATGTCAAAATTCAAATCCCGAACTTACTAAAATATGA
Found at i:103548798 original size:4 final size:4
Alignment explanation
Indices: 103548789--103548849 Score: 63
Period size: 4 Copynumber: 15.8 Consensus size: 4
103548779 GCTAAGAAGG
* * * *
103548789 TACA TACA TACA GACA TGCA TGCA TACA T--A TACA TACC TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
103548835 TGCA TACA TACA TAC
1 TACA TACA TACA TAC
103548850 GAATCCGAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
4 45 0.96
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:103548823 original size:26 final size:26
Alignment explanation
Indices: 103548792--103548844 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
103548782 AAGAAGGTAC
*
103548792 ATACATACAGACATGCATGCATACAT
1 ATACATACAGACATACATGCATACAT
**
103548818 ATACATACCTACATACATGCATACAT
1 ATACATACAGACATACATGCATACAT
103548844 A
1 A
103548845 CATACGAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.25, G:0.08, T:0.25
Consensus pattern (26 bp):
ATACATACAGACATACATGCATACAT
Found at i:103548825 original size:30 final size:30
Alignment explanation
Indices: 103548789--103548848 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
103548779 GCTAAGAAGG
*
103548789 TACATACATACAGACATGCATGCATACATA
1 TACATACATACAGACATGCATACATACATA
* *
103548819 TACATACCTACATACATGCATACATACATA
1 TACATACATACAGACATGCATACATACATA
103548849 CGAATCCGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (30 bp):
TACATACATACAGACATGCATACATACATA
Found at i:103549362 original size:14 final size:14
Alignment explanation
Indices: 103549322--103549354 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
103549312 GCAAAAGTTT
*
103549322 TATATACATATATG
1 TATATGCATATATG
103549336 TATATGCATATATG
1 TATATGCATATATG
103549350 TATAT
1 TATAT
103549355 TTCTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (14 bp):
TATATGCATATATG
Found at i:103549522 original size:17 final size:17
Alignment explanation
Indices: 103549502--103549543 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
103549492 TTTTAAAAAT
103549502 TTTTAGATTTCAAATCA
1 TTTTAGATTTCAAATCA
* *
103549519 TTTTAG-GTTCATATCA
1 TTTTAGATTTCAAATCA
*
103549535 TTTTGGATT
1 TTTTAGATT
103549544 GAAATCAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (17 bp):
TTTTAGATTTCAAATCA
Found at i:103556367 original size:23 final size:23
Alignment explanation
Indices: 103556341--103556384 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
103556331 TTAATCAATA
103556341 TAAAAAAAACAATCAATTAATTT
1 TAAAAAAAACAATCAATTAATTT
* *
103556364 TAAAAAAAGCAATTAATTAAT
1 TAAAAAAAACAATCAATTAAT
103556385 ATTTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
TAAAAAAAACAATCAATTAATTT
Found at i:103566273 original size:23 final size:25
Alignment explanation
Indices: 103566216--103566274 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
103566206 GTTTCAAATA
103566216 TATATTTTAAAATTAAATAAAATGG
1 TATATTTTAAAATTAAATAAAATGG
* * *
103566241 TATATATTAAAGTTAATTAAAAT-G
1 TATATTTTAAAATTAAATAAAATGG
103566265 -ATATTTTAAA
1 TATATTTTAAA
103566275 CTATATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 9 0.30
24 1 0.03
25 20 0.67
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (25 bp):
TATATTTTAAAATTAAATAAAATGG
Found at i:103570692 original size:12 final size:12
Alignment explanation
Indices: 103570675--103570708 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
103570665 ATAACAATAC
103570675 TGGTGGTGGTGA
1 TGGTGGTGGTGA
*
103570687 TGGTGGCGGTGA
1 TGGTGGTGGTGA
*
103570699 TTGTGGTGGT
1 TGGTGGTGGT
103570709 TTTAATGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.03, G:0.56, T:0.35
Consensus pattern (12 bp):
TGGTGGTGGTGA
Found at i:103571401 original size:16 final size:15
Alignment explanation
Indices: 103571369--103571412 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
103571359 CTATTAAAAA
* *
103571369 AAATTAAATAAATTT
1 AAATTAAATAGAGTT
103571384 AAATTATAATAGAGTT
1 AAATTA-AATAGAGTT
103571400 AACATTAAATAGA
1 AA-ATTAAATAGA
103571413 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 15 0.60
17 4 0.16
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (15 bp):
