Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 28 of 226
Found at i:9746020 original size:3 final size:3
Alignment explanation
Indices: 9746012--9746059 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
9746002 ATTCCCACTC
* * * *
9746012 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9746060 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:9746060 original size:18 final size:18
Alignment explanation
Indices: 9746013--9746061 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
9746003 TTCCCACTCA
*
9746013 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
9746031 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
9746049 TAATATTAATACT
1 TAATAATAATACT
9746062 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:9746061 original size:12 final size:12
Alignment explanation
Indices: 9746012--9746059 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
9746002 ATTCCCACTC
*
9746012 ATAATAATAATA
1 ATAATACTAATA
9746024 ATAATACTAATA
1 ATAATACTAATA
9746036 ATAATACTAATA
1 ATAATACTAATA
* *
9746048 CTAATATTAATA
1 ATAATACTAATA
9746060 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:9746991 original size:14 final size:17
Alignment explanation
Indices: 9746972--9747009 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
9746962 ATTTATTTCT
9746972 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
9746986 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
9747003 TAATATA
1 TAATATA
9747010 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:9747017 original size:12 final size:11
Alignment explanation
Indices: 9746989--9747032 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
9746979 ATATTTATAA
9746989 TATAATTAATT
1 TATAATTAATT
*
9747000 TAATAATATACTT
1 T-ATAAT-TAATT
9747013 TATAATTAATT
1 TATAATTAATT
9747024 TATATATTA
1 TATA-ATTA
9747033 TATAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TATAATTAATT
Found at i:9747036 original size:20 final size:23
Alignment explanation
Indices: 9746984--9747046 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
9746974 ATATAATATT
9746984 TATA-ATATAATTAATTTAATAA
1 TATATATATAATTAATTTAATAA
* *
9747006 TATACTTTATAATTAATTTATATAT
1 TATA-TATATAATTAATTTA-ATAA
* *
9747031 TATATAAATAAATAAT
1 TATATATATAATTAAT
9747047 ATAAATATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 4 0.12
24 22 0.67
25 7 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATATATATAATTAATTTAATAA
Found at i:9747048 original size:20 final size:20
Alignment explanation
Indices: 9747001--9747049 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
9746991 TAATTAATTT
*
9747001 AATAATATACTTTATAATTA
1 AATAATATACTTTATAAATA
* *
9747021 ATTTATATA-TTATATAAATA
1 AATAATATACTT-TATAAATA
9747041 AATAATATA
1 AATAATATA
9747050 AATATCTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAATATACTTTATAAATA
Found at i:9749011 original size:3 final size:3
Alignment explanation
Indices: 9749003--9749044 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
9748993 TAATATTTTC
* *
9749003 ATT ATT ATT GTT ATT ATT ATT ATT ATT ACTC A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
9749045 GATACTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 1 0.03
3 30 0.91
4 2 0.06
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:9749023 original size:15 final size:15
Alignment explanation
Indices: 9749003--9749055 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
9748993 TAATATTTTC
9749003 ATTATTATTGTTATT
1 ATTATTATTGTTATT
*
9749018 ATTATTATTATTACTCAT
1 ATTATTATTGTTA-T--T
* *
9749036 ATTATTATTGATACT
1 ATTATTATTGTTATT
9749051 ATTAT
1 ATTAT
9749056 ATTTAGTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 18 0.58
16 1 0.03
18 12 0.39
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (15 bp):
ATTATTATTGTTATT
Found at i:9752259 original size:22 final size:20
Alignment explanation
Indices: 9752220--9752259 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
9752210 CTTAATTGAC
*
9752220 AATATTTTTTTAAGATAAAT
1 AATATTTTTTTAAAATAAAT
9752240 AATATTATATTTTAAAATAA
1 AATATT-T-TTTTAAAATAA
9752260 GTATCATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AATATTTTTTTAAAATAAAT
Found at i:9757108 original size:15 final size:14
Alignment explanation
Indices: 9757087--9757122 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
9757077 ATAATCCTTA
*
9757087 ATAATTATCTTAAT
1 ATAATTATCCTAAT
9757101 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
9757116 ATAATTA
1 ATAATTA
9757123 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:9758889 original size:14 final size:13
Alignment explanation
Indices: 9758866--9758907 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9758856 TAATATTTGA
9758866 TTTATTATTTTAT
1 TTTATTATTTTAT
9758879 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
9758892 TTTAATTGTTTTAT
1 TTT-ATTATTTTAT
9758906 TT
1 TT
9758908 GACTTGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:9762419 original size:23 final size:25
Alignment explanation
Indices: 9762388--9762444 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 25
9762378 AATTTCATAG
*
9762388 TGTACATTTTTAAAT-AAA-TAA-TA
1 TGTA-ATTTTGAAATGAAATTAATTA
9762411 TGTTAATTTTGAAATGAAATTAATTA
1 TG-TAATTTTGAAATGAAATTAATTA
9762437 TGTAATTT
1 TGTAATTT
9762445 ATTTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 11 0.38
24 5 0.17
25 9 0.31
26 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (25 bp):
TGTAATTTTGAAATGAAATTAATTA
Found at i:9771006 original size:14 final size:13
Alignment explanation
Indices: 9770983--9771024 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9770973 TAATCTTTGA
9770983 TTTATTATTTTAT
1 TTTATTATTTTAT
9770996 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
9771009 TTTAATTGTTTTAT
1 TTT-ATTATTTTAT
9771023 TT
1 TT
9771025 GACTTAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:9771665 original size:36 final size:35
Alignment explanation
Indices: 9771615--9771685 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
9771605 GATGTTGGAG
9771615 ATATTTTAGATTAATTAAATAAATATTAGTTTATTA
1 ATATTTTAGATTAATT-AATAAATATTAGTTTATTA
** *
9771651 ATATTTTA-ATTTAATTTTTAAATATTATTTTATTA
1 ATATTTTAGA-TTAATTAATAAATATTAGTTTATTA
9771686 TTTTATTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (35 bp):
ATATTTTAGATTAATTAATAAATATTAGTTTATTA
Found at i:9773479 original size:19 final size:18
Alignment explanation
Indices: 9773452--9773487 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9773442 TACATATATT
*
9773452 AAAACATAAAAGAAAATAC
1 AAAAAATAAAA-AAAATAC
9773471 AAAAAATAAAAAAAATA
1 AAAAAATAAAAAAAATA
9773488 ATAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.81, C:0.06, G:0.03, T:0.11
Consensus pattern (18 bp):
AAAAAATAAAAAAAATAC
Found at i:9786329 original size:122 final size:122
Alignment explanation
Indices: 9786111--9786718 Score: 379
Period size: 122 Copynumber: 4.8 Consensus size: 122
9786101 ATTTTTAAAA
* ** * ** *
9786111 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
** ** * *
9786176 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTA-ATTTTT-GTTTTTC
65 -TTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTGAGATTTTTAGTTTTTC
9786233 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTT-AATTTT
* **
9786298 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
65 TT-AAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT---------TTGA-G-ATTTTTAG-
*
9786363 TTATGTTT
117 TT-T-TTC
* ** * * * *
9786371 TAAATTGACTCATATTGCGAG--A-G-G-TGAG--TTAAG-C-CTTTTA---ATTTTT--GTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
* * * *
9786422 TCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATT
66 TAAAAATCAACTCATATTGCGAG--A--AG-TGAG--TTAAG-C-CTTTGA-G-ATTTTT--AGT
*
9786487 TTTTAA
118 TTTT-C
* ** * ** *
9786493 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
** ** * *
9786558 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTA-ATTTTT-GTTTTTC
65 -TTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTGAGATTTTTAGTTTTTC
*
9786615 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTAAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
*
9786680 TAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
66 T-AAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
9786719 CGGGCACGCC
Statistics
Matches: 371, Mismatches: 68, Indels: 95
0.69 0.13 0.18
Matches are distributed among these distances:
120 2 0.01
121 36 0.10
122 190 0.51
123 16 0.04
124 2 0.01
125 1 0.00
126 15 0.04
127 8 0.02
129 13 0.04
130 4 0.01
131 12 0.03
133 8 0.02
134 14 0.04
135 2 0.01
136 6 0.02
137 2 0.01
138 40 0.11
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (122 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
TAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTGAGATTTTTAGTTTTTC
Found at i:9786366 original size:191 final size:191
Alignment explanation
Indices: 9786041--9787107 Score: 1922
Period size: 191 Copynumber: 5.6 Consensus size: 191
9786031 CTTTCCAAGG
9786041 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
9786106 TAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 T-TAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
9786171 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
9786233 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
9786298 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
66 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
9786363 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
9786424 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
9786489 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
66 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
9786554 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
9786615 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
9786679 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAGT
66 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
*
9786743 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTTTGTTTTTC
131 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
9786804 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTGGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
** *
9786869 AAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 -TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
