Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 325 of 362
Found at i:108747205 original size:30 final size:30
Alignment explanation
Indices: 108747169--108747228 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
108747159 TAAAATATTA
*
108747169 AATTTTTAATTTTTA-AGTTTTTAATTTTTT
1 AATTTTTAATTTTTATA-TTTTAAATTTTTT
108747199 AATTTTTAATTTTTATATTTTAAATTTTTT
1 AATTTTTAATTTTTATATTTTAAATTTTTT
108747229 TGAAGATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (30 bp):
AATTTTTAATTTTTATATTTTAAATTTTTT
Found at i:108747813 original size:29 final size:29
Alignment explanation
Indices: 108747759--108747814 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
108747749 TTATATTGAA
*
108747759 TAAATATAAATATTTATGTATACAATATG
1 TAAATATAAATATTGATGTATACAATATG
108747788 TAAATATAAA-A-TGATGTTATATCAATA
1 TAAATATAAATATTGATG-TATA-CAATA
108747815 ATTGTGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.17
28 5 0.21
29 15 0.62
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (29 bp):
TAAATATAAATATTGATGTATACAATATG
Found at i:108748086 original size:21 final size:21
Alignment explanation
Indices: 108748034--108748088 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
108748024 CCCTAAAAAA
*
108748034 TAAACCATAAACCCCAATCCC
1 TAAACCATAAACCCCAACCCC
* *
108748055 TAACCCTTAAACCCCAACCCC
1 TAAACCATAAACCCCAACCCC
*
108748076 TAAATCATAAACC
1 TAAACCATAAACC
108748089 ATAAATCTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (21 bp):
TAAACCATAAACCCCAACCCC
Found at i:108748333 original size:7 final size:7
Alignment explanation
Indices: 108748292--108748343 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
108748282 TATAAAACAA
*
108748292 TAAACCC
1 TAAACTC
*
108748299 TAAACCC
1 TAAACTC
*
108748306 TAAACTT
1 TAAACTC
*
108748313 TAAACTT
1 TAAACTC
108748320 TAAACTC
1 TAAACTC
108748327 TAAACTC
1 TAAACTC
*
108748334 AAAACTC
1 TAAACTC
108748341 TAA
1 TAA
108748344 TCACAGAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAACTC
Found at i:108748646 original size:40 final size:40
Alignment explanation
Indices: 108748602--108748742 Score: 192
Period size: 40 Copynumber: 3.5 Consensus size: 40
108748592 TTTCAAAAAA
108748602 CGCCGCTAATGCTCGATCTTTAGCGGCATTTTTTAGAAAG
1 CGCCGCTAATGCTCGATCTTTAGCGGCATTTTTTAGAAAG
* *
108748642 CGCCGCTAATGCTCGATCTTTAGCGGCTTTTTTTGGAAAG
1 CGCCGCTAATGCTCGATCTTTAGCGGCATTTTTTAGAAAG
* * *** *
108748682 AGCCACTAATGCTCGATCTTTAGAACCATTTTTCAGAAAG
1 CGCCGCTAATGCTCGATCTTTAGCGGCATTTTTTAGAAAG
* *
108748722 CACCGCTAATTCTCGATCTTT
1 CGCCGCTAATGCTCGATCTTT
108748743 CACTAATGCT
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (40 bp):
CGCCGCTAATGCTCGATCTTTAGCGGCATTTTTTAGAAAG
Found at i:108748775 original size:58 final size:59
Alignment explanation
Indices: 108748685--108748800 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 59
108748675 TGGAAAGAGC
*
108748685 CACTAATGCTCGATCTTTAGAACCATTTTTCA-GAAAGCACCGCTAATTCTCGATCTTT
1 CACTAATGCTCGATCTTTAGAACCATTTTTCAGGAAAGCACCGCTAATGCTCGATCTTT
* *** * * *
108748743 CACTAATGCTTGATCTTTAGCGTCGTTTTTCAGGAAAGCGCCGCTAATGCTTGATCTT
1 CACTAATGCTCGATCTTTAGAACCATTTTTCAGGAAAGCACCGCTAATGCTCGATCTT
108748801 CAGTGGCGTT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
58 27 0.55
59 22 0.45
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (59 bp):
CACTAATGCTCGATCTTTAGAACCATTTTTCAGGAAAGCACCGCTAATGCTCGATCTTT
Found at i:108748825 original size:99 final size:98
Alignment explanation
Indices: 108748647--108748839 Score: 226
Period size: 99 Copynumber: 2.0 Consensus size: 98
108748637 GAAAGCGCCG
** *
108748647 CTAATGCTCGATCTTTAGCGGCTTTTTTTGGAAAGAGCCACTAATGCTCGATCTTTAGAACCATT
1 CTAATGCTCGATCTTTAGCGGCTTTTTCAGGAAAGAGCCACTAATGCTCGATCTTCAGAACCATT
* *
108748712 TTTCAGAAAGCACCGCTAATTCTCGATCTTTCA
66 TTCCAGAAAACACCGCTAATTCTCGATCTTTCA
* * * * * *** *
108748745 CTAATGCTTGATCTTTAGCGTCGTTTTTCAGGAAAGCGCCGCTAATGCTTGATCTTCAGTGGCGT
1 CTAATGCTCGATCTTTAGCGGC-TTTTTCAGGAAAGAGCCACTAATGCTCGATCTTCAGAACCAT
*
108748810 TTTCC-GAAAAACACCGTTAATTCTCGATCT
65 TTTCCAG-AAAACACCGCTAATTCTCGATCT
108748840 ATTGCGGTGT
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
98 21 0.27
99 57 0.73
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (98 bp):
CTAATGCTCGATCTTTAGCGGCTTTTTCAGGAAAGAGCCACTAATGCTCGATCTTCAGAACCATT
TTCCAGAAAACACCGCTAATTCTCGATCTTTCA
Found at i:108749302 original size:52 final size:50
Alignment explanation
Indices: 108749207--108749306 Score: 137
Period size: 52 Copynumber: 2.0 Consensus size: 50
108749197 CTGGACTTCC
*
108749207 TCACACGGGCAGCCACACGGCCATGTCAAATTGGCAGAATCGAAGCACGAT
1 TCACACGGGCAACCACACGGCCATGTCAAATTGGCAGAATCGAA-CACGAT
* * **
108749258 TCACACGGGCAAACCACACGGCCGTGTCAATTTGGCAGGCTCGAACACG
1 TCACACGGGC-AACCACACGGCCATGTCAAATTGGCAGAATCGAACACG
108749307 GCTTGAAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 14 0.33
52 29 0.67
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (50 bp):
TCACACGGGCAACCACACGGCCATGTCAAATTGGCAGAATCGAACACGAT
Found at i:108752511 original size:43 final size:43
Alignment explanation
Indices: 108752452--108752536 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
108752442 GATAAGATCT
**
108752452 TCAATCTTCAGTCTGCT-TCCTTGCTACCTCA-AGAAGATAAGGC
1 TCAATCTTCAACCTGCTCT-CTTGCTACCTCAGAG-AGATAAGGC
108752495 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
1 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
108752537 TTGGTGGCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
43 35 0.92
44 3 0.08
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (43 bp):
TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC
Found at i:108752738 original size:177 final size:178
Alignment explanation
Indices: 108752434--108753111 Score: 822
Period size: 177 Copynumber: 3.8 Consensus size: 178
108752424 TCTCCTCTAC
* *
108752434 CTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGGCTCA-
1 CTTAGGGAGATAAGATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAAGAAGATAAGAC-CAC
* ** *
108752498 -ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG-TTGGTGGCCTAAATCTGATCCATT
65 CATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGTATAAATCTGCTCCATT
* *
108752561 GCCGGTATATGGAGATAAGATTTGATGTCTTTGGTCTGTTCCACTACTG
130 GCCGATACATGGAGATAAGATTTGATGTCTTTGGTCTGTTCCACTACTG
* *
108752610 CTTAGGGAAATAAGA-CATTCAATCTTCAGTCTACTTCCTTGCTACACT-AGGAAGATAAGACCA
1 CTTAGGGAGATAAGATC-TTCAATCTTCAGTCTACTTCCTTGCTAC-CTCAAGAAGATAAGACCA
* * * *
108752673 CCATCTTCAACATGCTCTCTTGCTACCTTAGAGAGATGAGGCTTAG-GGTTTAAATCTGCTCCAT
64 CCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGTATAAATCTGCTCCAT
* ** * *
108752737 TGCCGATACATGGAGATAAGA-TTCACCATCTTTCGATCTGCTCCACTACTG
129 TGCCGATACATGGAGATAAGATTTGA-TGTCTTT-GGTCTGTTCCACTACTG
* * * * *
108752788 CTT-GGAGAGACAACATCTTCAATCTTCAGTCTACTTCTTTGCTACCTCAGGAAGATAAGA-CTC
1 CTTAGG-GAGATAAGATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAAGAAGATAAGACCAC
* * *
108752851 CATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGC-TAGTGGTAAAAATCTACTCCATT
65 CATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGTATAAATCTGCTCCATT
* * * *
108752915 GTCGATACATGGAGATAAGATTTGTTGTCTTTGGTTTGTTCCACAACTG
130 GCCGATACATGGAGATAAGATTTGATGTCTTTGGTCTGTTCCACTACTG
* * * * * *
108752964 CTTAGAGAGATAAGATCTTTAATCTTCAGTCTACTTCCTTGTTACATCAAGAAGATAAGACTACA
1 CTTAGGGAGATAAGATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAAGAAGATAAGACCACC
** * * * *
108753029 ATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAAGC-TGGTGGCTA-AAATTTGCTCTATT
66 ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGG-TATAAATCTGCTCCATT
108753092 GCCGATACATGGAGATAAGA
130 GCCGATACATGGAGATAAGA
108753112 CTCGCCATCT
Statistics
Matches: 429, Mismatches: 58, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
175 3 0.01
176 121 0.28
177 234 0.55
178 70 0.16
179 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (178 bp):
CTTAGGGAGATAAGATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAAGAAGATAAGACCACC
ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGTATAAATCTGCTCCATTG
CCGATACATGGAGATAAGATTTGATGTCTTTGGTCTGTTCCACTACTG
Found at i:108752957 original size:354 final size:353
Alignment explanation
Indices: 108752354--108753152 Score: 1024
Period size: 354 Copynumber: 2.3 Consensus size: 353
108752344 CAACTTCAAG
* **
108752354 GAGATGAGGCCTAGGGCTTAAATTTGCTCCACTGCCGATACATAAAGATAAGATTCGCC-TCTTT
1 GAGATGAGG-CTAGGGCTTAAATTTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTT
* * * * * * *
108752418 CAATTTTCTCCTCTAC--CTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCT
65 CGATCTACTCCACTACTGCTTAGGGAGACAACATCTTCAATCTTCAGTCTACTTCCTTGCTACCT
* * * *
108752481 CAAGAAGATAAGGCTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTTGGTGGCC
130 CAAGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCA
* * * *
108752546 TAAATCTGATCCATTGCCGGTATATGGAGATAAGATTTGATGTCTTTGGTCTGTTCCACTACTGC
195 AAAATCTGATCCATTGCCGATACATGGAGATAAGATTTGATGTCTTTGGTCTGTTCCACAACTGC
* *
108752611 TTAGGGAAATAAGA-CATTCAATCTTCAGTCTACTTCCTTGCTACA-CTAGGAAGATAAGACCAC
260 TTAGAGAAATAAGATC-TTCAATCTTCAGTCTACTTCCTTGCTACATC-AAGAAGATAAGACCAC
* ** *
108752674 CATCTTCAACATGCTCTCTTGCTACCTTAGA
323 AATCGCCAACATGCTCTCTTGCTACCTCAGA
* * *
108752705 GAGATGAGGCTTAGGGTTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTT
1 GAGATGAGGC-TAGGGCTTAAATTTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTT
* *
108752770 CGATCTGCTCCACTACTGCTT-GGAGAGACAACATCTTCAATCTTCAGTCTACTTCTTTGCTACC
65 CGATCTACTCCACTACTGCTTAGG-GAGACAACATCTTCAATCTTCAGTCTACTTCCTTGCTACC
* * * *
108752834 TCAGGAAGATAAGACTCCATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGT
129 TCAAGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGC
* * *
108752899 AAAAATCT-ACTCCATTGTCGATACATGGAGATAAGATTTGTTGTCTTTGGTTTGTTCCACAACT
194 AAAAATCTGA-TCCATTGCCGATACATGGAGATAAGATTTGATGTCTTTGGTCTGTTCCACAACT
* * * *
108752963 GCTTAGAGAGATAAGATCTTTAATCTTCAGTCTACTTCCTTGTTACATCAAGAAGATAAGACTAC
258 GCTTAGAGAAATAAGATCTTCAATCTTCAGTCTACTTCCTTGCTACATCAAGAAGATAAGACCAC
*
108753028 AATCGCCAACCTGCTCTCTTGCTACCTCAGA
323 AATCGCCAACATGCTCTCTTGCTACCTCAGA
* * * * * *
108753059 GAGATAAAGCTGGTGGCTAAAATTTGCTCTATTGCCGATACATGGAGATAAGACTCGCCATC-TT
1 GAGATGAGGCTAG-GGCTTAAATTTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTT
*
108753123 CGATCTACTTCAC-ACTGCTTCA-GGAGACAA
