Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 414 of 427
Found at i:120301624 original size:18 final size:18
Alignment explanation
Indices: 120301592--120301626 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
120301582 GCGTTGGAGG
*
120301592 AAGAAGAAACGGAGGAAA
1 AAGAAGAAACAGAGGAAA
*
120301610 AAGAAGAAGCAGAGGAA
1 AAGAAGAAACAGAGGAA
120301627 TTAGCCGACG
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:0.60, C:0.06, G:0.34, T:0.00
Consensus pattern (18 bp):
AAGAAGAAACAGAGGAAA
Found at i:120303944 original size:20 final size:21
Alignment explanation
Indices: 120303899--120303947 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
120303889 AGTTCAGTTA
120303899 ACGGTTAAGGATTTAAAAAGT
1 ACGGTTAAGGATTTAAAAAGT
*
120303920 ACGGTTAAGGGTTTAAAAA-T
1 ACGGTTAAGGATTTAAAAAGT
*
120303940 TCGGTTAA
1 ACGGTTAA
120303948 TTCAGTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (21 bp):
ACGGTTAAGGATTTAAAAAGT
Found at i:120309989 original size:16 final size:19
Alignment explanation
Indices: 120309968--120310004 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
120309958 ATAAAATTTA
*
120309968 TAAAAATAA-AAAAA-AAT
1 TAAAATTAAGAAAAACAAT
120309985 TAAAATTAAGAAAAACAAT
1 TAAAATTAAGAAAAACAAT
120310004 T
1 T
120310005 TTTTTAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (19 bp):
TAAAATTAAGAAAAACAAT
Found at i:120311404 original size:16 final size:16
Alignment explanation
Indices: 120311385--120311439 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
120311375 TATTTATCCT
120311385 TTTATATATTTAAAAA
1 TTTATATATTTAAAAA
120311401 TTTATAT-TTATATTAAAA
1 TTTATATATT-TA--AAAA
*
120311419 TTTAAATATTTAAAAA
1 TTTATATATTTAAAAA
*
120311435 ATTAT
1 TTTAT
120311440 GAATAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 2 0.06
16 16 0.50
18 12 0.38
19 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTATATATTTAAAAA
Found at i:120315050 original size:48 final size:48
Alignment explanation
Indices: 120314965--120315157 Score: 205
Period size: 48 Copynumber: 4.0 Consensus size: 48
120314955 TGGCGGAAAT
* *
120314965 GGAAGATGAA-CCGAGGGTAAACAAACCAA-A-AATTCAAGACCAACTAGA
1 GGAAGATGAACCCAAGGG-AACCAAA-CAACAGAA-TCAAGACCAACTAGA
* *
120315013 GGAGGATGAACCCAAGGGAACCAAACAACCGAATCAAGACCAACTAGA
1 GGAAGATGAACCCAAGGGAACCAAACAACAGAATCAAGACCAACTAGA
* * * *
120315061 GGAAGATGAATCGAAGGGGACCAAACAACTA-AATCAAGATCAACTAGA
1 GGAAGATGAACCCAAGGGAACCAAACAAC-AGAATCAAGACCAACTAGA
* * * * *
120315109 GCAAGATGAACCCAAGGGAAACAAACTACAGAATCATGACCAACAAGA
1 GGAAGATGAACCCAAGGGAACCAAACAACAGAATCAAGACCAACTAGA
120315157 G
1 G
120315158 TCGCAGGTGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
47 4 0.03
48 109 0.90
49 8 0.07
ACGTcount: A:0.48, C:0.21, G:0.22, T:0.09
Consensus pattern (48 bp):
GGAAGATGAACCCAAGGGAACCAAACAACAGAATCAAGACCAACTAGA
Found at i:120315687 original size:5 final size:5
Alignment explanation
Indices: 120315677--120315709 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
120315667 CAAGGTAAAG
120315677 ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
1 ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
120315710 TAAACCTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (5 bp):
ATTGA
Found at i:120317844 original size:21 final size:21
Alignment explanation
Indices: 120317805--120317844 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
120317795 ATGGAAATAT
*
120317805 AATTTATAATTATAGTTTTCA
1 AATTTATAATTATAATTTTCA
120317826 AATTTATTAATT-TAATTTT
1 AATTTA-TAATTATAATTTT
120317845 TTTGGTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
AATTTATAATTATAATTTTCA
Found at i:120318367 original size:17 final size:18
Alignment explanation
Indices: 120318341--120318375 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
120318331 TTTTTAAATA
120318341 TTTATATTAT-ATTTTAT
1 TTTATATTATAATTTTAT
*
120318358 TTTATTTTATAATTTTAT
1 TTTATATTATAATTTTAT
120318376 ACATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATATTATAATTTTAT
Found at i:120318384 original size:29 final size:29
Alignment explanation
Indices: 120318319--120318388 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
120318309 ACCCGCCCAT
*
120318319 ATTTTTTAATTTTTTTTAAATATTTATATT
1 ATTTTTT-ATTTTTTTTAAATATTTATATC
*
120318349 ATATTTTATTTTATTTTATAAT-TTTATA-C
1 ATTTTTTATTTT-TTTTA-AATATTTATATC
120318378 ATTTTTTATTT
1 ATTTTTTATTT
120318389 ATTGAATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 15 0.43
30 17 0.49
31 3 0.09
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (29 bp):
ATTTTTTATTTTTTTTAAATATTTATATC
Found at i:120319809 original size:53 final size:53
Alignment explanation
Indices: 120319745--120319850 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
120319735 GAAAGATACT
120319745 AGTTGGAAATACATCAAGGCACATAATATATAAAACAATAATATTAAAAACAA
1 AGTTGGAAATACATCAAGGCACATAATATATAAAACAATAATATTAAAAACAA
120319798 AGTTGGAAATACATCAAGGCACATAATATATAAAACAATAATATTAAAAACAA
1 AGTTGGAAATACATCAAGGCACATAATATATAAAACAATAATATTAAAAACAA
120319851 TGACAATGCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (53 bp):
AGTTGGAAATACATCAAGGCACATAATATATAAAACAATAATATTAAAAACAA
Found at i:120320260 original size:19 final size:19
Alignment explanation
Indices: 120320236--120320273 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
120320226 CTAGAATGAT
120320236 AATAGTATATATATAAAAA
1 AATAGTATATATATAAAAA
120320255 AATAGTATATATATAAAAA
1 AATAGTATATATATAAAAA
120320274 CTGTACACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAGTATATATATAAAAA
Found at i:120320408 original size:13 final size:12
Alignment explanation
Indices: 120320378--120320421 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
120320368 ATATTGAGAG
120320378 TATATATATACA
1 TATATATATACA
*
120320390 TA-ATATATAGA
1 TATATATATACA
*
120320401 T-GATATATACA
1 TATATATATACA
120320412 TATATATATA
1 TATATATATA
120320422 AAATAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (12 bp):
TATATATATACA
Found at i:120320514 original size:22 final size:21
Alignment explanation
Indices: 120320488--120320544 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
120320478 ATATTAAAAT
120320488 AAAATAATAAGTGATAATAATG
1 AAAATAATAAGT-ATAATAATG
120320510 AAAATAATAAGTATAATAAAT-
1 AAAATAATAAGTATAAT-AATG
*
120320531 AATATAATAA-TATA
1 AAAATAATAAGTATA
120320545 TGAGAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 4 0.12
21 14 0.42
22 15 0.45
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (21 bp):
AAAATAATAAGTATAATAATG
Found at i:120320518 original size:12 final size:12
Alignment explanation
Indices: 120320501--120320555 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
120320491 ATAATAAGTG
*
120320501 ATAATAATGAAA
1 ATAATAATGATA
120320513 ATAATAA-GTATA
1 ATAATAATG-ATA
120320525 ATAAATAAT-ATA
1 AT-AATAATGATA
*
120320537 ATAATATATGAGA
1 ATAATA-ATGATA
120320550 ATAATA
1 ATAATA
120320556 CTATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 5 0.14
12 18 0.50
13 13 0.36
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (12 bp):
ATAATAATGATA
Found at i:120320527 original size:21 final size:21
Alignment explanation
Indices: 120320484--120320544 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
120320474 AATAATATTA
120320484 AAATAAAATAATAAGTGATAAT
1 AAATAAAATAATAAGT-ATAAT
120320506 -AATGAAAATAATAAGTATAAT
1 AAAT-AAAATAATAAGTATAAT
*
120320527 AAATAATATAATAA-TATA
1 AAATAAAATAATAAGTATA
120320545 TGAGAATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 4 0.11
21 17 0.47
22 15 0.42
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (21 bp):
AAATAAAATAATAAGTATAAT
Found at i:120320679 original size:20 final size:22
Alignment explanation
Indices: 120320654--120320700 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
120320644 ACGAGATGGT
120320654 ATATAAAAATATA-AC-TAATA
1 ATATAAAAATATATACATAATA
*
120320674 ATATAAAAATATATACATGATA
1 ATATAAAAATATATACATAATA
120320696 ATATA
1 ATATA
120320701 TATAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 13 0.54
21 2 0.08
22 9 0.38
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (22 bp):
ATATAAAAATATATACATAATA
Found at i:120320753 original size:24 final size:25
Alignment explanation
Indices: 120320715--120320772 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
120320705 AAAAATATTA