9786934 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
** * * * * *
9786996 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATT-
*
9787061 TGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
64 T-TT-T--AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
9787108 AAGACACATT
Statistics
Matches: 847, Mismatches: 19, Indels: 13
0.96 0.02 0.01
Matches are distributed among these distances:
189 135 0.16
190 63 0.07
191 406 0.48
192 149 0.18
193 55 0.06
194 1 0.00
195 1 0.00
197 37 0.04
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (191 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:9786740 original size:68 final size:69
Alignment explanation
Indices: 9786615--9786932 Score: 226
Period size: 68 Copynumber: 4.9 Consensus size: 69
9786605 TTTGTTTTTC
**
9786615 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTTT
*
9786679 TTAA
66 ATAA
* * * *
9786683 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTT-AGTTTA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTT-
* **
9786746 TGTTT
65 TATAA
* ** ** *** *
9786751 TAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCT---TTTA-----A--T-TTTTGT--TTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTT-TAAATTT
* *
9786803 CAA--
65 TATAA
**
9786806 --AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTGGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTTT
*
9786869 AAAAA
66 -ATAA
** *
9786874 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTA
9786933 GTTTATGTTT
Statistics
Matches: 195, Mismatches: 34, Indels: 40
0.72 0.13 0.15
Matches are distributed among these distances:
53 30 0.15
56 1 0.01
58 7 0.04
59 2 0.01
61 2 0.01
63 2 0.01
64 4 0.02
65 3 0.02
66 3 0.02
67 15 0.08
68 74 0.38
70 52 0.27
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTTT
ATAA
Found at i:9787102 original size:74 final size:74
Alignment explanation
Indices: 9786996--9787530 Score: 518
Period size: 74 Copynumber: 6.9 Consensus size: 74
9786986 TTTGTTTTTC
*
9786996 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
9787061 TGTTGTCAA
66 TGTTGTCAA
* **
9787070 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
9787135 TGCTTTTCAA
66 TG-TTGTCAA
* * *
9787145 GAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA----
* ***
9787210 TGTTCAATTTATGTTTTTC
62 T-TTC--TGT-TG--TCAA
*
9787229 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* ***
9787294 TGTTTTTTC
66 TGTTGTCAA
* * * *
9787303 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
9787368 TACTT-TCAA
66 T-GTTGTCAA
* * * * *
9787377 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAGTCACTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG-AG-GT-ATTTTCAA
**
9787440 TTTCTGTTTTTATGTCTGTTTT
62 TTTCTG----T-TGTC----AA
** * * *
9787462 CTAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
9787527 TGTT
66 TGTT
9787531 TTCGTTATTA
Statistics
Matches: 386, Mismatches: 47, Indels: 52
0.80 0.10 0.11
Matches are distributed among these distances:
73 3 0.01
74 170 0.44
75 69 0.18
76 12 0.03
77 2 0.01
78 1 0.00
79 6 0.02
80 5 0.01
81 3 0.01
82 2 0.01
83 12 0.03
84 60 0.16
85 37 0.10
86 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTGTCAA
Found at i:9787470 original size:233 final size:231
Alignment explanation
Indices: 9786983--9787807 Score: 876
Period size: 233 Copynumber: 3.5 Consensus size: 231
9786973 AAGCCTTTTA
*
9786983 ATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 ATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
9787048 TAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
66 TAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
** * * * *
9787113 ACATTGAGGTATTTTCAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGA
131 ACACCGAGGTATTTTCAAATTCTACTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGA
*
9787178 GCCTCAAGACACGTTGAGGTATTTTCAATTCCTGTT
196 GCCTCAAGACACGTTGAGGTACTTTCAATTCCTGTT
9787214 CAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 --ATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*** **
9787279 GGTAATTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
64 GGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
* *
9787344 GCACGCCGAGGTATTTTCAAATTCTAC-TTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTT
129 ACACACCGAGGTATTTTCAAATTCTACTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTT
** * *
9787408 GAGCCT-TGGCTCACGTGTTGA-GTCACTTTCAATTTCTGTT
194 GAGCCTCAAG-ACAC--GTTGAGGT-ACTTTCAATTCCTGTT
* * *
9787448 -TTTATGTCTGTTTTC-TAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTG
1 ATTTATG--T-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
* * **
9787511 AGGTATTTTCCATTTCTGTTTTCGTTATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAAAT
63 AGGTAATTTCAATTTCTGTTTTC---A--A--------AAA-AATCAACTCATATTGCGAGAGGT
* * ** * * * *
9787576 AAGTTGAGCCCCAAGACACATTGAGGTAATTTCAATTTCT-GTTTTC--AAAATTCAACTCATAT
114 GAGTTGAGCCTCAAGACACACCGAGGTATTTTCAAATTCTACTTTTCAAAAAAATCAACTCATAT
* *
9787638 TGCGAGAA-ATGAGTTGAGCCTCAAGACACGTTGAGGTA--TTC---T-C---A
179 TGCGA-AAGGTGAGTTGAGCCTCAAGACACGTTGAGGTACTTTCAATTCCTGTT
* * * * ** * *
9787682 ATTTCTGCTTTTCAAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACATGCTGAGG
1 ATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* * *
9787747 TAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCA
66 TAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
9787808 GTTCACATGT
Statistics
Matches: 502, Mismatches: 63, Indels: 68
0.79 0.10 0.11
Matches are distributed among these distances:
219 32 0.06
220 3 0.01
228 1 0.00
230 1 0.00
231 7 0.01
232 49 0.10
233 271 0.54
234 24 0.05
235 5 0.01
237 1 0.00
238 1 0.00
241 3 0.01
243 6 0.01
244 2 0.00
245 35 0.07
246 6 0.01
247 55 0.11
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (231 bp):
ATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
ACACCGAGGTATTTTCAAATTCTACTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGA
GCCTCAAGACACGTTGAGGTACTTTCAATTCCTGTT
Found at i:9787528 original size:392 final size:383
Alignment explanation
Indices: 9787072--9787805 Score: 915
Period size: 392 Copynumber: 1.9 Consensus size: 383
9787062 GTTGTCAAAA
* *
9787072 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTG
** * * *
9787137 CTTTTC-A-A-G-AA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
66 -TTTTCTATATGAAAGAATCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACATTGAGG
**
9787197 TATTTTCAATTCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
130 -----T-AA----T-TTCAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGA
* *
9787262 GCCTCAGGACACGCTGAGGTAATT-TCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCGAGA
183 GCCTCAAGACACGCTGAGGT-ATTCTCAATTTCTG-CTTTTCAAAAATCAACTCATATTGCGAGA
** * * *
9787326 GGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTACTT-TCAAAAAAATCAACTCA
246 AATGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAAATTCT-CTTGTCAAAAAAATCAACTCA
*
9787390 TATTGCGAAAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTTTCAATTTCTGTTTTTATGT
310 TATTGCGAAAAGTGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTTTCAATTTCTGTTTTTATGT
9787455 CTGTTTTCT
375 CTGTTTTCT
* ** *
9787464 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCATTTCTG
1 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTG
9787529 TTTTCGTTATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACA
66 TTTTC--TA-TA------TGAAAGAATCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACA
* *
9787594 CATTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
122 CATTGAGGTAATTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
* * *
9787659 CAAGACACGTTGAGGTATTCTCAATTTCTGCTTTTCAAAATTTAACTCATATTGCGAGAAATGAG
187 CAAGACACGCTGAGGTATTCTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAATGAG
* * * * *
9787724 TTGAGCCTTAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCG
252 TTGAGCCTCAGGACACGCCGAGGTAATTTCAAATTCTCTTGTCAAAAAAATCAACTCATATTGCG
9787789 AAAAGTGAGTTGAGCCT
317 AAAAGTGAGTTGAGCCT
9787806 CAGTTCACAT
Statistics
Matches: 295, Mismatches: 31, Indels: 32
0.82 0.09 0.09
Matches are distributed among these distances:
391 7 0.02
392 162 0.55
393 63 0.21
394 11 0.04
395 1 0.00
396 1 0.00
399 2 0.01
400 1 0.00
403 1 0.00
404 2 0.01
405 44 0.15
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (383 bp):
AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTG
TTTTCTATATGAAAGAATCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACATTGAGGT
AATTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
CTGAGGTATTCTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
AGGACACGCCGAGGTAATTTCAAATTCTCTTGTCAAAAAAATCAACTCATATTGCGAAAAGTGAG
TTGAGCCTTGGCTCACGTGTTGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTCT
Found at i:9787725 original size:73 final size:72
Alignment explanation
Indices: 9787555--9787884 Score: 364
Period size: 73 Copynumber: 4.5 Consensus size: 72
9787545 TTTGAAAGAA
* * *
9787555 TCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
9787620 TCAAAAT
66 TCAAAAT
9787627 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTCTCAATTTCTGCT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATT-TCAATTTCTG-T
9787691 TTTCAAAAT
64 TTTCAAAAT
* * * * * *
9787700 TTAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACATGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
9787765 TCAAAAAAA
66 TC--AAAAT
* * * * *
9787774 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCTC-AGTTCACATGTTGAGAT-ATCTTTAGTTTT
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCAAG---ACACGTTGAGGTAAT-TTCAATTTC
* *
9787836 TGTTTTTAAAGAG
61 TGTTTTCAAA-AT
* *
9787849 TCAATTCATATTGCGAGAAATGAGTTG-GGCTCAAGA
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
9787885 TCACATGCCA
Statistics
Matches: 222, Mismatches: 23, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
71 3 0.01
72 60 0.27
73 67 0.30
74 41 0.18
75 27 0.12
76 24 0.11
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:9788538 original size:35 final size:35
Alignment explanation
Indices: 9788499--9788567 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
9788489 ACTTGCCTCT
9788499 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
9788534 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