65 CGATCTACTCCACTACTGCTT-AGGGAGACAA
108753153 GACCTGTAAA
Statistics
Matches: 386, Mismatches: 51, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
350 1 0.00
351 51 0.13
352 31 0.08
353 19 0.05
354 282 0.73
355 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (353 bp):
GAGATGAGGCTAGGGCTTAAATTTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTTC
GATCTACTCCACTACTGCTTAGGGAGACAACATCTTCAATCTTCAGTCTACTTCCTTGCTACCTC
AAGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCAA
AAATCTGATCCATTGCCGATACATGGAGATAAGATTTGATGTCTTTGGTCTGTTCCACAACTGCT
TAGAGAAATAAGATCTTCAATCTTCAGTCTACTTCCTTGCTACATCAAGAAGATAAGACCACAAT
CGCCAACATGCTCTCTTGCTACCTCAGA
Found at i:108754372 original size:66 final size:65
Alignment explanation
Indices: 108754252--108754375 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 65
108754242 ATCCCCTTTG
* * *
108754252 GTCTCAAGGCGCCCTTTGCAGGTTTTCACTTTGCCTCTCATTTTTTTTCTTTTTTATTTTTATTG
1 GTCTCAAAGCGCCCTTTGCAGGTTTTCACTTTGCCTCT-ATTTTTTTCCATTTTTATTTTTATTG
108754317 A
65 A
* *
108754318 GTCTCAAAGCGTCCTTTGCGGGTTTTCACTTTGGCC-CT-TTATCTTTTCCATTTTTATT
1 GTCTCAAAGCGCCCTTTGCAGGTTTTCACTTT-GCCTCTATT-T-TTTTCCATTTTTATT
108754376 AGGTCACAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
64 2 0.04
65 1 0.02
66 44 0.88
67 3 0.06
ACGTcount: A:0.12, C:0.23, G:0.15, T:0.51
Consensus pattern (65 bp):
GTCTCAAAGCGCCCTTTGCAGGTTTTCACTTTGCCTCTATTTTTTTCCATTTTTATTTTTATTGA
Found at i:108762304 original size:19 final size:19
Alignment explanation
Indices: 108762280--108762317 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
108762270 ATTCAACTTG
108762280 TTCATTTTTACTCTCTGAC
1 TTCATTTTTACTCTCTGAC
108762299 TTCATTTTTACTCTCTGAC
1 TTCATTTTTACTCTCTGAC
108762318 AAACTTTTCT
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:0.16, C:0.26, G:0.05, T:0.53
Consensus pattern (19 bp):
TTCATTTTTACTCTCTGAC
Found at i:108766703 original size:21 final size:21
Alignment explanation
Indices: 108766677--108766719 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
108766667 TTAATTTTCT
*
108766677 ACTCCTACTAACAATCTAACA
1 ACTCCTACTAACAAGCTAACA
*
108766698 ACTCCTACTAATAAGCTAACA
1 ACTCCTACTAACAAGCTAACA
108766719 A
1 A
108766720 ATCTCCCTAG
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:0.44, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACTCCTACTAACAAGCTAACA
Found at i:108770564 original size:20 final size:20
Alignment explanation
Indices: 108770531--108770569 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
108770521 CAAAAATATT
*
108770531 AAAAATTATTAAATTTTAAC
1 AAAAATTATTAAATATTAAC
108770551 AAAAA-TATTAAAATATTAA
1 AAAAATTATT-AAATATTAA
108770570 AAATTAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATTATTAAATATTAAC
Found at i:108770573 original size:29 final size:29
Alignment explanation
Indices: 108770502--108770603 Score: 118
Period size: 29 Copynumber: 3.5 Consensus size: 29
108770492 TAAAAGTTAG
*
108770502 AAAAATTATTAAATTTTAACAAAAATATT
1 AAAAATTATAAAATTTTAACAAAAATATT
*
108770531 AAAAATTATTAAATTTTAACAAAAATATT
1 AAAAATTATAAAATTTTAACAAAAATATT
** **
108770560 AAAATATTA-AAAATTAGAA-AAAAATAGAA
1 AAAA-ATTATAAAATTTTAACAAAAATA-TT
108770589 AAAAATTATAAAATT
1 AAAAATTATAAAATT
108770604 GTAGAAAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
28 11 0.17
29 50 0.77
30 4 0.06
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
AAAAATTATAAAATTTTAACAAAAATATT
Found at i:108770584 original size:11 final size:11
Alignment explanation
Indices: 108770568--108770601 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
108770558 TTAAAATATT
108770568 AAAAATTAGAA
1 AAAAATTAGAA
108770579 AAAAA-TAGAA
1 AAAAATTAGAA
*
108770589 AAAAATTATAA
1 AAAAATTAGAA
108770600 AA
1 AA
108770602 TTGTAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (11 bp):
AAAAATTAGAA
Found at i:108770601 original size:10 final size:10
Alignment explanation
Indices: 108770568--108770773 Score: 78
Period size: 10 Copynumber: 21.3 Consensus size: 10
108770558 TTAAAATATT
*
108770568 AAAAATTAGA
1 AAAAATTATA
* *
108770578 AAAAAATAGAA
1 AAAAATTA-TA
108770589 AAAAATTAT-
1 AAAAATTATA
*
108770598 -AAAATTGTA
1 AAAAATTATA
*
108770607 GAAAATT-TA
1 AAAAATTATA
*
108770616 TAAAAATTGTA
1 -AAAAATTATA
***
108770627 AATTTTTAT-
1 AAAAATTATA
*
108770636 AAAAATTGTA
1 AAAAATTATA
*
108770646 AAAAA-AATA
1 AAAAATTATA
*
108770655 TAAAAATTGTA
1 -AAAAATTATA
*
108770666 AAAAAATATA
1 AAAAATTATA
*
108770676 AAATA-TAT-
1 AAAAATTATA
*
108770684 AGAAA-TATAA
1 AAAAATTAT-A
108770694 AAAAATTAT-
1 AAAAATTATA
*
108770703 -AAAATTTTA
1 AAAAATTATA
* * **
108770712 TAAAGTCGTA
1 AAAAATTATA
108770722 AGAAAATTATA
1 A-AAAATTATA
*
108770733 AAAAA-TGTA
1 AAAAATTATA
108770742 AAAAATTAT-
1 AAAAATTATA
108770751 -AAAATTCATA
1 AAAAATT-ATA
108770761 AAAAATTATA
1 AAAAATTATA
108770771 AAA
1 AAA
108770774 TTTATTGTAC
Statistics
Matches: 144, Mismatches: 34, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
8 26 0.18
9 22 0.15
10 68 0.47
11 28 0.19
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.30
Consensus pattern (10 bp):
AAAAATTATA
Found at i:108770601 original size:19 final size:20
Alignment explanation
Indices: 108770587--108770773 Score: 124
Period size: 19 Copynumber: 9.8 Consensus size: 20
108770577 AAAAAAATAG
108770587 AAAAAAATTAT-AAAATTGT
1 AAAAAAATTATAAAAATTGT
* *
108770606 AGAAAATTTATAAAAATTGT
1 AAAAAAATTATAAAAATTGT
***
108770626 -AAATTTTTATAAAAATTGT
1 AAAAAAATTATAAAAATTGT
*
108770645 AAAAAAAATATAAAAATTGT
1 AAAAAAATTATAAAAATTGT
*
108770665 AAAAAAA-TAT-AAAA-TAT
1 AAAAAAATTATAAAAATTGT
* * * *
108770682 ATAGAAATATAAAAAAATTAT
1 AAAAAAAT-TATAAAAATTGT
** * *
108770703 -AAAATTTTAT-AAAGTCGT
1 AAAAAAATTATAAAAATTGT
* *
108770721 AAGAAAATTATAAAAAATGT
1 AAAAAAATTATAAAAATTGT
*
108770741 -AAAAAATTAT-AAAATT-C
1 AAAAAAATTATAAAAATTGT
108770758 ATAAAAAATTATAAAA
1 A-AAAAAATTATAAAA
108770774 TTTATTGTAC
Statistics
Matches: 127, Mismatches: 30, Indels: 21
0.71 0.17 0.12
Matches are distributed among these distances:
17 7 0.06
18 14 0.11
19 58 0.46
20 45 0.35
21 3 0.02
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (20 bp):
AAAAAAATTATAAAAATTGT
Found at i:108770713 original size:29 final size:28
Alignment explanation
Indices: 108770649--108770744 Score: 81
Period size: 29 Copynumber: 3.5 Consensus size: 28
108770639 AATTGTAAAA
**
108770649 AAAATATA-AAAATTGTAAAAAAA-TAT
1 AAAATATATAAAATCATAAAAAAATTAT
108770675 AAAATATATAGAAAT-ATAAAAAAATTAT
1 AAAATATATA-AAATCATAAAAAAATTAT
* * * *
108770703 AAAATTTTATAAAGTCGTAAGAAAATTAT
1 AAAA-TATATAAAATCATAAAAAAATTAT
* *
108770732 AAAAAATGTAAAA
1 AAAATATATAAAA
108770745 AATTATAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
26 8 0.14
27 9 0.16
28 19 0.34
29 20 0.36
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (28 bp):
AAAATATATAAAATCATAAAAAAATTAT
Found at i:108770972 original size:45 final size:45
Alignment explanation
Indices: 108770903--108770995 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
108770893 AATTGGGGTC
* *
108770903 TTTAACTTTAACAGTCAACGGTTAAAGTTAATGGTTAAAGGGCAT
1 TTTAACTTTAACAGTCAACAGTTAAAGCTAATGGTTAAAGGGCAT
108770948 TTTAACTTTAACAGTCAACAGTTAAAGCTAATGGTTAAAGGGCAT
1 TTTAACTTTAACAGTCAACAGTTAAAGCTAATGGTTAAAGGGCAT
108770993 TTT
1 TTT
108770996 TTATGCATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (45 bp):
TTTAACTTTAACAGTCAACAGTTAAAGCTAATGGTTAAAGGGCAT
Found at i:108771025 original size:19 final size:20
Alignment explanation
Indices: 108771003--108771052 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
108770993 TTTTTATGCA
*
108771003 TTTTATAATTTTTTTA-TTT
1 TTTTATAATTTTTATACTTT
* *
108771022 TTTTATGATATTTATACTTT
1 TTTTATAATTTTTATACTTT
*
108771042 TTTTCTAATTT
1 TTTTATAATTT
108771053 ATAATAAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTATAATTTTTATACTTT
Found at i:108771035 original size:28 final size:28
Alignment explanation
Indices: 108770992--108771045 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
108770982 TTAAAGGGCA
108770992 TTTTTTATGCATTTTATAATTTTTTTAT
1 TTTTTTATGCATTTTATAATTTTTTTAT
*
108771020 TTTTTTATG-ATATTTATACTTTTTTT
1 TTTTTTATGCAT-TTTATAATTTTTTT
108771046 CTAATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (28 bp):
TTTTTTATGCATTTTATAATTTTTTTAT
Found at i:108771079 original size:27 final size:26
Alignment explanation
Indices: 108771049--108771100 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
108771039 TTTTTTTCTA
108771049 ATTTATAATAAAT-TTTAAATATTTTTT
1 ATTT-TAATAAATATTT-AATATTTTTT
* *
108771076 ATTTTTATTAATATTTAATATTTTT
1 ATTTTAATAAATATTTAATATTTTT
108771101 AGTTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTTTAATAAATATTTAATATTTTTT
Found at i:108771385 original size:90 final size:90
Alignment explanation
Indices: 108771218--108771393 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 90
108771208 TAACGGTCAA
* * * ** * * * **
108771218 AGGGCATTTTTTATGCATTTTGACAATTCAAGTACCCAATTTTGTGCAAAAAAAATGTAGGGGTT
1 AGGGCATTTTTAATGCATTTTGAAAATGCAAGTACCCAATTGAGTGAAAAAAAAAAGTAAGGACT
*
108771283 TAATTGCTTTTTTTGTAAAAGCTTG
66 TAATTACTTTTTTTGTAAAAGCTTG
*
108771308 AGGGCATTTTTAATGCATTTT-AAAAGTGCAAGTACCTAATTGAGTGTAAAAAAAAAAGTAAGGA
1 AGGGCATTTTTAATGCATTTTGAAAA-TGCAAGTACCCAATTGAGTG-AAAAAAAAAAGTAAGGA
*
108771372 CTTAATTACTTTTTTTGAAAAA
64 CTTAATTACTTTTTTTGTAAAA
108771394 TTTGAGAGTT
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
89 3 0.04
90 36 0.51
91 32 0.45
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.37
Consensus pattern (90 bp):
AGGGCATTTTTAATGCATTTTGAAAATGCAAGTACCCAATTGAGTGAAAAAAAAAAGTAAGGACT
TAATTACTTTTTTTGTAAAAGCTTG
Found at i:108775587 original size:20 final size:20
Alignment explanation
Indices: 108775562--108775613 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
108775552 ATTAAATCAT
108775562 AAGTATCGATACCCTACTCA
1 AAGTATCGATACCCTACTCA
* * *
108775582 AAGTATCAATACCTTACTCT
1 AAGTATCGATACCCTACTCA
108775602 AAGTATCGATAC
1 AAGTATCGATAC
108775614 TATGCCCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.29
Consensus pattern (20 bp):
AAGTATCGATACCCTACTCA
Found at i:108778028 original size:20 final size:20
Alignment explanation
Indices: 108778003--108778046 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
108777993 AAAGTAAAAT
108778003 TCTTTAATCTATTCACTTTC
1 TCTTTAATCTATTCACTTTC