AAATTAAATAGAGTT
Found at i:103579984 original size:14 final size:14
Alignment explanation
Indices: 103579965--103579992 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
103579955 AAGGGCTCAC
103579965 CAATTATAAGATGG
1 CAATTATAAGATGG
103579979 CAATTATAAGATGG
1 CAATTATAAGATGG
103579993 ACCCTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
CAATTATAAGATGG
Found at i:103584823 original size:20 final size:19
Alignment explanation
Indices: 103584776--103584823 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
103584766 AAGAAAATGA
103584776 AGCAATATATATATATAATT
1 AGCAATA-ATATATATAATT
*
103584796 AG-ATATAATATATAGTATTT
1 AGCA-ATAATATATA-TAATT
103584816 AGCAATAA
1 AGCAATAA
103584824 ACCTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 8 0.33
20 15 0.62
21 1 0.04
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (19 bp):
AGCAATAATATATATAATT
Found at i:103588627 original size:21 final size:21
Alignment explanation
Indices: 103588597--103588650 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
103588587 CTTCTGCTTC
*
103588597 TCCATTTGTTTTTCTCCCTTA
1 TCCATCTGTTTTTCTCCCTTA
* * *
103588618 TCTATCTGTTTTTCTTCCTTC
1 TCCATCTGTTTTTCTCCCTTA
103588639 TCCATCT-TTTTT
1 TCCATCTGTTTTT
103588651 AACATAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.07, C:0.28, G:0.04, T:0.61
Consensus pattern (21 bp):
TCCATCTGTTTTTCTCCCTTA
Found at i:103588762 original size:29 final size:29
Alignment explanation
Indices: 103588721--103588776 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
103588711 GGAGAAGGGA
* *
103588721 GGAAAACAGAGGAAGAAACA-AAAGAAAAT
1 GGAAAACAAAGGAA-AAAAAGAAAGAAAAT
*
103588750 GGAAAATAAAGGAAAAAAAGAAAGAAA
1 GGAAAACAAAGGAAAAAAAGAAAGAAA
103588777 GTTAAAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.70, C:0.04, G:0.23, T:0.04
Consensus pattern (29 bp):
GGAAAACAAAGGAAAAAAAGAAAGAAAAT
Found at i:103588958 original size:15 final size:15
Alignment explanation
Indices: 103588938--103588974 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
103588928 ACAACATGTT
*
103588938 AACGTAAGTGACTAA
1 AACGTAAGTAACTAA
103588953 AACGTAAGTAACTAA
1 AACGTAAGTAACTAA
*
103588968 AATGTAA
1 AACGTAA
103588975 CTTAAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (15 bp):
AACGTAAGTAACTAA
Found at i:103606723 original size:31 final size:31
Alignment explanation
Indices: 103606688--103606750 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
103606678 AGAGGACCTA
*
103606688 AGAATTGTCATTCACTTTTCATAACCATATT
1 AGAATTGTCATTCACTTTTCATAACAATATT
103606719 AGAATTGTCATTCACTTTTCATAACAATATT
1 AGAATTGTCATTCACTTTTCATAACAATATT
103606750 A
1 A
103606751 TGCATACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.41
Consensus pattern (31 bp):
AGAATTGTCATTCACTTTTCATAACAATATT
Found at i:103606791 original size:4 final size:4
Alignment explanation
Indices: 103606784--103606821 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
103606774 CACACAAATG
103606784 CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
103606822 GTCTATGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:103610488 original size:2 final size:2
Alignment explanation
Indices: 103610481--103610510 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
103610471 TGAAAGCAAG
103610481 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
103610511 GGTGTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:103612587 original size:25 final size:24
Alignment explanation
Indices: 103612559--103612607 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
103612549 TTACTTGTGT
*
103612559 TTTTTAAATAAATTTATATTATTTA
1 TTTTTAAATAAATTT-TAATATTTA
* *
103612584 TTTTTTAATATATTTTAATATTTA
1 TTTTTAAATAAATTTTAATATTTA
103612608 CATTATAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTTAAATAAATTTTAATATTTA
Found at i:103615551 original size:18 final size:18
Alignment explanation
Indices: 103615528--103615571 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
103615518 ATTGTTTTAT
*
103615528 TTTTTTA-TTTTTAATATA
1 TTTTTTAGTTTATAAT-TA
103615546 TTTTTTAGTTTATAATTA
1 TTTTTTAGTTTATAATTA
103615564 TTCTTTTA
1 TT-TTTTA