9788568 TCACACACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.51, G:0.12, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:9788594 original size:34 final size:35
Alignment explanation
Indices: 9788516--9788595 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
9788506 CTCCCATGCT
* * * * *
9788516 GTCTGCCACCAGCACCACTCCCACTCTCCCATGCT
1 GTCTGCCACCAGCACCACTCACACACCCCCATACC
9788551 GTCTGCCACCAGCACCA-TCACACACCCCCATACC
1 GTCTGCCACCAGCACCACTCACACACCCCCATACC
*
9788585 GTCTACCACCA
1 GTCTGCCACCA
9788596 CCATGCCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 22 0.56
35 17 0.44
ACGTcount: A:0.23, C:0.51, G:0.10, T:0.16
Consensus pattern (35 bp):
GTCTGCCACCAGCACCACTCACACACCCCCATACC
Found at i:9789020 original size:17 final size:17
Alignment explanation
Indices: 9788998--9789031 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9788988 AACATAAAAG
9788998 AAAATACAAAAAA-ATAA
1 AAAATA-AAAAAATATAA
9789015 AAAATAAAAAAATATAA
1 AAAATAAAAAAATATAA
9789032 TTTTTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAAATATAA
Found at i:9789117 original size:11 final size:11
Alignment explanation
Indices: 9789098--9789132 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
9789088 CCCCTTCCCC
9789098 CTCCCTTCTCT
1 CTCCCTTCTCT
9789109 CTCCCTTCTCT
1 CTCCCTTCTCT
9789120 CTTCCC-TCTCT
1 C-TCCCTTCTCT
9789131 CT
1 CT
9789133 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:9792149 original size:25 final size:25
Alignment explanation
Indices: 9792121--9792274 Score: 179
Period size: 25 Copynumber: 6.3 Consensus size: 25
9792111 AGAGTTTAGC
*
9792121 GTGCTCTCTGATTATTAGCACGTAA
1 GTGCTCTCTGATTATTAGCACGTTA
* **
9792146 GTGCTTTCTGATTATTAGCACGACA
1 GTGCTCTCTGATTATTAGCACGTTA
* *
9792171 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTTA
* *
9792196 GTGCTCTCTGATTACTAGTACGTTA
1 GTGCTCTCTGATTATTAGCACGTTA
* * *
9792221 GTGCTCTTTGATTATTAGCACATTC
1 GTGCTCTCTGATTATTAGCACGTTA
*
9792246 GTGCTCTCT-A-TA-TAGCACTTTA
1 GTGCTCTCTGATTATTAGCACGTTA
9792268 GTGCTCT
1 GTGCTCT
9792275 TTGTTTAATA
Statistics
Matches: 113, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
22 15 0.13
23 2 0.02
24 1 0.01
25 95 0.84
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACGTTA
Found at i:9794302 original size:14 final size:14
Alignment explanation
Indices: 9794285--9794311 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9794275 TTTTTATACG
9794285 TACTATTATATATA
1 TACTATTATATATA
9794299 TACTATTATATAT
1 TACTATTATATAT
9794312 TTTAAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TACTATTATATATA
Found at i:9799166 original size:15 final size:15
Alignment explanation
Indices: 9799143--9799173 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9799133 GTTTTTTTCT
9799143 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
9799158 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
9799173 T
1 T
9799174 TCTAAAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:9803994 original size:6 final size:6
Alignment explanation
Indices: 9803979--9804009 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
9803969 CAGATTCGTG
9803979 AAAT-A AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA
9804010 CGAAAATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:9814385 original size:2 final size:2
Alignment explanation
Indices: 9814378--9814407 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9814368 ACCTCGCTCC
9814378 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9814408 TGCATTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9817511 original size:3 final size:3
Alignment explanation
Indices: 9817505--9817561 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
9817495 TTTTTGAAAT
9817505 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
9817553 AAG AAG AAG
1 AAG AAG AAG
9817562 TTGACGATCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9827686 original size:24 final size:24
Alignment explanation
Indices: 9827659--9827706 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9827649 GAAAAAAGAG
9827659 AAAAC-CCGTTGTCAAAAGACAGAC
1 AAAACTCCG-TGTCAAAAGACAGAC
* *
9827683 AAAACTTCGTGTCAATAGACAGAC
1 AAAACTCCGTGTCAAAAGACAGAC
9827707 TCAATTCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.17
Consensus pattern (24 bp):
AAAACTCCGTGTCAAAAGACAGAC
Found at i:9828890 original size:17 final size:16
Alignment explanation
Indices: 9828849--9828891 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
9828839 TTATACATTA
9828849 TTTAAAATATATTATT
1 TTTAAAATATATTATT
* *
9828865 TGTAAAAATGTATTATT
1 T-TTAAAATATATTATT
9828882 TTTATAAATA
1 TTTA-AAATA
9828892 AATTTAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTTAAAATATATTATT
Found at i:9832061 original size:18 final size:19
Alignment explanation
Indices: 9832038--9832077 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
9832028 TTTCCTGCAA
*
9832038 AAATAA-AATAGTAAAAAT
1 AAATAATAATAGGAAAAAT
*
9832056 AAATAATAATAGGAAAATT
1 AAATAATAATAGGAAAAAT
9832075 AAA
1 AAA
9832078 ATGTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
AAATAATAATAGGAAAAAT
Found at i:9859066 original size:17 final size:17
Alignment explanation
Indices: 9859032--9859064 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9859022 AGTACCATTC
*
9859032 TTTTATAATTTATAAAA
1 TTTTATAATTAATAAAA
9859049 TTTTA-AATTAATAAAA
1 TTTTATAATTAATAAAA
9859065 ATAAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTATAATTAATAAAA
Found at i:9863995 original size:16 final size:17
Alignment explanation
Indices: 9863976--9864022 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
9863966 AATTCAACGG
9863976 TTAAATAAT-TAAAATA
1 TTAAATAATATAAAATA
9863992 TT-AATAATATAAAATA
1 TTAAATAATATAAAATA
*
9864008 TTATAAAAATATAAA
1 TTA-AATAATATAAA
9864023 GCTACTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 6 0.22
16 11 0.41
18 10 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAATAATATAAAATA
Found at i:9866601 original size:2 final size:2
Alignment explanation
Indices: 9866594--9866620 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9866584 CAGTTAAAAT
9866594 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
9866621 TATATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9875613 original size:20 final size:21
Alignment explanation
Indices: 9875575--9875614 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9875565 AAATGCATTC
9875575 ATGTTTAAATTGTTGTGATTT
1 ATGTTTAAATTGTTGTGATTT
*
9875596 ATGTTTGAATTG-TGTGATT
1 ATGTTTAAATTGTTGTGATT
9875615 AATGAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (21 bp):
ATGTTTAAATTGTTGTGATTT
Found at i:9876020 original size:21 final size:22
Alignment explanation
Indices: 9875994--9876043 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
9875984 TATGATTAGT
9875994 ATAAGTTAACTAT-CTATGTATG
1 ATAAGTTAACTATGCTAT-TATG
*
9876016 -TAAG-TAATTATGCTATTATG
1 ATAAGTTAACTATGCTATTATG
9876036 ATAAGTTA
1 ATAAGTTA
9876044 TAAGATTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 10 0.42
21 12 0.50
22 2 0.08
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (22 bp):
ATAAGTTAACTATGCTATTATG
Found at i:9880909 original size:24 final size:26
Alignment explanation
Indices: 9880865--9880914 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
9880855 ATAATAGATC
9880865 CAAATATTGAAAATGCATGAA-AATAA
1 CAAATATT-AAAATGCATGAACAATAA
*
9880891 CAAATATT-AAATGCTTGAACAATA
1 CAAATATTAAAATGCATGAACAATA
9880915 TTGCAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (26 bp):
CAAATATTAAAATGCATGAACAATAA
Found at i:9896716 original size:21 final size:22
Alignment explanation
Indices: 9896690--9896734 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9896680 TTCAACTTAA
*
9896690 AATT-AATTTAAAAT-TATAATT
1 AATTAAATTGAAAATATA-AATT
9896711 AATTAAATTGAAAATATAAATT
1 AATTAAATTGAAAATATAAATT
9896733 AA
1 AA
9896735 GTGATATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 15 0.71
23 2 0.10
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTAAATTGAAAATATAAATT
Found at i:9897876 original size:6 final size:6
Alignment explanation
Indices: 9897865--9897890 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9897855 AATATGGCTT
9897865 CAAACA CAAACA CAAACA CAAACA CA
1 CAAACA CAAACA CAAACA CAAACA CA
9897891 TGTTTATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAACA
Found at i:9900094 original size:20 final size:20
Alignment explanation
Indices: 9900053--9900095 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9900043 CATTGCTTCT
* *
9900053 AAAAAACATTTTTGGGACAA
1 AAAAAACACTTTTGAGACAA
*
9900073 AAAAAACACTTTTGAGATAA
1 AAAAAACACTTTTGAGACAA
9900093 AAA
1 AAA
9900096 CATTGCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (20 bp):
AAAAAACACTTTTGAGACAA
Found at i:9904025 original size:726 final size:726
Alignment explanation
Indices: 9902633--9904084 Score: 2904
Period size: 726 Copynumber: 2.0 Consensus size: 726
9902623 TGTTTTTTTT
9902633 TTTGTCAATTTTGTTGATATCCCATTTTTAAATAAAAAAATACTCACTTGGTAGTCATGTAACTA
1 TTTGTCAATTTTGTTGATATCCCATTTTTAAATAAAAAAATACTCACTTGGTAGTCATGTAACTA
9902698 AAAAATGGCATTGTAATAAACTTGAATTTAACAAAATATTTTTAATATATGCACAAAACTATAAA
66 AAAAATGGCATTGTAATAAACTTGAATTTAACAAAATATTTTTAATATATGCACAAAACTATAAA
9902763 ATATAAAATTATAGATATAAAATAAACTCAAATAAACAATGAAAAGATAAGGAAACCTCAAATGT
131 ATATAAAATTATAGATATAAAATAAACTCAAATAAACAATGAAAAGATAAGGAAACCTCAAATGT
9902828 ATGTTTGTTTCATTGAAAACAACTTTTTATGAAATATTTTTAAGAAATCTGTCAAACAACAGAAA
196 ATGTTTGTTTCATTGAAAACAACTTTTTATGAAATATTTTTAAGAAATCTGTCAAACAACAGAAA
9902893 ATATTTTACACAGATTCATCCAAACACAAAAAAGTATTAAATTTTCCAGTAAAGTAAGTTATATT
261 ATATTTTACACAGATTCATCCAAACACAAAAAAGTATTAAATTTTCCAGTAAAGTAAGTTATATT
9902958 TCAGAAATCGTTTTTCGAAAACCATTTTCAATGAAACAAACAGACCCTTATTGAAGAATAATAAA
326 TCAGAAATCGTTTTTCGAAAACCATTTTCAATGAAACAAACAGACCCTTATTGAAGAATAATAAA
9903023 CTAAAAATTAATTAAAAAATTCTATTGATGGCTTGATTGGATAAGGCGGAAAGGATAATGAACAT
391 CTAAAAATTAATTAAAAAATTCTATTGATGGCTTGATTGGATAAGGCGGAAAGGATAATGAACAT
9903088 GTGTGGTTCACCTCGTCTGATATAAGGTGACTCCATCTAAGATGAAGGGGACAAAAGAGAACAAG
456 GTGTGGTTCACCTCGTCTGATATAAGGTGACTCCATCTAAGATGAAGGGGACAAAAGAGAACAAG
9903153 ATACATAGACAATACAAGATTAGCCATTAATCATTACTATGCTAAAACTCCATCCTTAGTGGCTC
521 ATACATAGACAATACAAGATTAGCCATTAATCATTACTATGCTAAAACTCCATCCTTAGTGGCTC
9903218 TCCACACCACAAATGATGTGAACCACCACGATAGTTTACTACAATACCTTTGTATAACTTAATTT