120320715 GAAAATATATGTACATAATATAATAT
1 GAAAATATA-GTACATAATATAATAT
120320741 GAAAATATA-TACATAATATAATAT
1 GAAAATATAGTACATAATATAATAT
*
120320765 -TAAATATA
1 GAAAATATA
120320773 ATAATACAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 7 0.23
24 15 0.48
26 9 0.29
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (25 bp):
GAAAATATAGTACATAATATAATAT
Found at i:120320849 original size:15 final size:15
Alignment explanation
Indices: 120320826--120320859 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
120320816 GAATATATTC
120320826 AATACATATACATAT
1 AATACATATACATAT
* *
120320841 AATAGATATATATAT
1 AATACATATACATAT
120320856 AATA
1 AATA
120320860 AAACGTAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (15 bp):
AATACATATACATAT
Found at i:120320876 original size:3 final size:3
Alignment explanation
Indices: 120320870--120320917 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
120320860 AAACGTAAAC
* * * *
120320870 TAA TAA TAA TAA CAA TAA GAA TAA GAA TAA TAA GAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
120320916 TA
1 TA
120320918 TATATAAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (3 bp):
TAA
Found at i:120321521 original size:11 final size:10
Alignment explanation
Indices: 120321498--120321537 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
120321488 AAATTTGCCC
120321498 TTTTTATATT
1 TTTTTATATT
120321508 TTTTTATATCT
1 TTTTTATAT-T
*
120321519 TTTTTATATG
1 TTTTTATATT
*
120321529 TTTTGATAT
1 TTTTTATAT
120321538 GAACGGTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (10 bp):
TTTTTATATT
Found at i:120321524 original size:21 final size:21
Alignment explanation
Indices: 120321498--120321537 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
120321488 AAATTTGCCC
* *
120321498 TTTTTATATTTTTTTATATCT
1 TTTTTATATGTTTTGATATCT
120321519 TTTTTATATGTTTTGATAT
1 TTTTTATATGTTTTGATAT
120321538 GAACGGTGTC
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:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTTATATGTTTTGATATCT
Found at i:120323308 original size:3 final size:3
Alignment explanation
Indices: 120323300--120323351 Score: 81
Period size: 3 Copynumber: 17.7 Consensus size: 3
120323290 TATTCCAATT
120323300 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
120323345 TT- TTA TT
1 TTA TTA TT
120323352 TCTTTTTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 39 0.85
4 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:120324093 original size:6 final size:6
Alignment explanation
Indices: 120324078--120324114 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
120324068 TCGAAGCCGG
*
120324078 AACAGT AACAGA AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
120324115 CGGTATACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.54, C:0.16, G:0.16, T:0.14
Consensus pattern (6 bp):
AACAGT
Found at i:120324101 original size:18 final size:18
Alignment explanation
Indices: 120324078--120324186 Score: 71
Period size: 18 Copynumber: 6.1 Consensus size: 18
120324068 TCGAAGCCGG
120324078 AACAGTAACAGAAACAGT
1 AACAGTAACAGAAACAGT
*
120324096 AACAGTAACAGTAACAGT
1 AACAGTAACAGAAACAGT
* * **
120324114 -ACGGTATACAGAGTACCTT
1 AACAGTA-ACAGA-AACAGT
* * * * *
120324133 ATC-GGAACA-AATCTGA
1 AACAGTAACAGAAACAGT
*
120324149 AACAGTAACAGTAACAGT
1 AACAGTAACAGAAACAGT
*
120324167 AACAGTAACAGTAACAGT
1 AACAGTAACAGAAACAGT
120324185 AA
1 AA
120324187 TGGTAACAGT
Statistics
Matches: 67, Mismatches: 19, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
16 3 0.04
17 11 0.16
18 47 0.70
19 5 0.07
20 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
AACAGTAACAGAAACAGT
Found at i:120324160 original size:6 final size:6
Alignment explanation
Indices: 120324149--120324197 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
120324139 ACAAATCTGA
**
120324149 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AATGGT AACAGT
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
120324197 A
1 A
120324198 TTCGACACAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:120325336 original size:5 final size:5
Alignment explanation
Indices: 120325318--120325348 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
120325308 TTTCTTTTAT
120325318 ATATA ATAATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA
120325349 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:120325389 original size:28 final size:28
Alignment explanation
Indices: 120325315--120325389 Score: 66
Period size: 28 Copynumber: 2.7 Consensus size: 28
120325305 TTGTTTCTTT
*
120325315 TATATATAATAATAATATAATATAATATA
1 TATATATATTAATAATA-AATATAATATA
* *
120325344 -ATATA-CTTAATTATTAAATA-AATATA
1 TATATATATTAA-TAATAAATATAATATA
*
120325370 TATATATTTTAATCAATAAA
1 TATATATATTAAT-AATAAA
120325390 ATTTTTGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
26 6 0.16
27 13 0.35
28 18 0.49
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (28 bp):
TATATATATTAATAATAAATATAATATA
Found at i:120330701 original size:26 final size:26
Alignment explanation
Indices: 120330672--120330779 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
120330662 TGATACAAAT
120330672 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
120330698 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
120330724 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
120330750 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
120330776 TGAT
1 TGAT
120330780 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:120332719 original size:23 final size:23
Alignment explanation
Indices: 120332651--120332737 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
120332641 CCTAATCAGT
* *
120332651 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAGGTGCCTGAA
**
120332673 A-ACGACACACAAGGTGTTTG--
1 ATACGACACACAAGGTGCCTGAA
*
120332693 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTGAA
* *
120332716 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
120332738 TCAGTATAGC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.02
21 30 0.59
22 1 0.02
23 19 0.37
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (23 bp):
ATACGACACACAAGGTGCCTGAA
Found at i:120333024 original size:29 final size:28
Alignment explanation
Indices: 120332942--120333025 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
120332932 AACACACCAG
* *
120332942 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
120332970 TATAATCCTCCCAAACACACTAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
120332998 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
120333026 GCACAAAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.46, C:0.30, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:120341233 original size:4 final size:4
Alignment explanation
Indices: 120341224--120341248 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
120341214 TTTATGAATT
120341224 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
120341249 ATTAGTCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:120342724 original size:2 final size:2
Alignment explanation
Indices: 120342717--120342741 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
120342707 TGTTTAAAAT
120342717 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
120342742 CTTTTGGTGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:120350534 original size:3 final size:3
Alignment explanation
Indices: 120350526--120350552 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
120350516 TATATTATCT
120350526 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
120350553 AAGATATCAA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:120354928 original size:7 final size:7
Alignment explanation
Indices: 120354916--120354957 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
120354906 ATAGTCTAGA
120354916 GTTTAAG
1 GTTTAAG
120354923 GTTTAAG
1 GTTTAAG
120354930 GTTTAAG
1 GTTTAAG
120354937 GTTTAAG
1 GTTTAAG
* **
120354944 ATCCAAG
1 GTTTAAG
120354951 GTTTAAG
1 GTTTAAG
120354958 TTAAAAAAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (7 bp):
GTTTAAG
Found at i:120355687 original size:17 final size:17
Alignment explanation
Indices: 120355662--120355712 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
120355652 ATCAATTATA
* * *