108778023 TCTTTAATCTATTCACTTTC
1 TCTTTAATCTATTCACTTTC
108778043 TCTT
1 TCTT
108778047 CAACTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.25, G:0.00, T:0.57
Consensus pattern (20 bp):
TCTTTAATCTATTCACTTTC
Found at i:108780288 original size:42 final size:42
Alignment explanation
Indices: 108780175--108780323 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 42
108780165 ATGTGATATA
* * *
108780175 GTGTAAGACCATGTCTGGGACATTGGCATCAATTTAAGATTTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATC-GTATATGATTT-C
* *
108780219 GTGTACGACCATGTCTGGGGCATTGGCATCGTATATGATTTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTC
* * * *
108780261 GTGTAAGATCC-TGTCTAGGACAGTGGCATCGATATTTGATATC
1 GTGTAAGA-CCATGTCTGGGACATTGGCATCG-TATATGATTTC
* *
108780304 ATGTAAGACCATATCTGGGA
1 GTGTAAGACCATGTCTGGGA
108780324 TATAGCATTG
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 27 0.31
43 33 0.38
44 28 0.32
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTC
Found at i:108780484 original size:24 final size:25
Alignment explanation
Indices: 108780440--108780498 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
108780430 TCAGGTATGT
108780440 ATGAAATGT-ATATGTTATTCAA-G
1 ATGAAATGTGATATGTTATTCAATG
108780463 AATGAAATGTGAGTATG-T-TTCAATG
1 -ATGAAATGTGA-TATGTTATTCAATG
*
108780488 ATGACATGTGA
1 ATGAAATGTGA
108780499 ATTACATGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 24 0.77
25 3 0.10
26 4 0.13
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (25 bp):
ATGAAATGTGATATGTTATTCAATG
Found at i:108783939 original size:13 final size:13
Alignment explanation
Indices: 108783923--108783955 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
108783913 TTTAATTAAA
*
108783923 TTAGTTAATTAGT
1 TTAGATAATTAGT
108783936 TTAGATAATTAGT
1 TTAGATAATTAGT
108783949 TTA-ATAA
1 TTAGATAA
108783956 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:108787293 original size:22 final size:23
Alignment explanation
Indices: 108787262--108787304 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
108787252 GGGTGAACTT
108787262 GATAGGAAAAACACGGGTGTGGG
1 GATAGGAAAAACACGGGTGTGGG
* *
108787285 GATA-GAAAACCACTGGTGTG
1 GATAGGAAAAACACGGGTGTG
108787305 TTAAGAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.35, C:0.12, G:0.37, T:0.16
Consensus pattern (23 bp):
GATAGGAAAAACACGGGTGTGGG
Found at i:108789353 original size:7 final size:6
Alignment explanation
Indices: 108789296--108789369 Score: 60
Period size: 6 Copynumber: 12.2 Consensus size: 6
108789286 CTTTTTTTTA
* * * * *
108789296 TTTATT CTTATT TTTATT ATATTA-T ATTATT TTTCTT TTTCTT TTTCTT
1 TTTATT TTTATT TTTATT -T-TTATT TTTATT TTTATT TTTATT TTTATT
* *
108789345 TTGATT TTTATT TTTATT TTCATT T
1 TTTATT TTTATT TTTATT TTTATT T
108789370 CAATTTTATT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
5 3 0.05
6 48 0.86
7 2 0.04
8 3 0.05
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:108792291 original size:13 final size:13
Alignment explanation
Indices: 108792275--108792307 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
108792265 TTTAATTAAA
*
108792275 TTAGTTAATTAGT
1 TTAGATAATTAGT
108792288 TTAGATAATTAGT
1 TTAGATAATTAGT
108792301 TTA-ATAA
1 TTAGATAA
108792308 ATAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:108805766 original size:22 final size:22
Alignment explanation
Indices: 108805732--108805786 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
108805722 TATTTTAAAT
*
108805732 AATTAA-TATTTTGAGAATATA
1 AATTAATTATTTTGAGAATAGA
108805753 AATTAATTATTTTGAGAATAGA
1 AATTAATTATTTTGAGAATAGA
108805775 AATTAATTATTT
1 AATTAATTATTT
108805787 AGTTGAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (22 bp):
AATTAATTATTTTGAGAATAGA
Found at i:108827671 original size:14 final size:14
Alignment explanation
Indices: 108827652--108827679 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
108827642 TCTATATAAC
108827652 TATGATAAAATCAA
1 TATGATAAAATCAA
108827666 TATGATAAAATCAA
1 TATGATAAAATCAA
108827680 GAACTTTTTA
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:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
TATGATAAAATCAA
Found at i:108832358 original size:41 final size:40
Alignment explanation
Indices: 108832290--108832572 Score: 235
Period size: 41 Copynumber: 7.0 Consensus size: 40
108832280 TATAAAACAC
* **
108832290 AGAGCAATAGCGGC-GTTTTGACAAAAACGCCGCTAAAAAT
1 AGAGCAATAGCGGCACTTTTG-GTAAAACGCCGCTAAAAAT
* * * *
108832330 TGAGCAATAGCGGCATTTTTTGTTAAAACGCCGCCAAAAAT
1 AGAGCAATAGCGGCA-CTTTTGGTAAAACGCCGCTAAAAAT
* * **
108832371 AGAGCATTAGCGGCACTTTTGGTGAAACGCCGCTAAAGACC
1 AGAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAA-AAT
* * * **
108832412 AGAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGACG
1 AGAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAA-AAT
* * ** * * **
108832453 AGAGCATTAGCAGTGCTTTTGGTGAAACGCTGCTAAAGACC
1 AGAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAA-AAT
* * **
108832494 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACC
1 AGAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAA-AAT
* *
108832535 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AGAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAAA
108832573 GTCATGTAAC
Statistics
Matches: 217, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
40 32 0.15
41 180 0.83
42 5 0.02
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (40 bp):
AGAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAAAAT
Found at i:108832472 original size:82 final size:82
Alignment explanation
Indices: 108832347--108832571 Score: 344
Period size: 82 Copynumber: 2.8 Consensus size: 82
108832337 TAGCGGCATT
* * ** *
108832347 TTTTGTTAAAACGCCGCCAAA-AATAGAGCATTAGCGGCACTTTTGGTGAAACGCCGCTAAAGAC
1 TTTTGGTAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGAC
108832411 CAGAGCATTAGCGGCGC
66 CAGAGCATTAGCGGCGC
* * * * *
108832428 TTTTGGTGAAACGCCGCTAAAGACGAGAGCATTAGCAGTGCTTTTGGTGAAACGCTGCTAAAGAC
1 TTTTGGTAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGAC
108832493 CAGAGCATTAGCGGCGC
66 CAGAGCATTAGCGGCGC
*
108832510 TTTTGGTAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
1 TTTTGGTAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAA
108832572 AGTCATGTAA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 18 0.14
82 110 0.86
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (82 bp):
TTTTGGTAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGAC
CAGAGCATTAGCGGCGC
Found at i:108832638 original size:48 final size:47
Alignment explanation
Indices: 108832594--108832685 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 47
108832584 CCTAAAATCT
*
108832594 TAAACCCAAAAAAAAACATAAAACACTAATCTATAACCCTTAAAATAG
1 TAAACCCAAAAAAAAACAT-AAACACTAAACTATAACCCTTAAAATAG
** * ** *
108832642 TAAACCCCTAACAAGCCCTAAACACTAAACTATAACCCTTAAAA
1 TAAACCCAAAAAAAAACATAAACACTAAACTATAACCCTTAAAA
108832686 CCCTAAACGC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 24 0.65
48 13 0.35
ACGTcount: A:0.53, C:0.26, G:0.02, T:0.18
Consensus pattern (47 bp):
TAAACCCAAAAAAAAACATAAACACTAAACTATAACCCTTAAAATAG
Found at i:108833317 original size:21 final size:21
Alignment explanation
Indices: 108833284--108833326 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
108833274 ATATATGTTC
*
108833284 ATGGTCTAGGATTTAGGGTTT
1 ATGGTCTAAGATTTAGGGTTT
* *
108833305 ATGGTTTAAGATTTGGGGTTT
1 ATGGTCTAAGATTTAGGGTTT
108833326 A
1 A
108833327 ATTTTTAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (21 bp):
ATGGTCTAAGATTTAGGGTTT
Found at i:108833747 original size:7 final size:7
Alignment explanation
Indices: 108833735--108833783 Score: 80
Period size: 7 Copynumber: 6.9 Consensus size: 7
108833725 AAAATATTCA
108833735 AAAAAAT
1 AAAAAAT
108833742 AAAAAAT
1 AAAAAAT
108833749 AAAAAAT
1 AAAAAAT
108833756 AAAAAAT
1 AAAAAAT
108833763 AAAAAATT
1 AAAAAA-T
*
108833771 TAAAAAT
1 AAAAAAT
108833778 AAAAAA
1 AAAAAA
108833784 CTTAAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:108833788 original size:15 final size:14
Alignment explanation
Indices: 108833735--108833792 Score: 80
Period size: 15 Copynumber: 4.0 Consensus size: 14
108833725 AAAATATTCA
*
108833735 AAAAAATAAAAAAT
1 AAAAAATTAAAAAT
*
108833749 AAAAAATAAAAAAT
1 AAAAAATTAAAAAT
108833763 AAAAAATTTAAAAAT
1 AAAAAA-TTAAAAAT
108833778 AAAAAACTTAAAAAT
1 AAAAAA-TTAAAAAT
108833793 TTAATATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
14 20 0.49
15 21 0.51
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAAATTAAAAAT
Found at i:108833790 original size:8 final size:8
Alignment explanation
Indices: 108833710--108833796 Score: 54
Period size: 8 Copynumber: 10.9 Consensus size: 8
108833700 TTTATATGTT
108833710 AATTTAAA
1 AATTTAAA
108833718 AATTATAAA
1 AATT-TAAA
108833727 AATATTCAAA
1 AAT-TT-AAA
**
108833737 AAAATAAA
1 AATTTAAA
*
108833745 AA-ATAAA
1 AATTTAAA
*
108833752 AA-ATAAA
1 AATTTAAA
* *
108833759 AAATAAAA
1 AATTTAAA
108833767 AATTTAAA
1 AATTTAAA
*
108833775 AA-TAAAA
1 AATTTAAA
*
108833782 AACTTAAA
1 AATTTAAA
108833790 AATTTAA
1 AATTTAA
108833797 TATTTAATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
7 20 0.31
8 30 0.46
9 9 0.14
10 6 0.09
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
AATTTAAA
Found at i:108836970 original size:4 final size:4
Alignment explanation
Indices: 108836961--108836985 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
108836951 GTTGGCTGTT
108836961 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
108836986 GAATATACAG
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:108837435 original size:21 final size:21
Alignment explanation
Indices: 108837390--108837435 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
108837380 CATTTCATTG
*
108837390 TGTTTGGAAGAAACAAAGAAG
1 TGTTTGGAAGAAACAAAGAAA
* * *
108837411 TGTTTGGAATAAATAAATAAA
1 TGTTTGGAAGAAACAAAGAAA
108837432 TGTT
1 TGTT
108837436 GTCAACATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.30
Consensus pattern (21 bp):
TGTTTGGAAGAAACAAAGAAA
Found at i:108841928 original size:21 final size:21
Alignment explanation
Indices: 108841890--108841929 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
108841880 ATTACTCCAA
*
108841890 AGAAGCCGATTGATCCATCTT
1 AGAAGCCGATTCATCCATCTT