103615572 ACTCAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTTAGTTTATAATTA
Found at i:103616932 original size:39 final size:39
Alignment explanation
Indices: 103616889--103616967 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
103616879 TATTGGTATT
103616889 GTATCAATTAGTCATTCTATGAACATGGCCGTCAATTTA
1 GTATCAATTAGTCATTCTATGAACATGGCCGTCAATTTA
103616928 GTATCAATTAGTCATTCTATGAACATGGCCGTCAATTTA
1 GTATCAATTAGTCATTCTATGAACATGGCCGTCAATTTA
103616967 G
1 G
103616968 GTGTTAAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (39 bp):
GTATCAATTAGTCATTCTATGAACATGGCCGTCAATTTA
Found at i:103620256 original size:31 final size:31
Alignment explanation
Indices: 103620221--103620283 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
103620211 TAAAATGATT
*
103620221 ACTGAACTATTCGAAAATTTTCATTTAAGTC
1 ACTGAACTATTAGAAAATTTTCATTTAAGTC
* * *
103620252 ACTGAACTATTAGAAAGTTTTTATTTGAGTC
1 ACTGAACTATTAGAAAATTTTCATTTAAGTC
103620283 A
1 A
103620284 ATAGGCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (31 bp):
ACTGAACTATTAGAAAATTTTCATTTAAGTC
Found at i:103623342 original size:18 final size:19
Alignment explanation
Indices: 103623321--103623357 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
103623311 TTCAATTTGA
*
103623321 TATTTTTTGTAA-ATTTTC
1 TATTCTTTGTAACATTTTC
103623339 TATTCTTTGTAACATTTTC
1 TATTCTTTGTAACATTTTC
103623358 ACTTAAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.22, C:0.11, G:0.05, T:0.62
Consensus pattern (19 bp):
TATTCTTTGTAACATTTTC
Found at i:103624151 original size:50 final size:50
Alignment explanation
Indices: 103624076--103624177 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
103624066 CTGAAAAGAG
103624076 ACCCGAATCCGAACACTCGTCTTCCGCTGCCTTCGTCTCGAACTTGCCTT
1 ACCCGAATCCGAACACTCGTCTTCCGCTGCCTTCGTCTCGAACTTGCCTT
103624126 ACCCGAATCCGAACACTCGTCTTCCGCTGCCTTCGTCTCGAACTTGCCTT
1 ACCCGAATCCGAACACTCGTCTTCCGCTGCCTTCGTCTCGAACTTGCCTT
103624176 AC
1 AC
103624178 TCTTTCACCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.17, C:0.40, G:0.16, T:0.27
Consensus pattern (50 bp):
ACCCGAATCCGAACACTCGTCTTCCGCTGCCTTCGTCTCGAACTTGCCTT
Found at i:103632781 original size:27 final size:28
Alignment explanation
Indices: 103632730--103632791 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
103632720 TTACTTAATA
**
103632730 AATAATTATTATTTTTGTTTACAAAAAT
1 AATAATTATTATTTTTGTAAACAAAAAT
103632758 AA-AATTATTATTTTTG-AAAGCAAAAAT
1 AATAATTATTATTTTTGTAAA-CAAAAAT
103632785 AATAATT
1 AATAATT
103632792 TTGTAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.03
27 23 0.77
28 6 0.20
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (28 bp):
AATAATTATTATTTTTGTAAACAAAAAT
Found at i:103634395 original size:4 final size:4
Alignment explanation
Indices: 103634379--103634434 Score: 85
Period size: 4 Copynumber: 14.0 Consensus size: 4
103634369 AAAAGGCTAA
* * *
103634379 TATG TACG TATG TATG TATG TATG AATG TATG AATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
103634427 TATG TATG
1 TATG TATG
103634435 AAACAATGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.45
Consensus pattern (4 bp):
TATG
Found at i:103634646 original size:4 final size:4
Alignment explanation
Indices: 103634639--103634677 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
103634629 GTCTGTCTGC
* *
103634639 ATGT ATGT ATGT ATGT ATGT ACGT ACGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
103634678 AATGAATGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.44
Consensus pattern (4 bp):
ATGT
Found at i:103634876 original size:2 final size:2
Alignment explanation
Indices: 103634869--103634893 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
103634859 TGGTAAGCAT
103634869 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
103634894 GATATCAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:103639019 original size:16 final size:17
Alignment explanation
Indices: 103638998--103639031 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
103638988 TACGTTTATA
103638998 AATTTAAATT-TTTTCG
1 AATTTAAATTATTTTCG
103639014 AATTTAAATTATTTTCG
1 AATTTAAATTATTTTCG
103639031 A
1 A