120355662 TTTTATTTAATTTAAAT
1 TTTTTTTTAATTCAAAC
120355679 TTTTTTTTAATTCAAAC
1 TTTTTTTTAATTCAAAC
* *
120355696 TTTTTATTAAATCAAAC
1 TTTTTTTTAATTCAAAC
120355713 AAAAGATGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTTTTTAATTCAAAC
Found at i:120359871 original size:7 final size:7
Alignment explanation
Indices: 120359859--120359913 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
120359849 TTCTACTTTT
120359859 ATTAAAA
1 ATTAAAA
120359866 ATT-AAA
1 ATTAAAA
**
120359872 ATTAATG
1 ATTAAAA
*
120359879 TTTAAAA
1 ATTAAAA
*
120359886 AAT-AAA
1 ATTAAAA
120359892 ATTAAAA
1 ATTAAAA
120359899 ATTAAAA
1 ATTAAAA
120359906 ATATAAAA
1 AT-TAAAA
120359914 TAAGTTATCA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
6 11 0.30
7 21 0.57
8 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (7 bp):
ATTAAAA
Found at i:120359903 original size:20 final size:20
Alignment explanation
Indices: 120359859--120359914 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
120359849 TTCTACTTTT
* **
120359859 ATTAAAAATTAAAATTAATG
1 ATTAAAAAATAAAATTAAAA
*
120359879 TTTAAAAAATAAAATTAAAA
1 ATTAAAAAATAAAATTAAAA
120359899 ATTAAAAATATAAAAT
1 ATTAAAAA-ATAAAAT
120359915 AAGTTATCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
ATTAAAAAATAAAATTAAAA
Found at i:120362677 original size:25 final size:25
Alignment explanation
Indices: 120362649--120362698 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
120362639 CAAGTTTCCA
*
120362649 TAAACTTAAGTAAGCTTCGTTAATG
1 TAAACTTAAGTAAGCTTCATTAATG
120362674 TAAACTTAAGTAAGCTTCATTAATG
1 TAAACTTAAGTAAGCTTCATTAATG
120362699 ATACTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (25 bp):
TAAACTTAAGTAAGCTTCATTAATG
Found at i:120368033 original size:27 final size:26
Alignment explanation
Indices: 120368002--120368054 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
120367992 ACTTGATCCA
*
120368002 ATTTATGTAATATACACAAAT-AATTAT
1 ATTTATATAATATA-A-AAATAAATTAT
120368029 ATTTATATAATATAAAAATAAATTAT
1 ATTTATATAATATAAAAATAAATTAT
120368055 TATATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 7 0.29
27 13 0.54
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (26 bp):
ATTTATATAATATAAAAATAAATTAT
Found at i:120376676 original size:23 final size:24
Alignment explanation
Indices: 120376646--120376691 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
120376636 TTTCGGGAGC
120376646 AGAAGGAGAAG-AAGAAAAAGAAA
1 AGAAGGAGAAGAAAGAAAAAGAAA
120376669 AGAAGGAGAAGAAAGAAAAAGAA
1 AGAAGGAGAAGAAAGAAAAAGAA
120376692 GGGGAGGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (24 bp):
AGAAGGAGAAGAAAGAAAAAGAAA
Found at i:120377804 original size:127 final size:123
Alignment explanation
Indices: 120377666--120377900 Score: 357
Period size: 127 Copynumber: 1.9 Consensus size: 123
120377656 TATAGAAAAC
*
120377666 ACTTAAGTAATACATTTGAAACAATTTTTGCTAAAATAATATAAAAAATA-AAATACGTAAATAA
1 ACTTAAATAATACATTTGAAACAATTTTTGCTAAAATAATATAAAAAATACAAA-A--T-AATAA
*
120377730 TATATTTGAAAAAATAATATACGAAAGTAAAAAATA-TGAATAAAGTGGTAATATATAAGAAAT
62 TAAATTT-AAAAAATAATATACGAAAGTAAAAAATACT-AATAAAGTGGTAATATATAAGAAAT
* *
120377793 ACTTAAATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATACGAAAATAATATTAA
1 ACTTAAATAATACATTTGAAACAATTTTTGCTAAAATAATATAAAAAATAC-AAAATAATAATAA
120377858 ATTTAAAAAATAATATACGAAAGTAAAAAATACTAATAAAGTG
65 ATTTAAAAAATAATATACGAAAGTAAAAAATACTAATAAAGTG
120377901 ATAAAATTAG
Statistics
Matches: 101, Mismatches: 4, Indels: 9
0.89 0.04 0.08
Matches are distributed among these distances:
124 37 0.37
125 11 0.11
126 1 0.01
127 48 0.48
128 1 0.01
129 3 0.03
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (123 bp):
ACTTAAATAATACATTTGAAACAATTTTTGCTAAAATAATATAAAAAATACAAAATAATAATAAA
TTTAAAAAATAATATACGAAAGTAAAAAATACTAATAAAGTGGTAATATATAAGAAAT
Found at i:120377839 original size:430 final size:427
Alignment explanation
Indices: 120377353--120378308 Score: 1598
Period size: 429 Copynumber: 2.2 Consensus size: 427
120377343 TTTATTAAAT
*
120377353 TATAAAAAATACTTAAATAATACATTTGAAACAGTTTTTGCTAAAATAATATAAAAAAATACGAA
1 TATAAAAAATACTTAAATAATACATTTGAAACATTTTTTGCTAAAATAATAT-AAAAAATACGAA
*
120377418 AATAATATTAAATTTAAAAAATAATATACAAAAGTAAAAAATACGAATAAAGTGATAAAATCAGG
65 AATAATATTAAATTTAAAAAATAATATACAAAAGTAAAAAATACGAATAAAGTGATAAAATCAGA
*
120377483 GTTATTTATTT-AAAAAATATAAAAAAATACTTAAATAAATAATACATTTAAAATATTATGTACT
130 GTTATTTATTTAAAAAAATAT-AAAAAATACTTAAATAAATAATACATTTAAAACATTATGTACT
* *
120377547 AAAATAATATAAAGAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTAAAAAATTAAA
194 AAAATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCAAAAAATTAAA
* *
120377612 AAATATGAACAATGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAGAAAACACTTAAGTAAT
259 AAATACGAACAATGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAG---T
120377677 ACATTTGAAACAATTTTTGCTAAAATAATAT-AAAAAATAAAATACGTAAATAATATATTTGAAA
321 ACATTTGAAACAATTTTTGCTAAAATAATATAAAAAAATAAAATACGTAAATAATATATTTGAAA
*
120377741 AAATAATATACGAAAGTAAAAAATATGAATAAAGTGGTAATA
386 AAATAATATACGAAAGTAAAAAATACGAATAAAGTGGTAATA
*
120377783 TATAAGAAATACTTAAATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATACGAAA
1 TATAAAAAATACTTAAATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATACGAAA
* * *
120377848 ATAATATTAAATTTAAAAAATAATATACGAAAGTAAAAAATACTAATAAAGTGATAAAATTAGAG
66 ATAATATTAAATTTAAAAAATAATATACAAAAGTAAAAAATACGAATAAAGTGATAAAATCAGAG
*
120377913 TTATTTATTTAAAAAAATATAAAAAATACTTAAATAAATAATACATTTGAAACATTATGTACTAA
131 TTATTTATTTAAAAAAATATAAAAAATACTTAAATAAATAATACATTTAAAACATTATGTACTAA
*
120377978 AATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCCAAAAATTAAAAA
196 AATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCAAAAAATTAAAAA
*
120378043 ATACGAACAATGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAATACTTAAGTACATT
261 ATACGAACAATGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTACATT
* *
120378108 TGAAACAATTTTTGCTAAAATAATATAAAAAAATAAAATACGTAAATAATATATTTTAAGAAATA
326 TGAAACAATTTTTGCTAAAATAATATAAAAAAATAAAATACGTAAATAATATATTTGAAAAAATA
*
120378173 ATATACTAAAGTAAAAAATACGAATAAAGTGGTAATA
391 ATATACGAAAGTAAAAAATACGAATAAAGTGGTAATA
* *
120378210 TATAAAAAACACTTAAATAATACATTTGAAACATTTTTTGCTAAAATGATAT-AAAAATA--AAA
1 TATAAAAAATACTTAAATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATACGAAA
*
120378272 TATACTATATTATATTTTAAAAAATAATATACGAAAA
66 -ATA--ATATTA-AATTTAAAAAATAATATAC-AAAA
120378309 TGTTTTACTT
Statistics
Matches: 496, Mismatches: 23, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
424 3 0.01
425 3 0.01
426 39 0.08
427 126 0.25
428 18 0.04
429 248 0.50
430 59 0.12
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (427 bp):
TATAAAAAATACTTAAATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATACGAAA
ATAATATTAAATTTAAAAAATAATATACAAAAGTAAAAAATACGAATAAAGTGATAAAATCAGAG
TTATTTATTTAAAAAAATATAAAAAATACTTAAATAAATAATACATTTAAAACATTATGTACTAA
AATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCAAAAAATTAAAAA
ATACGAACAATGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTACATT
TGAAACAATTTTTGCTAAAATAATATAAAAAAATAAAATACGTAAATAATATATTTGAAAAAATA
ATATACGAAAGTAAAAAATACGAATAAAGTGGTAATA
Found at i:120378143 original size:148 final size:151
Alignment explanation
Indices: 120377782--120378203 Score: 454
Period size: 148 Copynumber: 2.8 Consensus size: 151
120377772 AAGTGGTAAT
* *
120377782 ATATAAGAAATACTTA-AATAATACATTTGAAACATTTTTTGCTAAAATAATAT----AA-AAAA
1 ATATAAAAAATACTTATAATAATACATTTGAAACAATTTTTGCTAAAATAATATAAAAAATAAAA
* * * * *
120377841 TACGAAAATAATATTAAATTTAAAAAATAATATACGAAAGTAAAAAATACTAATAAAGTGATAAA
66 TACGAAAATAATA-T-ATTTTAAAAAATAATATACAAAAGTAAAAAATACGAACAAAGTGACAAA
*
120377906 ATTAGAGTTATTTATTTAAAAAA
129 ATCAGAGTTATTTATTTAAAAAA
* *
120377929 ATATAAAAAATACTTAAATAAATAATACATTTGAAAC-ATTATGTACTAAAATAATATAAAGAAA
1 ATATAAAAAATACTT--AT-AATAATACATTTGAAACAATT-TTTGCTAAAATAATATAAA-AAA
* * * * * *
120377993 TAAAATATGAAAATAATATATTTTAAAAAATAAAATCCAAAAATTAAAAAATACGAACAATGTGC
61 TAAAATACGAAAATAATATATTTTAAAAAATAATATAC-AAAAGTAAAAAATACGAACAAAGTGA
* * **
120378058 CAAAGTCAGGGTTATTTA-TTAAATTA
125 CAAAATCAGAGTTATTTATTTAAAAAA
*
120378084 ATATAAAAAATAC-T-T-A-AGTACATTTGAAACAATTTTTGCTAAAATAATATAAAAAAATAAA
1 ATATAAAAAATACTTATAATAATACATTTGAAACAATTTTTGCTAAAATAATAT-AAAAAATAAA
* * * *