108841911 AGAAGCCTGATTCA-CCATC
1 AGAAGCC-GATTCATCCATC
108841930 AAGACTGAAG
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:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (21 bp):
AGAAGCCGATTCATCCATCTT
Found at i:108845975 original size:13 final size:13
Alignment explanation
Indices: 108845957--108845981 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108845947 AACAACGTCA
108845957 GACACGGTCGTGC
1 GACACGGTCGTGC
108845970 GACACGGTCGTG
1 GACACGGTCGTG
108845982 TGCACCCACA
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:0.16, C:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
GACACGGTCGTGC
Found at i:108852506 original size:46 final size:46
Alignment explanation
Indices: 108852453--108852622 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 46
108852443 GGTATCCGAA
108852453 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAATGCCTGAG
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAATGCCTGAG
* * * * * *
108852499 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATA-TAACTAGGCATACGAA
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAA-T--GCCT--GAG
* * *
108852546 CTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAATGCCCGAG
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAATGCCTGAG
* * * *
108852592 CTCATTAAGTTGAGTTTGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGG
108852623 GCGAGTTACA
Statistics
Matches: 97, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 52 0.54
47 23 0.24
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.33
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAATGCCTGAG
Found at i:108856758 original size:39 final size:39
Alignment explanation
Indices: 108856714--108856792 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
108856704 TTAAGTAGTA
108856714 TTACGTGGTCAGATCATAATACAAAAAGATAACTTATAT
1 TTACGTGGTCAGATCATAATACAAAAAGATAACTTATAT
* * *
108856753 TTACGTGGTCGGATTATAATACATAAAGATAACTTATAT
1 TTACGTGGTCAGATCATAATACAAAAAGATAACTTATAT
108856792 T
1 T
108856793 AGTAGATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (39 bp):
TTACGTGGTCAGATCATAATACAAAAAGATAACTTATAT
Found at i:108856807 original size:24 final size:24
Alignment explanation
Indices: 108856780--108856827 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
108856770 AATACATAAA
*
108856780 GATAACTTATATTAGTAGATGAAC
1 GATAACTTATATTAGTAGACGAAC
108856804 GATAACTTATATTAGTAGACGAAC
1 GATAACTTATATTAGTAGACGAAC
108856828 CTAAACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (24 bp):
GATAACTTATATTAGTAGACGAAC
Found at i:108859851 original size:39 final size:39
Alignment explanation
Indices: 108859808--108859930 Score: 210
Period size: 39 Copynumber: 3.2 Consensus size: 39
108859798 CACAAAGCCC
*
108859808 GAATAATCACCGGCACAAAGCCTGCTAGGCACTTAGCCT
1 GAATAATCACCGGCACAAAGCCTGCTAGGCACTTAACCT
*
108859847 GAATAATCACCGGCACAAAGCTTGCTAGGCACTTAACCT
1 GAATAATCACCGGCACAAAGCCTGCTAGGCACTTAACCT
* *
108859886 GAATAATCACCGACACAAAGCCTGCTAGGTACTTAACCT
1 GAATAATCACCGGCACAAAGCCTGCTAGGCACTTAACCT
108859925 GAATAA
1 GAATAA
108859931 GCCTGCTAGG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.20
Consensus pattern (39 bp):
GAATAATCACCGGCACAAAGCCTGCTAGGCACTTAACCT
Found at i:108859939 original size:26 final size:26
Alignment explanation
Indices: 108859903--108859956 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
108859893 CACCGACACA
108859903 AAGCCTGCTAGGTACTTAACCTGAAT
1 AAGCCTGCTAGGTACTTAACCTGAAT
*
108859929 AAGCCTGCTAGGTACTTAGCCTGAAT
1 AAGCCTGCTAGGTACTTAACCTGAAT
108859955 AA
1 AA
108859957 TCACCGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (26 bp):
AAGCCTGCTAGGTACTTAACCTGAAT
Found at i:108863796 original size:11 final size:11
Alignment explanation
Indices: 108863780--108863824 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
108863770 TATCTCATAC
108863780 TATAATATTAT
1 TATAATATTAT
108863791 TATAATATTCATAT
1 TATAATA-T--TAT
*
108863805 TACAATATTAT
1 TATAATATTAT
108863816 TATAATATT
1 TATAATATT
108863825 TAATTTTACG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 18 0.62
12 1 0.03
13 1 0.03
14 9 0.31
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATATTAT
Found at i:108863811 original size:25 final size:25
Alignment explanation
Indices: 108863774--108863824 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
108863764 ATTTTTTATC
*
108863774 TCATACTATAATATTATTATAATAT
1 TCATACTACAATATTATTATAATAT
*
108863799 TCATATTACAATATTATTATAATAT
1 TCATACTACAATATTATTATAATAT
108863824 T
1 T
108863825 TAATTTTACG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (25 bp):
TCATACTACAATATTATTATAATAT
Found at i:108865153 original size:3 final size:3
Alignment explanation
Indices: 108865145--108865180 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
108865135 CTATGATTTT
108865145 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
108865181 ACATGCATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:108866318 original size:24 final size:24
Alignment explanation
Indices: 108866284--108866390 Score: 90
Period size: 24 Copynumber: 4.5 Consensus size: 24
108866274 TAGAAAACCT
*
108866284 GGAGGCATGCCTGGTGGG-TTTCCA
1 GGAGGAATGCCTGG-GGGTTTTCCA
* *
108866308 GGTGGAATGCCTGGGGGTTTTCCT
1 GGAGGAATGCCTGGGGGTTTTCCA
* * * * *
108866332 GGAGGTATGCCTGGAGGTATGCCC
1 GGAGGAATGCCTGGGGGTTTTCCA
* * *
108866356 GGAGGTATGCCTGGAGGTTTTCCT
1 GGAGGAATGCCTGGGGGTTTTCCA
*
108866380 GGAGGCATGCC
1 GGAGGAATGCC
108866391 AGGTGGCATG
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
23 3 0.04
24 66 0.96
ACGTcount: A:0.13, C:0.20, G:0.41, T:0.26
Consensus pattern (24 bp):
GGAGGAATGCCTGGGGGTTTTCCA
Found at i:108866344 original size:12 final size:12
Alignment explanation
Indices: 108866314--108866418 Score: 93
Period size: 12 Copynumber: 8.8 Consensus size: 12
108866304 TCCAGGTGGA
*
108866314 ATGCCTGGGGGT
1 ATGCCTGGAGGT
* *
108866326 TTTCCTGGAGGT
1 ATGCCTGGAGGT
108866338 ATGCCTGGAGGT
1 ATGCCTGGAGGT
*
108866350 ATGCCCGGAGGT
1 ATGCCTGGAGGT
108866362 ATGCCTGGAGGT
1 ATGCCTGGAGGT
* * *
108866374 TTTCCTGGAGGC
1 ATGCCTGGAGGT
* * *
108866386 ATGCCAGGTGGC
1 ATGCCTGGAGGT
* * *
108866398 ATGCCAGGTGGC
1 ATGCCTGGAGGT
108866410 ATGCCTGGA
1 ATGCCTGGA
108866419 AATGTTGATT
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 77 1.00
ACGTcount: A:0.14, C:0.21, G:0.40, T:0.25
Consensus pattern (12 bp):
ATGCCTGGAGGT
Found at i:108866366 original size:48 final size:48
Alignment explanation
Indices: 108866281--108866418 Score: 141
Period size: 48 Copynumber: 2.9 Consensus size: 48
108866271 CAGTAGAAAA
* * ** * * * *
108866281 CCTGGAGGCATGCCTGGTGGGTTTCCAGGTGGAATGCCTGGGGGTTTT
1 CCTGGAGGCATGCCAGGAGGCATGCCAGGAGGCATGCCTGGAGGTTTT
* * * * *
108866329 CCTGGAGGTATGCCTGGAGGTATGCCCGGAGGTATGCCTGGAGGTTTT
1 CCTGGAGGCATGCCAGGAGGCATGCCAGGAGGCATGCCTGGAGGTTTT
* *
108866377 CCTGGAGGCATGCCAGGTGGCATGCCAGGTGGCATGCCTGGA
1 CCTGGAGGCATGCCAGGAGGCATGCCAGGAGGCATGCCTGGA
108866419 AATGTTGATT
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.14, C:0.21, G:0.41, T:0.25
Consensus pattern (48 bp):
CCTGGAGGCATGCCAGGAGGCATGCCAGGAGGCATGCCTGGAGGTTTT
Found at i:108869195 original size:28 final size:28
Alignment explanation
Indices: 108869163--108869219 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
108869153 GGTTATTTAT
108869163 TTATTTATAATTTTAACCTTTTATCTAA
1 TTATTTATAATTTTAACCTTTTATCTAA
108869191 TTATTTATAATTTTAACCTTTTATCTAA
1 TTATTTATAATTTTAACCTTTTATCTAA
108869219 T
1 T
108869220 GTATGTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (28 bp):
TTATTTATAATTTTAACCTTTTATCTAA
Found at i:108882017 original size:21 final size:21
Alignment explanation
Indices: 108881976--108882017 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
108881966 CGTGGCGCGT
* *
108881976 GTACGGGGGCTGTGTGCTGGC
1 GTACGGAGGCTGTGGGCTGGC
108881997 GTACGGAGGC-GTGGGCGTGGC
1 GTACGGAGGCTGTGGGC-TGGC
108882018 TGTGGTGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.07, C:0.19, G:0.55, T:0.19
Consensus pattern (21 bp):
GTACGGAGGCTGTGGGCTGGC
Found at i:108883932 original size:30 final size:28
Alignment explanation
Indices: 108883861--108883933 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 28
108883851 TGAAAGTGTT
108883861 AAATATATATATATATAGATCTTTAAAAG
1 AAATATATATATATATAGA-CTTTAAAAG
*
108883890 AAATAAATTATATATAAGTAGA-TTTAAAAG
1 AAATATA-TATATAT-A-TAGACTTTAAAAG
108883920 AAA-ATATATATATA
1 AAATATATATATATA
108883934 CATATATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 1 0.03
28 7 0.18
29 8 0.21
30 18 0.46
31 1 0.03
32 4 0.10
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.36
Consensus pattern (28 bp):
AAATATATATATATATAGACTTTAAAAG
Found at i:108898714 original size:22 final size:22
Alignment explanation
Indices: 108898672--108898746 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
108898662 GGTCATGATT
*
108898672 TTAAAAATTAAGAAAATATAAA
1 TTAAAAATTAAGAAAACATAAA
*
108898694 TTAAAATTTAA-AAATACATAAAA
1 TTAAAAATTAAGAAA-ACAT-AAA
* * *
108898717 CATAAAAAATAA-AAAA-ATATA
1 -TTAAAAATTAAGAAAACATAAA
108898738 TTAAAAATT
1 TTAAAAATT
108898747 GATAAAATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 7 0.17
21 5 0.12
22 15 0.36
23 4 0.10
24 11 0.26
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (22 bp):
TTAAAAATTAAGAAAACATAAA
Found at i:108898726 original size:38 final size:37
Alignment explanation
Indices: 108898684--108898784 Score: 116
Period size: 37 Copynumber: 2.7 Consensus size: 37
108898674 AAAAATTAAG
108898684 AAAATATAAATTAAAAT-TTAAAAATACATAAAACATAA
1 AAAATATAAA--AAAATATTAAAAATACATAAAACATAA
** * *
108898722 AAAATA-AAAAAATATATTAAAAATTGATAAAATATAT
1 AAAATATAAAAAA-ATATTAAAAATACATAAAACATAA
108898759 AAAATACTAAAAAAATATTAAAAATA
1 AAAATA-TAAAAAAATATTAAAAATA
108898785 TATTTAAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
35 3 0.06
36 2 0.04
37 26 0.48
38 17 0.31
39 6 0.11
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (37 bp):
AAAATATAAAAAAATATTAAAAATACATAAAACATAA
Found at i:108898734 original size:46 final size:48
Alignment explanation
Indices: 108898673--108898792 Score: 122
Period size: 46 Copynumber: 2.5 Consensus size: 48
108898663 GTCATGATTT
* * *
108898673 TAAAAATTAAGAAAATATAAATT-AAAATTTA-AAAATACATAAAACA-
1 TAAAAAATAAAAAAATAT-AATTAAAAATTGATAAAATACATAAAACAC
* *