586 TCCACACCACAAATGATGTGAACCACCACGATAGTTTACTACAATACCTTTGTATAACTTAATTT
9903283 TTATATAAATTAATGTCATCTATGAGAAACTAGTTGAAAAGTATGGCTTAACCAACCTAGAATAT
651 TTATATAAATTAATGTCATCTATGAGAAACTAGTTGAAAAGTATGGCTTAACCAACCTAGAATAT
9903348 TTCGGAAGTGG
716 TTCGGAAGTGG
9903359 TTTGTCAATTTTGTTGATATCCCATTTTTAAATAAAAAAATACTCACTTGGTAGTCATGTAACTA
1 TTTGTCAATTTTGTTGATATCCCATTTTTAAATAAAAAAATACTCACTTGGTAGTCATGTAACTA
9903424 AAAAATGGCATTGTAATAAACTTGAATTTAACAAAATATTTTTAATATATGCACAAAACTATAAA
66 AAAAATGGCATTGTAATAAACTTGAATTTAACAAAATATTTTTAATATATGCACAAAACTATAAA
9903489 ATATAAAATTATAGATATAAAATAAACTCAAATAAACAATGAAAAGATAAGGAAACCTCAAATGT
131 ATATAAAATTATAGATATAAAATAAACTCAAATAAACAATGAAAAGATAAGGAAACCTCAAATGT
9903554 ATGTTTGTTTCATTGAAAACAACTTTTTATGAAATATTTTTAAGAAATCTGTCAAACAACAGAAA
196 ATGTTTGTTTCATTGAAAACAACTTTTTATGAAATATTTTTAAGAAATCTGTCAAACAACAGAAA
9903619 ATATTTTACACAGATTCATCCAAACACAAAAAAGTATTAAATTTTCCAGTAAAGTAAGTTATATT
261 ATATTTTACACAGATTCATCCAAACACAAAAAAGTATTAAATTTTCCAGTAAAGTAAGTTATATT
9903684 TCAGAAATCGTTTTTCGAAAACCATTTTCAATGAAACAAACAGACCCTTATTGAAGAATAATAAA
326 TCAGAAATCGTTTTTCGAAAACCATTTTCAATGAAACAAACAGACCCTTATTGAAGAATAATAAA
9903749 CTAAAAATTAATTAAAAAATTCTATTGATGGCTTGATTGGATAAGGCGGAAAGGATAATGAACAT
391 CTAAAAATTAATTAAAAAATTCTATTGATGGCTTGATTGGATAAGGCGGAAAGGATAATGAACAT
9903814 GTGTGGTTCACCTCGTCTGATATAAGGTGACTCCATCTAAGATGAAGGGGACAAAAGAGAACAAG
456 GTGTGGTTCACCTCGTCTGATATAAGGTGACTCCATCTAAGATGAAGGGGACAAAAGAGAACAAG
9903879 ATACATAGACAATACAAGATTAGCCATTAATCATTACTATGCTAAAACTCCATCCTTAGTGGCTC
521 ATACATAGACAATACAAGATTAGCCATTAATCATTACTATGCTAAAACTCCATCCTTAGTGGCTC
9903944 TCCACACCACAAATGATGTGAACCACCACGATAGTTTACTACAATACCTTTGTATAACTTAATTT
586 TCCACACCACAAATGATGTGAACCACCACGATAGTTTACTACAATACCTTTGTATAACTTAATTT
9904009 TTATATAAATTAATGTCATCTATGAGAAACTAGTTGAAAAGTATGGCTTAACCAACCTAGAATAT
651 TTATATAAATTAATGTCATCTATGAGAAACTAGTTGAAAAGTATGGCTTAACCAACCTAGAATAT
9904074 TTCGGAAGTGG
716 TTCGGAAGTGG
9904085 AAGAAAACGA
Statistics
Matches: 726, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
726 726 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (726 bp):
TTTGTCAATTTTGTTGATATCCCATTTTTAAATAAAAAAATACTCACTTGGTAGTCATGTAACTA
AAAAATGGCATTGTAATAAACTTGAATTTAACAAAATATTTTTAATATATGCACAAAACTATAAA
ATATAAAATTATAGATATAAAATAAACTCAAATAAACAATGAAAAGATAAGGAAACCTCAAATGT
ATGTTTGTTTCATTGAAAACAACTTTTTATGAAATATTTTTAAGAAATCTGTCAAACAACAGAAA
ATATTTTACACAGATTCATCCAAACACAAAAAAGTATTAAATTTTCCAGTAAAGTAAGTTATATT
TCAGAAATCGTTTTTCGAAAACCATTTTCAATGAAACAAACAGACCCTTATTGAAGAATAATAAA
CTAAAAATTAATTAAAAAATTCTATTGATGGCTTGATTGGATAAGGCGGAAAGGATAATGAACAT
GTGTGGTTCACCTCGTCTGATATAAGGTGACTCCATCTAAGATGAAGGGGACAAAAGAGAACAAG
ATACATAGACAATACAAGATTAGCCATTAATCATTACTATGCTAAAACTCCATCCTTAGTGGCTC
TCCACACCACAAATGATGTGAACCACCACGATAGTTTACTACAATACCTTTGTATAACTTAATTT
TTATATAAATTAATGTCATCTATGAGAAACTAGTTGAAAAGTATGGCTTAACCAACCTAGAATAT
TTCGGAAGTGG
Found at i:9912031 original size:16 final size:17
Alignment explanation
Indices: 9912003--9912035 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
9911993 TTTTCTAAAA
9912003 TTAGTGAATTTTTTTTT
1 TTAGTGAATTTTTTTTT
9912020 TTAGTG-ATTTTTTTTT
1 TTAGTGAATTTTTTTTT
9912036 CGATAAGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (17 bp):
TTAGTGAATTTTTTTTT
Found at i:9928287 original size:13 final size:13
Alignment explanation
Indices: 9928269--9928293 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9928259 AGTTCTTTAT
9928269 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
9928282 TGCTTTTGAGAA
1 TGCTTTTGAGAA
9928294 ATTTGAGTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:9930423 original size:71 final size:71
Alignment explanation
Indices: 9930333--9930507 Score: 253
Period size: 72 Copynumber: 2.5 Consensus size: 71
9930323 AAAATCATAT
* * *
9930333 ATAAACAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAATATAAATTCAATATCCAAAGA
1 ATAAACAACTATTGATAAAACTAATTTAGCATAAATAAGTAGAACATAAATTCAATATCCAAAAA
9930398 CCAAAC
66 CCAAAC
* * *
9930404 ATAAACAACTATTAATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATGTCCAAA
1 ATAAACAACTATTGATAAAACTA-ATTTA-GCATAAATAAGTAGAACATAAATTCAATATCCAAA
9930468 AACCAAAC
64 AACCAAAC
* *
9930476 ATAAATAACTATTGATAAAACTAGTTTAGCAT
1 ATAAACAACTATTGATAAAACTAATTTAGCAT
9930508 TGTTGTTTAG
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
71 28 0.31
72 63 0.69
ACGTcount: A:0.53, C:0.14, G:0.07, T:0.26
Consensus pattern (71 bp):
ATAAACAACTATTGATAAAACTAATTTAGCATAAATAAGTAGAACATAAATTCAATATCCAAAAA
CCAAAC
Found at i:9932567 original size:50 final size:50
Alignment explanation
Indices: 9932505--9932610 Score: 160
Period size: 50 Copynumber: 2.1 Consensus size: 50
9932495 TTCTTTTTTT
*
9932505 AAAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAACAA-AAACA
1 AAAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAA-AACAAAAA
* * *
9932555 AAAACATCAAATTGAACTATTATTTCGAAAACATGCGGCAAAAACAAAAA
1 AAAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAAAACAAAAA
9932605 AAAACA
1 AAAACA
9932611 AAACCATGGC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 2 0.04
50 49 0.96
ACGTcount: A:0.58, C:0.15, G:0.08, T:0.19
Consensus pattern (50 bp):
AAAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAAAACAAAAA
Found at i:9934170 original size:110 final size:116
Alignment explanation
Indices: 9933987--9934202 Score: 286
Period size: 110 Copynumber: 1.9 Consensus size: 116
9933977 TCAAAACCTT
*
9933987 AAATTTATTTCCAATTTTGCATAAAAAAGTTCATATATTTTTTTCAAGGACAAAACACATGAAAC
1 AAATTTATTCCCAATTTTGCATAAAAAAGTTCA-ATATTTTTTTCAAGGACAAAACACATGAAAC
9934052 ACGAAATATAGCTAAA-TAAAACG-ACCCCAGAAGCTTACATTTCAATGCCTCC
65 ACGAAATATAGCTAAATTAAAA-GAACCCC-GAAGCTTACATTTCAATGCCTCC
** * *
9934104 AAATTTA-TCCCAATTTTGCATCGAAAA-TTC-A-ATTTTTTT-AAGGATAAAACA-ATGAAATA
1 AAATTTATTCCCAATTTTGCATAAAAAAGTTCAATATTTTTTTCAAGGACAAAACACATGAAACA
* *
9934163 TGAAATATAGCTAAATTAAAAGAACCCCGAAGTTTACATT
66 CGAAATATAGCTAAATTAAAAGAACCCCGAAGCTTACATT
9934203 ACAGCACAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
110 33 0.37
111 21 0.23
112 8 0.09
113 1 0.01
115 3 0.03
116 17 0.19
117 7 0.08
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (116 bp):
AAATTTATTCCCAATTTTGCATAAAAAAGTTCAATATTTTTTTCAAGGACAAAACACATGAAACA
CGAAATATAGCTAAATTAAAAGAACCCCGAAGCTTACATTTCAATGCCTCC
Found at i:9937588 original size:22 final size:22
Alignment explanation
Indices: 9937555--9937610 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
9937545 TTTTCACAAA
9937555 CAAATATTCTCTCAATTTCCTTC
1 CAAA-ATTCTCTCAATTTCCTTC
*
9937578 TAAAATTCTCTCAATTTCCTTC
1 CAAAATTCTCTCAATTTCCTTC
9937600 CAAAATTCTCT
1 CAAAATTCTCT
9937611 TAAACTCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 28 0.90
23 3 0.10
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (22 bp):
CAAAATTCTCTCAATTTCCTTC
Found at i:9937712 original size:29 final size:28
Alignment explanation
Indices: 9937667--9937724 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
9937657 ATTCAATTTC
*
9937667 ATTTTTTTACGAAAATTTTAAATATTTTT
1 ATTTTTTTACAAAAATTTTAAA-ATTTTT
9937696 ATTTTTTTA-AAATAATTTTAAAATTTTT
1 ATTTTTTTACAAA-AATTTTAAAATTTTT
9937724 A
1 A
9937725 ATATTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
ATTTTTTTACAAAAATTTTAAAATTTTT
Found at i:9937851 original size:14 final size:15
Alignment explanation
Indices: 9937822--9937855 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9937812 AAATTTTAAA
9937822 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
9937837 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
9937851 TTTTA
1 TTTTA
9937856 GATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:9938825 original size:7 final size:7
Alignment explanation
Indices: 9938813--9938837 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9938803 AGTGGATTGA
9938813 TATTTAG
1 TATTTAG
9938820 TATTTAG
1 TATTTAG
9938827 TATTTAG
1 TATTTAG
9938834 TATT
1 TATT
9938838 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:9939717 original size:24 final size:24
Alignment explanation
Indices: 9939698--9939744 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
9939688 TTCAAACTTC
*
9939698 GTCGTCGTTCATGATGCAAACACT
1 GTCGCCGTTCATGATGCAAACACT
9939722 GTCGCCGTTCATGATGCAAACAC
1 GTCGCCGTTCATGATGCAAACAC
9939745 CTCCACATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (24 bp):
GTCGCCGTTCATGATGCAAACACT
Found at i:9940079 original size:29 final size:29
Alignment explanation
Indices: 9940025--9940381 Score: 442
Period size: 29 Copynumber: 12.6 Consensus size: 29
9940015 TTTTGATATT
*
9940025 ATTTGATTAAAAACCCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
9940053 ATTTAATTAAAAACCCAAACCTTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
9940082 ATTTAATTAAAAACCCTAACCC--A--T-
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
9940106 -TTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
9940134 ATTTAATTAAAAACCCTAACACTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
9940163 ATTTAATTAAAAACACTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
***
9940192 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* ***
9940221 TTTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
9940250 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
9940279 ATTTAATT-AAAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
***
9940308 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
9940337 TTTTAATTAAAAACCCTAACCCTAAACTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
9940366 ATTTAATTAAAAACCC
1 ATTTAATTAAAAACCC
9940382 ATTTTAATTA
Statistics
Matches: 292, Mismatches: 28, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
23 21 0.07
25 1 0.00
27 2 0.01
28 25 0.09
29 235 0.80
30 8 0.03
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAATTTA
Found at i:9953795 original size:21 final size:20
Alignment explanation
Indices: 9953771--9953809 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9953761 TGTTTTTAAC
9953771 TAAAACAAAATTTATTTTTAT
1 TAAAACAAAA-TTATTTTTAT
* *
9953792 TAAAGCACAATTATTTTT
1 TAAAACAAAATTATTTTT
9953810 TAAAGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (20 bp):
TAAAACAAAATTATTTTTAT
Found at i:9955520 original size:13 final size:13
Alignment explanation
Indices: 9955502--9955531 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
9955492 AACTCCACCC
9955502 TTTCTCTCGTCCT
1 TTTCTCTCGTCCT
9955515 TTTCTCTCGTCCT