120378145 ATACGTAAATAATATATTTTAAGAAATAATATACTAAAGTAAAAAATACGAATAAAGTG
65 ATACGAAAATAATATATTTTAAAAAATAATATACAAAAGTAAAAAATACGAACAAAGTG
120378204 GTAATATATA
Statistics
Matches: 229, Mismatches: 32, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
147 35 0.15
148 63 0.28
149 8 0.03
150 2 0.01
151 32 0.14
154 1 0.00
155 35 0.15
156 37 0.16
157 16 0.07
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (151 bp):
ATATAAAAAATACTTATAATAATACATTTGAAACAATTTTTGCTAAAATAATATAAAAAATAAAA
TACGAAAATAATATATTTTAAAAAATAATATACAAAAGTAAAAAATACGAACAAAGTGACAAAAT
CAGAGTTATTTATTTAAAAAA
Found at i:120380288 original size:72 final size:72
Alignment explanation
Indices: 120380149--120380289 Score: 185
Period size: 72 Copynumber: 2.0 Consensus size: 72
120380139 AGTTCGAGCG
* ***
120380149 ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGCTGTACCTGGCAATGACTATTTTTTGG
1 ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGATGTACCTGGCAATGACTATTTCCCGG
120380214 GCTCGTC
66 GCTCGTC
* * ***
120380221 ATCGCATTCACATTCGGCTGATACTTCTTATCATCGGGAT-TTGGTGGGCAATGACTATTTCCCG
1 ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGATGTACCT-GGCAATGACTATTTCCCG
120380285 GGCTC
65 GGCTC
120380290 ATCGGGGGGC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
71 2 0.03
72 57 0.97
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (72 bp):
ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGATGTACCTGGCAATGACTATTTCCCGG
GCTCGTC
Found at i:120380819 original size:17 final size:17
Alignment explanation
Indices: 120380799--120380837 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
120380789 AATACATTAC
120380799 AACATTAATCT-AATTGG
1 AACATTAAT-TAAATTGG
120380816 AACATTAATTAAATTGG
1 AACATTAATTAAATTGG
120380833 AACAT
1 AACAT
120380838 ACTATTACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (17 bp):
AACATTAATTAAATTGG
Found at i:120384899 original size:15 final size:15
Alignment explanation
Indices: 120384875--120384931 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
120384865 TATACCTTCT
120384875 TTTTTCCTTCTCTTTC
1 TTTTT-CTTCTCTTTC
120384891 TTTTTCTTCTC-TTC
1 TTTTTCTTCTCTTTC
*
120384905 TCCTTTCTTTCTCTTT-
1 T-TTTTC-TTCTCTTTC
*
120384921 ATTTTCTTCTC
1 TTTTTCTTCTC
120384932 ATTGCTGCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 9 0.26
15 14 0.40
16 10 0.29
17 2 0.06
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTCTTCTCTTTC
Found at i:120384912 original size:21 final size:19
Alignment explanation
Indices: 120384874--120384919 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
120384864 TTATACCTTC
120384874 TTTT-TTCCTTCTCTTTCT
1 TTTTCTTCCTTCTCTTTCT
120384892 TTTTCTTCTCTTCTCCTTTCT
1 TTTTCTTC-CTTCT-CTTTCT
*
120384913 TTCTCTT
1 TTTTCTT
120384920 TATTTTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 3 0.12
20 5 0.21
21 12 0.50
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTCTTCCTTCTCTTTCT
Found at i:120384928 original size:25 final size:26
Alignment explanation
Indices: 120384879--120384931 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
120384869 CCTTCTTTTT
* *
120384879 TCCTTCTCTTTCTTTTTCTTCTCTTC
1 TCCTTCTCTTTCTCTTTATTCTCTTC
*
120384905 TCCTT-TCTTTCTCTTTATTTTCTTC
1 TCCTTCTCTTTCTCTTTATTCTCTTC
120384930 TC
1 TC
120384932 ATTGCTGCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (26 bp):
TCCTTCTCTTTCTCTTTATTCTCTTC
Found at i:120385124 original size:20 final size:19
Alignment explanation
Indices: 120385080--120385117 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
120385070 CATATTTTTA
120385080 TTTTTTTTTTGTTTTCAGC
1 TTTTTTTTTTGTTTTCAGC
120385099 TCTTTTTTTTTGTTTTCAG
1 T-TTTTTTTTTGTTTTCAG
120385118 AGTTTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.05, C:0.11, G:0.11, T:0.74
Consensus pattern (19 bp):
TTTTTTTTTTGTTTTCAGC
Found at i:120386304 original size:10 final size:10
Alignment explanation
Indices: 120386277--120386319 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
120386267 TTTTTATGTA
120386277 TTTATATATAT
1 TTTATATA-AT
*
120386288 ATT-TATAAT
1 TTTATATAAT
*
120386297 TTTATATACT
1 TTTATATAAT
120386307 TTTATATAAT
1 TTTATATAAT
120386317 TTT
1 TTT
120386320 TCAATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 4 0.15
10 21 0.78
11 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTATATAAT
Found at i:120386312 original size:28 final size:28
Alignment explanation
Indices: 120386268--120386327 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
120386258 ACTTAAATTT
*
120386268 TTTTATGTATTTATATATATATTTAT-AA
1 TTTTATATATTTATATATA-ATTTATCAA
*
120386296 TTTTATATACTTT-TATATAATTTTTCAA
1 TTTTATATA-TTTATATATAATTTATCAA
120386324 TTTT
1 TTTT
120386328 TAAAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.18
28 20 0.71
29 3 0.11
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTTATATATTTATATATAATTTATCAA
Found at i:120388294 original size:29 final size:29
Alignment explanation
Indices: 120388260--120388320 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 29
120388250 AATAACCAAC
120388260 TTATTATCAATTGATAACTATCT-GTGACTAAA
1 TTATTA-CAATTGA-AAC-AT-TAGTGACTAAA
120388292 TTATTACAATTGAAACATTAGTGACTAAA
1 TTATTACAATTGAAACATTAGTGACTAAA
120388321 ATATAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 1 0.04
29 11 0.39
30 3 0.11
31 7 0.25
32 6 0.21
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (29 bp):
TTATTACAATTGAAACATTAGTGACTAAA
Found at i:120393687 original size:36 final size:36
Alignment explanation
Indices: 120393638--120393708 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
120393628 ATGCAAATTA
120393638 CAGAAAAGCTCTAGGAACCATAGACAATAACAGAAG
1 CAGAAAAGCTCTAGGAACCATAGACAATAACAGAAG
*
120393674 CAGAAAAGTTCTAGGAACCATAGACAATAACAGAA
1 CAGAAAAGCTCTAGGAACCATAGACAATAACAGAA
120393709 ACACACATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (36 bp):
CAGAAAAGCTCTAGGAACCATAGACAATAACAGAAG
Found at i:120396870 original size:29 final size:28
Alignment explanation
Indices: 120396834--120396894 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
120396824 TATATATAAA
120396834 ATATATTTTGATTGT-GTTTCAAATATAT
1 ATATATTTTGATTGTAGTTT-AAATATAT
* * *
120396862 ATATAATTTTTATTTTAGTTTAATTATAT
1 ATAT-ATTTTGATTGTAGTTTAAATATAT
120396891 ATAT
1 ATAT
120396895 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.14
29 20 0.71
30 4 0.14
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (28 bp):
ATATATTTTGATTGTAGTTTAAATATAT
Found at i:120400818 original size:43 final size:45
Alignment explanation
Indices: 120400739--120400824 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 45
120400729 AATATTGTCT
* *
120400739 TTTTTTTTTCTACTCAATTATTAATTTGCTTCAATTTGATCACCAC
1 TTTTTTTTTCTACCCAATTATCAATTT-CTTCAATTTGATCACCAC
*
120400785 TTTTTTTTTC-ACCCAATTATCAATTT-TTTAATTTGATCAC
1 TTTTTTTTTCTACCCAATTATCAATTTCTTCAATTTGATCAC
120400825 TTAATTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 13 0.35
45 14 0.38
46 10 0.27
ACGTcount: A:0.24, C:0.19, G:0.03, T:0.53
Consensus pattern (45 bp):
TTTTTTTTTCTACCCAATTATCAATTTCTTCAATTTGATCACCAC
Found at i:120412851 original size:29 final size:30
Alignment explanation
Indices: 120412797--120412855 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
120412787 TTTTAAAATT
*
120412797 ATATATAAATTTTGATTTAATGTATAATTAA
1 ATATATAAATTTTAATTTAA-GTATAATTAA
*
120412828 ATATATAAATTTTAATTTGA-TATAATTA
1 ATATATAAATTTTAATTTAAGTATAATTA
120412856 TACATAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (30 bp):
ATATATAAATTTTAATTTAAGTATAATTAA
Found at i:120413101 original size:29 final size:30
Alignment explanation
Indices: 120413064--120413128 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
120413054 AAATTTTAAG
120413064 TATAAAATTACACA-AAATCAAAATTCATA
1 TATAAAATTACACATAAATCAAAATTCATA
* * * *
120413093 TATATAATTGCATATTAAATCATAATTCATA
1 TATAAAATTACACA-TAAATCAAAATTCATA
120413124 TATAA
1 TATAA
120413129 TTTTAAGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 11 0.38
31 18 0.62
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (30 bp):
TATAAAATTACACATAAATCAAAATTCATA
Found at i:120417911 original size:39 final size:39
Alignment explanation
Indices: 120417868--120417946 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
120417858 TATCATTTGA
120417868 ATGATTCATTGTCCATTGCACATCTGTAAATAAGCCTGT