103639032 TTCCAGGGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
AATTTAAATTATTTTCG
Found at i:103649716 original size:39 final size:39
Alignment explanation
Indices: 103649662--103649787 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
103649652 TATGAGATTG
*
103649662 AAAATATCCGGACATGAGGTCCGCAGGTTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
103649701 AAAATATCCGAACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * **
103649740 GATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
103649779 AAAATATCC
1 AAAATATCC
103649788 AGGTTAAAGA
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:103649803 original size:78 final size:77
Alignment explanation
Indices: 103649665--103649815 Score: 187
Period size: 78 Copynumber: 1.9 Consensus size: 77
103649655 GAGATTGAAA
* * * *
103649665 ATATCCGGACATGAGGTCCGCAGGTTATATGCTGGAAAAATATCCGAACATGAGATCCGCAGGCT
1 ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGAACATAAGACCCGCAGGCT
*
103649730 ATATGCTAGAGAT
66 -TACGCTAGAGAT
* * ***
103649743 ATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCC-AGGTTAAAGACCCGCAGGC
1 ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGAACAT-AAGACCCGCAGGC
103649807 TTACGCTAG
65 TTACGCTAG
103649816 TAATGTATTC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 9 0.15
78 53 0.85
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (77 bp):
ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGAACATAAGACCCGCAGGCT
TACGCTAGAGAT
Found at i:103652044 original size:40 final size:40
Alignment explanation
Indices: 103652007--103652190 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
103651997 GCTACTCGTT
*
103652007 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
103652047 CAAATGCCTTCAGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
103652087 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * *
103652126 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
103652167 CAAA-GCCTTCGGGAATTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
103652191 ACATCATTCG
Statistics
Matches: 117, Mismatches: 19, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.26
40 71 0.61
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:103652175 original size:79 final size:81
Alignment explanation
Indices: 103652007--103652191 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 81
103651997 GCTACTCGTT
* * *
103652007 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCA
* *
103652071 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * **
103652088 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCA
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCA
* *
103652150 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
*
103652167 CAAAGCCTTCGGGAATTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
103652192 CATCATTCGA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 24 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCAG
ATATAGTAACTAGCAC
Found at i:103665936 original size:29 final size:29
Alignment explanation
Indices: 103665901--103665959 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
103665891 GTCATTTCTG
*
103665901 TTATTATTAATGTTATGCCTTGTTTCAAA
1 TTATTATTAATGTTATCCCTTGTTTCAAA
103665930 TTATTATTAATGTTATCCCTTGTTTCAAA
1 TTATTATTAATGTTATCCCTTGTTTCAAA
103665959 T
1 T
103665960 CACATAGGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (29 bp):
TTATTATTAATGTTATCCCTTGTTTCAAA
Found at i:103666029 original size:26 final size:26
Alignment explanation
Indices: 103666011--103666069 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
103666001 GATTGCAGTG
* *
103666011 ATTGATTTGATCAACTGATTCTATTA
1 ATTGATTTGACCAACTGATTCTAGTA
* *
103666037 ATTGATTTGACCAATTGATTCTATTA
1 ATTGATTTGACCAACTGATTCTAGTA
103666063 ATT-ATTT
1 ATTGATTT
103666070 ATTTAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (26 bp):
ATTGATTTGACCAACTGATTCTAGTA
Found at i:103674948 original size:37 final size:37
Alignment explanation
Indices: 103674907--103674984 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 37
103674897 ATATATATTA
*
103674907 ATTTTGTTTTAATATT-TAATTTTAGATAT-GAATTTTG