1 TTTCTCTCGTCCT
9955528 TTTC
1 TTTC
9955532 ATTTAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.37, G:0.07, T:0.57
Consensus pattern (13 bp):
TTTCTCTCGTCCT
Found at i:9955842 original size:24 final size:24
Alignment explanation
Indices: 9955809--9955879 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 24
9955799 TCCTTTTCCA
*
9955809 GCACCCGAGCCTTCCAGTCCCTTT
1 GCACCAGAGCCTTCCAGTCCCTTT
* ** *
9955833 GCACCTGAGCCTGCTTCTGGTCCTTTT
1 GCACCAGAG-C--CTTCCAGTCCCTTT
9955860 GCACCAGAGCCTTCCAGTCC
1 GCACCAGAGCCTTCCAGTCC
9955880 ATCCGCACCT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
24 16 0.43
25 1 0.03
26 1 0.03
27 19 0.51
ACGTcount: A:0.13, C:0.41, G:0.20, T:0.27
Consensus pattern (24 bp):
GCACCAGAGCCTTCCAGTCCCTTT
Found at i:9968080 original size:206 final size:205
Alignment explanation
Indices: 9967724--9968126 Score: 698
Period size: 206 Copynumber: 2.0 Consensus size: 205
9967714 TAACCCTATT
* *
9967724 AACGAGACACGGACTCAAAACGGATACGTGGATCCGCCACCCGGGTTTTCAGCAACGATGACGTT
1 AACGAGACACAGACTCAAAACGGATACGTGGATCCGCCACCCGGGTTTTCAGCAACGATAACGTT
9967789 ATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTG
66 ATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTG
* * * *
9967854 TTAGCCCGAGTTGTTCGGCAACTATGACTCAATATGTACAATCTACCACCCAGGGTTATCCGAAA
131 TTAGCCCAAGTTGCTCGGCAACTATGACTCAATATGTACAATCTACCACACAGGGTTACCCGAAA
9967919 ACAGACTCAA
196 ACAGACTCAA
* * * *
9967929 AACGAGACACATACTCAAAACGGATACGTGGATCCGTCACCCGGGTTTTTCGGCAACGGTAACGT
1 AACGAGACACAGACTCAAAACGGATACGTGGATCCGCCACCCGGG-TTTTCAGCAACGATAACGT
9967994 TATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCT
65 TATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCT
*
9968059 GTTAGCCCAAGTTGCTCGGCAACTATGACTCAATGTGTACAATCTACCACACAGGGTTACCCGAA
130 GTTAGCCCAAGTTGCTCGGCAACTATGACTCAATATGTACAATCTACCACACAGGGTTACCCGAA
9968124 AAC
195 AAC
9968127 TATGGTTTTC
Statistics
Matches: 186, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
205 42 0.23
206 144 0.77
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (205 bp):
AACGAGACACAGACTCAAAACGGATACGTGGATCCGCCACCCGGGTTTTCAGCAACGATAACGTT
ATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTG
TTAGCCCAAGTTGCTCGGCAACTATGACTCAATATGTACAATCTACCACACAGGGTTACCCGAAA
ACAGACTCAA
Found at i:9968866 original size:29 final size:30
Alignment explanation
Indices: 9968809--9968866 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
9968799 ACAAAACTAA
*
9968809 TAATTAAGCTTTACATTTTAGTCATTTTCT
1 TAATTAAGCTTTACATTTTAGTCAATTTCT
9968839 TAATCTAAGC-TTA-ATTTCTAG-CAATTTC
1 TAAT-TAAGCTTTACATTT-TAGTCAATTTC
9968867 ACACTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
29 10 0.40
30 10 0.40
31 5 0.20
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.48
Consensus pattern (30 bp):
TAATTAAGCTTTACATTTTAGTCAATTTCT
Found at i:9978134 original size:31 final size:31
Alignment explanation
Indices: 9978069--9978130 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
9978059 AATATTAAAA
*
9978069 TATTAAAATAAAATATTATATTTTTTAATAT
1 TATTAAAATAAAATATTATATTATTTAATAT
9978100 TATTAAACAT-AAATATT-TAATTATTT-ATAT
1 TATTAAA-ATAAAATATTAT-ATTATTTAATAT
9978130 T
1 T
9978131 TATTCATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 6 0.21
31 20 0.71
32 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
TATTAAAATAAAATATTATATTATTTAATAT
Found at i:9978284 original size:15 final size:15
Alignment explanation
Indices: 9978264--9978334 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 15
9978254 ACTCGATATT
9978264 AATATTTTAATAATA
1 AATATTTTAATAATA
*
9978279 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
9978298 AATATATTAATAATA
1 AATATTTTAATAATA
9978313 AATATTTT-ATAGTATA
1 AATATTTTAATA--ATA
9978329 AATATT
1 AATATT
9978335 AAAATATGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
14 3 0.07
15 18 0.39
16 10 0.22
17 2 0.04
18 2 0.04
19 11 0.24
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:9978852 original size:25 final size:27
Alignment explanation
Indices: 9978824--9978881 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
9978814 GCTCCATTTG
*
9978824 ATTTTT-GAAAGTAATTTCTA-TTTTC-
1 ATTTTTAGAAAATAATTT-TATTTTTCT
9978849 ATTTTTAGAAAATAATTTTATTTTTCT
1 ATTTTTAGAAAATAATTTTATTTTTCT
9978876 ATTTTT
1 ATTTTT
9978882 TTAAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 8 0.28
26 15 0.52
27 6 0.21
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (27 bp):
ATTTTTAGAAAATAATTTTATTTTTCT
Found at i:9980943 original size:18 final size:18
Alignment explanation
Indices: 9980928--9980969 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
9980918 CCTTCTTTTA
9980928 TTCTTTCTTTTTCTTTCT
1 TTCTTTCTTTTTCTTTCT
9980946 TTCTTTCTTTTTCTTTCT
1 TTCTTTCTTTTTCTTTCT
9980964 TATCTT
1 T-TCTT
9980970 AGATTGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (18 bp):
TTCTTTCTTTTTCTTTCT
Found at i:9980947 original size:14 final size:15
Alignment explanation
Indices: 9980928--9980969 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
9980918 CCTTCTTTTA
9980928 TTCTTTCTTT-TTCT
1 TTCTTTCTTTCTTCT
9980942 TTCTTTCTTTCTT-T
1 TTCTTTCTTTCTTCT
9980956 TTCTTTCTTATCTT
1 TTCTTTCTT-TCTT
9980970 AGATTGTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 20 0.77
15 6 0.23
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTTCTTTCTTCT
Found at i:9985068 original size:17 final size:17
Alignment explanation
Indices: 9985046--9985084 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9985036 TATAATTAAT
9985046 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
9985063 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
9985080 CTTAA
1 TTTAA
9985085 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:9985169 original size:18 final size:18
Alignment explanation
Indices: 9985122--9985172 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
9985112 AAAGATTTTC
* *
9985122 TAAATATATTTAAAATTT
1 TAAATATATTAAAAAGTT
* **
9985140 TAAAAAGCTTAAAAAGTT
1 TAAATATATTAAAAAGTT
9985158 TAAATATATTAAAAA
1 TAAATATATTAAAAA
9985173 ATGTTAAGTA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (18 bp):
TAAATATATTAAAAAGTT
Found at i:9985179 original size:19 final size:18
Alignment explanation
Indices: 9985122--9985184 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
9985112 AAAGATTTTC
* *
9985122 TAAATATATTTAAAATTT
1 TAAATATATTAAAAAATT
* ** *
9985140 TAAAAAGCTTAAAAAGTT
1 TAAATATATTAAAAAATT
9985158 TAAATATATTAAAAAATGT
1 TAAATATATTAAAAAAT-T
*
9985177 TAAGTATA
1 TAAATATA
9985185 ACCAATTTTA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
18 26 0.76
19 8 0.24
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (18 bp):
TAAATATATTAAAAAATT
Found at i:9985383 original size:80 final size:80
Alignment explanation
Indices: 9985298--9985471 Score: 199
Period size: 79 Copynumber: 2.2 Consensus size: 80
9985288 TTTTTAATAT
* * * *
9985298 ATTTAAAATTTTAGA-AAACTTAAAAAAACTTAAAAATATTAAAATTTTAAATATGTTAAAGAAA
1 ATTTAAAATTTTA-ATAAACTT-AAAAAACTTAAAAATATTAAAATATTAAACATATTAAAAAAA
9985362 AGGATAAGTATAACC-A
64 AGGATAAGTATAACCAA
* * * * * * *
9985378 ATTTAAAATTTTAATATACTTAATATATTTAAATATATTAAAATATTGAACATATTAAAAAAAAT
1 ATTTAAAATTTTAATAAACTTAAAAAACTTAAAAATATTAAAATATTAAACATATTAAAAAAAAG
**
9985443 TTTAAGTATAACCAA
66 GATAAGTATAACCAA
9985458 ATTTAAAATTTTAA
1 ATTTAAAATTTTAA
9985472 AATATTTTTA
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 46 0.58
80 33 0.42
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (80 bp):
ATTTAAAATTTTAATAAACTTAAAAAACTTAAAAATATTAAAATATTAAACATATTAAAAAAAAG
GATAAGTATAACCAA
Found at i:9985418 original size:18 final size:19
Alignment explanation
Indices: 9985380--9985424 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
9985370 TATAACCAAT
9985380 TTAAAAT-TTT-AATATAC
1 TTAAAATATTTAAATATAC
*
9985397 TTAATATATTTAAATATA-
1 TTAAAATATTTAAATATAC
9985415 TTAAAATATT
1 TTAAAATATT
9985425 GAACATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 12 0.50
19 6 0.25
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAATATTTAAATATAC
Found at i:9987391 original size:59 final size:60
Alignment explanation
Indices: 9987295--9987412 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 60
9987285 AGCTACTATC
* *
9987295 TTTAAGGTTATATTCCCCCACTTATTTTCGGTGTGCAAATGAGTTTCAAGCAAATTAACT
1 TTTAAGGTTATATTCCCCCACTTATCTTCAGTGTGCAAATGAGTTTCAAGCAAATTAACT
9987355 TTTAAGGTTATATT-CCCCACTTATCTTCAGTGTGCAAATGAGTTTCAAGCAAATTAAC
1 TTTAAGGTTATATTCCCCCACTTATCTTCAGTGTGCAAATGAGTTTCAAGCAAATTAAC
9987413 CTCGAGGATA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 42 0.75
60 14 0.25
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (60 bp):
TTTAAGGTTATATTCCCCCACTTATCTTCAGTGTGCAAATGAGTTTCAAGCAAATTAACT
Found at i:9992148 original size:32 final size:32
Alignment explanation
Indices: 9992112--9992172 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
9992102 AAATAAACAC
9992112 ATAATTATTCATTT-AATA-TTATAACTATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAACTATTCAA
*
9992144 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAACTATT
9992173 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAACTATTCAA
Found at i:9992541 original size:13 final size:13
Alignment explanation
Indices: 9992518--9992570 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
9992508 AATTCTTCAT
9992518 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
9992531 TGCTGTGGAAAAA
1 TGCTTTTGAAAAG
*
9992544 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
9992557 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
9992570 T
1 T
9992571 TTGGTTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:9995123 original size:22 final size:22
Alignment explanation
Indices: 9995095--9995163 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
9995085 TATGTACTAT
9995095 TAAATAGAGAGCACTAAAGTGC
1 TAAATAGAGAGCACTAAAGTGC
*
9995117 TATATAGAGAGCAC-AAATGTGC
1 TAAATAGAGAGCACTAAA-GTGC
** *
9995139 TAAACGGAGAGCACTAACGTGC
1 TAAATAGAGAGCACTAAAGTGC
9995161 TAA
1 TAA
9995164 TAATCAGAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 3 0.08
22 35 0.88
23 2 0.05
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (22 bp):
TAAATAGAGAGCACTAAAGTGC
Found at i:10003338 original size:2 final size:2
Alignment explanation
Indices: 10003333--10003362 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10003323 CACACACACG