1 ATGATTCATTGTCCATTGCACATCTGTAAATAAGCCTGT
120417907 ATGATTCATTGTCCATTGCACATCTGTAAATAAGCCTGT
1 ATGATTCATTGTCCATTGCACATCTGTAAATAAGCCTGT
120417946 A
1 A
120417947 ATTAGAAAGC
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:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (39 bp):
ATGATTCATTGTCCATTGCACATCTGTAAATAAGCCTGT
Found at i:120420168 original size:11 final size:11
Alignment explanation
Indices: 120420089--120420173 Score: 53
Period size: 11 Copynumber: 8.1 Consensus size: 11
120420079 AAAATATTTG
120420089 TATTATTTTAA
1 TATTATTTTAA
120420100 T-TTAATATTTAA
1 TATT-AT-TTTAA
120420112 TA--ATTTT-A
1 TATTATTTTAA
120420120 TATATATTTT-A
1 TAT-TATTTTAA
120420131 T-TTA-TTTAA
1 TATTATTTTAA
120420140 -ATT-TTTTATA
1 TATTATTTTA-A
*
120420150 CAATTATTTTAA
1 -TATTATTTTAA
120420162 TATTATTTTAA
1 TATTATTTTAA
120420173 T
1 T
120420174 GTTTATATTA
Statistics
Matches: 60, Mismatches: 1, Indels: 26
0.69 0.01 0.30
Matches are distributed among these distances:
8 6 0.10
9 12 0.20
10 6 0.10
11 21 0.35
12 10 0.17
13 5 0.08
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATTTTAA
Found at i:120420507 original size:30 final size:30
Alignment explanation
Indices: 120420471--120420530 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
120420461 TTGAATATTC
*
120420471 TTTTTGAAATATTTATA-TTTATATTTTTTA
1 TTTTTG-AATATTTAGACTTTATATTTTTTA
*
120420501 TTTTTGAATATTTAGACTTTTTATTTTTTA
1 TTTTTGAATATTTAGACTTTATATTTTTTA
120420531 AAATTCTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (30 bp):
TTTTTGAATATTTAGACTTTATATTTTTTA
Found at i:120420511 original size:23 final size:23
Alignment explanation
Indices: 120420485--120420528 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
120420475 TGAAATATTT
* *
120420485 ATATTTATATTTTTTATTTTTGA
1 ATATTTAGACTTTTTATTTTTGA
120420508 ATATTTAGACTTTTTATTTTT
1 ATATTTAGACTTTTTATTTTT
120420529 TAAAATTCTT
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:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (23 bp):
ATATTTAGACTTTTTATTTTTGA
Found at i:120425111 original size:20 final size:20
Alignment explanation
Indices: 120425061--120425113 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
120425051 TGGAGGATAA
*
120425061 AATGTAATTTTATTATTATT
1 AATGTAATTTTATAATTATT
*
120425081 AATTTAAAATTTTATAAATTA-T
1 AATGT--AATTTTAT-AATTATT
120425103 AATGTAATTTT
1 AATGTAATTTT
120425114 TTATTTTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 10 0.37
22 13 0.48
23 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
AATGTAATTTTATAATTATT
Found at i:120425296 original size:30 final size:31
Alignment explanation
Indices: 120425256--120425314 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
120425246 ATTGAAGGGC
* *
120425256 TTAATTAAAATTTT-AAAATTTTTAAAAGAA
1 TTAATGAAAATTTTCAAAAATTTTAAAAGAA
120425286 TTAATGAAAATTTTCAAAAATTTTAAAAG
1 TTAATGAAAATTTTCAAAAATTTTAAAAG
120425315 TTTAACTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (31 bp):
TTAATGAAAATTTTCAAAAATTTTAAAAGAA
Found at i:120439890 original size:22 final size:22
Alignment explanation
Indices: 120439865--120439908 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
120439855 TATATTATTT
120439865 TCTAAATTAAAAATTACTAAAA
1 TCTAAATTAAAAATTACTAAAA
* *
120439887 TCTAAATTACAAATTATTAAAA
1 TCTAAATTAAAAATTACTAAAA
120439909 CTACTTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (22 bp):
TCTAAATTAAAAATTACTAAAA
Found at i:120440845 original size:25 final size:25
Alignment explanation
Indices: 120440813--120440862 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
120440803 AAACTCATAT
120440813 AAAAATAAAAATATTTTTTAGTCAA
1 AAAAATAAAAATATTTTTTAGTCAA
*
120440838 AAAAATAAAAATATTTTTTTGTCAA
1 AAAAATAAAAATATTTTTTAGTCAA
120440863 TAGTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (25 bp):
AAAAATAAAAATATTTTTTAGTCAA
Found at i:120441996 original size:19 final size:21
Alignment explanation
Indices: 120441949--120441996 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
120441939 ATTAAAACAA
*
120441949 AAGGAAATGAATAAATTAAAT
1 AAGGATATGAATAAATTAAAT
**
120441970 AAAAATATG-ATAAA-TAAAT
1 AAGGATATGAATAAATTAAAT
120441989 AAGGATAT
1 AAGGATAT
120441997 AATTCCTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 11 0.50
20 5 0.23
21 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (21 bp):
AAGGATATGAATAAATTAAAT
Found at i:120442820 original size:18 final size:18
Alignment explanation
Indices: 120442799--120442837 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
120442789 TATACACATT
120442799 TAAAAATAT-AAAAATATA
1 TAAAAAT-TCAAAAATATA
*
120442817 TAAAAATTCAAATATATA
1 TAAAAATTCAAAAATATA
120442835 TAA
1 TAA
120442838 TCTAGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAATTCAAAAATATA
Found at i:120442912 original size:13 final size:13
Alignment explanation
Indices: 120442894--120442938 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
120442884 TAACATTATT
120442894 AAAAATTGTAAAA
1 AAAAATTGTAAAA
** *
120442907 AAAAATAAT-ATA
1 AAAAATTGTAAAA
120442919 AAAAATTGTAAAA
1 AAAAATTGTAAAA
120442932 AAAAATT
1 AAAAATT
120442939 CAATCTCATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AAAAATTGTAAAA
Found at i:120446648 original size:16 final size:16
Alignment explanation
Indices: 120446627--120446661 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
120446617 TAAGGCATCT
120446627 GTGGTACTGATTAAAG
1 GTGGTACTGATTAAAG
120446643 GTGGTACTGATTAAAG
1 GTGGTACTGATTAAAG
120446659 GTG
1 GTG
120446662 AGTGATATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.34, T:0.31
Consensus pattern (16 bp):
GTGGTACTGATTAAAG
Found at i:120450536 original size:16 final size:16
Alignment explanation
Indices: 120450515--120450545 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
120450505 GTATGATTTA
*
120450515 TTAAAAATATTAAATT
1 TTAAAAATAATAAATT
120450531 TTAAAAATAATAAAT
1 TTAAAAATAATAAAT
120450546 ATAAAAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAAAATAATAAATT
Found at i:120462648 original size:31 final size:31
Alignment explanation
Indices: 120462585--120462648 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
120462575 TTTAAGGATT
* * * **
120462585 AATATATAATTAGTTCTTGAACTTGTTTAAA
1 AATATATAATTAGTACCTAAACTTGTCCAAA
*
120462616 AATATCTAATTAGTACCTAAACTTGTCCAAA
1 AATATATAATTAGTACCTAAACTTGTCCAAA
120462647 AA
1 AA
120462649 ATACCTAGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (31 bp):
AATATATAATTAGTACCTAAACTTGTCCAAA
Found at i:120463878 original size:2 final size:2
Alignment explanation
Indices: 120463873--120463905 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
120463863 AAAAATAAGA
120463873 AT AT AT 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 AT AT AT A
120463906 AGAATGATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:120464153 original size:2 final size:2
Alignment explanation
Indices: 120464146--120464199 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
120464136 ATTTGGTTAG
120464146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120464188 AT AT AT AT AT AT
1 AT AT AT AT AT AT
120464200 TTGTACTAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120472337 original size:90 final size:90
Alignment explanation
Indices: 120472183--120472410 Score: 323
Period size: 90 Copynumber: 2.5 Consensus size: 90
120472173 AAAATAATTG
* * * *
120472183 TATT-ATTTCTTTAGAATTTTTGTATTTTTTTATATCTGTAAATTTAATGTAGTTGTCTAGGATT
1 TATTAATTTC-TTAGAATGTTTGTATTTTTTTATATATGTAAACTTAATGTACTTGTCTAGGATT
120472247 TAAGGTTTCATTTTTATATTTTCGTA
65 TAAGGTTTCATTTTTATATTTTCGTA
* * * *
120472273 TATTAATTTCTTAGAATGTTTGTATTTTTTTATATTTGTATACTTAATGTACTTGTTTATGATTT
1 TATTAATTTCTTAGAATGTTTGTATTTTTTTATATATGTAAACTTAATGTACTTGTCTAGGATTT
*
120472338 AAGGTTTCATTTTTATATTTTCGTG
66 AAGGTTTCATTTTTATATTTTCGTA
* * * *
120472363 TATTAATTTATTAGAATGTTCGTATTTTTTTGTATATGTAAATTTAAT
1 TATTAATTTCTTAGAATGTTTGTATTTTTTTATATATGTAAACTTAAT
120472411 TTAATCCATA
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
90 118 0.96
91 5 0.04
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (90 bp):
TATTAATTTCTTAGAATGTTTGTATTTTTTTATATATGTAAACTTAATGTACTTGTCTAGGATTT
AAGGTTTCATTTTTATATTTTCGTA
Found at i:120473976 original size:162 final size:162
Alignment explanation
Indices: 120473673--120473976 Score: 375