108898719 TAAAAAATAAAAAAATAT-ATTAAAAATTGATAAAATATATAAAATAC
1 TAAAAAATAAAAAAATATAATTAAAAATTGATAAAATACATAAAACAC
* *
108898766 TAAAAAAATATTAAAAATATATTTAAA
1 T-AAAAAATA-AAAAAATATAATTAAA
108898793 TATTATTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
44 3 0.05
45 7 0.11
46 29 0.48
47 1 0.02
48 8 0.13
49 8 0.13
50 5 0.08
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (48 bp):
TAAAAAATAAAAAAATATAATTAAAAATTGATAAAATACATAAAACAC
Found at i:108898743 original size:10 final size:10
Alignment explanation
Indices: 108898730--108898810 Score: 55
Period size: 10 Copynumber: 8.1 Consensus size: 10
108898720 AAAAAATAAA
108898730 AAAATATATT
1 AAAATATATT
108898740 AAAA-AT-TGAT
1 AAAATATAT--T
108898750 AAAATATA-T
1 AAAATATATT
108898759 AAAATACTA--
1 AAAATA-TATT
*
108898768 AAAAAATATT
1 AAAATATATT
108898778 AAAAATATATT
1 -AAAATATATT
*
108898789 TAAATATTATT
1 AAAATA-TATT
*
108898800 AAAATTTATT
1 AAAATATATT
108898810 A
1 A
108898811 TATTTTCACA
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
8 3 0.05
9 14 0.25
10 21 0.37
11 19 0.33
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (10 bp):
AAAATATATT
Found at i:108898743 original size:18 final size:18
Alignment explanation
Indices: 108898722--108898781 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 18
108898712 TAAAACATAA
108898722 AAAATAAAAAAATATATT
1 AAAATAAAAAAATATATT
* *
108898740 AAAAATTGATAAAATATA-T
1 -AAAA-TAAAAAAATATATT
108898759 AAAATACTAAAAAA-ATATT
1 AAAATA--AAAAAATATATT
108898778 AAAA
1 AAAA
108898782 ATATATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 1 0.03
18 7 0.21
19 15 0.45
20 10 0.30
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAATAAAAAAATATATT
Found at i:108898744 original size:20 final size:19
Alignment explanation
Indices: 108898718--108898782 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
108898708 TACATAAAAC
108898718 ATAAAAAATAAAAAAATAT
1 ATAAAAAATAAAAAAATAT
* * *
108898737 ATTAAAAATTGATAAAATAT
1 A-TAAAAAATAAAAAAATAT
*
108898757 ATAAAATACTAAAAAAATAT
1 ATAAAA-AATAAAAAAATAT
108898777 -TAAAAA
1 ATAAAAA
108898783 TATATTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 1 0.03
19 11 0.29
20 26 0.68
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
ATAAAAAATAAAAAAATAT
Found at i:108898760 original size:9 final size:9
Alignment explanation
Indices: 108898695--108898786 Score: 50
Period size: 9 Copynumber: 10.2 Consensus size: 9
108898685 AAATATAAAT
*
108898695 TAAAATTTA
1 TAAAATATA
*
108898704 -AAAATACA
1 TAAAATATA
*
108898712 TAAAACATA
1 TAAAATATA
*
108898721 AAAAATA-A
1 TAAAATATA
*
108898729 AAAAATATA
1 TAAAATATA
108898738 TTAAAA-ATTGA
1 -TAAAATA-T-A
108898749 TAAAATATA
1 TAAAATATA
108898758 TAAAATACTA
1 TAAAATA-TA
*
108898768 -AAAAAATA
1 TAAAATATA
108898776 TTAAAA-ATA
1 -TAAAATATA
108898785 TA
1 TA
108898787 TTTAAATATT
Statistics
Matches: 66, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
8 18 0.27
9 29 0.44
10 17 0.26
11 2 0.03
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.27
Consensus pattern (9 bp):
TAAAATATA
Found at i:108899313 original size:30 final size:31
Alignment explanation
Indices: 108899251--108899327 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
108899241 TCATTTTAAG
108899251 ATAGAA-TGACTAAAATTGACAACTTATCTA
1 ATAGAAGTGACTAAAATTGACAACTTATCTA
** * *
108899281 ATA-AAGTGACTAAAATTGGTAACTTTTTTA
1 ATAGAAGTGACTAAAATTGACAACTTATCTA
**
108899311 ATAGGGGTGACTAAAAT
1 ATAGAAGTGACTAAAAT
108899328 AACAAAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 2 0.05
30 26 0.67
31 11 0.28
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (31 bp):
ATAGAAGTGACTAAAATTGACAACTTATCTA
Found at i:108900043 original size:125 final size:124
Alignment explanation
Indices: 108899859--108900118 Score: 360
Period size: 126 Copynumber: 2.1 Consensus size: 124
108899849 GTACAGTTAC
* * *
108899859 CAAAAGTACTGAAAAAACTCCTAGCTGGAAGCTATTTTTGTACAGTAGTTTGTGAAAAAATAATT
1 CAAAAGTACTGAAAAAACTCCTAGCTGGAAGCTATTTTTCTACAATAGTTTCTGAAAAAATAATT
* * * * * *
108899924 TTGAGAAGATGGTTCTGAAAAAATATGTTCAAAAACAGTTCAAGCAGGATACACTGTCAG
66 TTGAAAAGATGGTTCTAAAAAAATAGGCT-AAAAACAATTCAAGAAGGATACACTGTCAG
* * *
108899984 CAAAAGTACTGAAAAAAGCT-CTCAGCTGGACGTTCTTTTTCTACAATAGTTTCTGAAAAAATAA
1 CAAAAGTACTGAAAAAA-CTCCT-AGCTGGAAGCTATTTTTCTACAATAGTTTCTGAAAAAATAA
*
108900048 TTTTGAAAAGATGGTTCTAAAAAAATAGGCTAAAAACAATTCAAGAAGGATGCACTGTCAG
64 TTTTGAAAAGATGGTTCTAAAAAAATAGGCTAAAAACAATTCAAGAAGGATACACTGTCAG
*
108900109 CAAAAATACT
1 CAAAAGTACT
108900119 ACAGACCCAT
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
125 55 0.46
126 64 0.54
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (124 bp):
CAAAAGTACTGAAAAAACTCCTAGCTGGAAGCTATTTTTCTACAATAGTTTCTGAAAAAATAATT
TTGAAAAGATGGTTCTAAAAAAATAGGCTAAAAACAATTCAAGAAGGATACACTGTCAG
Found at i:108900437 original size:25 final size:23
Alignment explanation
Indices: 108900383--108900439 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
108900373 TACTGAGTGT
* *
108900383 TATTAAAAATTATAAAATAAATAC
1 TATT-AAAATTATAAAATAAAAAA
108900407 TAATTAAAATTATATAAATGAAAAAA
1 T-ATTAAAATTATA-AAAT-AAAAAA
108900433 TATTAAA
1 TATTAAA
108900440 TAATATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 10 0.36
25 13 0.46
26 5 0.18
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
TATTAAAATTATAAAATAAAAAA
Found at i:108900989 original size:28 final size:28
Alignment explanation
Indices: 108900929--108900990 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
108900919 GTTTTTTGGC
* ** * *
108900929 CCATTTCGGTAAATAAAGTTTTAAGTGC
1 CCATTTCCGTAAATAAAGTTGGAAATGA
108900957 CCATTTCCGTAAATAAAGTTGGAAATGA
1 CCATTTCCGTAAATAAAGTTGGAAATGA
*
108900985 GCATTT
1 CCATTT
108900991 TTTAGAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (28 bp):
CCATTTCCGTAAATAAAGTTGGAAATGA
Found at i:108901506 original size:25 final size:24
Alignment explanation
Indices: 108901460--108901507 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
108901450 AAGATAATGG
*
108901460 AAAATAAATAAAAAAAGGAAATTT
1 AAAATAAATAAAAAAAGAAAATTT
108901484 AAAATAACATAAAAGAAA-AAAATT
1 AAAATAA-ATAAAA-AAAGAAAATT
108901508 AAATTGCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 11 0.52
26 3 0.14
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (24 bp):
AAAATAAATAAAAAAAGAAAATTT
Found at i:108901509 original size:24 final size:23
Alignment explanation
Indices: 108901460--108901510 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
108901450 AAGATAATGG
*
108901460 AAAATAAATAAAAAAAGGAAATTT
1 AAAATAAATAAAAAAA-GAAAATT
108901484 AAAATAACATAAAAGAAA-AAAATT
1 AAAATAA-ATAAAA-AAAGAAAATT
108901508 AAA
1 AAA
108901511 TTGCTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 15 0.62
25 6 0.25
26 3 0.12
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.18
Consensus pattern (23 bp):
AAAATAAATAAAAAAAGAAAATT
Found at i:108908487 original size:24 final size:25
Alignment explanation
Indices: 108908430--108908492 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
108908420 GTCTTTTAAG
* *
108908430 AACATGAAAATTAAAAACAAAAATA
1 AACATGAAAAATAAAAACAAAAACA
*
108908455 AACAT-AAAAATAAAAAGAAAAACA
1 AACATGAAAAATAAAAACAAAAACA
*
108908479 AA-GTGAAAAATAAA
1 AACATGAAAAATAAA
108908493 TGGAAACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.82
25 5 0.15
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.13
Consensus pattern (25 bp):
AACATGAAAAATAAAAACAAAAACA
Found at i:108910316 original size:13 final size:14
Alignment explanation
Indices: 108910292--108910321 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
108910282 GGTAAACAAT
108910292 AAGGGAGAAGGGAC
1 AAGGGAGAAGGGAC
108910306 AAGGG-GAAGGGAC
1 AAGGGAGAAGGGAC
108910319 AAG
1 AAG
108910322 TGTGAGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.43, C:0.07, G:0.50, T:0.00
Consensus pattern (14 bp):
AAGGGAGAAGGGAC
Found at i:108920283 original size:46 final size:46
Alignment explanation
Indices: 108920230--108920323 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
108920220 AAATTGTTGA
108920230 ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
1 ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
108920276 ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
1 ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
108920322 AT
1 AT
108920324 GTTATGGCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (46 bp):
ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
Found at i:108921183 original size:21 final size:21
Alignment explanation
Indices: 108921157--108921216 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
108921147 TTATAACAAA
*
108921157 TACAAATCATGCTTATCATAT
1 TACAAATCATACTTATCATAT
* * *
108921178 TACAAATCAAACATATCGTAT
1 TACAAATCATACTTATCATAT
*
108921199 TACAAATTATACTTATCA
1 TACAAATCATACTTATCA
108921217 CATTTTAGAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.35
Consensus pattern (21 bp):
TACAAATCATACTTATCATAT
Found at i:108922885 original size:117 final size:118
Alignment explanation
Indices: 108922750--108922966 Score: 271
Period size: 117 Copynumber: 1.8 Consensus size: 118
108922740 ATCTTAGGAA
* * * **
108922750 ATAAATTATATACATAATAGA-TTTACAAAAC-ATATATATGTATAAATAGATTTAGAATCAATT
1 ATAAATTATATACATAATAGATTTTA-AAAACAAAAT-TATGTACAAATAGATTTAAAAGAAATT
* *
108922813 A-ATTGTA-AAAATAGCATGGAATTAATAATGTGTATAAGACTAAATTATTTTATC
64 ATA-TGTATAAAATAACATGGAATTAATAATGTATATAAGACTAAATTATTTTATC
* **
108922867 ATAAATTGTATATGTAATAGATTTTAAAAACAAAATTATGTACAAATAGATTTAAAAGAAATTAT
1 ATAAATTATATACATAATAGATTTTAAAAACAAAATTATGTACAAATAGATTTAAAAGAAATTAT
* *
108922932 ATGTATAAAATAACATGGATTTAATGATGTATATA
66 ATGTATAAAATAACATGGAATTAATAATGTATATA
108922967 GATCAAACAT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
117 51 0.61
118 33 0.39
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (118 bp):
ATAAATTATATACATAATAGATTTTAAAAACAAAATTATGTACAAATAGATTTAAAAGAAATTAT
ATGTATAAAATAACATGGAATTAATAATGTATATAAGACTAAATTATTTTATC
Found at i:108924395 original size:26 final size:26
Alignment explanation
Indices: 108924357--108924466 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
108924347 TGATACAAAT
108924357 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
* *
108924383 TGATAATATGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