10003333 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10003363 AAAGTAGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10005713 original size:2 final size:2
Alignment explanation
Indices: 10005706--10005740 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10005696 GTTTAGCTTA
10005706 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10005741 TCAGATCTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10017574 original size:6 final size:6
Alignment explanation
Indices: 10017565--10017598 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
10017555 CTATATCAAT
10017565 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA
10017599 GAGAGTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:10021794 original size:26 final size:27
Alignment explanation
Indices: 10021738--10021814 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
10021728 TTTTTTTTTA
* * **
10021738 TTTTTATTTTTAAATTTTAAAATATTT
1 TTTTTATTTTTTATTTTTAAAATATAC
10021765 TTTTTATTTTTTATTTTTAAAATA-AC
1 TTTTTATTTTTTATTTTTAAAATATAC
* * *
10021791 TTTTTAATGTTTATTTTAAAAATA
1 TTTTTATTTTTTATTTTTAAAATA
10021815 GGCCGGGCTA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 21 0.49
27 22 0.51
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTTTATTTTTTATTTTTAAAATATAC
Found at i:10024818 original size:9 final size:9
Alignment explanation
Indices: 10024801--10024845 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
10024791 GTTAAAAATG
10024801 AACCGAATT
1 AACCGAATT
*
10024810 AATCGAATT
1 AACCGAATT
*
10024819 ACCCGAATT
1 AACCGAATT
10024828 AACCGAATT
1 AACCGAATT
10024837 AACCGAATT
1 AACCGAATT
10024846 GAGTCCCTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.24
Consensus pattern (9 bp):
AACCGAATT
Found at i:10024988 original size:18 final size:18
Alignment explanation
Indices: 10024948--10024991 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10024938 AATTTTTATG
**
10024948 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
10024966 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
10024984 CTTGGGTT
1 ATTGGGTT
10024992 TGGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:10026647 original size:26 final size:26
Alignment explanation
Indices: 10026609--10026668 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
10026599 GCTATATCGG
10026609 AAAGAGCCGTTAATC-AATAAGCTCAC
1 AAAGAGCCGTTAATCGAA-AAGCTCAC
* *
10026635 AAAGAGCCTTTAATCGGAAAGCTCAC
1 AAAGAGCCGTTAATCGAAAAGCTCAC
*
10026661 GAAGAGCC
1 AAAGAGCC
10026669 ATATATCGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 29 0.97
27 1 0.03
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (26 bp):
AAAGAGCCGTTAATCGAAAAGCTCAC
Found at i:10026676 original size:26 final size:26
Alignment explanation
Indices: 10026627--10026677 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10026617 GTTAATCAAT
*
10026627 AAGCTCACAAAGAGCCTTTAATCGGA
1 AAGCTCACAAAGAGCCTATAATCGGA
*
10026653 AAGCTCACGAAGAGCC-ATATATCGG
1 AAGCTCACAAAGAGCCTATA-ATCGG
10026678 GACACTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCTATAATCGGA
Found at i:10030492 original size:77 final size:77
Alignment explanation
Indices: 10030380--10030550 Score: 222
Period size: 77 Copynumber: 2.2 Consensus size: 77
10030370 AAATAATCAA
* * * **
10030380 TGCATGCATATT-AAAAATAGTCAACAGCATATGACCATCTCCACTGACAATCATACACAGAA-A
1 TGCATGCATATTAAAAAATAGTCAACAACATATGACCAGCCCCACCAACAATCATACACA-AACA
10030443 AATTA-AAAAACAC
65 AATTAGAAAAA-AC
* * * *
10030456 TGCATGCATGTTAAAAAATAGTCAACAACATGTGACCAGCCCCACCAACAATCATACATAAACAG
1 TGCATGCATATTAAAAAATAGTCAACAACATATGACCAGCCCCACCAACAATCATACACAAACAA
10030521 ATTAGAAAAAAC
66 ATTAGAAAAAAC
10030533 TGCATGCATATTAAAAAA
1 TGCATGCATATTAAAAAA
10030551 CACTCACTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
76 13 0.16
77 64 0.78
78 5 0.06
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (77 bp):
TGCATGCATATTAAAAAATAGTCAACAACATATGACCAGCCCCACCAACAATCATACACAAACAA
ATTAGAAAAAAC
Found at i:10032264 original size:39 final size:37
Alignment explanation
Indices: 10032197--10032271 Score: 89
Period size: 39 Copynumber: 2.0 Consensus size: 37
10032187 ACCAGAATGG
* *
10032197 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
*
10032236 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTG
10032272 GTACCAGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 5 0.16
38 2 0.06
39 22 0.69
40 3 0.09
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:10032500 original size:23 final size:24
Alignment explanation
Indices: 10032456--10032501 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
10032446 TTTCTCACAT
* **
10032456 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
10032480 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
10032502 AATTCACACG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:10032521 original size:17 final size:17
Alignment explanation
Indices: 10032499--10032537 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
10032489 ATAATTAATC
10032499 CACAATTCACACGTTTT
1 CACAATTCACACGTTTT
10032516 CACAATTCACACGTTTT
1 CACAATTCACACGTTTT
10032533 CACAA
1 CACAA
10032538 CTCAATACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.31
Consensus pattern (17 bp):
CACAATTCACACGTTTT
Found at i:10033712 original size:29 final size:26
Alignment explanation
Indices: 10033672--10033730 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 26
10033662 AAAGCCTTTT
*
10033672 TTTTTTAAATTTTCCGAAATAGGCCA
1 TTTTTTAAATTTACCGAAATAGGCCA
* *
10033698 GTTTTTTAATTATTTACCGGAATGGGCCA
1 -TTTTTTAA--ATTTACCGAAATAGGCCA
10033727 TTTT
1 TTTT
10033731 CCCCGAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 4 0.15
29 15 0.56
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (26 bp):
TTTTTTAAATTTACCGAAATAGGCCA
Found at i:10034194 original size:126 final size:125
Alignment explanation
Indices: 10033966--10034244 Score: 402
Period size: 126 Copynumber: 2.2 Consensus size: 125
10033956 TTTCGAGTTA
**
10033966 ACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACTAGGATGCTATCAGAGAAGAAATTGTGAA
1 ACGTTTCTGAG-CAAATAGTATAAAATCGCTGATACTAGGATGCTATCAGAGAAGAAATTGTGAA
* * *
10034030 ATCGTGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGGAAGAAATAATTTTTTTTTG
65 ATCGCGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGGAAGAAATAATTATATTTTG
10034091 ACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACTAGGATGCTAT-ATGAGAAGAAATTGTGA
1 ACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACTAGGATGCTATCA-GAGAAGAAATTGTGA
** * *
10034155 AATCGCGCCCTCGTGGACGGGATTTC-GCTACAGTTGGTCATGTAGGAAATAATTATATTTTG
64 AATCGCGCCCTCGTGGACGCCATTTCGGC-ACAGTTGGTCATGGAAGAAATAATTATATTTTG
* *
10034217 ACGTTTCTGAGCAAATAGTGTCAAATCG
1 ACGTTTCTGAGCAAATAGTATAAAATCG
10034245 TGCCCTCGTG
Statistics
Matches: 139, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
125 29 0.21
126 109 0.78
127 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (125 bp):
ACGTTTCTGAGCAAATAGTATAAAATCGCTGATACTAGGATGCTATCAGAGAAGAAATTGTGAAA
TCGCGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGGAAGAAATAATTATATTTTG
Found at i:10037484 original size:29 final size:29
Alignment explanation
Indices: 10037412--10037875 Score: 558
Period size: 29 Copynumber: 15.1 Consensus size: 29
10037402 GTGTAAAATT
*
10037412 ATTATGTTAGGGTTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGG-TTAGGGTTTTTAATTAA
10037442 ATTAGGTTA-GGTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10037470 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10037499 ATTAGGTTAGGGTTAGGGTTTTTAATTAAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATT-AA
10037529 TTAGGTTAGGTTAGGGTTTAGGGTTTTTAATTAAATTA
1 --A--TTAGGTTAGGG-TTAGGGTTTTTAATT--A--A
*
10037567 GATTAGGTTAGGGTTTAGGGGTTTTAATTAA
1 -ATTAGGTTAGGG-TTAGGGTTTTTAATTAA
**
10037598 ATTAAATTA-GGTTAGGGTTTTTAATTAAATTAA
1 ATTAGGTTAGGGTTAGGG--TTT--TT-AATTAA
10037631 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10037660 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10037689 ATTAGGTTAGGGTTAAGGG-TTTTAATTAA
1 ATTAGGTTAGGGTT-AGGGTTTTTAATTAA
10037718 ATTAGATTATGTTAGGGTTTAGGGTTTTTAATTAAATTAA
1 ATTAG-----GTTAGGG-TTAGGG--TTT--TT-AATTAA
10037758 ATTAGGTTAGGGTTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGG-TTAGGGTTTTTAATTAA
10037788 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10037817 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
** *
10037846 ATTAAATTA-GGTTAGGGTTTTTAATCAA
1 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
10037874 AT
1 AT
10037876 AATATCAAAA
Statistics
Matches: 394, Mismatches: 11, Indels: 60
0.85 0.02 0.13
Matches are distributed among these distances:
28 52 0.13
29 167 0.42
30 43 0.11
31 3 0.01
32 6 0.02
33 17 0.04
34 30 0.08
35 57 0.14
36 2 0.01
37 3 0.01
38 1 0.00
39 2 0.01
40 11 0.03
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (29 bp):
ATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:10037607 original size:23 final size:24
Alignment explanation
Indices: 10037581--10037636 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 24
10037571 AGGTTAGGGT
10037581 TTAGGGG-TTTTAATTAAATTAAA
1 TTAGGGGTTTTTAATTAAATTAAA
10037604 TTAGGTTAGGGTTTTTAATTAAATTAAA
1 TTA-G---GGGTTTTTAATTAAATTAAA
10037632 TTAGG
1 TTAGG
10037637 TTAGGGTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 3 0.11
24 2 0.07
27 4 0.14
28 19 0.68
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.45
Consensus pattern (24 bp):
TTAGGGGTTTTTAATTAAATTAAA
Found at i:10037741 original size:190 final size:186
Alignment explanation
Indices: 10037418--10037875 Score: 744
Period size: 190 Copynumber: 2.4 Consensus size: 186
10037408 AATTATTATG
10037418 TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
*
10037482 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTT
65 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGTTAGGGTT
*
10037547 TAGGGTTTTTAATTAAATTAGATTAGGTTAGGGTTTAGGGGTTTTAATTAAATTAAA
130 TAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTAGGGGTTTTAATTAAATTAAA
10037604 TTA-GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 TTAGGGTTAGGG--TTT--TT-AATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
*
10037668 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGG-TTTTAATTAAATTAGATTATGTTA