Period size: 162 Copynumber: 1.9 Consensus size: 162
120473663 TTGCACCTAA
* * * ** *
120473673 TTTTTTTTTTAAATACACTGGTGCCTCCCATCAGTGTCCCAGAGTAAAAAAAAAATTGTCTTGGG
1 TTTTTTTTTTAAATACACTGGTGCCGCCAATCAGTGTCCCAAAGTAAAAAAAAAATTACCTTGAG
* *
120473738 GACCAAAAATTGTACCTAGTGCCGGCCATCTACTGGCCAACACCAATTTTTTTTTAAGTGTACTT
66 GACCAAAAATTGTACCTAGTGCCAGCCATCTACTGGCCAACACCAATTTTTTTTTAAATGTACTT
* *
120473803 GGTGTCAGCCATTAAATGGCCAGCACCCAAAT
131 AGTGCCAGCCATTAAATGGCCAGCACCCAAAT
* *
120473835 TTTTTTTTTTAAATACCCTGGTGCCGGCAATCAGTGTCCCAAAGTAAAAAAAAATATTACCTT-A
1 TTTTTTTTTTAAATACACTGGTGCCGCCAATCAGTGTCCCAAAGTAAAAAAAAA-ATTACCTTGA
* * * * *
120473899 GGACTCGAAAAA-TGTACCTGGTGCCAGCTAT-TACATGGTCAGCACCATTTTTTTTTTAAAT-T
65 GGAC-C-AAAAATTGTACCTAGTGCCAGCCATCTAC-TGGCCAACACCAATTTTTTTTTAAATGT
120473961 CAC-TAGTGCCAGCCAT
127 -ACTTAGTGCCAGCCAT
120473977 CAGTGTTCCA
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
162 68 0.57
163 47 0.39
164 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (162 bp):
TTTTTTTTTTAAATACACTGGTGCCGCCAATCAGTGTCCCAAAGTAAAAAAAAAATTACCTTGAG
GACCAAAAATTGTACCTAGTGCCAGCCATCTACTGGCCAACACCAATTTTTTTTTAAATGTACTT
AGTGCCAGCCATTAAATGGCCAGCACCCAAAT
Found at i:120474059 original size:108 final size:110
Alignment explanation
Indices: 120473802--120474063 Score: 289
Period size: 108 Copynumber: 2.4 Consensus size: 110
120473792 TAAGTGTACT
* * * * * *
120473802 TGGTGTCAGCCATTAAATGGCCAGCACCCAAATTTTTTTTTTTAAATACCCTGGTGCCGGCAATC
1 TGGTGCCAGCCATTACATGGTCAGCA-CC-AA--TTTTTTTTTAAATACACTAGTGCCAGCAATC
* *
120473867 AGTGTCCCAAAGTAAAAAAAAATATTACCTTAGGACTCGAAAAATGTACC
62 AGTGTCCCAAAGT-AAAAAAAATATTACCTTAGGACACGAAAAATATACC
* * * *
120473917 TGGTGCCAGCTATTACATGGTCAGCACCATTTTTTTTTTAAATTCACTAGTGCCAGCCATCAGTG
1 TGGTGCCAGCCATTACATGGTCAGCACCAATTTTTTTTTAAATACACTAGTGCCAGCAATCAGTG
* ** *
120473982 TTCCAAAGT-AAAAAAA-ATTGGCTTGGGACACAGAAAAA-ATACC
66 TCCCAAAGTAAAAAAAATATTACCTTAGGACAC-GAAAAATATACC
120474025 TGGTGCCAGCCATCTAC-TGGTCAGCACCAATTTTTTTTT
1 TGGTGCCAGCCAT-TACATGGTCAGCACCAATTTTTTTTT
120474064 TTTATATCTC
Statistics
Matches: 127, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
108 48 0.38
109 16 0.13
111 38 0.30
113 1 0.01
114 2 0.02
115 22 0.17
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (110 bp):
TGGTGCCAGCCATTACATGGTCAGCACCAATTTTTTTTTAAATACACTAGTGCCAGCAATCAGTG
TCCCAAAGTAAAAAAAATATTACCTTAGGACACGAAAAATATACC
Found at i:120474067 original size:111 final size:112
Alignment explanation
Indices: 120473802--120474065 Score: 306
Period size: 111 Copynumber: 2.4 Consensus size: 112
120473792 TAAGTGTACT
* * * * * * *
120473802 TGGTGTCAGCCATTAAATGGCCAGCACCCAAATTTTTTTTTTTAAATACCCTGGTGCCGGCAATC
1 TGGTGCCAGCCATTACATGGTCAGCA-CC-AATTTTTTTTTTTAAATTCACTAGTGCCAGCAATC
* *
120473867 AGTGTCCCAAAGTAAAAAAAAATATTACCTTAGGACTCGAAAAATGTACC
64 AGTGTCCCAAAGT-AAAAAAAATATTACCTTAGGACACGAAAAATATACC
* *
120473917 TGGTGCCAGCTATTACATGGTCAGCACC-A-TTTTTTTTTTAAATTCACTAGTGCCAGCCATCAG
1 TGGTGCCAGCCATTACATGGTCAGCACCAATTTTTTTTTTTAAATTCACTAGTGCCAGCAATCAG
* ** *
120473980 TGTTCCAAAGT-AAAAAAA-ATTGGCTTGGGACACAGAAAAA-ATACC
66 TGTCCCAAAGTAAAAAAAATATTACCTTAGGACAC-GAAAAATATACC
120474025 TGGTGCCAGCCATCTAC-TGGTCAGCACCAATTTTTTTTTTT
1 TGGTGCCAGCCAT-TACATGGTCAGCACCAATTTTTTTTTTT
120474066 TATATCTCTA
Statistics
Matches: 129, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
108 38 0.29
109 17 0.13
110 10 0.08
111 39 0.30
112 1 0.01
114 2 0.02
115 22 0.17
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (112 bp):
TGGTGCCAGCCATTACATGGTCAGCACCAATTTTTTTTTTTAAATTCACTAGTGCCAGCAATCAG
TGTCCCAAAGTAAAAAAAATATTACCTTAGGACACGAAAAATATACC
Found at i:120476885 original size:15 final size:15
Alignment explanation
Indices: 120476848--120476883 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
120476838 GAGCAATTCT
120476848 TTTATTTCTTTTAAC
1 TTTATTTCTTTTAAC
*
120476863 TTTATTTCTTTT-TC
1 TTTATTTCTTTTAAC
120476877 TTTATTT
1 TTTATTT
120476884 TCCATTATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTATTTCTTTTAAC
Found at i:120477373 original size:30 final size:28
Alignment explanation
Indices: 120477334--120477401 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 28
120477324 CTGGTACAGA
*
120477334 AAAAGGTAATTAATTATCTCTTAATTATATG
1 AAAA-GTAATTAATTAACT-TTAATTATA-G
* *
120477365 AAAAGTAATTATTTAACTTTCATTATAG
1 AAAAGTAATTAATTAACTTTAATTATAG
*
120477393 AAAATTAAT
1 AAAAGTAAT
120477402 GTAGGTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 9 0.27
29 8 0.24
30 12 0.36
31 4 0.12
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (28 bp):
AAAAGTAATTAATTAACTTTAATTATAG
Found at i:120481567 original size:3 final size:3
Alignment explanation
Indices: 120481559--120481604 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
120481549 TCAAATATAA
120481559 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
120481605 GATGAAAGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:120490897 original size:13 final size:13
Alignment explanation
Indices: 120490879--120490906 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
120490869 TCTCCAGACA
120490879 CTCTACTTTATTT
1 CTCTACTTTATTT
120490892 CTCTACTTTATTT
1 CTCTACTTTATTT
120490905 CT
1 CT
120490907 TTTTCACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.25, G:0.00, T:0.61
Consensus pattern (13 bp):
CTCTACTTTATTT
Found at i:120495641 original size:32 final size:32
Alignment explanation
Indices: 120495600--120495660 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
120495590 CAACAATGAT
120495600 AAGGATGGTTGGTTTCAGTGATAGTAAAAGGG
1 AAGGATGGTTGGTTTCAGTGATAGTAAAAGGG
**
120495632 AAGGATGGTTGGTTTTGGTGATAGTAAAA
1 AAGGATGGTTGGTTTCAGTGATAGTAAAA
120495661 TGGATGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.31, C:0.02, G:0.36, T:0.31
Consensus pattern (32 bp):
AAGGATGGTTGGTTTCAGTGATAGTAAAAGGG
Found at i:120495668 original size:24 final size:24
Alignment explanation
Indices: 120495636--120495685 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
120495626 AAAGGGAAGG
* * *
120495636 ATGGTTGGTTTTGGTGATAGTAAA
1 ATGGATGGTTTCGATGATAGTAAA
120495660 ATGGATGGTTTCGATGATAGTAAA
1 ATGGATGGTTTCGATGATAGTAAA
120495684 AT
1 AT
120495686 CTGTTGATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.38
Consensus pattern (24 bp):
ATGGATGGTTTCGATGATAGTAAA
Found at i:120496565 original size:2 final size:2
Alignment explanation
Indices: 120496558--120496584 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
120496548 TACAAGGCAC
120496558 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
120496585 CTTAAAGATG
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:120501763 original size:13 final size:13
Alignment explanation
Indices: 120501745--120501770 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
120501735 GAATTTAACC
120501745 TAAAATTTTCATT
1 TAAAATTTTCATT
120501758 TAAAATTTTCATT
1 TAAAATTTTCATT
120501771 ATACTTGTAA
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAAATTTTCATT
Found at i:120509465 original size:44 final size:45
Alignment explanation
Indices: 120509407--120509496 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 45
120509397 TTTATTTATT
* * *
120509407 ATATGTATATTTTTTTTCTTTGTACAATGTAACATTTTAAGAGAG
1 ATATGTATATTTTTTTTCTATGTACAACGTAACACTTTAAGAGAG
*
120509452 ATATGTATA-TTTTTTTCTATGTACAACGTTACACTTTAAGAGAG
1 ATATGTATATTTTTTTTCTATGTACAACGTAACACTTTAAGAGAG
120509496 A
1 A
120509497 GATTCTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 32 0.78
45 9 0.22
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (45 bp):
ATATGTATATTTTTTTTCTATGTACAACGTAACACTTTAAGAGAG
Found at i:120515243 original size:21 final size:21
Alignment explanation
Indices: 120515217--120515259 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
120515207 AGCGGAAGGT
120515217 GGAAAGCAAAATGAGATACAG
1 GGAAAGCAAAATGAGATACAG
* *
120515238 GGAAAGTAAAATGAGATGCAG
1 GGAAAGCAAAATGAGATACAG
120515259 G
1 G
120515260 AAGATTGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.33, T:0.12
Consensus pattern (21 bp):
GGAAAGCAAAATGAGATACAG
Found at i:120520612 original size:35 final size:35
Alignment explanation
Indices: 120520573--120520644 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
120520563 GTCTAAAATC
120520573 GCATATCTTTGAAGATCT-CCTACCATATTTGCCAA