1 ATTTT-TTTT-ATATTATAATTTTAGATATAAAATTTTG
* * *
103674944 ATTTTTTTTCTTTTATAATTTTATATATAAAATTTTG
1 ATTTTTTTTATATTATAATTTTAGATATAAAATTTTG
103674981 ATTT
1 ATTT
103674985 AATTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
35 3 0.09
36 16 0.46
37 16 0.46
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.63
Consensus pattern (37 bp):
ATTTTTTTTATATTATAATTTTAGATATAAAATTTTG
Found at i:103680141 original size:14 final size:14
Alignment explanation
Indices: 103680119--103680157 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
103680109 TAAACAAATT
*
103680119 CATACATATACATA
1 CATATATATACATA
103680133 CATATATATACATA
1 CATATATATACATA
103680147 -A-ATATATACAT
1 CATATATATACAT
103680158 GTGTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 10 0.42
13 1 0.04
14 13 0.54
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (14 bp):
CATATATATACATA
Found at i:103683081 original size:19 final size:18
Alignment explanation
Indices: 103683054--103683089 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
103683044 TTAATATATC
*
103683054 ATTTGATATTTATATTTAA
1 ATTTAATATTTA-ATTTAA
103683073 ATTTAATATTTAATTTA
1 ATTTAATATTTAATTTA
103683090 GTATTCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
ATTTAATATTTAATTTAA
Found at i:103683998 original size:18 final size:20
Alignment explanation
Indices: 103683960--103683998 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
103683950 TTTTAATTTG
*
103683960 AAATTTTCATTTTTCTTTAT
1 AAATTTTCATTTATCTTTAT
103683980 AAATTTTCA-TTAT-TTTAT
1 AAATTTTCATTTATCTTTAT
103683998 A
1 A
103683999 TTTTTTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 9 0.50
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (20 bp):
AAATTTTCATTTATCTTTAT
Found at i:103686060 original size:3 final size:3
Alignment explanation
Indices: 103686052--103686090 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
103686042 TATAATTGCT
103686052 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
103686091 TCAAAATAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:103688457 original size:18 final size:18
Alignment explanation
Indices: 103688430--103688473 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
103688420 TAAGAAAATA
*
103688430 TTCACTCTTGAAAGAGTG
1 TTCACACTTGAAAGAGTG
103688448 TTCACACTTGAAAGAGTG
1 TTCACACTTGAAAGAGTG
103688466 TTCACACT
1 TTCACACT
103688474 AAAAAACAGG
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:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (18 bp):
TTCACACTTGAAAGAGTG
Found at i:103689464 original size:23 final size:22
Alignment explanation
Indices: 103689437--103689490 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
103689427 AACTTAAATT
103689437 TTAAAATTTAAAAAGTAAAAAAA
1 TTAAAATTTAAAAA-TAAAAAAA
* *
103689460 TTAAATTCTTAAAAATAAAAATA
1 TTAAAAT-TTAAAAATAAAAAAA
103689483 -TAAAATTT
1 TTAAAATTT
103689491 CAATGTCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.07
22 5 0.19
23 13 0.48
24 7 0.26
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TTAAAATTTAAAAATAAAAAAA
Found at i:103695633 original size:93 final size:93
Alignment explanation
Indices: 103695474--103695658 Score: 361
Period size: 93 Copynumber: 2.0 Consensus size: 93
103695464 CGATGGGACA
*
103695474 TAGTTGCTATCCTAAAGGGAAGGTAGTTATGGGCTGAGAATTTTTAGGACTTGACTAGCTGCTTC
1 TAGTTGCTATCCTAAAGGGAAGGTAGTTATGGGCTGAGAATTTTGAGGACTTGACTAGCTGCTTC
103695539 TATCTTAAGGCACATCTGGTCTTATCTG
66 TATCTTAAGGCACATCTGGTCTTATCTG
103695567 TAGTTGCTATCCTAAAGGGAAGGTAGTTATGGGCTGAGAATTTTGAGGACTTGACTAGCTGCTTC
1 TAGTTGCTATCCTAAAGGGAAGGTAGTTATGGGCTGAGAATTTTGAGGACTTGACTAGCTGCTTC
103695632 TATCTTAAGGCACATCTGGTCTTATCT
66 TATCTTAAGGCACATCTGGTCTTATCT
103695659 TTTGGAGGTC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (93 bp):
TAGTTGCTATCCTAAAGGGAAGGTAGTTATGGGCTGAGAATTTTGAGGACTTGACTAGCTGCTTC
TATCTTAAGGCACATCTGGTCTTATCTG
Found at i:103698671 original size:18 final size:18
Alignment explanation
Indices: 103698648--103698688 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
103698638 ATTAACTATC
103698648 AAAATTGATAAAT-TATTA
1 AAAATT-ATAAATCTATTA
*
103698666 AAAATTTTAAATCTATTA