61 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT-AGGGTTTTTAATTAAATTAGATTAGGTTA
* **
10037732 GGGTTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGG
125 GGGTTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTAGGGGTTTTAATTAAATTAAA
**
10037794 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTA-GGT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
10037858 TAGGGTTTTTAATCAAAT
66 TAGGGTTTTTAATTAAAT
10037876 AATATCAAAA
Statistics
Matches: 255, Mismatches: 9, Indels: 17
0.91 0.03 0.06
Matches are distributed among these distances:
184 6 0.02
185 22 0.09
186 48 0.19
187 2 0.01
188 2 0.01
189 18 0.07
190 145 0.57
191 12 0.05
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.45
Consensus pattern (186 bp):
TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
TAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGTTAGGGTTT
AGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTAGGGGTTTTAATTAAATTAAA
Found at i:10040014 original size:22 final size:22
Alignment explanation
Indices: 10039973--10040014 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10039963 CAGACTTTTA
*
10039973 TAACAAAAAATAAATTAATATT
1 TAACAAAAAATAAATAAATATT
* *
10039995 TAACTAAAAATACATAAATA
1 TAACAAAAAATAAATAAATA
10040015 AAAATATCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
TAACAAAAAATAAATAAATATT
Found at i:10040016 original size:14 final size:15
Alignment explanation
Indices: 10039999--10040032 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10039989 AATATTTAAC
10039999 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
10040013 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
10040028 TAAAA
1 TAAAA
10040033 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:10040027 original size:15 final size:15
Alignment explanation
Indices: 10039989--10040032 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
10039979 AAAATAAATT
*
10039989 AATAT-TTAACTAAA
1 AATATCTTAAATAAA
*
10040003 AATA-CATAAATAAA
1 AATATCTTAAATAAA
10040017 AATATCTTAAATAAA
1 AATATCTTAAATAAA
10040032 A
1 A
10040033 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
AATATCTTAAATAAA
Found at i:10040163 original size:28 final size:29
Alignment explanation
Indices: 10040130--10040186 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
10040120 TTGAAAATAT
10040130 TAAAAAT-TTTAAAATTATT-TTAAAAAAA
1 TAAAAATATTTAAAATT-TTCTTAAAAAAA
10040158 TAAAAATATTTAAAATTTTCTTAAAAAAA
1 TAAAAATATTTAAAATTTTCTTAAAAAAA
10040187 ATGAAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAAAATATTTAAAATTTTCTTAAAAAAA
Found at i:10040266 original size:21 final size:21
Alignment explanation
Indices: 10040222--10040270 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
10040212 TAATATGGAG
*
10040222 TTGAGAGATTTTTTGAAGGAAAT
1 TTGAG-GA-TTTTGGAAGGAAAT
10040245 TGTGAGGATTTTGGAAGG-AAT
1 T-TGAGGATTTTGGAAGGAAAT
10040266 TTGAG
1 TTGAG
10040271 AGTTTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 9 0.38
23 3 0.12
24 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.37
Consensus pattern (21 bp):
TTGAGGATTTTGGAAGGAAAT
Found at i:10040302 original size:22 final size:22
Alignment explanation
Indices: 10040277--10040323 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10040267 TGAGAGTTTA
*
10040277 AGAGAATTTTGGAAGGAATTTG
1 AGAGAATTTTGGAAGGAAATTG
* *
10040299 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
10040321 AGA
1 AGA
10040324 TGGGATTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:10040308 original size:52 final size:52
Alignment explanation
Indices: 10040225--10040323 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 52
10040215 TATGGAGTTG
* * * * *
10040225 AGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
* * *
10040277 AGAGAATTTTGGAAGGAATTTGAGAGAATTTTTGAATGAAATTGAGA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGA
10040324 TGGGATTTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.34
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
Found at i:10040842 original size:21 final size:21
Alignment explanation
Indices: 10040818--10040860 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10040808 AATAATAACT
10040818 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
10040839 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
10040860 A
1 A
10040861 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:10040992 original size:25 final size:23
Alignment explanation
Indices: 10040948--10041008 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
10040938 ATTTTGATTT
*
10040948 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
10040972 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
10040996 ATATAAATTATAT
1 AT-TTAATTATAT
10041009 TTAAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:10041011 original size:35 final size:35
Alignment explanation
Indices: 10040956--10041035 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
10040946 TTATTTAATA
* *
10040956 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
* *
10040990 CATATAATATAAATTAT-ATTTAAATATTATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
10041025 ATATAAT-TAAA
1 ATATAATATAAA
10041036 CAAATAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 24 0.60
36 5 0.12
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:10042839 original size:23 final size:23
Alignment explanation
Indices: 10042812--10042856 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
10042802 AAAATGAAAC
* *
10042812 CAAAATTGAAATAACCCTAAATT
1 CAAAATTAAAATAACCCAAAATT
10042835 CAAAATTAAAATAACCCAAAAT
1 CAAAATTAAAATAACCCAAAAT
10042857 AACCTTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.18, G:0.02, T:0.22
Consensus pattern (23 bp):
CAAAATTAAAATAACCCAAAATT
Found at i:10043432 original size:31 final size:30
Alignment explanation
Indices: 10043397--10043457 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
10043387 CCAGTGATTA
* *
10043397 TTTTGACACTTTTTTATAATGTT-AGTGACTG
1 TTTTGACA-TTTTTCA-AAAGTTGAGTGACTG
*
10043428 TTTTGTCATTTTTCAAAAGTTGAGTGACTG
1 TTTTGACATTTTTCAAAAGTTGAGTGACTG
10043458 AAATAAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 5 0.19
30 14 0.54
31 7 0.27
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.49
Consensus pattern (30 bp):
TTTTGACATTTTTCAAAAGTTGAGTGACTG
Found at i:10051100 original size:23 final size:23
Alignment explanation
Indices: 10051073--10051117 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
10051063 GGAAAATATT
10051073 AAATATATATA-TTTTTATTTTTA
1 AAATATA-ATAGTTTTTATTTTTA
10051096 AAATATAATAGTTTTTTATTTT
1 AAATATAATAG-TTTTTATTTT
10051118 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.15
23 7 0.35
24 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AAATATAATAGTTTTTATTTTTA
Found at i:10063057 original size:13 final size:13
Alignment explanation
Indices: 10063015--10063057 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
10063005 TTGCTTTTGG
10063015 AAAGTGC-TGTGA
1 AAAGTGCTTGTGA
10063027 AAATGTGCTTGTGA
1 AAA-GTGCTTGTGA
* *
10063041 AAAGTGTTTTTGA
1 AAAGTGCTTGTGA
10063054 AAAG
1 AAAG
10063058 CTTGGTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 3 0.11
13 16 0.59
14 8 0.30
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (13 bp):
AAAGTGCTTGTGA
Found at i:10064849 original size:5 final size:5
Alignment explanation
Indices: 10064839--10064869 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
10064829 ATTTGGATGG
10064839 GCGGT GCGGT GCGGT GCGGT GCGGT GCGGT G
1 GCGGT GCGGT GCGGT GCGGT GCGGT GCGGT G
10064870 AGTTTTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.61, T:0.19
Consensus pattern (5 bp):
GCGGT
Found at i:10072308 original size:32 final size:32
Alignment explanation
Indices: 10072267--10072329 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
10072257 TGTCCAGTAT
*
10072267 TGTTTTTAGCTTTTGAATTGAGATTCCATCAC
1 TGTTTTTAGCTTCTGAATTGAGATTCCATCAC
*
10072299 TGTTTTTAGCTTCTGAATTGAGTTTCCATCA
1 TGTTTTTAGCTTCTGAATTGAGATTCCATCA
10072330 ATCTATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.48
Consensus pattern (32 bp):
TGTTTTTAGCTTCTGAATTGAGATTCCATCAC
Found at i:10073854 original size:300 final size:295
Alignment explanation
Indices: 10073196--10074052 Score: 855
Period size: 300 Copynumber: 2.9 Consensus size: 295
10073186 TTGTTATGGG
* *
10073196 TTCAAATCTCAGCATATACATATTTTTATTAGTTTTTT-AGTGAAAAGACTAAAATACCCTTAAA
1 TTCAAATCTCA-CATATACATATTTTTATTAGTTTTTTAAGTGAAAAGACTAAAATACTCTCAAA
* * * *
10073260 TAATATTACTTATTTTAATTACAAAAGGACATTCTCGTAATTTTCTAACCGAGTTGTTACTCGGT
65 TAATATTACTTATTTTAATTACAAAAGGACATTCTCGTAACTTCCTAACCAAGTTGTGACTCGGT
* * * *
10073325 TAAGGGTGACACCGACTCAATAAAATAGTTAAATAATAGCAAGTATAGATATACAACTGATAAAT
130 TAAGGGTGACAACGACTCAATAAAAGAGTTAAATAATAGCAAGTAGAGATATACAACTGATAAAG
* *
10073390 GTAGTAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATAAAAAAAAAGTTGTAGTTGAATG
195 GTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATAAAAAAAAACTTGTAGTTGAATG
* *
10073455 GTAAATTAAAGGTTTAACTAAAGTAATTGGTGTGAA
260 ATAAATTAAAGGTTTAACTAAAGCAATTGGTGTGAA
* *
10073491 TTCAAATCTCACTAAATTCATATTTTTA-TAGTTTTTTAAAGTGAAAAGACTAAAATACTCTCAA
1 TTCAAATCTCAC-ATATACATATTTTTATTAGTTTTTT-AAGTGAAAAGACTAAAATACTCTCAA
* * * *
10073555 ATAATATTACTTATTTTAATTGCGAAAGGGCATTCTCGTGACTTCCTAACCAAGTTGATGACTCG
64 ATAATATTACTTATTTTAATTACAAAAGGACATTCTCGTAACTTCCTAACCAAGTTG-TGACTCG
* * **
10073620 GTTGAGGGTGACAATGACTCAA-CCAAGAGCTTAAATTATAGTATAG-AAGTAGAGATATACAA-
128 GTTAAGGGTGACAACGACTCAATAAAAGAG-TT-AA--ATA--ATAGCAAGTAGAGATATACAAC
* ***
10073682 TCGATGAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAA-A-AAAATTTTTAACTT
187 T-GATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATAAAA--AAAAACTT
* * * *
10073745 -TAGTTGAATGATAAATTAAAGGTTTTATTAATGCAATTGGTGTGGA
249 GTAGTTGAATGATAAATTAAAGGTTTAACTAAAGCAATTGGTGTGAA
* * * * * *
10073791 TTCAAACTTTGC-CATATGCATATATTTATTGGTTTTTTAAGTGAAAAGACTATAATGCTCTCAA
1 TTCAAA-TCT-CACATATACATATTTTTATTAGTTTTTTAAGTGAAAAGACTAAAATACTCTCAA
* * * * * *
10073855 ATAATATTACTTATTTTAATTAAATATTATGAAAGGGCATTCTCATAACTTCTTAATCGAGATTG
64 ATAATATTACTTATTTTAA-T---TA-CA--AAAGGACATTCTCGTAACTTCCTAACCAAG-TT-
* * * * * *
10073920 GTGACGCGATTAAGGGTGACACCAATTCAAT-CAAGAGCTTAAATAATA--ATA-TA-A-ATATA
120 GTGACTCGGTTAAGGGTGACAACGACTCAATAAAAGAG-TTAAATAATAGCA-AGTAGAGATATA
* * * * *