1 GCATATCTTTGAAGAT-TACCTACCATATTTGCCAA
* *
120520608 GCATATCTTTGAAGATTACTTTCCATATTTGCCAA
1 GCATATCTTTGAAGATTACCTACCATATTTGCCAA
120520643 GC
1 GC
120520645 TCCGGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 1 0.03
35 33 0.97
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (35 bp):
GCATATCTTTGAAGATTACCTACCATATTTGCCAA
Found at i:120525836 original size:35 final size:35
Alignment explanation
Indices: 120525797--120525868 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
120525787 GTCTAAGATC
120525797 GCATATCTTTGAAGATCT-CCTGCCATATTTGCCAA
1 GCATATCTTTGAAGAT-TACCTGCCATATTTGCCAA
* *
120525832 GCATATCTTTGAAGATTACTTTCCATATTTGCCAA
1 GCATATCTTTGAAGATTACCTGCCATATTTGCCAA
120525867 GC
1 GC
120525869 TCCGGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 1 0.03
35 33 0.97
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (35 bp):
GCATATCTTTGAAGATTACCTGCCATATTTGCCAA
Found at i:120538825 original size:35 final size:37
Alignment explanation
Indices: 120538786--120538857 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
120538776 GGAATTGTAT
* *
120538786 TTTGT-TTTTTAATT-AA-AAAAATTGTGTATTGAATC
1 TTTGTATTTTT-ATTAAAGAAAAATTATATATTGAATC
*
120538821 TTTGTATTTTTTTTAAAGAAAAATTATATATTGAATC
1 TTTGTATTTTTATTAAAGAAAAATTATATATTGAATC
120538858 AAAGATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 7 0.23
36 7 0.23
37 17 0.55
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (37 bp):
TTTGTATTTTTATTAAAGAAAAATTATATATTGAATC
Found at i:120543797 original size:3 final size:3
Alignment explanation
Indices: 120543789--120543817 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
120543779 ATAAGATCAA
120543789 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
120543818 ACTTTTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:120562618 original size:47 final size:47
Alignment explanation
Indices: 120562524--120562619 Score: 106
Period size: 47 Copynumber: 2.0 Consensus size: 47
120562514 AGATAAAAAA
* * * * *
120562524 ATAAAAATTACATTAATACTCATTTAATTATACTTTTTCAGTTAATT
1 ATAAAAATAACATAAATAATCATTTAATTATACTTTTTCACTCAATT
*
120562571 ATAAAAATAACA-AAATAATCATTTAAATTAT-TTTTTATCACTCAATT
1 ATAAAAATAACATAAATAATCATTT-AATTATACTTTT-TCACTCAATT
120562618 AT
1 AT
120562620 CTTATATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
46 14 0.34
47 27 0.66
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.44
Consensus pattern (47 bp):
ATAAAAATAACATAAATAATCATTTAATTATACTTTTTCACTCAATT
Found at i:120562850 original size:3 final size:3
Alignment explanation
Indices: 120562842--120562882 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
120562832 TTAGTGACAA
120562842 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
120562883 GAAATTTGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:120568732 original size:25 final size:26
Alignment explanation
Indices: 120568691--120568739 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
120568681 ACTCAACTTG
120568691 AAATTTTTTCAAATCAAATCGAGTAA
1 AAATTTTTTCAAATCAAATCGAGTAA
*
120568717 AAATTTTTT-AAGTCAAATCGAGT
1 AAATTTTTTCAAATCAAATCGAGT
120568740 CGAGTTAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (26 bp):
AAATTTTTTCAAATCAAATCGAGTAA
Found at i:120570173 original size:23 final size:23
Alignment explanation
Indices: 120570147--120570197 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
120570137 AAATTTAAAT
* *
120570147 TTCAAGTTAA-TCAAATCAAGTTA
1 TTCAAGTCAATTCAAAT-AAGTAA
120570170 TTCAAGTCAATTCAAATAAGTAA
1 TTCAAGTCAATTCAAATAAGTAA
120570193 TTCAA
1 TTCAA
120570198 TTTTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (23 bp):
TTCAAGTCAATTCAAATAAGTAA
Found at i:120570357 original size:13 final size:14
Alignment explanation
Indices: 120570313--120570357 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
120570303 ATCTCTGAAC
*
120570313 AAAAATTACAAAAAT
1 AAAAATT-CTAAAAT
120570328 AAAAATTCTAAATAT
1 AAAAATTCTAAA-AT
120570343 AAAAATT-TAAAAT
1 AAAAATTCTAAAAT
120570356 AA
1 AA
120570358 TTATAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 4 0.14
14 8 0.29
15 16 0.57
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAATTCTAAAAT
Found at i:120570371 original size:10 final size:10
Alignment explanation
Indices: 120570340--120570441 Score: 58
Period size: 9 Copynumber: 10.6 Consensus size: 10
120570330 AAATTCTAAA
120570340 TATAAAAATT
1 TATAAAAATT
120570350 TA-AAATAA-T
1 TATAAA-AATT
120570359 TATAAAAATT
1 TATAAAAATT
120570369 TATAAAAA-T
1 TATAAAAATT
* *
120570378 T-TCACAATT
1 TATAAAAATT
**
120570387 TAT-ATTATT
1 TATAAAAATT
120570396 TA-AAAAA-T
1 TATAAAAATT
120570404 TATAAAAATT
1 TATAAAAATT
*
120570414 TCAAAAATAATT
1 T-ATAAA-AATT
*
120570426 CTA-AAAAATA
1 -TATAAAAATT
120570436 TATAAA
1 TATAAA
120570442 GAAAGTTAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 24
0.69 0.08 0.23
Matches are distributed among these distances:
8 7 0.10
9 27 0.38
10 25 0.35
11 7 0.10
12 5 0.07
13 1 0.01
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (10 bp):
TATAAAAATT
Found at i:120576007 original size:6 final size:6
Alignment explanation
Indices: 120575996--120576022 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
120575986 GGTGGCCTAG
120575996 TGACGA TGACGA TGACGA TGACGA TGA
1 TGACGA TGACGA TGACGA TGACGA TGA
120576023 TGTGAGTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.19
Consensus pattern (6 bp):
TGACGA
Found at i:120594261 original size:31 final size:31
Alignment explanation
Indices: 120594203--120594261 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
120594193 AACTTAGTAC
** *
120594203 TTTAAATAAAAATTTTTAAATATTTCAATAG
1 TTTAAATAAAAAAATTTAAATAGTTCAATAG
*
120594234 TTTAAATAAAAAAATTTGAATAGTTCAA
1 TTTAAATAAAAAAATTTAAATAGTTCAA
120594262 CAATCATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (31 bp):
TTTAAATAAAAAAATTTAAATAGTTCAATAG
Found at i:120606842 original size:41 final size:42
Alignment explanation
Indices: 120606762--120606846 Score: 111
Period size: 41 Copynumber: 2.0 Consensus size: 42
120606752 TTAAATTTCA
* *
120606762 ATTTCATTTGATTAAATCATAAAGTATATCCCTTCTAATTCG
1 ATTTCATTTGATTAAATCATAAAATATATCACTTCTAATTCG
* *
120606804 ATTT-ATTTGATTAAATTATAAAATATCTGCACTT-TAATTCG
1 ATTTCATTTGATTAAATCATAAAATATAT-CACTTCTAATTCG
120606845 AT
1 AT
120606847 ACAGTTGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 30 0.79
42 8 0.21
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (42 bp):
ATTTCATTTGATTAAATCATAAAATATATCACTTCTAATTCG
Found at i:120607873 original size:31 final size:31
Alignment explanation
Indices: 120607836--120607916 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
120607826 TAATGGTCAT
*
120607836 TAAACTATTTAAAAAATTTTATTTAAATTAC
1 TAAACTATTTAAAAAATTTTATTTAAATCAC
*
120607867 TGAACTATTTAAAAAATTTTATTTAAATCAC
1 TAAACTATTTAAAAAATTTTATTTAAATCAC
*
120607898 TAAACTATTAAAAAAATTT
1 TAAACTATTTAAAAAATTT
120607917 AAACAGTCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.42
Consensus pattern (31 bp):
TAAACTATTTAAAAAATTTTATTTAAATCAC
Found at i:120613960 original size:14 final size:14
Alignment explanation
Indices: 120613920--120613967 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
120613910 GTTCCTATGG
*
120613920 TTTATCTTGTACTAA
1 TTTATTTTGTA-TAA
120613935 TTATATTTTTGTATAA
1 TT-TA-TTTTGTATAA
*
120613951 TTTATTTTGTACAA
1 TTTATTTTGTATAA
120613965 TTT
1 TTT
120613968 CGATTAAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 12 0.41
15 4 0.14
16 7 0.24
17 6 0.21
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTATTTTGTATAA
Found at i:120614703 original size:19 final size:19
Alignment explanation
Indices: 120614679--120614718 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
120614669 TATGATTTGT
120614679 ATTTCGGATTTTAGTTTCA
1 ATTTCGGATTTTAGTTTCA
120614698 ATTTCGGATTTTAGTTTCA
1 ATTTCGGATTTTAGTTTCA
120614717 AT
1 AT
120614719 CTCTGTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.53
Consensus pattern (19 bp):
ATTTCGGATTTTAGTTTCA
Found at i:120625010 original size:33 final size:33
Alignment explanation
Indices: 120624957--120625022 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
120624947 GATCCTCTTG
*
120624957 CTTTTCCAGGCAGTGCTTTATGACCCTGTATAC
1 CTTTTCCAGGAAGTGCTTTATGACCCTGTATAC
* *
120624990 CTTTTCCCGGAAGTGTTTTATGACCCTGTATAC