1 AAAATTATAAATCTATTA
103698684 AAAAT
1 AAAAT
103698689 AATATTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATTATAAATCTATTA
Found at i:103699858 original size:16 final size:17
Alignment explanation
Indices: 103699828--103699868 Score: 75
Period size: 16 Copynumber: 2.5 Consensus size: 17
103699818 GATAGCTGAC
103699828 TCAAGGCCAGTAGAAAT
1 TCAAGGCCAGTAGAAAT
103699845 TCAAGGCC-GTAGAAAT
1 TCAAGGCCAGTAGAAAT
103699861 TCAAGGCC
1 TCAAGGCC
103699869 TGGTGACTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (17 bp):
TCAAGGCCAGTAGAAAT
Found at i:103707815 original size:21 final size:21
Alignment explanation
Indices: 103707791--103707832 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
103707781 TGTTATTATA
103707791 CCAATCAAAATTATATACAAT
1 CCAATCAAAATTATATACAAT
103707812 CCAATCAAAATTATATACAAT
1 CCAATCAAAATTATATACAAT
103707833 TGATGGACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (21 bp):
CCAATCAAAATTATATACAAT
Found at i:103711112 original size:12 final size:13
Alignment explanation
Indices: 103711096--103711125 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
103711086 TTATTTTTGG
103711096 ATTTATTTTTATT
1 ATTTATTTTTATT
103711109 -TTTATTTTTATT
1 ATTTATTTTTATT
103711121 ATTTA
1 ATTTA
103711126 GTAAATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTATTTTTATT
Found at i:103722532 original size:13 final size:13
Alignment explanation
Indices: 103722514--103722554 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
103722504 CATCATTTGA
103722514 TTAATTTGTTAAT
1 TTAATTTGTTAAT
* *
103722527 TTAATTTATTTAT
1 TTAATTTGTTAAT
103722540 TTAATTTGATTAAT
1 TTAATTTG-TTAAT
103722554 T
1 T
103722555 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (13 bp):
TTAATTTGTTAAT
Found at i:103722552 original size:9 final size:9
Alignment explanation
Indices: 103722508--103722554 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
103722498 TTAATCCATC
103722508 ATTTGATTA
1 ATTTGATTA
103722517 ATTTG-TTA
1 ATTTGATTA
* *
103722525 ATTTAATTT
1 ATTTGATTA
103722534 ATTT-ATTTA
1 ATTTGA-TTA
103722543 ATTTGATTA
1 ATTTGATTA
103722552 ATT
1 ATT
103722555 AAAAATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
8 8 0.25
9 23 0.72
10 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (9 bp):
ATTTGATTA
Found at i:103726718 original size:21 final size:21
Alignment explanation
Indices: 103726680--103726719 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
103726670 TATCATATCA
* *
103726680 TTACATAAAATTTTAAAATTT
1 TTACATAAAATATAAAAATTT
103726701 TTACATAAAATATAAAAAT
1 TTACATAAAATATAAAAAT
103726720 ATACAGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TTACATAAAATATAAAAATTT
Found at i:103729541 original size:59 final size:59
Alignment explanation
Indices: 103729474--103729592 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
103729464 GAGCTCTTGA
103729474 TACTGTTGGTTTGTTCTTAATCTTCAACCTTCTATTTTTATTTGATGTGATTTTCCCAT
1 TACTGTTGGTTTGTTCTTAATCTTCAACCTTCTATTTTTATTTGATGTGATTTTCCCAT
103729533 TACTGTTGGTTTGTTCTTAATCTTCAACCTTCTATTTTTATTTGATGTGATTTTCCCAT
1 TACTGTTGGTTTGTTCTTAATCTTCAACCTTCTATTTTTATTTGATGTGATTTTCCCAT
103729592 T
1 T
103729593 TTGTATAAGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.55
Consensus pattern (59 bp):
TACTGTTGGTTTGTTCTTAATCTTCAACCTTCTATTTTTATTTGATGTGATTTTCCCAT
Found at i:103732848 original size:24 final size:24
Alignment explanation
Indices: 103732801--103732848 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
103732791 TAATGTACAA
* *
103732801 AGATCAAATTTTAATAGTAGAAAT
1 AGATAAAATTTTAATAGTAAAAAT
103732825 AGATAAAATTTTTAATAG-AAAAAT
1 AGATAAAA-TTTTAATAGTAAAAAT
103732849 CAATTTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.33
Consensus pattern (24 bp):
AGATAAAATTTTAATAGTAAAAAT
Found at i:103732952 original size:12 final size:12
Alignment explanation
Indices: 103732935--103732961 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
103732925 ATAGAAGAGC
103732935 TTTCATAGTACT
1 TTTCATAGTACT
103732947 TTTCATAGTACT
1 TTTCATAGTACT
103732959 TTT
1 TTT
103732962 ATCTAACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (12 bp):
TTTCATAGTACT
Done.