10073979 CAACTAATAGAGGTAATAAATTGTACATAATAAAATTAAAATGTATAAAAATATTAATAAAAAA-
183 CAACTGATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATA-TAAAAAAAAAC
*
10074043 TTTTAGTTGA
247 TTGTAGTTGA
10074053 TAAAAGTTTT
Statistics
Matches: 467, Mismatches: 63, Indels: 58
0.79 0.11 0.10
Matches are distributed among these distances:
294 10 0.02
295 24 0.05
296 77 0.16
297 27 0.06
298 2 0.00
299 4 0.01
300 157 0.34
301 86 0.18
302 8 0.02
303 7 0.01
304 1 0.00
305 3 0.01
307 27 0.06
308 33 0.07
309 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (295 bp):
TTCAAATCTCACATATACATATTTTTATTAGTTTTTTAAGTGAAAAGACTAAAATACTCTCAAAT
AATATTACTTATTTTAATTACAAAAGGACATTCTCGTAACTTCCTAACCAAGTTGTGACTCGGTT
AAGGGTGACAACGACTCAATAAAAGAGTTAAATAATAGCAAGTAGAGATATACAACTGATAAAGG
TAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATAAAAAAAAACTTGTAGTTGAATGA
TAAATTAAAGGTTTAACTAAAGCAATTGGTGTGAA
Found at i:10076620 original size:22 final size:21
Alignment explanation
Indices: 10076591--10076646 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
10076581 TGCACTAATG
*
10076591 AACAGAGAGCACTGAAGTGCT
1 AACAGAGAGCACAGAAGTGCT
**
10076612 ATACAGAGAGCACAGGTGTGCT
1 A-ACAGAGAGCACAGAAGTGCT
10076634 AATCAGAGAGCAC
1 AA-CAGAGAGCAC
10076647 CAACGTGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.38, C:0.20, G:0.29, T:0.14
Consensus pattern (21 bp):
AACAGAGAGCACAGAAGTGCT
Found at i:10077645 original size:7 final size:7
Alignment explanation
Indices: 10077633--10077664 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
10077623 TTATAATATA
10077633 ATATAAT
1 ATATAAT
10077640 ATAT-A-
1 ATATAAT
10077645 ATATAAT
1 ATATAAT
10077652 ATATAAT
1 ATATAAT
10077659 ATATAA
1 ATATAA
10077665 CTTAACTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 4 0.17
6 2 0.09
7 17 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATATAAT
Found at i:10077645 original size:12 final size:12
Alignment explanation
Indices: 10077628--10077661 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
10077618 TTCTTTTATA
10077628 ATATAATATAAT
1 ATATAATATAAT
10077640 ATATAATATAAT
1 ATATAATATAAT
10077652 ATATAATATA
1 ATATAATATA
10077662 TAACTTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATAATATAAT
Found at i:10096514 original size:124 final size:124
Alignment explanation
Indices: 10096283--10096538 Score: 356
Period size: 124 Copynumber: 2.1 Consensus size: 124
10096273 GTATCTGGTT
* ** * **
10096283 AAATAGTAGGAAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGT
1 AAATAGTAGAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGTCACCTCGT
10096348 GGACGCGATTTCGCTACAGTGGTCATGTAAGAAATG-ATTTTTTTTGACGTTTTCTGAGC
66 GGACGCGATTTCGCTACAGTGGTCATGTAAGAAATGAATTTTTTTTGACG-TTTCTGAGC
* * * *
10096407 AAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCG-CACTCTTG
1 AAATAGTAGAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGTCAC-CTCG
*
10096471 TGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAAT-AATTTTTTTTTGACGTTTCTGAGC
65 TGGACGCGATTTCGCTACAG-TGGTCATGTAAGAAATGAA-TTTTTTTTGACGTTTCTGAGC
10096532 AAATAGT
1 AAATAGT
10096539 GTCAAATCAC
Statistics
Matches: 117, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
123 1 0.01
124 72 0.62
125 32 0.27
126 12 0.10
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (124 bp):
AAATAGTAGAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGTCACCTCGT
GGACGCGATTTCGCTACAGTGGTCATGTAAGAAATGAATTTTTTTTGACGTTTCTGAGC
Found at i:10099880 original size:28 final size:28
Alignment explanation
Indices: 10099780--10100439 Score: 591
Period size: 23 Copynumber: 25.5 Consensus size: 28
10099770 CAGGGTAAGA
10099780 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
*
10099809 GATTTTAATTAAA-TAGGTTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
*
10099836 G-TTTTCATGTAAA-TAGGTTAGGGTT-GG
1 GTTTTTAAT-TAAATTAGGTTA-GGTTAGG
10099863 GTTTTTAATTAAATTAGGTTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* *
10099891 GATTTCAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
10099920 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
*
10099949 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
10099972 GTTTTTAATTAAATTA---T--GTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* *
10099995 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
10100023 GTTTTTAATT-AA--A--TTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
*
10100046 GTTTTTAATTAAATTAAGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
*
10100075 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* *
10100098 G-TTTT--TT-AATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* *
10100122 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
*
10100150 GTTTTTAATT--A--A-GTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
10100173 GTTTTTAATTAAATTAGGTTA---T--G
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
10100196 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
*
10100225 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* *
10100248 GTTTTTAATT--A--A-GTTATGTTATG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* *
10100271 GTTTTTAATTTAATTAAGTTAGGTTA-G
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* *
10100298 G-TTTT--TT-AATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
10100322 GTTTTTAATT-AA--A--TTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
10100345 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
*
10100374 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
10100397 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
*
10100426 GTTTTTAATCAAAT
1 GTTTTTAATTAAAT
10100440 AATGTCAAAA
Statistics
Matches: 545, Mismatches: 24, Indels: 124
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.01
21 1 0.00
22 5 0.01
23 190 0.35
24 24 0.04
25 14 0.03
26 14 0.03
27 47 0.09
28 121 0.22
29 121 0.22
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.47
Consensus pattern (28 bp):
GTTTTTAATTAAATTAGGTTAGGTTAGG
Found at i:10100098 original size:126 final size:126
Alignment explanation
Indices: 10099780--10100422 Score: 662
Period size: 127 Copynumber: 5.0 Consensus size: 126
10099770 CAGGGTAAGA
* * *
10099780 GTTTTTAATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAATAGGTTAGGTTAGGG-TTTTCAT
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTA-G---GGTTAGGGTTTTTAAT
* * *
10099844 GTAAA-TAGGTTAGGGTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGATTTCAATTAAATTAG
62 -TAAATTAGGTTA-----GGGTTTTTAATTTAATTAAGTTAGGTTAGGG-TTT---TT-AATTAA
10099908 GTTAGGGTTAGG
116 GTTA-GGTTAGG
10099920 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTAAA
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTAAA
* *
10099985 TTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGG
66 TTAGGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
10100046 GTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTTAATTAA
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGG-TTTTTAATTAA
* * *
10100111 GTTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGG
65 ATTAGGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGG
* *
10100173 GTTTTTAATTAAATTAGGTTATGGTT----TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT--TT-AATTAAG-TAGGGTTAGGGTTTTTAAT
* * *
10100234 T-AAGTAGGGTTAGGGTTTTTAA-TTAAGTTATGTTATGGTT---TTTAATTTAATTAAGTTAGG
62 TAAATTA-GGTTAGGGTTTTTAATTTAA-TTAAGTTA-GGTTAGGGTT--TTTAATTAAGTTAGG
10100294 TTA-G
122 TTAGG
* * *
10100298 G-TTTT--TT-AATTAAGTTA-TGTTAGGGTTTTTAATTAAATTA-GGTTAGGGTTTTTAATTAA
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AAGTAGGGTTAGGGTTTTTAATTAA
* *
10100357 ATTAGGTTAGGGTTAGGGTT--TTTAATTAAG-TAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
65 ATTAGGTTAGGGTT---TTTAATTTAATTAAGTTA-GGTTAGGGTTTTTAATTAAGTTAGGTTAG
10100419 G
126 G
10100420 GTT
1 GTT
10100423 AGGGTTTTTA
Statistics
Matches: 445, Mismatches: 31, Indels: 71
0.81 0.06 0.13
Matches are distributed among these distances:
120 36 0.08
121 40 0.09
122 11 0.02
123 8 0.02
124 9 0.02
125 11 0.02
126 112 0.25
127 117 0.26
128 2 0.00
131 3 0.01
132 29 0.07
136 12 0.03
137 12 0.03
139 1 0.00
140 42 0.09
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (126 bp):
GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTAAA
TTAGGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGG
Found at i:10102594 original size:14 final size:15
Alignment explanation
Indices: 10102577--10102610 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10102567 AATAAATATC
10102577 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
10102591 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
10102606 TAAAA
1 TAAAA
10102611 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:10102853 original size:30 final size:30
Alignment explanation
Indices: 10102818--10102876 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
10102808 TTTAAGGAAA
* *
10102818 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
10102848 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
10102877 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:10102873 original size:22 final size:22
Alignment explanation
Indices: 10102848--10102939 Score: 125
Period size: 22 Copynumber: 4.2 Consensus size: 22
10102838 ATTTGAGAGT
10102848 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
10102870 TTGAGAGAAATTTT-GAAGGGAA
1 TTGAGAG-AATTTTGGAAGGAAA
*
10102892 TTGAGAGAATTTTTGAAAGG-AA
1 TTGAGAGAA-TTTTGGAAGGAAA
*
10102914 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
10102936 TTGA
1 TTGA
10102940 TATTGAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
21 10 0.16
22 42 0.68
23 10 0.16
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:10102897 original size:44 final size:44
Alignment explanation
Indices: 10102848--10102939 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
10102838 ATTTGAGAGT
* *
10102848 TTGAGAGAA-TTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAAGG-AATTGAGAGAAATTTTGAAGGAAA
*
10102892 TTGAGAGAATTTTTGAAAGGAATTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAAGGAATTGAGAGAAATTTTGAAGGAAA
10102936 TTGA
1 TTGA
10102940 TATTGAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 35 0.80
45 9 0.20
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (44 bp):
TTGAGAGAATTTTTGAAAGGAATTGAGAGAAATTTTGAAGGAAA
Done.