1 CTTTTCCAGGAAGTGCTTTATGACCCTGTATAC
120625023 TAGTGATAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (33 bp):
CTTTTCCAGGAAGTGCTTTATGACCCTGTATAC
Found at i:120629034 original size:19 final size:21
Alignment explanation
Indices: 120628987--120629058 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 21
120628977 ACTAATAATC
*
120628987 AATTTTATAATAA-TATAAACAT
1 AATTTTA-AAAAATTATAAA-AT
*
120629009 AA-ATTAAAAAATTA-AAAAT
1 AATTTTAAAAAATTATAAAAT
*
120629028 -ATTTT-AAAAA-TATAAATT
1 AATTTTAAAAAATTATAAAAT
120629046 AATTTTAAAAAAT
1 AATTTTAAAAAAT
120629059 AATTTTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
17 2 0.05
18 10 0.25
19 9 0.22
20 12 0.30
21 5 0.12
22 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTTTAAAAAATTATAAAAT
Found at i:120629038 original size:18 final size:19
Alignment explanation
Indices: 120628987--120629060 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 19
120628977 ACTAATAATC
120628987 AATTTTATAATAATATAAACAT
1 AATTTTA-AA-AATATAAA-AT
* *
120629009 AAATTAAAAAAT-TAAAA-
1 AATTTTAAAAATATAAAAT
*
120629026 ATATTTTAAAAATATAAATT
1 A-ATTTTAAAAATATAAAAT
120629046 AATTTTAAAAA-ATAA
1 AATTTTAAAAATATAA
120629061 TTTTTTTGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
17 1 0.02
18 14 0.32
19 18 0.41
20 4 0.09
21 2 0.05
22 5 0.11
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTTTAAAAATATAAAAT
Found at i:120634815 original size:45 final size:45
Alignment explanation
Indices: 120634751--120634843 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
120634741 TTTCTTAATA
120634751 TTTAATATAGCTTAATCATGCTATTATAATTTCTTTATGTCTCTC
1 TTTAATATAGCTTAATCATGCTATTATAATTTCTTTATGTCTCTC
120634796 TTTAATATAGCTTAATCATGCTATTATAATTTCTTTATGTCTCTC
1 TTTAATATAGCTTAATCATGCTATTATAATTTCTTTATGTCTCTC
120634841 TTT
1 TTT
120634844 TAATCATTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (45 bp):
TTTAATATAGCTTAATCATGCTATTATAATTTCTTTATGTCTCTC
Found at i:120641501 original size:5 final size:5
Alignment explanation
Indices: 120641491--120641517 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
120641481 TTTTGGACCT
120641491 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
120641518 CTGAATCTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:120657403 original size:85 final size:86
Alignment explanation
Indices: 120657237--120657403 Score: 264
Period size: 85 Copynumber: 1.9 Consensus size: 86
120657227 TATCATTTTC
120657237 TCATATAAGATGTATTAGGGCTACAAATAAAAGGATTTTTTTTTTTTTTACAATTTTATTTATTA
1 TCATATAAGATGTATTAGGGCTACAAATAAAAGGA-----TTTTTTTTTACAATTTTATTTATTA
120657302 TGATAAGAAAGTGATATCAGTATATA
61 TGATAAGAAAGTGATATCAGTATATA
* *
120657328 TCATATAAGATGTATTAGGGTTACAAATGAAAGGA-TTTTTTTTACAATTTTATTTATTATGATA
1 TCATATAAGATGTATTAGGGCTACAAATAAAAGGATTTTTTTTTACAATTTTATTTATTATGATA
120657392 AGAAAGTGATAT
66 AGAAAGTGATAT
120657404 TAGTTTAATT
Statistics
Matches: 74, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
85 41 0.55
91 33 0.45
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (86 bp):
TCATATAAGATGTATTAGGGCTACAAATAAAAGGATTTTTTTTTACAATTTTATTTATTATGATA
AGAAAGTGATATCAGTATATA
Found at i:120657625 original size:22 final size:23
Alignment explanation
Indices: 120657586--120657632 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
120657576 TAAAGGAGTC
*
120657586 AATAAAAATAAGAGATGTTAGTT
1 AATAAAAATAAGAGATGTTAATT
120657609 AATAAAAA-AA-AGTATGTTAATT
1 AATAAAAATAAGAG-ATGTTAATT
120657631 AA
1 AA
120657633 ATCATCACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 2 0.09
22 12 0.55
23 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (23 bp):
AATAAAAATAAGAGATGTTAATT
Found at i:120659457 original size:2 final size:2
Alignment explanation
Indices: 120659450--120659474 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
120659440 TGCAAGTAGT
120659450 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
120659475 GTGTGTGTTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:120669157 original size:16 final size:17
Alignment explanation
Indices: 120669122--120669158 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
120669112 TATTTTTTAA
120669122 AAAATTTATACAAAAAT
1 AAAATTTATACAAAAAT
120669139 AAAATTT-TA-AAAAATT
1 AAAATTTATACAAAAA-T
120669155 AAAA
1 AAAA
120669159 AGGGAGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 7 0.37
17 7 0.37
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTTATACAAAAAT
Found at i:120671988 original size:17 final size:17
Alignment explanation
Indices: 120671964--120672008 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
120671954 CTTGTTTAAT
120671964 AATATTTTTATCCCAAA
1 AATATTTTTATCCCAAA
* * *
120671981 AGTATTTTTTTCTCAAA
1 AATATTTTTATCCCAAA
120671998 AATACTTTTTA
1 AATA-TTTTTA
120672009 AAAACAATAC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (17 bp):
AATATTTTTATCCCAAA
Found at i:120673796 original size:16 final size:17
Alignment explanation
Indices: 120673770--120673806 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
120673760 ACTTGATACA
120673770 TAAATTTTGATCTTTAT
1 TAAATTTTGATCTTTAT
*
120673787 TAAA-TTTGATTTTTAT
1 TAAATTTTGATCTTTAT
120673803 TAAA
1 TAAA
120673807 ATATATACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (17 bp):
TAAATTTTGATCTTTAT
Found at i:120677954 original size:11 final size:12
Alignment explanation
Indices: 120677940--120677972 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
120677930 TTTTCACTTG
120677940 TTTTTTTTCC-T
1 TTTTTTTTCCAT
120677951 TTTTTTTTCCAT
1 TTTTTTTTCCAT
120677963 TTTATTTTTC
1 TTT-TTTTTC
120677973 TTCTTTCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 4 0.20
13 6 0.30
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTTCCAT
Found at i:120679432 original size:20 final size:22
Alignment explanation
Indices: 120679394--120679438 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
120679384 AGCATTGTTA
120679394 GTATTACTATTATTATTATTAT
1 GTATTACTATTATTATTATTAT
*
120679416 GTATTA-TA-TATTTTTATTAT
1 GTATTACTATTATTATTATTAT
120679436 GTA
1 GTA
120679439 CGTGTATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (22 bp):
GTATTACTATTATTATTATTAT
Found at i:120679554 original size:3 final size:3
Alignment explanation
Indices: 120679548--120679599 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
120679538 CATCATCATC
120679548 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
120679596 ATT A
1 ATT A
120679600 GTTTATGCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:120679862 original size:16 final size:16
Alignment explanation
Indices: 120679802--120679861 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 16
120679792 TATGTTGTCT
120679802 TATTATATTTTAATATTA
1 TATTATATTTT-ATA-TA
120679820 TATTATATATTTATATA
1 TATTATAT-TTTATATA
*
120679837 TACATATATCTTTTATATA
1 T--AT-TATATTTTATATA
120679856 TATTAT
1 TATTAT
120679862 CATGTATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 3 0.08
17 5 0.14
18 11 0.30
19 14 0.38
20 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTATATTTTATATA
Found at i:120684699 original size:32 final size:33
Alignment explanation
Indices: 120684663--120684740 Score: 115
Period size: 32 Copynumber: 2.4 Consensus size: 33
120684653 TAGTTTGCAA
120684663 ATATGTGGGGTTCACATACAT-ATGGCTCACAT
1 ATATGTGGGGTTCACATACATAATGGCTCACAT
* * *
120684695 ATATG-GGGATTCACATACATAATGGTTCGCAT
1 ATATGTGGGGTTCACATACATAATGGCTCACAT
120684727 ATATGTGGGGTTCA
1 ATATGTGGGGTTCA
120684741 ATTTTGATTG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 14 0.35
32 19 0.47
33 7 0.17
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (33 bp):
ATATGTGGGGTTCACATACATAATGGCTCACAT
Found at i:120696331 original size:38 final size:38
Alignment explanation
Indices: 120696289--120696374 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
120696279 CACACTAGAA
* *
120696289 TGGCACCTAGTGACTCATCGG-ATAGTTCGAAGTAAAGT
1 TGGCACCCAGTGACTCATCGGCATAG-CCGAAGTAAAGT
* * *
120696327 TGGCACCCAGTGTCTTATCGGCCTAGCCGAAGTAAAG-
1 TGGCACCCAGTGACTCATCGGCATAGCCGAAGTAAAGT
*
120696364 TGGTACCCAGT
1 TGGCACCCAGT
120696375 ACCTCATTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
37 10 0.24
38 28 0.68
39 3 0.07
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (38 bp):
TGGCACCCAGTGACTCATCGGCATAGCCGAAGTAAAGT
Done.