108924409 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
108924435 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
108924461 TGATAA
1 TGATAA
108924467 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:108926142 original size:26 final size:27
Alignment explanation
Indices: 108926075--108926212 Score: 178
Period size: 26 Copynumber: 5.2 Consensus size: 27
108926065 AGGAAGCGTC
* *
108926075 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
108926103 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
*
108926129 CTGGTGGCTATGCCACAT-TATCTGAT
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
108926155 AT-GTGGCTCTG-CACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
108926180 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
108926207 CTGGTG
1 CTGGTG
108926213 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
24 5 0.05
25 22 0.23
26 36 0.37
27 17 0.18
28 17 0.18
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:108926183 original size:51 final size:52
Alignment explanation
Indices: 108926075--108926212 Score: 190
Period size: 51 Copynumber: 2.6 Consensus size: 52
108926065 AGGAAGCGTC
*
108926075 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT
1 CTGGTGGCTATGCCAC--ATTATCTGATATGGTGGCTCTGCCACATATATCTGT
108926129 CTGGTGGCTATGCCACATTATCTGATAT-GTGGCTCTG-CACATATATCTGTT
1 CTGGTGGCTATGCCACATTATCTGATATGGTGGCTCTGCCACATATATCTG-T
* * *
108926180 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATATGGTG
108926213 ACTTCGTCAC
Statistics
Matches: 77, Mismatches: 4, Indels: 7
0.88 0.05 0.08
Matches are distributed among these distances:
50 12 0.16
51 32 0.42
52 14 0.18
53 3 0.04
54 16 0.21
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (52 bp):
CTGGTGGCTATGCCACATTATCTGATATGGTGGCTCTGCCACATATATCTGT
Found at i:108930222 original size:26 final size:26
Alignment explanation
Indices: 108930186--108930295 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
108930176 TGATACAAAT
108930186 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
108930212 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
108930238 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
108930264 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
108930290 TGATAA
1 TGATAA
108930296 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:108932007 original size:54 final size:54
Alignment explanation
Indices: 108931913--108932057 Score: 229
Period size: 54 Copynumber: 2.7 Consensus size: 54
108931903 TGGAGGAAGC
*
108931913 GTCCTGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCAC-AATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
108931968 GTCCTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
108932022 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
108932058 ACTTCGTCAC
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
53 6 0.07
54 60 0.71
55 18 0.21
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:108932054 original size:27 final size:27
Alignment explanation
Indices: 108931916--108932074 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
108931906 AGGAAGCGTC
* *
108931916 CTGGTGGCTATACCACAAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AA-TATCTGTAT
*
108931944 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
108931971 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
108931998 ATGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
108932025 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
108932052 CTGGTGACT-TCGTCACAATATCT
1 CTGGTGGCTCT-GCCACAATATCT
108932075 AGCAGCCTCG
Statistics
Matches: 113, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 87 0.77
28 16 0.14
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:108932069 original size:81 final size:81
Alignment explanation
Indices: 108931917--108932074 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 81
108931907 GGAAGCGTCC
*
108931917 TGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 TGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
108931982 GCCACAATTATCTGATA
66 GCCACAA-TATCTGATA
* * * * *
108931999 TGGTGGCTCTGCCACATA-TATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-
1 TGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACTA
*
108932061 TCGTCACAATATCT
65 T-GCCACAATATCT
108932075 AGCAGCCTCG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
80 14 0.21
81 38 0.57
82 15 0.22
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (81 bp):
TGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGATA
Found at i:108933858 original size:45 final size:44
Alignment explanation
Indices: 108933809--108933900 Score: 100
Period size: 45 Copynumber: 2.1 Consensus size: 44
108933799 AAAATTCATC
108933809 ATCTTCGA-TCTAC-TCCACTGCTACCTCAAGGAA-ATAAGATCTACA
1 ATCTT-GAGTCTACTTCC-CTGCTACCTC-AGGAAGATAAGA-CTACA
* * *
108933854 ATCTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACA
1 ATCTTGAGTCTACTTCCCTGCTACCTCAGGAAGATAAGACTACA
108933898 ATC
1 ATC
108933901 GTCAACCTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
44 14 0.34
45 24 0.59
46 3 0.07
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (44 bp):
ATCTTGAGTCTACTTCCCTGCTACCTCAGGAAGATAAGACTACA
Found at i:108933900 original size:44 final size:45
Alignment explanation
Indices: 108933827--108933935 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 45
108933817 TCTACTCCAC
* * **
108933827 TGCTACCTCAAGGAA-ATAAGATCTACAATCTTTAGTCTGCT-TCCT
1 TGCTACCTC-AGGAAGATAAGATCTACAATCGTCAACCTGCTCT-CT
108933872 TGCTACCTCAGGAAGATAAGA-CTACAATCGTCAACCTGCTCTCT
1 TGCTACCTCAGGAAGATAAGATCTACAATCGTCAACCTGCTCTCT
108933916 TGCTACCTCA-GAGAGATAAG
1 TGCTACCTCAGGA-AGATAAG
108933936 GCTAGGGGCT
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
43 2 0.04
44 39 0.68
45 16 0.28
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (45 bp):
TGCTACCTCAGGAAGATAAGATCTACAATCGTCAACCTGCTCTCT
Found at i:108934148 original size:177 final size:177
Alignment explanation
Indices: 108933836--108934156 Score: 493
Period size: 177 Copynumber: 1.8 Consensus size: 177
108933826 CTGCTACCTC
*
108933836 AAGGAAATAAGATCTACAATCTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
1 AAGGAAATAAGATCTACAATCTTTAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
** * * * *
108933901 GTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGGGGCTAAAATCTGCTCTATTATCGA
66 ACCAACCTGATCTCTTGCTACCTCAGAGAGATAAGGCTAGGGGCTAAAATCTGCTCCATTACCAA
108933966 TACATGGAGATAAGATTCGTCATCTTCATTCTGCTCCACAACTGCTT
131 TACATGGAGATAAGATTCGTCATCTTCATTCTGCTCCACAACTGCTT
* *
108934013 AAGGAGATAAGATCTTCAAT-TTTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT
1 AAGGAAATAAGATCTACAATCTTT-AATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT
* * * *
108934077 CACCAACCTGATCTCTTGCTACCTTAGAGAGATAAGGCT-GGTGGCTTAAATCTGTTCCATTGCC
65 CACCAACCTGATCTCTTGCTACCTCAGAGAGATAAGGCTAGG-GGCTAAAATCTGCTCCATTACC
108934141 AATACATGGAGATAAG
129 AATACATGGAGATAAG
108934157 TGTAACATCC
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
176 5 0.04
177 124 0.96
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (177 bp):
AAGGAAATAAGATCTACAATCTTTAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
ACCAACCTGATCTCTTGCTACCTCAGAGAGATAAGGCTAGGGGCTAAAATCTGCTCCATTACCAA
TACATGGAGATAAGATTCGTCATCTTCATTCTGCTCCACAACTGCTT
Found at i:108934288 original size:13 final size:13
Alignment explanation
Indices: 108934272--108934296 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108934262 GAATGATTTC
108934272 GTGAAAATTTCGT
1 GTGAAAATTTCGT
108934285 GTGAAAATTTCG
1 GTGAAAATTTCG
108934297 ACGTTTGGGC
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:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
GTGAAAATTTCGT
Found at i:108938088 original size:176 final size:176
Alignment explanation
Indices: 108937807--108938375 Score: 949
Period size: 176 Copynumber: 3.2 Consensus size: 176
108937797 AGATTTGCCA
108937807 CCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGTCTGCTCCTTGCTA
1 CCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGTCTGCTCCTTGCTA
*
108937872 CCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTTAGAGAGATAAGGCTGGT
66 CCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTGGT
108937937 GGCTTAAATCTTCTCCATTGCTGATATATGGAGATAAGATTCGTCG
131 GGCTTAAATCTTCTCCATTGCTGATATATGGAGATAAGATTCGTCG
108937983 CCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGTCTGCTCCTTGCTA
1 CCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGTCTGCTCCTTGCTA
108938048 CCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTGGT
66 CCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTGGT
*
108938113 GGCTTAAATCTTCTCCATTGCTGATATATGGAGATAAGATTTGTCG
131 GGCTTAAATCTTCTCCATTGCTGATATATGGAGATAAGATTCGTCG
* * *
108938159 CCTTCGATCTGCTCCACTACTGCTTAGGGAGATAATATCTTCAATCTTAAGTCTGCTTCCTTACT
1 CCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGTCTGC-TCCTTGCT
* * *
108938224 ACCTTAGGAAGATAAGACTATAATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGG
65 ACCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTGG
* * * ** * * *
108938289 TGACTAAAATCTGCTCCATTGCCAATATATAGAGATAAGATTCGCCA
130 TGGCTTAAATCTTCTCCATTGCTGATATATGGAGATAAGATTCGTCG
* * * *
108938336 TCTTAGATCTTCTCCACTACTGCCTAGGGAGATAAGATCT
1 CCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
108938376 GTAATTTTCA
Statistics
Matches: 370, Mismatches: 22, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
176 228 0.62
177 142 0.38
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (176 bp):
CCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGTCTGCTCCTTGCTA
CCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTGGT
GGCTTAAATCTTCTCCATTGCTGATATATGGAGATAAGATTCGTCG
Found at i:108938642 original size:45 final size:45
Alignment explanation
Indices: 108938567--108938778 Score: 184
Period size: 45 Copynumber: 4.7 Consensus size: 45
108938557 TGTAGCTTCA
* * * * *
108938567 ATCTATTCCACTGTAATTTCAAGGAAATAAGATTCGCT-ATCTTCAG
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCG-TAATCTT-AG
* *
108938613 -TCTGCTCCACTGCAACTTCAGGGAGATAAGA--CCTGACA-CTTCA-
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGT-A-ATCTT-AG
* * * *
108938656 ACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTAATCTTTG
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGTAATCTTAG
* * * *
108938701 ATCTATTCCACTGCAACTTCAGGGAGATAAGGTTTGTAATCTTTG
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGTAATCTTAG
* *
108938746 ATCTATTCCACTGCAACTTCAGGGATATAAGAT
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGAT
108938779 CTGACTTCAC
Statistics
Matches: 141, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 34 0.24
45 104 0.74
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (45 bp):
ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGTAATCTTAG
Found at i:108938952 original size:64 final size:64
Alignment explanation
Indices: 108938845--108938972 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
108938835 TTATGTATCC
108938845 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAAATGTG
* * * * *
108938909 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATTCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAAATGTG
108938973 TTATGAATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAAATGTG
Found at i:108940078 original size:17 final size:16
Alignment explanation
Indices: 108940070--108940101 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
108940060 TTCTTTCTTC
108940070 TTTTTTTTTATTTTTA
1 TTTTTTTTTATTTTTA
108940086 TTTTTTTTTTATTTTT
1 -TTTTTTTTTATTTTT
108940102 TTAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTTTTTTTATTTTTA
Found at i:108940085 original size:6 final size:6
Alignment explanation
Indices: 108940070--108940101 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
108940060 TTCTTTCTTC
108940070 TTTT-T TTTTAT TTTTAT TTTT-T TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
108940102 TTAAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 9 0.36
6 16 0.64
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (6 bp):
TTTTAT
Found at i:108940101 original size:11 final size:11
Alignment explanation
Indices: 108940070--108940103 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
108940060 TTCTTTCTTC
*
108940070 TTTTT-TTTTA
1 TTTTTATTTTT
108940080 TTTTTATTTTT
1 TTTTTATTTTT
108940091 TTTTTATTTTT
1 TTTTTATTTTT
108940102 TT
1 TT
108940104 AAATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:108967368 original size:138 final size:138
Alignment explanation
Indices: 108967115--108967671 Score: 819
Period size: 138 Copynumber: 4.0 Consensus size: 138
108967105 ACATAGATAA
* *
108967115 AATTAATATATGAATTTGATTCATACAAAATATTAATTTTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * * *
108967180 TAAACAGTTATATTAATTGATTT-TGGTCAAAATATAAAAGACATGGAAATTAAGATTTTTTTGG
66 TAAACAGTTATATTAATTAATTTCT-GTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGG
108967244 AAAGAATAT
130 AAAGAATAT
* *
108967253 AATTAATATATGAATTTAATTCATACAAAATATTAATTATATATATTTTACTGAATTTATTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* *
108967318 TAAACAGTTATATTAATTAATTCCTGTCAAAATATAAAAGACATAAAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
*
108967383 AGGAATAT
131 AAGAATAT
* * * *
108967391 AATTAATATATGAATTTGATTTATACAAAAAATTAATTGTATACATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * * * * *
108967456 TAAATAGTTATATTAATTAATTTCAGTCAAAACATAAATGACATGGAAATTAATATTATTTTGGA
66 TAAACAGTTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
108967521 AAGAATAT
131 AAGAATAT
** * ***
108967529 AATTAGCATATGAATTTAATTCATACAAAACATTAATTGTATATATTTTGTTGAATTTATTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * *
108967594 TAAACAATTATATTAATTTAATTTCGGTCAAAATATAAAAAACATGAAAATTAATATTCTTTTGG
66 TAAACAGTTATATTAA-TTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGG
108967659 AAAGAATAT
130 AAAGAATAT
108967668 AATT
1 AATT
108967672 CATTTGTCTA
Statistics
Matches: 375, Mismatches: 42, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
138 319 0.85
139 56 0.15
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (138 bp):
AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
TAAACAGTTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
AAGAATAT
Found at i:108967776 original size:78 final size:78
Alignment explanation
Indices: 108967647--108967866 Score: 334
Period size: 78 Copynumber: 2.8 Consensus size: 78
108967637 ATGAAAATTA
* * * * *
108967647 ATATTCTTTTGGAAAGAATATAATTCATTTGTCTAA-GTTCCTATTTTTCTTCTCTATTAATAAT
1 ATATTCTTTTGAAAAGAATATAATTCTTTTTTCTAACTTTCC-ATTTGTCTTCTCTATTAATAAT
*
108967711 AAGGGAATAATCAT
65 AAGGGAAAAATCAT
108967725 ATATTCTTTTGAAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAATA
1 ATATTCTTTTGAAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAATA
*
108967790 AGGGAAAAATCCT
66 AGGGAAAAATCAT
* *
108967803 ATATTCTTTTGAAAAGAATATAATTATTTTTTTCTAACTTTCCATTTGTCTTTTCTATTAATAA
1 ATATTCTTTTGAAAAGAATATAATT-CTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAA
108967867 GAGAATAATC
Statistics
Matches: 131, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
78 91 0.69
79 40 0.31
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (78 bp):
ATATTCTTTTGAAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAATA
AGGGAAAAATCAT
Found at i:108968737 original size:14 final size:13
Alignment explanation
Indices: 108968720--108968749 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
108968710 AAAAATTTGG
*
108968720 AAAAAAATGAAAA
1 AAAAAAAAGAAAA
108968733 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
108968746 AAAA
1 AAAA
108968750 GGGGGAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:108970810 original size:48 final size:48
Alignment explanation
Indices: 108970741--108971104 Score: 289
Period size: 48 Copynumber: 7.6 Consensus size: 48
108970731 TGTGTGCTAG
* * *
108970741 TGTAAGACCATAG-CTGGGACATGACATCGACCACATTATGAGAGCCAG
1 TGTAAGACCAT-GTCTAGGACATGGCATCGACCACATTATGAGAGCCAA
* * *
108970789 TGTAAGGCCATGTCTAGGACATTGCATCGGCCACATTATGAGAGCCAA
1 TGTAAGACCATGTCTAGGACATGGCATCGACCACATTATGAGAGCCAA
* **
108970837 TGTAAGACCATGT-TTGGAACATGGCATCAGTA--ATGTTATGAGAGCCAGA
1 TGTAAGACCATGTCTAGG-ACATGGCATC-G-ACCACATTATGAGAGCCA-A
*
108970886 -GTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAA
1 TGTAAGACCATGTCTAGGACATGGCATCGACCACATTATGAGAGCCAA
* * ** **
108970933 TGTAGGACCATGT-TTGGAACATGGCATCGAAAATGTTATGAGAGCCAA
1 TGTAAGACCATGTCTAGG-ACATGGCATCGACCACATTATGAGAGCCAA
* * * * * *
108970981 AGTAAGACCATGTCTGGGACATGGCATCG---GCATTGAGACGAGAGCTAG
1 TGTAAGACCATGTCTAGGACATGGCATCGACCACATT---ATGAGAGCCAA
* * * * * * * *
108971029 TGTAAGATCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGACAG
1 TGTAAGACCATGTCTAGGACATGGCATCGACCAC-ATTATGAGAGCCAA
*
108971077 TGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTAGGACATGGCATC
108971105 AGCAATTTAC
Statistics
Matches: 257, Mismatches: 41, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.01
47 9 0.04
48 236 0.92
49 8 0.03
51 1 0.00
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (48 bp):
TGTAAGACCATGTCTAGGACATGGCATCGACCACATTATGAGAGCCAA
Found at i:108970905 original size:96 final size:96
Alignment explanation
Indices: 108970776--108971011 Score: 393
Period size: 96 Copynumber: 2.5 Consensus size: 96
108970766 ATCGACCACA
* * *
108970776 TTATGAGAGCCAGTGTAAGGCCATGTCTAGGACATTGCATCGGCCACATTATGAGAGCCAATGTA
1 TTATGAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
*
108970841 AGACCATGTTTGGAACATGGCATC-AGTAATG
66 AGACCATGTTTGGAACATGGCATCGA-AAATG
108970872 TTATGAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
1 TTATGAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
*
108970937 GGACCATGTTTGGAACATGGCATCGAAAATG
66 AGACCATGTTTGGAACATGGCATCGAAAATG
* *
108970968 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGC
1 TTATGAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGGC
108971012 ATTGAGACGA
Statistics
Matches: 132, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
96 131 0.99
97 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (96 bp):
TTATGAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
AGACCATGTTTGGAACATGGCATCGAAAATG
Found at i:108971003 original size:144 final size:143
Alignment explanation
Indices: 108970742--108971104 Score: 390
Period size: 144 Copynumber: 2.5 Consensus size: 143
108970732 GTGTGCTAGT
* * *
108970742 GTAAGACCATAG-CTGGGACATGACATCGACCACATTATGAGAGCCAGTGTAAGG-CCATGTCTA
1 GTAAGACCAT-GTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGT-AGGACCATGT-TT
* *** * * *
108970805 GGACATTGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATCAGTAA
63 GGACATGGCATCGAAAACATTATGAGAGCCAAAGTAAGACCATGTCTGGAACATGGCATCAGCAA
** *
108970870 TGTTATGAGAGCCAGA
128 TGAGACGAGAGCCAGA
* *
108970886 GTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAATGTAGGACCATGTTTGGA
1 GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAGGACCATGTTTGG-
** * * *
108970951 ACATGGCATCGAAAATGTTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGCATTG
65 ACATGGCATCGAAAACATTATGAGAGCCAAAGTAAGACCATGTCTGGAACATGGCATCAGCAATG
* *
108971016 AGACGAGAGCTAGT
130 AGACGAGAGCCAGA
* * * * * * *
108971030 GTAAGATCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGACAGTGTAAGACCATGTCTGG
1 GTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAGGACCATGT-TTG
108971094 GACATGGCATC
64 GACATGGCATC
108971105 AGCAATTTAC
Statistics
Matches: 183, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
143 7 0.04
144 172 0.94
145 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (143 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAGGACCATGTTTGGA
CATGGCATCGAAAACATTATGAGAGCCAAAGTAAGACCATGTCTGGAACATGGCATCAGCAATGA
GACGAGAGCCAGA
Found at i:108971024 original size:96 final size:95
Alignment explanation
Indices: 108970776--108971057 Score: 363
Period size: 96 Copynumber: 2.9 Consensus size: 95
108970766 ATCGACCACA
* * *
108970776 TTATGAGAGCCAGTGTAAGGCCATGTCTAGGACATTGCATCGGCCACATTATGAGAGCCAATGTA
1 TTATGAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGG-C-CATTATGAGAGCCAATGTA
*
108970841 AGACCATGTTTGGAACATGGCATC-AGTAATG
64 AGACCATGTTTGGAACATGGCATCGAGAAATG
108970872 TTATGAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
1 TTATGAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGG-C-CATTATGAGAGCCAATGTA
*
108970937 GGACCATGTTTGGAACATGGCATCGA-AAATG
64 AGACCATGTTTGGAACATGGCATCGAGAAATG
* * * * *
108970968 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGAGCTAGTGT
1 TTATGAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGGCCATT---ATGAGAGCCAATGT
* * *
108971032 AAGATCATGTCTGGGACATGGCATCG
63 AAGACCATGTTTGGAACATGGCATCG
108971058 GCCTCGACAT
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
93 4 0.02
96 163 0.97
97 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (95 bp):
TTATGAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGGCCATTATGAGAGCCAATGTAAG
ACCATGTTTGGAACATGGCATCGAGAAATG
Found at i:108971424 original size:26 final size:26
Alignment explanation
Indices: 108971394--108971443 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
108971384 TTCACTCAAG
108971394 AATGTTGTGTTGATTTATAATATTCT
1 AATGTTGTGTTGATTTATAATATTCT
108971420 AATGTTGTGTTGATTTATAATATT
1 AATGTTGTGTTGATTTATAATATT
108971444 TTATGTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.54
Consensus pattern (26 bp):
AATGTTGTGTTGATTTATAATATTCT
Found at i:108973497 original size:51 final size:51
Alignment explanation
Indices: 108973421--108973521 Score: 202
Period size: 51 Copynumber: 2.0 Consensus size: 51
108973411 TAGGGTTCAT
108973421 GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGGA
1 GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGGA
108973472 GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGG
1 GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGG
108973522 TGGAATATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (51 bp):
GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGGA
Found at i:108978164 original size:30 final size:30
Alignment explanation
Indices: 108978130--108978191 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
108978120 ATTTGTTTTA
*
108978130 TTGTTAATTTTGTTATTATTTTAGATGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
108978160 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
108978190 TT
1 TT
108978192 ACTTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:108981378 original size:20 final size:19
Alignment explanation
Indices: 108981352--108981411 Score: 84
Period size: 20 Copynumber: 3.1 Consensus size: 19
108981342 AATTTTATAA
*
108981352 TTTTATAGTTTTTAAATTT
1 TTTTATAATTTTTAAATTT
108981371 TGTTTATAATTTTTATAATTT
1 T-TTTATAATTTTTA-AATTT
*
108981392 TTTAATAATTTTTAAATTT
1 TTTTATAATTTTTAAATTT
108981411 T
1 T
108981412 AAAAGGGCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.19
20 24 0.65
21 6 0.16
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTTAAATTT
Found at i:108981394 original size:11 final size:11
Alignment explanation
Indices: 108981360--108981404 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
108981350 AATTTTATAG
108981360 TTTTTA-AATT
1 TTTTTATAATT
108981370 TTGTTTATAA--
1 TT-TTTATAATT
108981380 TTTTTATAATT
1 TTTTTATAATT
*
108981391 TTTTAATAATT
1 TTTTTATAATT
108981402 TTT
1 TTT
108981405 AAATTTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 7 0.23
10 4 0.13
11 17 0.57
12 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:108981409 original size:8 final size:9
Alignment explanation
Indices: 108981333--108981411 Score: 76
Period size: 8 Copynumber: 8.7 Consensus size: 9
108981323 TTTTTAATAA
108981333 AATTTTTAT
1 AATTTTTAT
108981342 AA-TTTTAT
1 AATTTTTAT
108981350 AA-TTTTAT
1 AATTTTTAT
*
108981358 AGTTTTTA-
1 AATTTTTAT
108981366 AATTTTGTTTAT
1 AA--TT-TTTAT
108981378 AATTTTTAT
1 AATTTTTAT
108981387 AATTTTTTAAT
1 AA-TTTTT-AT
108981398 AATTTTTA-
1 AATTTTTAT
108981406 AATTTT
1 AATTTT
108981412 AAAAGGGCTT
Statistics
Matches: 61, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
8 22 0.36
9 15 0.25
10 14 0.23
11 8 0.13
12 2 0.03
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
AATTTTTAT
Found at i:108981986 original size:22 final size:22
Alignment explanation
Indices: 108981936--108981986 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
108981926 TTGATGTTTG
* *
108981936 TTGTTATTTTGCTACCATTTTG
1 TTGTTATATTGCTACCATTTTA
* * *
108981958 CTATTATATTGCTACTATTTTA
1 TTGTTATATTGCTACCATTTTA
108981980 TTGTTAT
1 TTGTTAT
108981987 TATTTAAATA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.59
Consensus pattern (22 bp):
TTGTTATATTGCTACCATTTTA
Found at i:108982287 original size:24 final size:25
Alignment explanation
Indices: 108982233--108982291 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
108982223 GTTTTGCCCC
108982233 GTTTTTTAAGGTTAGGGTTTTTAAT
1 GTTTTTTAAGGTTAGGGTTTTTAAT
* * *
108982258 -TATTTTAGGGTTAGGG-TTTTAGT
1 GTTTTTTAAGGTTAGGGTTTTTAAT
108982281 GTTTTTTAAGG
1 GTTTTTTAAGG
108982292 AAAAATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (25 bp):
GTTTTTTAAGGTTAGGGTTTTTAAT
Found at i:108982391 original size:23 final size:23
Alignment explanation
Indices: 108982360--108982425 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
108982350 AATTAATTAA
*
108982360 ATTAGGGTTTATGGTTTTTTAGG
1 ATTAAGGTTTATGGTTTTTTAGG
* * *
108982383 GTTAAGGTTTTTGATTATTTTAGG
1 ATTAAGGTTTATGGTT-TTTTAGG
*
108982407 ATTAGGGTTTTAGTGGTTT
1 ATTAAGG-TTTA-TGGTTT
108982426 AGGGTTTTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 12 0.38
24 12 0.38
25 4 0.12
26 4 0.12
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (23 bp):
ATTAAGGTTTATGGTTTTTTAGG
Found at i:108982393 original size:16 final size:17
Alignment explanation
Indices: 108982361--108982394 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
108982351 ATTAATTAAA
*
108982361 TTAGGGTTTATGGTTTT
1 TTAGGGTTTAAGGTTTT
108982378 TTAGGG-TTAAGGTTTT
1 TTAGGGTTTAAGGTTTT
108982394 T
1 T
108982395 GATTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (17 bp):
TTAGGGTTTAAGGTTTT
Found at i:108982597 original size:155 final size:156
Alignment explanation
Indices: 108982260--108982651 Score: 596
Period size: 155 Copynumber: 2.5 Consensus size: 156
108982250 TTTTTAATTA
*
108982260 TTTTAG-GG-TTAGGGTTTTAGTGTTTTTTAA-GGAAAAATTAATTTAATTAGAGTT-AAGGGTT
1 TTTTAGTGGTTTAGGGTTTTAGTG-TTTTTAAGGGAAAAATTAAATTAATTAGAGTTGAA-GGTT
* * ** *
108982321 AATTAATTAAATTAACTGTGAAATTTAAAAATTAATTAAATTAGGGTTTATGGTTTTTTAGGGTT
64 AATTAATTAAATTAACTATGAAATTTAAAAATCAATTAAATTAGGGTTTAAAGTTTTTTAAGGTT
108982386 AAGGTTTTTGATTATTTTAGGATTAGGG
129 AAGGTTTTTGATTATTTTAGGATTAGGG
* ** * *
108982414 TTTTAGTGGTTTAGGGTTTTAGTTTTTTTAAGGGAAATTTTAACTTAATTAGAGTTGAAGATTAA
1 TTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGGAAAAATTAAATTAATTAGAGTTGAAGGTTAA
*
108982479 TTAATTAAATTAACTATGAAATTTAAAAATCAATTAAATTAGGGTTTAAAG-TTTTTAAGGTTAG
66 TTAATTAAATTAACTATGAAATTTAAAAATCAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAA
* *
108982543 GGTTTTTTATTGTTTTAGGATTAGGG
131 GGTTTTTGATTATTTTAGGATTAGGG
*
108982569 TTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGGAAAAATTAAATTAATTAGAGTTGAGGGTTAA
1 TTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGGAAAAATTAAATTAATTAGAGTTGAAGGTTAA
108982634 TTAATTAAATTAACTATG
66 TTAATTAAATTAACTATG
108982652 TCTGCCCCCA
Statistics
Matches: 215, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
154 6 0.03
155 121 0.56
156 86 0.40
157 2 0.01
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (156 bp):
TTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGGAAAAATTAAATTAATTAGAGTTGAAGGTTAA
TTAATTAAATTAACTATGAAATTTAAAAATCAATTAAATTAGGGTTTAAAGTTTTTTAAGGTTAA
GGTTTTTGATTATTTTAGGATTAGGG
Found at i:108983817 original size:9 final size:9
Alignment explanation
Indices: 108983794--108983823 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
108983784 ATTTATATTT
108983794 TATTAAAAA
1 TATTAAAAA
108983803 TA-TAAAAA
1 TATTAAAAA
108983811 TATTAAAAA
1 TATTAAAAA
108983820 TATT
1 TATT
108983824 GCCGTAGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TATTAAAAA
Found at i:108984400 original size:18 final size:18
Alignment explanation
Indices: 108984374--108984416 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
108984364 GACTAGGAAA
* *
108984374 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
108984392 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
108984410 AGGATAC
1 AGGATAC
108984417 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:108985048 original size:7 final size:7
Alignment explanation
Indices: 108985033--108985064 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
108985023 TTATATAGGT
108985033 AATACTA
1 AATACTA
*
108985040 AATAATA
1 AATACTA
108985047 AATACTA
1 AATACTA
108985054 AATACTA
1 AATACTA
108985061 AATA
1 AATA
108985065 AGAAACGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:108986253 original size:21 final size:21
Alignment explanation
Indices: 108986211--108986255 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
108986201 ACACAGCTTT
*
108986211 TTTGCAAAAATTAGAGACAAA
1 TTTGCAAAAATTAGAAACAAA
*
108986232 TTTGACAAAAATT-GAAATAAA
1 TTTG-CAAAAATTAGAAACAAA
108986253 TTT
1 TTT
108986256 AAGAGAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (21 bp):
TTTGCAAAAATTAGAAACAAA
Found at i:108986471 original size:24 final size:24
Alignment explanation
Indices: 108986439--108986486 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
108986429 CGCCTTCAAG
108986439 GAAGCGCTTTGTGCTGAGGTGGAC
1 GAAGCGCTTTGTGCTGAGGTGGAC
108986463 GAAGCGCTTTGTGCTGAGGTGGAC
1 GAAGCGCTTTGTGCTGAGGTGGAC
108986487 AAAGTGCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.42, T:0.25
Consensus pattern (24 bp):
GAAGCGCTTTGTGCTGAGGTGGAC
Found at i:108991342 original size:40 final size:40
Alignment explanation
Indices: 108991286--108991378 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
108991276 ACAAATCCAA
* * *
108991286 CAAGTAAGTTCGTAAATGTTTTTATTTAATATTTACGAGT
1 CAAGTAAGTTCATAAATATTATTATTTAATATTTACGAGT
108991326 CAAGTAAGTTCATAAATATTATTATTTAATATTTACGAGT
1 CAAGTAAGTTCATAAATATTATTATTTAATATTTACGAGT
*
108991366 CAAATATAGTTCA
1 CAAGTA-AGTTCA
108991379 ATAATAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
40 42 0.88
41 6 0.12
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.42
Consensus pattern (40 bp):
CAAGTAAGTTCATAAATATTATTATTTAATATTTACGAGT
Found at i:108991520 original size:12 final size:11
Alignment explanation
Indices: 108991504--108991537 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
108991494 AACCGAGCTA
108991504 TAAATATTTTT
1 TAAATATTTTT
108991515 TAAAATATTTTT
1 T-AAATATTTTT
108991527 TAAATATTTTT
1 TAAATATTTTT
108991538 AGAGTGTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TAAATATTTTT
Done.